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Plos open access api

Skill brycewang-stanford/Auto-Empirical-Research-Skills/skills/43-wentorai-research-plugins/skills/literature/search/plos-open-access-api

Search PLOS open access journals with full-text Solr-powered APIFrom its SKILL.md

Install
npx -y skills add brycewang-stanford/Auto-Empirical-Research-Skills --skill plos-open-access-api

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SKILL.md

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PLOS Search API

Overview

PLOS (Public Library of Science) publishes 7 peer-reviewed open access journals covering biology, medicine, genetics, and more. The Search API provides Solr-powered full-text search across all PLOS content — 350K+ articles, all freely available under CC-BY licenses. No authentication required. Particularly valuable for biomedical and life sciences systematic reviews.

API Endpoint

Base URL

https://api.plos.org/search

Search Examples

# Basic keyword search
curl "https://api.plos.org/search?q=CRISPR+gene+editing&rows=20&wt=json"

# Search in specific fields
curl "https://api.plos.org/search?q=title:\"machine learning\"+AND+abstract:biomarker&wt=json"

# Filter by journal
curl "https://api.plos.org/search?q=microbiome&fq=journal:\"PLOS ONE\"&wt=json"

# Filter by date range
curl "https://api.plos.org/search?q=COVID-19+vaccine&\
fq=publication_date:[2024-01-01T00:00:00Z TO 2026-12-31T23:59:59Z]&wt=json"

# Filter by article type
curl "https://api.plos.org/search?q=climate+change&fq=article_type:\"Research Article\"&wt=json"

# Return specific fields only
curl "https://api.plos.org/search?q=deep+learning&fl=id,title,author,publication_date,score&wt=json"

Search Fields

FieldDescriptionExample
titleArticle titletitle:"attention mechanism"
abstractAbstract textabstract:neural+network
bodyFull text bodybody:transformer
authorAuthor nameauthor:"Vaswani"
subjectSubject areasubject:"Neuroscience"
journalJournal namejournal:"PLOS Medicine"

Query Parameters

ParameterDescriptionDefault
qSolr query (supports AND/OR/NOT)Required
fqFilter query (narrows without affecting score)None
flFields to return (comma-separated)All
rowsResults per page (max 999)10
startPagination offset0
sortSort orderscore desc
wtFormat: json or xmlxml
hlEnable highlightingfalse

Available Return Fields

FieldTypeDescription
idstringDOI
titlestringArticle title
authorarrayAuthor names
abstractstringAbstract text
bodystringFull text (large)
publication_datedatePublication date
journalstringJournal name
article_typestringArticle type
subjectarraySubject categories
scorefloatRelevance score

PLOS Journals

JournalScope
PLOS ONEMultidisciplinary
PLOS BiologyLife sciences
PLOS MedicineClinical medicine
PLOS GeneticsGenetics and genomics
PLOS Computational BiologyComputational biology
PLOS PathogensInfectious disease
PLOS Neglected Tropical DiseasesTropical medicine

Python Usage

import requests

BASE_URL = "https://api.plos.org/search"


def search_plos(query: str, rows: int = 20,
                journal: str = None,
                from_date: str = None,
                fields: str = None) -> list:
    """Search PLOS open access articles."""
    params = {
        "q": query,
        "wt": "json",
        "rows": rows,
        "fl": fields or "id,title,author,abstract,publication_date,journal,score",
    }

    fq_parts = []
    if journal:
        fq_parts.append(f'journal:"{journal}"')
    if from_date:
        fq_parts.append(
            f"publication_date:[{from_date}T00:00:00Z TO NOW]"
        )
    if fq_parts:
        params["fq"] = " AND ".join(fq_parts)

    resp = requests.get(BASE_URL, params=params)
    resp.raise_for_status()
    data = resp.json()

    results = []
    for doc in data.get("response", {}).get("docs", []):
        results.append({
            "doi": doc.get("id"),
            "title": doc.get("title"),
            "authors": doc.get("author", []),
            "date": doc.get("publication_date", "")[:10],
            "journal": doc.get("journal"),
            "abstract": (doc.get("abstract", [""])[0])[:300]
                        if isinstance(doc.get("abstract"), list)
                        else (doc.get("abstract", ""))[:300],
        })
    return results


def get_full_text(doi: str) -> str:
    """Retrieve full text body of a PLOS article."""
    params = {
        "q": f'id:"{doi}"',
        "fl": "body",
        "wt": "json",
    }
    resp = requests.get(BASE_URL, params=params)
    resp.raise_for_status()
    docs = resp.json().get("response", {}).get("docs", [])
    return docs[0].get("body", "") if docs else ""


# Example: search PLOS Computational Biology
papers = search_plos(
    "protein structure prediction",
    journal="PLOS Computational Biology",
    from_date="2024-01-01",
)
for p in papers:
    print(f"[{p['date']}] {p['title']}")
    print(f"  DOI: {p['doi']}")

# Example: full-text search across all PLOS
papers = search_plos("body:reinforcement+learning AND title:robot")
for p in papers:
    print(f"{p['title']} — {p['journal']}")

Advanced Solr Queries

# Phrase proximity search (words within 5 of each other)
q=abstract:"machine learning"~5

# Boosted field search
q=title:"CRISPR"^2 OR abstract:"CRISPR"

# Wildcard search
q=title:neuro*

# Range query on dates
fq=publication_date:[2024-01-01T00:00:00Z TO 2024-12-31T23:59:59Z]

Rate Limits

No formal rate limit, but PLOS requests courtesy delays of 1 request per second for bulk operations. No authentication needed.

References

What ships with it

Read from the repository

Just SKILL.md. No reference files, no scripts.

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