synapse-mcp
Synapse MCP server for accessing biomedical data with OAuth2. synapse-mcp is a Model Context Protocol (MCP) server maintained by susheel. It connects to MCP-compatible clients such as Claude Desktop, Cursor, Cline, and other agents that speak the protocol. It exposes 7 tools, including authenticate, get_oauth_url, get_entity, get_entity_annotations, get_entity_children, query_entities and query_table, that an agent can call directly. It is categorized under Data/Storage and Tool/Server.
What is this MCP
This is a Model Context Protocol server that provides RESTful API access to Synapse biomedical data entities (datasets, projects, files) and their annotations with OAuth2 authentication support.
How to use this MCP
The server can be installed via pip or Docker, then run locally or deployed to cloud services like Fly.io. It provides CLI and API endpoints for querying Synapse data and supports both direct authentication and OAuth2 flows.
What this MCP can be used for
The Synapse MCP server enables programmatic access to biomedical research data stored in Synapse, including querying datasets, tables, and metadata in various formats like Croissant. It facilitates integration with AI tools like Claude for biomedical data analysis.
AIMCP authority
DR and traffic signal for the AIMCP public domain.
Frequently asked questions
What is the synapse-mcp MCP server?
synapse-mcp is a Model Context Protocol server from susheel. It lets MCP-compatible AI clients call its tools over a standard interface, so agents like Claude, Cursor, and Cline can use it without custom integration.
How do I connect synapse-mcp to my AI client?
Add synapse-mcp to your client's MCP configuration using the stdio or SSE connection shown in the usage examples on this page, then restart the client to load the server.
What tools does synapse-mcp provide?
synapse-mcp provides 7 tools: authenticate, get_oauth_url, get_entity, get_entity_annotations, get_entity_children, query_entities and query_table.
Is synapse-mcp free to use?
synapse-mcp is listed on AIMCP for free. Any API keys or accounts required by the underlying service are set by its provider.
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