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pubtator

pipeworx.ioInfrastructure🇺🇸

No liveness check has reached it yet; it has been in the index since 10 Oct 2026. How this is checked

PubTator is an MCP server that resolves biomedical names to normalized NCBI, MeSH, LitVar, dbSNP, and taxonomy identifiers. It also searches PubMed and PMC literature, returning matching sentences with decoded entity mentions and supporting relation queries.

Inferred · not functionally tested

FreeWebAPICloud-managed
pubtator preview
Visit pipeworx.io

Overview

6 features

Purpose: Finding normalized biomedical entities and relevant evidence across PubMed and PMC literature.

Inferred · not functionally tested

Audience: biomedical researchers and developers

Inferred · not functionally tested

Functions: rag, data_extraction

Inferred · not functionally tested

Interfaces: API: indicated (inferred, not tested) · MCP: indicated (inferred, not tested) · CLI: unknown · Self-hosting: unknown

Recorded constraints: pricing: free · license: Proprietary · platforms: WEB · deployment: browser, api_only, cloud_managed

Constraint provenance is unknown; confirm requirements with the publisher.

Record sources: gateway.pipeworx.io. These links do not verify the individual claims.

pubtator is a RAG, search & retrieval project. Inferred · not functionally tested: It focuses on finding normalized biomedical entities and relevant evidence across PubMed and PMC literature. Inferred · not functionally tested: It is built as a B2B product for biomedical researchers and developers. Basis unknown · not verified: It is available for free. Basis unknown · not verified: It ships for the web and API.

Pipeworx builds and maintains pubtator. Inferred · not functionally tested: Key capabilities include entity resolution, literature search, and entity normalization. Inferred · not functionally tested: Catalogued interfaces include an MCP server and a public API.

Summary written by a language model from the project’s public pages.

Tasks: Inferred · not functionally tested

  • Entity resolution
  • Literature search
  • Entity normalization
  • Relation queries
  • PubMed search
  • PMC search

Topics: Inferred · not functionally tested

Tags
biomedical-searchentity-normalizationpubmed-literaturemcp-server

JSON profile · Text profile · Access guide

Built with & integrations

Hosting
Cloudflare
Connectors
MCPAPI
Runs on
BrowserAPI-onlyCloud-managed
Detected from
Cloudflare
cf-ray header

Trust & compliance

Public signals
HTTPSFree tier

Indexing history

1

What PulseGate has recorded for this listing

  1. Indexed10 Oct · 00:02 UTC
    Pubtator seen via MCP Registry (official)
    Source: MCP Registry (official) · Open

Frequently asked questions about pubtator

What does pubtator do?
Inferred · not functionally tested: Pubtator focuses on finding normalized biomedical entities and relevant evidence across PubMed and PMC literature. It is catalogued under RAG, search & retrieval on PulseGate.
Who should use pubtator?
Inferred · not functionally tested: pubtator is a B2B product built for biomedical researchers and developers.
Is pubtator free?
Basis unknown · not verified: Yes — pubtator is free to use.
What platforms does pubtator run on?
Basis unknown · not verified: pubtator runs on the web and API.
Is pubtator still active?
Unverified. pubtator has not been re-checked since it entered the index, so there is no finding either way — and only a positive finding would say otherwise.
What projects are similar to pubtator?
Similar projects tracked by PulseGate include pubmed, pubchem, and europepmc.pubmedpubchemeuropepmc
Who develops pubtator?
pubtator is developed by Pipeworx, based in the United States.
Does pubtator have an API or integrations?
Inferred · not functionally tested: Yes — pubtator exposes an MCP server and a public API.

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