A configured MCP server for Europe PMC, a database of biomedical and life-science research papers. It runs from the project's local Python environment.

It is for workflows that need to work with biomedical literature from Europe PMC. The supplied details do not specify which search or paper actions it provides.

It gives the coding agent a configured connection to this research source instead of requiring the server setup to be written from scratch.

europe-pmc — MCP server by Intersect-Collaborations-LLC

Install

Getting it into your agent

One page per mod, every tool's command on it. A separate URL per tool would split the same page into five that compete with each other.

Clone the repo

git clone --depth 1 https://github.com/Intersect-Collaborations-LLC/research-workflow-assistant

Installing this writes the configuration, not the program: `python` runs a file from the repository, so clone it first and make the path in the command match where you put it.

Made for: Claude Code, Codex, Cursor, Gemini CLI, OpenCode.

Wrote this? Show the measurements

A badge with what this costs and how it scanned, read live from this page, so it follows the numbers instead of freezing them. Markdown for a README, HTML for a documentation site or a project page.

README.md

[![agentmods](https://agentmods.dev/badge/mcp/intersect-collaborations-llc/research-workflow-assistant/europe-pmc/github.svg)](https://agentmods.dev/mcp/intersect-collaborations-llc/research-workflow-assistant/europe-pmc)

Your own site

<a href="https://agentmods.dev/mcp/intersect-collaborations-llc/research-workflow-assistant/europe-pmc"><img src="https://agentmods.dev/badge/mcp/intersect-collaborations-llc/research-workflow-assistant/europe-pmc/github.svg" alt="Measured on agentmods" height="20"></a>

Or the 80×15 button, for a site that already has a row of RSS and ATOM ones. Only the verdict fits; the numbers stay here.

Your own site · 80×15

<a href="https://agentmods.dev/mcp/intersect-collaborations-llc/research-workflow-assistant/europe-pmc"><img src="https://agentmods.dev/badge/mcp/intersect-collaborations-llc/research-workflow-assistant/europe-pmc.svg" alt="Reviewed on agentmods" width="80" height="20"></a>

Per session not measured What this adds to a session before it is invoked.

When invoked not measured Not applicable: nothing here is loaded into a session.

Security scan A 0 findings. A grade says what 26 rules found in the file — not that it is safe.

Origin original No closer match found in the catalogue.

Security

Grade A, and why

europe-pmc scanned grade A with 0 findings against 26 rules in 11 categories — prompt injection, anti-refusal, data exfiltration, privilege escalation, supply chain, agent snooping, system-prompt leakage, SSRF and excessive agency — measured 5d ago.

A static scan of the body, not an audit. Every finding is printed with the line that produced it so you can judge whether it matters here. A mod is markdown that instructs an agent; that is exactly why what it instructs is worth reading.

Nothing flagged

None of the 26 patterns this scan looks for appear in this file: no shell pipes, no recursive deletes, no credential paths, no hidden text, no instruction-override or anti-refusal phrasing, no agent-config snooping. That is not a guarantee, it is the absence of the things that are checkable.

.vscode/mcp.json · 11 lines

What it actually says

{
  "europe-pmc": {
    "type": "stdio",
    "command": "${workspaceFolder}/.venv/Scripts/python",
    "args": [
      "-m",
      "europe_pmc_server"
    ],
    "cwd": "${workspaceFolder}/mcp-servers/europe-pmc-server/src"
  }
}

Same file

What else `mcp.json` configures

This page is one entry in a file that holds 12. Installing the file brings all of them; each is measured and scanned on its own page.

Changes

What this file has done since we first saw it

Hashed on every crawl. A supply-chain change to an agent config is a question of when, not whether, so the history is kept rather than the latest state alone.

5d ago First seen · 11 lines scan A 4637b2ff7a3e

Subscribe to this mod's changes

europe-pmc is an MCP server published in the GitHub repository Intersect-Collaborations-LLC/research-workflow-assistant (26 stars, last pushed 5d ago), licensed MIT. Its token cost is not measured: an MCP server costs its tool schemas, not its config file. A static security scan graded it A with 0 findings. No closer match exists in the catalogue, so it is treated as the original; first seen 2026-09-24.

Research Scientific academic-writing crossref europe-pmc github-copilot literature-review mcp-server

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