Pricing

from $2.00 / 1,000 paper fetcheds

Europe PMC — Biomedical Knowledge Graph & Literature Mining

Turn a biomedical topic into a knowledge graph and evidence corpus from Europe PMC. Mines genes, diseases, chemicals, organisms and deposited datasets (GEO, ENA, PDB) from full text, builds entity co-occurrence networks, tracks emerging entities, and exports Neo4j/Gephi CSV. No API key.

Pricing

from $2.00 / 1,000 paper fetcheds

Rating

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(0)

Developer

Ryan Clinton

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Monthly active users

10 days ago

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Developer tools

You can access the Europe PMC — Biomedical Knowledge Graph & Literature Mining programmatically from your own applications by using the Apify API. You can also choose the language preference from below. To use the Apify API, you’ll need an Apify account and your API token, found in Integrations settings in Apify Console.

Python

JavaScript

CLI

OpenAPI

HTTP

MCP

1import { ApifyClient } from 'apify-client';
2
3// Initialize the ApifyClient with your Apify API token
4// Replace the '<YOUR_API_TOKEN>' with your token
5const client = new ApifyClient({
6    token: '<YOUR_API_TOKEN>',
7});
8
9// Prepare Actor input
10const input = {
11    "query": "CRISPR gene editing"
12};
13
14// Run the Actor and wait for it to finish
15const run = await client.actor("ryanclinton/europe-pmc-search").call(input);
16
17// Fetch and print Actor results from the run's dataset (if any)
18console.log('Results from dataset');
19console.log(`💾 Check your data here: https://console.apify.com/storage/datasets/${run.defaultDatasetId}`);
20const { items } = await client.dataset(run.defaultDatasetId).listItems();
21items.forEach((item) => {
22    console.dir(item);
23});
24
25// 📚 Want to learn more 📖? Go to → https://docs.apify.com/api/client/js/docs

Biomedical Knowledge Graph Builder from Europe PMC API in JavaScript

The Apify API client for JavaScript is the official library that allows you to use Europe PMC — Biomedical Knowledge Graph & Literature Mining API in JavaScript or TypeScript, providing convenience functions and automatic retries on errors.

Install the apify-client

$npm install apify-client

Other API clients include:

Europe PMC — Biomedical Knowledge Graph & Literature Mining API in Python

Europe PMC — Biomedical Knowledge Graph & Literature Mining API through CLI

Europe PMC — Biomedical Knowledge Graph & Literature Mining OpenAPI definition

Europe PMC — Biomedical Knowledge Graph & Literature Mining API

Europe PMC Literature Scraper

parseforge/europepmc-scraper

Scrape Europe PMC for biomedical research papers. Search by title, author, MeSH terms, journal. Get DOI, abstract, full-text URLs, citations, references, open-access status. No API key required.

ParseForge

Europe PMC Scientific Literature Scraper

parseforge/europe-pmc-scraper

Query Europe PMC with the full TITLE, AUTH, JOURNAL, and DOI syntax. Returns PMID, DOI, title, authors, abstract, journal, publication year, citation count, open access flag, and source. Useful for systematic reviews, literature mining, and biomedical research workflows.

ParseForge

Europe PMC Scraper

crawlergang/europe-pmc-scraper

Scrape Europe PMC, 42M+ biomedical literature records including PubMed, PubMed Central, patents, and preprints. Search publications, get article details by PMID or DOI, and retrieve citation/reference lists.

Crawler Gang

5.0

Europe PMC Scraper

crawlerbros/europe-pmc-scraper

Crawler Bros

Google Knowledge Graph

seemuapps/google-knowledge-graph

Enrich a list of entity names (people, companies, places, things) with metadata from the Google Knowledge Graph.

Andrew

Europe PMC Articles Scraper

parseforge/europe-pmc-articles-scraper

Search Europe PMC across millions of life sciences articles with any free text query. Returns PMID, PMCID, DOI, title, authors, journal, year, and abstract snippet. Useful for systematic reviews, citation harvesting, drug target evidence collection, and literature monitoring.

ParseForge

Open Science Evidence Finder

mrbridge/open-science-evidence-finder

Find, verify, deduplicate, and score open scientific metadata from OpenAlex, Crossref, arXiv, and Europe PMC for LLM source grounding.

MrBridge

Knowledge Intelligence Engine — Website to Markdown for RAG

ryanclinton/website-content-to-markdown

Turn any website, documentation site or help centre into a retrieval-ready knowledge corpus for RAG and AI search. Clean Markdown plus chunks, change detection, deduplication, retrieval scoring, version awareness and a full corpus audit, in one run.

Ryan Clinton

Google Fast Search Scraper

kaix/google-search-scraper

🔥 ~$0.05/1K results 🔥 Search Google and get structured results including web pages, images, and Knowledge Graph entities. Returns titles, URLs, snippets, and full metadata. Supports geo-targeting, language, date filtering, sorting, and auto-pagination up to 100 results.

Kai

Website To LLM Knowledge Pack

attainable_iota/website-to-llm-knowledge-pack

Crawl any website and turn it into an LLM-ready knowledge pack. This Actor extracts clean main text + metadata, follows links with depth/URL filters, and outputs per-page dataset items plus knowledge.jsonl, knowledge.md, and manifest.json for RAG/embeddings pipelines.