CLI and Python SDK for biomedical literature search with MeSH, PICO, and intelligent query expansion
CLI and Python SDK for biomedical literature search with MeSH, PICO, and intelligent query expansion
CLI and Python SDK for biomedical literature search, query analysis, citation export, full-text lookup, and multi-source academic enrichment.
The toolset is worth reading before you wire it up, because it tells you what the integration is really for:
search — Search biomedical literature across PubMed and optional academic sourcesstrategy — Generate MeSH expansion and search strategy materialsanalyze-query — Analyze intent, complexity, identifiers, PICO, and source recommendations without running a searchdetails — Fetch detailed metadata for one or more PMIDsexport — Export citations as BibTeX, RIS, CSV, MEDLINE, CSL JSON, or JSONfulltext — Locate full-text access through available source resolverstext-mined — Retrieve text-mined biomedical terms when source data is availablerelated — Find related articles for a PMIDmetrics — Fetch citation metrics where supportedtimeline — Build research timeline summaries from a query or PMID setcite-tree — Explore citation/reference relationships around a root PMIDpico — Parse a clinical question into PICO-style componentssearch — Search biomedical literature across PubMed and optional academic sources.strategy — Generate MeSH expansion and search strategy materials.analyze-query — Analyze intent, complexity, identifiers, PICO, and source recommendations without running a search.details — Fetch detailed metadata for one or more PMIDs.export — Export citations as BibTeX, RIS, CSV, MEDLINE, CSL JSON, or JSON.fulltext — Locate full-text access through available source resolvers.text-mined — Retrieve text-mined biomedical terms when source data is available.related — Find related articles for a PMID.metrics — Fetch citation metrics where supported.timeline — Build research timeline summaries from a query or PMID set.cite-tree — Explore citation/reference relationships around a root PMID.pico — Parse a clinical question into PICO-style components.Compare MCP servers by category, or browse hosted MCP servers if you prefer an endpoint over a local process.
Check the linked publisher documentation and your connected client's tool list. Names and availability can vary with the server version and account permissions.
| Tool | What it does |
|---|---|
| search | Search biomedical literature across PubMed and optional academic sources. |
| strategy | Generate MeSH expansion and search strategy materials. |
| analyze-query | Analyze intent, complexity, identifiers, PICO, and source recommendations without running a search. |
| details | Fetch detailed metadata for one or more PMIDs. |
| export | Export citations as BibTeX, RIS, CSV, MEDLINE, CSL JSON, or JSON. |
| fulltext | Locate full-text access through available source resolvers. |
| text-mined | Retrieve text-mined biomedical terms when source data is available. |
| related | Find related articles for a PMID. |
| metrics | Fetch citation metrics where supported. |
| timeline | Build research timeline summaries from a query or PMID set. |
| cite-tree | Explore citation/reference relationships around a root PMID. |
| pico | Parse a clinical question into PICO-style components. |
{
"mcpServers": {
"pubmed-search-1": {
"command": "uvx",
"args": ["pubmed-search"],
"env": {
"NCBI_EMAIL": "your-value",
"NCBI_API_KEY": "your-value"
}
}
}
}Add to claude_desktop_config.json, then restart Claude Desktop.
| Variable | Description | Required |
|---|---|---|
| NCBI_EMAIL | Configuration value read at startup. | Optional |
| NCBI_API_KEY | Credential the server authenticates with. | Yes |
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Scholarly search: OpenAlex, Crossref, arXiv, OpenCitations and PubMed in one endpoint.
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