A side-by-side look at the MCP Simple Pubmed and Clinicaltrialsgov MCP Server MCP servers: transport, auth, tools, quality signals, and the config to install either one in Claude, Cursor, Windsurf or VS Code.
Verdict: choose MCP Simple Pubmed for biology, medicine and bioinformatics work as a local process; choose Clinicaltrialsgov MCP Server for biology, medicine and bioinformatics as a local process. You can also run both side by side in one mcpServers block.
PUBMED_EMAIL, PUBMED_API_KEY.clinicaltrials_search_studies, clinicaltrials_get_study_record, clinicaltrials_get_study_count.Rows where the two servers differ are marked.
| Spec | ||
|---|---|---|
| Category | Biology, Medicine and Bioinformatics | Biology, Medicine and Bioinformatics |
| Quality signal | 41/100 · Fair | 61/100 · Good |
| Install command | Confirmed | Confirmed |
| Transport | Local subprocess (stdio) | Local subprocess (stdio) |
| Auth | API key required | Not declared |
| Pricing | Free | Not declared |
| Required env vars | PUBMED_EMAILPUBMED_API_KEY | None listed |
| Verified owner | Community listing | Community listing |
| GitHub stars | 172 | 99 |
| Directory activity | 2 views 0 installs 0 upvotes | 1 views 0 installs 0 upvotes |
| Tools | Not listed | 7 |
| Full listing | View MCP Simple Pubmed | View Clinicaltrialsgov MCP Server |
No tool names declared yet. Check the project README from the listing page.
clinicaltrials_search_studiesSearch studies with full-text and field-specific queries, status/phase/geographic filters, pagination, sorting, and field selectionclinicaltrials_get_study_recordFetch a single study by NCT ID — full protocol record with optional location/outcome/reference capsclinicaltrials_get_study_countFast total study count for a query, without fetching dataclinicaltrials_get_field_valuesDiscover valid values for API fields, with per-value study countsclinicaltrials_get_field_definitionsResolve valid field names — keyword search, path drill-down, or top-level overviewclinicaltrials_get_study_resultsFetch posted results — outcomes, adverse events, participant flow, baseline — for completed studiesclinicaltrials_find_eligibleMatch patient demographics and conditions to candidate recruiting trials, without checking inclusion/exclusion criteriaPaste either block (or both) into your client config, e.g. claude_desktop_config.json or ~/.cursor/mcp.json. We only show a config when the install command is confirmed.
{
"mcpServers": {
"andybrandt-mcp-simple-pubmed": {
"command": "uvx",
"args": [
"mcp-simple-pubmed"
],
"env": {
"PUBMED_EMAIL": "YOUR_PUBMED_EMAIL_HERE",
"PUBMED_API_KEY": "YOUR_PUBMED_API_KEY_HERE"
}
}
}
}
{
"mcpServers": {
"clinicaltrialsgov-mcp-server": {
"command": "bunx",
"args": [
"clinicaltrialsgov-mcp-server@latest"
]
}
}
}