PubTator MCP Server
by JackKuo666
🔍 A biomedical literature annotation and relationship mining server based on PubTator3, providing convenient access through the MCP interface.
No known CVEs
MIT license
Stale
Last commit 513d ago
Works with most clients
Transport: stdio, http
5 tools · ~686 tok
Grade B · 0.3% of 200K ctx
MCPpedia last refreshed this data
PubTator MCP Server is an MCP server that 🔍 A biomedical literature annotation and relationship mining server based on PubTator3, providing convenient access through the MCP interface. Its tool list has not been published yet over stdio and http, requires no API key, and scores 58/100 on MCPpedia's security, maintenance and efficiency rubric.
Step 1
Install in your client
Config is the same across clients — only the file and path differ.
CD
Supported in Claude Desktopstdio, http · Node 18+
Paste into ~/Library/Application Support/Claude/claude_desktop_config.json
{
"mcpServers": {
"pubtator": {
"args": [
"-m",
"pubtator-mcp-server"
],
"command": "python"
}
}
}Are you the author?
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What PubTator MCP Server does
🔍 A biomedical literature annotation and relationship mining server based on PubTator3, providing convenient access through the MCP interface.
Test This Server
No automated test available for this server. Check the GitHub README for setup instructions.
Scored, not listed
Why this score
Five weighted categories — click any category to see the underlying evidence.
Score breakdown
58/100across 5 weighted dimensions
0255075100
17
16
15
10
−42
Security
Maintenance
Efficiency
Documentation
Compatibility
Categoriesclick a row to see evidence
Security
OSV.devNo known CVEs.
No package registry to scan.
Inventory
Tools (5)
Click any tool to inspect its schema.
~686 tokens total
Community
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Frequently Asked Questions
- Is PubTator MCP Server safe to use?
- PubTator MCP Server has no known CVEs as of the latest MCPpedia security scan. It does not require authentication, so any local process can connect — keep this in mind in shared environments. Licensed under MIT.
- How do I install PubTator MCP Server?
- PubTator MCP Server supports copy-paste install configs on its MCPpedia page for Claude Desktop, Cursor, and Claude Code. Scroll to the Quick Install section and select your client.
- What can PubTator MCP Server do?
- PubTator MCP Server provides 5 tools: export_publications, find_entity_id, find_related_entities, search_pubtator, batch_export_from_search. See the full tools list on the server page for descriptions and parameters.
- What AI clients work with PubTator MCP Server?
- PubTator MCP Server is compatible with claude-desktop, cursor, claude-code. It uses stdio and http transport.
- Is PubTator MCP Server actively maintained?
- PubTator MCP Server is not actively maintained — last commit was 513 days ago. It has 9 GitHub stars.
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Community
Discussion
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