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BridgeDB is a biological identifier mapping service that helps researchers convert between different gene, protein, and metabolite database identifiers. Map identifiers across multiple biological databases and retrieve cross-references for bioinformatics research.
Chat with AI and run tools instantly.
Browse all toolsDomain knowledge for BridgeDB — workflow patterns, data models, and gotchas for your AI agent.
BridgeDB maps biological identifiers across gene, protein, and metabolite databases. No auth.
Returns a list of xrefs and associated attributes that contain the query string for a given organism. Results are not restricted to exact matches. Opt...
Returns the supported attributes to the given Organism.
Returns the attributes for a given identifier, data source, organism. Optionally display only a specified attribute
Returns `true` or `false` based on whether or not /{organism}/search/{query} is supported for a given organism.
Returns `true` or `false` based on whether or not /{organism}/xrefs/{systemCode}/{identifier} would possibly return a {targetSystemCode} result given ...
Returns the list of properties available for a given organism
Returns a list of xrefs with identifiers that contain the query string for a given organism. Results are not restricted to exact matches. Optionally l...
Returns a list of data sources available as xref sources for a given organism.
Returns a list of data sources available as xref targets for a given organism.
Returns `true` or `false` based on whether or not an xref exists in the database given an identifier, data source, and organism.
Returns a list of xrefs that map to a given identifier, data source, and organism.
Returns a list of xrefs, per identifier, that maps to a given list of identifiers an data source given an organism.
Returns a list of xrefs, that maps to a given list of identifiers to a given data source and organism.
BridgeDB is a biological identifier mapping service that helps researchers convert between different gene, protein, and metabolite database identifiers. Map identifiers across multiple biological databases and retrieve cross-references for bioinformatics research. It provides 13 tools that AI agents can use through the Model Context Protocol (MCP).
Add the MCPBundles server URL to your MCP client configuration (Claude Desktop, Cursor, VS Code, etc.). The URL format is: https://mcp.mcpbundles.com/bundle/bridgedb-org. Authentication is handled automatically.
BridgeDB provides 13 tools that can be called by AI agents, along with a SKILL.md that gives your AI agent domain knowledge about when and how to use them.
BridgeDB uses open data APIs — no authentication required.
Connect BridgeDB to any MCP client in minutes
https://mcp.mcpbundles.com/bundle/bridgedb-orgThe link prefills the Add custom connector dialog — you still review the values and click Add, then Connect to complete OAuth.
BridgeDB and paste the MCP URL into Remote MCP server URL.Custom connectors at claude.ai require a paid Claude plan (Pro, Max, Team, or Enterprise).
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