PubTator-MCP-Server
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The PubTator MCP Server provides AI systems with access to biomedical literature annotations and relationship mining through the Model Context Protocol. Key features include literature search, entity annotation exports, and relationship discovery, all aimed at enhancing data access for scientific research.
PubTator MCP Server
A biomedical literature annotation and relationship mining server based on PubTator3, offering access through the MCP interface.
Core Features
- Literature Annotation Export: Export results in various formats
- Entity ID Lookup: Query identifiers for biological concepts
- Relationship Mining: Discover relationships between entities
- Literature Search: Search by keywords and entity IDs
- Batch Processing: Export annotation information from searches
Quick Start
- Requires Python 3.10+ and FastMCP library.
- Install via Smithery or manually.
- Supports both stdio and TCP transports for MCP server operation.
API Features
- Export Publications
- Entity ID Lookup
- Relationship Query
- Literature Search
- Batch Export
Usage Limitations
- API request rate limit is 3 requests/second.