Paper Nexus

Paper Nexus for AI assistants

Find related scientific papers through their citation network, from Claude, ChatGPT, Cursor, VS Code or any MCP client.

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Paper Nexus maps the scientific literature by its citations, using the scholarly works in OpenAlex and Semantic Scholar. This repository holds its MCP server's public definition: the connection details, a Claude Code plugin, a Gemini CLI extension, the MCP Registry entry, and the tool reference. The server itself is hosted; there is nothing to install or run.

https://papernex.us/mcp

Ask your assistant things like:

• "Find papers related to Attention Is All You Need and BERT together."
• "What are the main references of the AlphaFold 2 paper, and what else should I read around it?"
• "Starting from https://arxiv.org/abs/1512.03385, which papers on residual networks should I read?"
• "Go through my Thesis / Methods collection and suggest papers I haven't saved."

Every paper it returns links to papernex.us, and each set of recommendations comes with a link that opens the whole citation graph in Paper Nexus.

Connect

You sign in with a Paper Nexus account the first time you connect; a free account works. There are no API keys: the server uses OAuth, so your assistant opens a Paper Nexus page where you sign in and allow access.

Claude (claude.ai and Claude Desktop)

Settings → Connectors → Add custom connector. Name it Paper Nexus, give the URL https://papernex.us/mcp, then Connect and sign in.

Claude Code

claude mcp add --transport http papernexus https://papernex.us/mcp

Or install the plugin, which adds a skill that teaches Claude a literature-search workflow with these tools:

claude plugin marketplace add PaperNexus/papernexus-mcp
claude plugin install papernexus@papernexus

Then run /mcp, choose papernexus, and sign in.

ChatGPT

Turn on developer mode (Settings → Apps → Advanced settings), then create an app with the URL https://papernex.us/mcp and OAuth authentication, and sign in.

Cursor

Install in Cursor, or add it to ~/.cursor/mcp.json:

{
  "mcpServers": {
    "papernexus": {
      "url": "https://papernex.us/mcp"
    }
  }
}

VS Code

Install in VS Code, or add it to .vscode/mcp.json:

{
  "servers": {
    "papernexus": {
      "type": "http",
      "url": "https://papernex.us/mcp"
    }
  }
}

Gemini CLI

gemini extensions install https://github.com/PaperNexus/papernexus-mcp

Other clients

Any client that speaks MCP over Streamable HTTP with OAuth can connect to https://papernex.us/mcp. The server supports Client ID Metadata Documents and dynamic client registration, and every protocol revision from 2025-03-26 on.

Tools

Tool	What it does
search_papers	Find a paper by its title, a DOI or a link, and get its Paper Nexus id
recommend_papers	Papers related to one or more papers through their citation network
get_paper	One paper's details and its most-cited references
get_usage	How many counted calls your account has left
list_library	Your Paper Nexus library, if you allow "Read your library" when connecting
list_citing_papers	The papers citing one paper

recommend_papers and list_citing_papers also take filters (years, citation counts, authors, venues, title words, citing or cited papers, open access, document types) on every account. Each recommendation says which origin papers it is linked to and how, so your assistant can tell you why a paper is there. Every tool that lists papers takes fields, to return only the details you need, such as titles and years. Arguments and results are in the tool reference. Every tool is read-only.

Allowance

recommend_papers and list_citing_papers count against your allowance. The other tools share a larger daily limit of lookups, and every tool a limit of 30 calls a minute. get_usage tells your assistant how many calls are left.

Plan	Counted calls	Lookups	Origin papers per recommendation
Free	10 a week	100 a day	up to 2
Premium	200 a day	1,000 a day	up to 10

A filtered call is counted like any other. A recommendation or citing list that fails or finds nothing isn't counted. See pricing for Premium.

Privacy and access

• Connecting asks for your permission on a Paper Nexus page that names the app and where it will send you back. Library access is asked for separately and is read-only.
• Paper Nexus never sees your conversation, only the tool calls your assistant makes. Recommendation requests are saved to your Paper Nexus history, as on the site.
• You can see and revoke connected apps in Paper Nexus under Account settings → AI assistants.

Privacy policy · Terms

Support

Open an issue or email [email protected].

License

The files in this repository are MIT licensed; see LICENSE. The Paper Nexus service and its data are covered by its terms.