Pubmed MCP Server

Name: Pubmed MCP Server
Author: cyanheads

de cyanheadsversión 2.12.0i★ –iComputadora o nube

Nombre en el registroio.github.cyanheads/pubmed-mcp-server

Instalar

Resumen

Descripción del creador (original en inglés)

Search PubMed/Europe PMC, fetch articles and full text (PMC/EPMC/Unpaywall), citations, MeSH terms.

Los tres pilares de PopNx MCP

Estos tres nunca se combinan en una sola puntuación: las opiniones, las mediciones y la popularidad son cosas distintas.

Opinión de usuariosiAún no hay reseñasLas reseñas se abrirán junto con las cuentas en una etapa posterior
Nuestras revisiones básicasi3 de 3 superadasRevisado con información pública; el código aún no se ha escaneado
UsoiAún sin medir★ –

Qué puedes hacer con él

Todavía no escribimos un resumen sencillo para este. Abajo están los datos que leímos del registro.

Conexión: Computadora o nube
Transporte: stdio, Streamable HTTP
Categoría: Clínicas y salud

Instalación

Elige la app de IA que usas y copia la configuración.

Antes de instalar

Revisiones básicas: 3 de 3 superadas
Se ejecuta en el servidor del creador: lo que le pidas pasa por su servidor.
Puede hacer 12 cosas (herramientas) pubmed_search_articles, pubmed_fetch_articles, pubmed_fetch_fulltext, pubmed_format_citations …
Debes completar tú: MCP_LOG_LEVEL, NCBI_API_KEY, NCBI_ADMIN_EMAIL, UNPAYWALL_EMAIL

Necesitas

Se ejecuta en la nubeNo hay nada que instalar; se conecta por internet
npmNode.js instalado (para el comando npx)

¿Qué app usas?

ClaudeClaude CodeCursorVS CodeChatGPT

Elige tu app arriba. La recordamos, así que la próxima vez el botón dirá “Instalar en …”.

Funciona en Claude para web, escritorio y móvil:

Abre Settings → Connectors
Presiona Add custom connector
Pega la dirección de abajo y presiona Add
Si te pide iniciar sesión, inicia sesión en el servicio del creador

https://pubmed.caseyjhand.com/mcp

O ejecútalo en tu computadora

Abre Claude Desktop → Settings → Developer → Edit Config y pega esto en claude_desktop_config.json

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

Ejecuta esto en tu terminal

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

O ejecútalo en tu computadora

claude mcp add pubmed --env MCP_LOG_LEVEL=your-value --env NCBI_API_KEY=your-value --env NCBI_ADMIN_EMAIL=your-value --env UNPAYWALL_EMAIL=your-value -- npx -y @cyanheads/pubmed-mcp-server

Completa los valores vacíos antes de ejecutarlo.

Abrir en Cursor

O copia la configuración tú

Pégalo en .cursor/mcp.json de tu proyecto, o en ~/.cursor/mcp.json

{
  "mcpServers": {
    "pubmed": {
      "url": "https://pubmed.caseyjhand.com/mcp"
    }
  }
}

O ejecútalo en tu computadora

Abrir en Cursor

O copia la configuración tú

Pégalo en .cursor/mcp.json de tu proyecto, o en ~/.cursor/mcp.json

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

Tu navegador te pide permiso para abrir la app; luego la app muestra la configuración y te pide confirmar. Los valores de las claves quedan vacíos para que los completes tú.

Abrir en VS Code

O copia la configuración tú

Pégalo en .vscode/mcp.json de tu proyecto

{
  "servers": {
    "pubmed": {
      "type": "http",
      "url": "https://pubmed.caseyjhand.com/mcp"
    }
  }
}

O ejecútalo en tu computadora

Abrir en VS Code

O copia la configuración tú

Pégalo en .vscode/mcp.json de tu proyecto

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

Tu navegador te pide permiso para abrir la app; luego la app muestra la configuración y te pide confirmar. Los valores de las claves quedan vacíos para que los completes tú.

ChatGPT solo se conecta a servidores en internet:

Abre ChatGPT en la web → Settings → Connectors (Apps)
Presiona Create o Add (en algunos planes primero hay que activar Developer mode en Advanced)
Pega la dirección de abajo, ponle un nombre y guarda
Si te pide iniciar sesión, inicia sesión en el servicio del creador

https://pubmed.caseyjhand.com/mcp

Los nombres de los menús pueden variar un poco según el plan y con el tiempo.

Tu elección se guarda en una cookie en este dispositivo; no necesitas cuenta.

Valores que debes completar

MCP_LOG_LEVEL env
Sets the minimum log level for output (e.g., 'debug', 'info', 'warn').
NCBI_API_KEY env
NCBI API key for higher rate limits (10 req/s vs 3 req/s).
NCBI_ADMIN_EMAIL env
Contact email sent with NCBI requests (recommended by NCBI).
UNPAYWALL_EMAIL env
Contact email for Unpaywall. When set, pubmed_fetch_fulltext falls back to Unpaywall open-access copies for DOIs not in PMC.

Esta configuración se genera a partir de la ficha del creador en el registro. Si el README dice otra cosa, sigue el README.

Qué puede hacer

Nombres y descripciones de las herramientas tal como los informó el servidor el 6 nov 2026. Los escribió el creador, no nosotros; los mostramos como texto sin formato.

pubmed_search_articles
Search PubMed with full query syntax, filters, and date ranges. Returns PMIDs and optional brief summaries. Supports field-specific filters (author, journal, MeSH terms), common filters (language, species, free full text), and pagination via offset for paging through large result
pubmed_fetch_articles
Fetch full article metadata by PubMed IDs. Returns detailed article information including abstract, authors, journal, MeSH terms, linked retraction, erratum, and comment notices, and databank accessions such as trial registration IDs; grants and the members of a collective author
pubmed_fetch_fulltext
Fetch full-text articles from PubMed Central as structured sections — the body, then back matter such as acknowledgments, declarations, and appendices — with tables and references. When PMC misses, transparently falls back to Europe PMC `fullTextXML` (structured JATS for its open
pubmed_format_citations
Get formatted citations for PubMed articles in one or more formats (apa, mla, bibtex, ris, vancouver). Pass a single format as a string or multiple as an array. Retractions, errata, and expressions of concern NCBI links to an article come back in `notices`; Vancouver and APA also
pubmed_find_related
Find articles related to a source article — similar content (similar), articles citing this one (cited_by), or articles this one cites (references). Uses NCBI ELink as the primary source; falls back to Europe PMC then OpenAlex when NCBI is unavailable.
pubmed_spell_check
Spell-check a PubMed search query against NCBI ESpell and get the corrected query back. Use after a zero-hit or thin `pubmed_search_articles` result, or when a drug, gene, disease, or author name may be misspelled. Corrections are applied in place, so field tags, operators, spaci
pubmed_lookup_mesh
Search and explore the MeSH (Medical Subject Headings) controlled vocabulary. Returns descriptor records with tree numbers, scope notes, and entry terms, plus pagination via offset for paging past the maxResults cap.
pubmed_lookup_citation
Look up PubMed IDs from partial bibliographic citations. Useful when you have a reference (journal, year, volume, page, author) and need the PMID — deterministic citation matching, more reliable than free-text search for structured references. Each citation must include at least
pubmed_convert_ids
Convert between article identifiers (DOI, PMID, PMCID). Accepts up to 50 IDs of a single type per request. Only resolves articles indexed in PubMed Central — for articles not in PMC, use pubmed_search_articles instead.
pubmed_fetch_citation_metrics
Fetch NIH iCite citation metrics for PubMed articles: the Relative Citation Ratio (RCR), NIH percentile, citation count, citations per year, expected and field citation rates, the Approximate Potential to Translate (APT), the human, animal, and molecular/cellular shares of each a
pubmed_europepmc_search
Search Europe PMC, a broad open-access biomedical corpus. Surfaces preprints (`source: PPR`), patents (`source: PAT`), Agricola (`source: AGR`), plus everything in PubMed (`MED`) and PMC. Use when additional coverage is needed — preprints and EPMC-only OA records are the typical
pubmed_europepmc_fetch
Fetch complete Europe PMC records — including the full, untruncated abstract — addressed as `records: [{ source, epmcId }]`, an array even for one record. Pairs with `pubmed_europepmc_search`, which returns bounded `abstractSnippet` values and flags cut ones with `abstractTruncat

Revisiones básicasi

Revisamos información que cualquiera puede ver; no hemos leído el código. Las revisiones que no aplican no se cuentan. · Revisado el 8 nov 2026

✓ Superada
El creador coincide con el repo
El nombre en el registro se verificó con la cuenta de GitHub cyanheads, dueña del repo
… Aún sin revisar
Sigue en mantenimiento
Todavía no hemos leído este repo en GitHub
… Aún sin revisar
Tiene licencia
Todavía no hemos leído este repo en GitHub
✓ Superada
El endpoint responde
Respondió en 222 ms (HTTP 200)
– No aplica
Inicio de sesión con OAuth
No hace falta iniciar sesión
✓ Superada
Sin instrucciones ocultas en las descripciones de herramientas
Leímos 12 descripciones de herramientas y no encontramos instrucciones ocultas para la IA

Comparado con otros en Clínicas y saludi

Más estrellas que el 0% de los otros 1022 servidores de esta categoría
Publicado en el registro más recientemente que el 85% de los otros 1022 servidores de esta categoría
Revisiones básicas iguales o mejores que el 100% de los otros 1022 servidores de esta categoría

Comparado con todos los servidores activos de esta categoría en el registro. Las estrellas solo cuentan cuando quien lo publica es dueño del repo.

Preguntas frecuentes

¿Es seguro Pubmed MCP Server?

Superó 3 de 3 revisiones básicas aplicables. No hemos leído el código. Antes de agregar una clave o un token, revisa qué acceso pide el servidor y usa una clave que tenga solo los permisos que necesitas.

¿Qué claves o códigos necesita?

El registro no indica ninguna clave obligatoria, aunque algunos servidores te piden iniciar sesión la primera vez que los usas.

¿Se ejecuta en mi computadora o en la nube?

Funciona de las dos formas: instálalo en tu computadora o conéctate a la versión en la nube.

¿Sigue en mantenimiento?

El repo de GitHub cambió por última vez –, y la última versión (2.12.0) llegó al registro hace 5 días.

¿Qué apps pueden usarlo?

Las apps compatibles con MCP, como Claude Desktop, Claude Code, Cursor y VS Code. Se conecta por URL, así que también funcionan las apps que aceptan servidores MCP remotos, como ChatGPT en modo desarrollador.

¿Qué puedo usar en su lugar?

En la misma categoría: Mirobody, FHIR MCP Server, Google Health MCP

Alternativas

Servidores de la misma categoría hechos por otros creadores, ordenados por estrellas.

Cómo leer una tarjeta:★ Estrellas de GitHubiTres pilares: reseñas · revisiones · usoiActualizado = fecha en que se publicó la última versión en el registroi

Mirobody

de thetahealth

Lab results to LOINC codes and UCUM units, symptoms and diagnoses to ICPC-3. Offline, no API key.

Se ejecuta en tu computadora★ 1408Apache-2.0Actualizado hoy

Instalar

FHIR MCP Server

de wso2

MCP server providing seamless access to FHIR APIs for AI tools and healthcare applications

Se ejecuta en tu computadora★ 137Apache-2.0Actualizado hace 10 días

Instalar

Google Health MCP

de davidmosiah

Privacy-first unofficial Google Health API v4 MCP server for health, sleep, activity, HR agents

Se ejecuta en tu computadora★ 79MITActualizado hace 4 meses

Instalar

README del creador

Abrir el README

Copiado tal cual del repo del creador. PopNx MCP no lo ha revisado ni lo respalda. Se quitaron HTML, imágenes y scripts. Los enlaces llevan fuera de este sitio.

@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. 12 Tools • 1 Resource • 1 Prompt

Public Hosted Server: https://pubmed.caseyjhand.com/mcp

Overview

Biomedical literature from PubMed, PubMed Central, and Europe PMC. Search it, fetch metadata and full text, resolve identifiers and partial citations, format references, and ground queries in MeSH vocabulary. Runs as a stdio process, a local Streamable HTTP server, or the public hosted endpoint above. Ships the pubmed-guide agent skill (skill://pubmed-guide/SKILL.md), which MCP clients read for PubMed query syntax, DOI-to-PMID routes outside PMC, reference-list resolution, citation counts, and full-text misses.

Tools

Tool	Description
`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, databank accessions such as trial registration IDs, grants, a collective author's investigators on request, 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, as `records: [{ source, epmcId }]`
`pubmed_fetch_citation_metrics`	Fetch NIH iCite citation metrics by PMID: Relative Citation Ratio, NIH percentile, citation counts and rates
`pubmed_format_citations`	Format citations in APA 7th, MLA 9th, BibTeX, RIS, or Vancouver (ICMJE/NLM), with linked retraction and correction notices
`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

Resources

Resource	Description
`pubmed://database/info`	PubMed database metadata via EInfo (field list, record count, last update)

Prompts

Prompt	Description
`research_plan`	Generate a structured four-phase biomedical research plan

Capability reference

`pubmed_search_articles` tool

Full PubMed query syntax plus filters (author, journal, MeSH, publication type, language, species, abstract, free full text) and publication/modification/Entrez date ranges
query is optional: with an author, journal, MeSH, or publication-type filter, the filters alone make the search (a journal's output over a date range, for example)
Up to 1,000 results per page and offsets up to 9,998, or maxResults: 0 for the match count alone; summaryCount adds briefs for up to 50 hits. A larger page size is served at the cap with a notice naming where to continue
Reports totalCount, the effectiveQuery PubMed ran, and the appliedFilters
Rejects blank filter values, impossible dates, and reversed date ranges before PubMed is called

`pubmed_fetch_articles` tool

Up to 200 PMIDs per call; misses are listed in unavailablePmids
Abstract, authors, journal, DOI, publication types, linked retraction/erratum/comment notices, and links; MeSH terms on by default, grants via includeGrants, and the members of a collective author (its InvestigatorList, thousands on some consortium trials) via includeInvestigators
A retracted, corrected, or questioned article opens with the same notice block as pubmed_format_citations, directly under its title
dataBanks lists the record's trial registrations and data deposits (ClinicalTrials.gov NCT IDs, GenBank and PDB accessions, Dryad DOIs) verbatim; search pubmed_search_articles for [si] to find other records citing one
recordType separates journal articles from Bookshelf chapters and books; opt-in maxResponseCharacters defers overflow to deferred.ids

`pubmed_fetch_fulltext` tool

pmcids, pmids, and dois in any mix, up to 50 distinct identifiers per call: the first 10 are fetched and the rest returned in overLimit for a follow-up call. Each is tried against PMC, then Europe PMC, then Unpaywall (needs UNPAYWALL_EMAIL); an article several of them name is fetched and returned once, and viaSource names the tier that answered
source: "pmc" returns sections (the body, then back matter such as acknowledgments, declarations, and appendices), tables, and figures; source: "unpaywall" returns a best-effort HTML or PDF text body
Europe PMC full text is fetched for records Europe PMC marks open access, preprints included; articles carry the licenses their PMC JATS states
Misses carry a typed reason and triedTiers; sections, maxSections, maxCharacters, overflowMode, and maxResponseCharacters bound the response, truncation reports what was cut, and sectionCap names the sections maxSections cut

`pubmed_europepmc_search` tool

Adds preprints (PPR), patents (PAT), and Agricola (AGR) to MED and PMC; defaults to MED, PMC, PPR
Cursor pagination via cursorMark / nextCursorMark, up to 100 per page; a larger page size is served at the cap with a notice naming where to continue. Abstracts arrive as 400-character snippets
Optional sort of comma-separated asc|desc keys; relevance is the default order, and a sort Europe PMC cannot use fails as europepmc_invalid_input
Hits carry license and hasFullTextXml
Not registered when EUROPEPMC_ENABLED=false

`pubmed_europepmc_fetch` tool

Up to 25 records per call as records: [{ source, epmcId }], each pair copied from a search hit, with the full abstract, license, and hasFullTextXml; unresolved ids land in notFound; opt-in maxResponseCharacters defers overflow to deferred.records
Not registered when EUROPEPMC_ENABLED=false

`pubmed_fetch_citation_metrics` tool

Up to 1,000 PMIDs per call; the first 200 distinct are fetched and the rest returned in overLimit, PMIDs NIH iCite has no record for in unavailablePmids
Relative Citation Ratio (with a provisional flag), NIH percentile, citation count and rates, Approximate Potential to Translate, MeSH category shares, and clinical citations
iCite does not flag retractions; check pubmed_fetch_articles for notices
Source: NIH iCite

`pubmed_format_citations` tool

Up to 50 PMIDs per call, in any mix of apa, mla, bibtex, ris, and vancouver
Bookshelf records cite as edited books, each chapter dated by its own last revision or contribution date; PMIDs that can't be fetched are reported as unavailable
Vancouver writes page ranges in elided Citing Medicine form (1637-1645 → 1637-45); BibTeX issn and RIS SN carry the journal's linking ISSN, and RIS TI drops its trailing period
Retractions, errata, and expressions of concern NCBI links to an article come back as notices and are shown ahead of its citations; Vancouver adds a Retraction in: / Erratum in: note and APA a retraction parenthetical

`pubmed_find_related` tool

similar, cited_by, or references, up to 50 per page with offset pagination. A larger page size is served at the cap with a notice naming where to continue
Falls back to Europe PMC, then OpenAlex, and names the provider that answered; fails as all_providers_failed if none can

`pubmed_spell_check` tool

Returns original, corrected, and hasSuggestion; corrections land in place, so field tags, operators, spacing, and gene symbols stay as written, and a single letter such as an author initial is never swapped for another
Values of indexed field tags (aged[mh], zhang y[au], free full text[sb]) are kept as written; free-text fields ([tiab], [ti], [tw]) are still corrected
Run it after a zero-hit or thin search, then retry pubmed_search_articles with corrected

`pubmed_lookup_mesh` tool

Descriptors by name or free-text term, with an exact heading match pinned first (the descriptor, for a drug-class heading); up to 50 per page, continued via nextOffset. A larger page size is served at the cap with a notice naming where to continue
Records carry their MeSH unique ID (meshId, e.g. D000072657) beside the Entrez UID; includeDetails (default on) adds tree numbers, scope notes, and entry terms

`pubmed_lookup_citation` tool

Up to 25 partial citations per call; a journal or a four-digit year is required, and volume, first page, and author sharpen the match
Each is matched independently and comes back matched, not_found, or ambiguous, with recovery detail

`pubmed_convert_ids` tool

Up to 50 ids per call, all of one declared idType (doi, pmid, pmcid); only PMC-indexed articles resolve
One success or error row per id, in order, so a partial batch never fails

`pubmed://database/info` resource

Live EInfo call for the pubmed database, returned as application/json
count, lastUpdate, and fields[], whose names are the search tags pubmed_search_articles accepts

`research_plan` prompt

Arguments: title, goal, and keywords required; organism and includeAgentPrompts optional
Returns a four-phase

Solo se muestra el principio; lee el resto en el repo

Pubmed MCP Server

Resumen

Los tres pilares de PopNx MCP

Qué puedes hacer con él

Instalación

Antes de instalar

O ejecútalo en tu computadora

O ejecútalo en tu computadora

O ejecútalo en tu computadora

O ejecútalo en tu computadora

Valores que debes completar

Qué puede hacer

Revisiones básicasi

El creador coincide con el repo

Sigue en mantenimiento

Tiene licencia

El endpoint responde

Inicio de sesión con OAuth

Sin instrucciones ocultas en las descripciones de herramientas

Comparado con otros en Clínicas y saludi

Preguntas frecuentes

Alternativas

Mirobody

FHIR MCP Server

Google Health MCP

README del creador

Overview

Tools

Resources

Prompts

Capability reference

pubmed_search_articles tool

pubmed_fetch_articles tool

pubmed_fetch_fulltext tool

pubmed_europepmc_search tool

pubmed_europepmc_fetch tool

pubmed_fetch_citation_metrics tool

pubmed_format_citations tool

pubmed_find_related tool

pubmed_spell_check tool

pubmed_lookup_mesh tool

pubmed_lookup_citation tool

pubmed_convert_ids tool

pubmed://database/info resource

research_plan prompt

`pubmed_search_articles` tool

`pubmed_fetch_articles` tool

`pubmed_fetch_fulltext` tool

`pubmed_europepmc_search` tool

`pubmed_europepmc_fetch` tool

`pubmed_fetch_citation_metrics` tool

`pubmed_format_citations` tool

`pubmed_find_related` tool

`pubmed_spell_check` tool

`pubmed_lookup_mesh` tool

`pubmed_lookup_citation` tool

`pubmed_convert_ids` tool

`pubmed://database/info` resource

`research_plan` prompt