A Model Context Protocol (MCP) server that provides access to PubMed's E-utilities API for searching and downloading scientific articles. This server
A Model Context Protocol (MCP) server that provides access to PubMed's E-utilities API for searching and downloading scientific articles. This server enables LLM applications to search PubMed's vast database of biomedical literature and. The pubmed mcp mcp server wraps that behind the Model Context Protocol, so an assistant can use it through 1 defined tool rather than through you.
Everything the assistant can do here goes through one of these:
Dependencies — The Dependencies tool exposed by this serverYou will need 2 environment variables: NCBI_API_KEY, NCBI_EMAIL. The server will not start without them, which is usually why the tools fail to appear on a first run. Keep credentials in your client's env block or a secrets manager rather than in a file you might commit.
Setup follows the usual MCP pattern — install or clone the server, register it in your client's configuration file, restart the client. The configuration blocks on this page cover the common clients.
Plenty of database access servers cover similar ground. The differences that matter in practice are scope of access and how much setup stands between you and a working tool call. Pubmed MCP's toolset — Dependencies — is a fair guide to whether it matches your workflow. It is maintained by aeghnnsw; worth a glance at recent repository activity before you build anything load-bearing on it.
SyncDev reviews every entry in this directory against the project's own documentation before publishing, and revisits them as servers change.
| Tool | What it does |
|---|---|
| Dependencies | The Dependencies tool exposed by this server. |
{
"mcpServers": {
"pubmed": {
"command": "/path/to/pubmed-mcp/venv/bin/python",
"args": ["/path/to/pubmed-mcp/server.py"]
}
}
}Configuration as documented by the project. Restart the client after saving.
| Variable | Description | Required |
|---|---|---|
| NCBI_API_KEY | Credential the server authenticates with. | Yes |
| NCBI_EMAIL | Configuration value read at startup. | Optional |
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