Pubmed MCP Server

{
  "mcpServers": {
    "pubmed-mcp-server": {
      "command": "npx",
      "args": [
        "-y",
        "@cyanheads/pubmed-mcp-server"
      ],
      "env": {
        "NCBI_API_KEY": "your-value"
      }
    }
  }
}

claude mcp add --env NCBI_API_KEY=your-value --transport stdio pubmed-mcp-server -- npx -y @cyanheads/pubmed-mcp-server

{
  "mcpServers": {
    "pubmed-mcp-server": {
      "type": "stdio",
      "command": "npx",
      "args": [
        "-y",
        "@cyanheads/pubmed-mcp-server"
      ],
      "env": {
        "NCBI_API_KEY": "your-value"
      }
    }
  }
}

{
  "inputs": [
    {
      "type": "promptString",
      "id": "ncbi_api_key",
      "description": "NCBI_API_KEY",
      "password": true
    }
  ],
  "servers": {
    "pubmed-mcp-server": {
      "type": "stdio",
      "command": "npx",
      "args": [
        "-y",
        "@cyanheads/pubmed-mcp-server"
      ],
      "env": {
        "NCBI_API_KEY": "${input:ncbi_api_key}"
      }
    }
  }
}

claude mcp add --transport http pubmed-mcp-server "https://pubmed.caseyjhand.com/mcp"

Config formats checked against the official docs on Oct 7, 2026: modelcontextprotocol.io (opens in a new tab), code.claude.com (opens in a new tab), cursor.com (opens in a new tab), code.visualstudio.com (opens in a new tab).

• pubmed_search_articles

  Search PubMed with full query syntax, structured filters, date ranges, and optional summaries

• pubmed_fetch_articles

  Fetch article metadata by PMID: abstract, authors, journal, MeSH terms, grants, linked retraction and correction notices

• pubmed_fetch_fulltext

  Fetch full text by PMID, PMCID, or DOI, falling back from PMC to Europe PMC to Unpaywall

• pubmed_europepmc_search

  Search Europe PMC for preprints, patents, Agricola, and open-access records PubMed doesn't carry

• pubmed_europepmc_fetch

  Fetch complete Europe PMC records, including the untruncated abstract, by source + epmcId

• pubmed_format_citations

  Format citations in APA 7th, MLA 9th, BibTeX, RIS, or Vancouver (ICMJE/NLM)

• pubmed_find_related

  Find similar articles, citing articles, or references for a PMID

• pubmed_spell_check

  Correct a misspelled PubMed query via NCBI ESpell

• pubmed_lookup_mesh

  Look up MeSH headings with tree numbers, scope notes, and entry terms

• pubmed_lookup_citation

  Resolve partial references, up to 25 at a time, to PMIDs via ECitMatch

• pubmed_convert_ids

  Convert between DOI, PMID, and PMCID via the PMC ID Converter

@cyanheads/pubmed-mcp-server Search PubMed/Europe PMC, fetch articles and full text (PMC/EPMC/Unpaywall), citations, MeSH terms via MCP. STDIO or Streamable HTTP. 11 Tools • 1 Resource • 1 Prompt

• ai-agents
• ai-tools
• mcp
• mcp-server
• model-context-protocol
• ncbi
• pubmed
• pubmed-api
• biomedical
• citations