# Europe PMC Biomedical Literature Normalizer (`wakey7dev/europe-pmc-normalizer`) Actor

Search Europe PMC and receive clean, deduplicated biomedical papers with normalized authors, DOI, MeSH terms, open-access links and citation metadata.

- **URL**: https://apify.com/wakey7dev/europe-pmc-normalizer.md
- **Developed by:** [Chris Wakefield](https://apify.com/wakey7dev) (community)
- **Categories:** AI, Business
- **Stats:** 2 total users, 1 monthly users, 100.0% runs succeeded, 0 bookmarks
- **User rating**: No ratings yet

## Pricing

Pay per usage

This Actor is paid per platform usage. The Actor is free to use, and you only pay for the Apify platform usage, which gets cheaper the higher subscription plan you have.

Learn more: https://docs.apify.com/actors/running/actors-in-store.md#pay-per-usage

## What's an Apify Actor?

Actors are web data automations that power AI and operations. They run on the Apify platform to scrape websites, process data, connect APIs, and automate workflows.
In Batch mode, an Actor accepts a well-defined JSON input, performs an action which can take anything from a few seconds to a few hours,
and optionally produces a well-defined JSON output, datasets with results, or files in key-value store.
In Standby mode, an Actor provides a web server which can be used as a website, API, or an MCP server.
Actors are written with capital "A".

## How to integrate an Actor?

If asked about integration, you help developers integrate Actors into their projects.
You adapt to their stack and deliver integrations that are safe, well-documented, and production-ready.
The best way to integrate Actors is as follows.

- **AI agents and MCP clients** — the [Apify MCP server](https://docs.apify.com/integrations/mcp.md) at `https://mcp.apify.com` (remote, streamable HTTP, OAuth on first use).
- **Agentic workflows and local Actor development** — [Agent Skills](https://apify.com/.well-known/agent-skills/index.json) with the [Apify CLI](https://docs.apify.com/cli/docs.md): `npm install -g apify-cli`, then `apify login`.
- **JavaScript/TypeScript projects** — the official [JS/TS client](https://docs.apify.com/api/client/js/docs.md): `npm install apify-client`.
- **Python projects** — the official [Python client](https://docs.apify.com/api/client/python/docs.md): `pip install apify-client`.
- **Any other language** — the [REST API](https://docs.apify.com/api/v2.md).

For usage examples, see the [API](#api) section below.

For more details, see Apify documentation as [Markdown index](https://docs.apify.com/llms.txt) and [Markdown full-text](https://docs.apify.com/llms-full.txt).

# README

![Chris The Dev](https://raw.githubusercontent.com/chriswakefield87/appstore-screenshot-translator/main/assets/actor-banner.png)

## Europe PMC Biomedical Literature Normalizer

Search the live **Europe PMC** biomedical literature index and get normalized, deduplicated papers ready for research and healthcare workflows. Europe PMC provides access to more than 40 million publications and millions of open-access full texts.

**Free API. No API key required.**

### Features

- Topic, disease, drug, gene, title and author search
- DOI and PMID/PMCID identifiers preserved and DOI values lower-cased consistently
- Deduplicated authors and papers
- Clean titles and abstracts, journal/publisher metadata, publication types and MeSH terms
- Citation counts and open-access full-text links
- Optional open-access-only filtering
- Dataset records plus formatted OUTPUT and machine-readable STATS

### Inputs

| Parameter | Type | Description |
|---|---|---|
| `searchQuery` | string | Biomedical search expression |
| `maxResults` | integer | 1–100 papers, default 20 |
| `openAccessOnly` | boolean | Only return open-access records, default false |

### Example input

```json
{"searchQuery":"long covid","maxResults":20,"openAccessOnly":true}
```

### Example output

```json
{"pmid":"...","pmcid":"PMC...","title":"Normalized paper title","doi":"10.xxxx/example","authors":[{"name":"Jane Doe","authorId":"jane doe"}],"meshTerms":["Long COVID"],"isOpenAccess":true,"citationCount":42,"fullTextUrl":"https://europepmc.org/articles/PMC..."}
```

### Use cases

- Systematic reviews and evidence synthesis
- Pharma and biotech competitive intelligence
- Biomedical trend and citation analysis
- Clinical research discovery and knowledge graphs
- Open-access monitoring for libraries and research teams

### Data source attribution

Data is sourced from [Europe PMC](https://europepmc.org/) and the [Europe PMC REST API](https://www.ebi.ac.uk/europepmc/webservices/rest/). Europe PMC is developed by EMBL-EBI with support from the Europe PMC Funders' Group.

# Actor input Schema

## `searchQuery` (type: `string`):

Biomedical topic, disease, drug, gene, paper title or author.

## `maxResults` (type: `integer`):

Maximum papers to return (1–100).

## `openAccessOnly` (type: `boolean`):

Return only papers with an open-access full text link.

## Actor input object example

```json
{
  "searchQuery": "long covid",
  "maxResults": 20,
  "openAccessOnly": false
}
```

# Actor output Schema

## `dataset` (type: `string`):

Normalized paper records.

## `summary` (type: `string`):

Human-readable summary.

## `stats` (type: `string`):

Machine-readable statistics.

# API

You can run this Actor programmatically using our API. Below are code examples in JavaScript, Python, and CLI, as well as the OpenAPI specification and MCP server setup.

## JavaScript example

```javascript
import { ApifyClient } from 'apify-client';

// Initialize the ApifyClient with your Apify API token
// Replace the '<YOUR_API_TOKEN>' with your token
const client = new ApifyClient({
    token: '<YOUR_API_TOKEN>',
});

// Prepare Actor input
const input = {
    "searchQuery": "long covid"
};

// Run the Actor and wait for it to finish
const run = await client.actor("wakey7dev/europe-pmc-normalizer").call(input);

// Fetch and print Actor results from the run's dataset (if any)
console.log('Results from dataset');
console.log(`💾 Check your data here: https://console.apify.com/storage/datasets/${run.defaultDatasetId}`);
const { items } = await client.dataset(run.defaultDatasetId).listItems();
items.forEach((item) => {
    console.dir(item);
});

// 📚 Want to learn more 📖? Go to → https://docs.apify.com/api/client/js/docs

```

## Python example

```python
from apify_client import ApifyClient

# Initialize the ApifyClient with your Apify API token
# Replace '<YOUR_API_TOKEN>' with your token.
client = ApifyClient("<YOUR_API_TOKEN>")

# Prepare the Actor input
run_input = { "searchQuery": "long covid" }

# Run the Actor and wait for it to finish
run = client.actor("wakey7dev/europe-pmc-normalizer").call(run_input=run_input)

# Fetch and print Actor results from the run's dataset (if there are any)
print(f"💾 Check your data here: https://console.apify.com/storage/datasets/{run.default_dataset_id}")
for item in client.dataset(run.default_dataset_id).iterate_items():
    print(item)

# 📚 Want to learn more 📖? Go to → https://docs.apify.com/api/client/python/docs/quick-start

```

## CLI example

```bash
echo '{
  "searchQuery": "long covid"
}' |
apify call wakey7dev/europe-pmc-normalizer --silent --output-dataset

```

## MCP server setup

```json
{
    "mcpServers": {
        "apify": {
            "type": "http",
            "url": "https://mcp.apify.com/?tools=fetch-actor-details,wakey7dev/europe-pmc-normalizer"
        }
    }
}

```

The hosted server signs you in with OAuth on first connect, so no API token belongs in this config. Clients without OAuth support can send an `Authorization: Bearer <APIFY_API_TOKEN>` header instead, using a token from API & Integrations in Apify Console (https://console.apify.com/settings/integrations).

## OpenAPI specification

Download the OpenAPI definition: https://api.apify.com/v2/actors/tIuTv2uYvSmvg9Z8J/builds/PUVbhkwbEHe1jpjHy/openapi.json