bioRxiv
by Anthropic (Verified Partner)
Description
Access bioRxiv and medRxiv preprint data
Capabilities
No special capabilities listed
Publisher Intelligence
Insights and recommendations for app publishers. See how your app performs and how to improve discoverability.
Server Status biorxiv v1.24.0
https://hcls.mcp.claude.com/biorxiv/mcp Last checked: 1d ago
Server Instructions
An MCP server for accessing bioRxiv and medRxiv preprint servers. This server provides: - Tools: Search preprints, get preprint details, list subject categories - Prompts: Analyze preprint methodology and findings bioRxiv is a preprint server for biological sciences operated by Cold Spring Harbor Laboratory. It hosts research manuscripts that have NOT undergone peer review. This server wraps the official bioRxiv API to provide structured access to preprint metadata, abstracts, and full-text PDFs. TOOL SELECTION GUIDE: • search_preprints: Find preprints by keyword, author, or date range - primary discovery tool • get_preprint: Get full details for a specific preprint by DOI • get_categories: List available subject categories for filtering • search_published_preprints: Find preprints that have been formally published in journals • funder_search: Find preprints by funding source (NIH, etc.) • get_statistics: Usage and submission statistics MULTI-TOOL WORKFLOWS: For comprehensive literature analysis: 1. Use search_preprints to find relevant preprints by topic or author 2. Use get_preprint for detailed information on promising results 3. Use search_published_preprints to check if preprints have been peer-reviewed and published 4. Use funder_search to identify research funding patterns in a field For tracking research trends: 1. Use get_categories to identify relevant subject areas 2. Use search_preprints with date filters for recent activity 3. Use get_statistics to understand submission volumes
Technical Details
Tools(7)
Showing 7 of 7 tools
| Tool | Description | Flags | Test | Last Tested | |
|---|---|---|---|---|---|
get_categories | List all 27 bioRxiv subject categories for filtering searches. WHEN TO USE: - Before search_preprints to see valid category values - To understand research area classifications RETURNS: Category names and API-compatible format (e.g., 'cancer biology' -> 'cancer_biology') FULL LIST: animal behavior and cognition, biochemistry, bioengineering, bioinformatics, biophysics, cancer biology, cell biology, clinical trials, developmental biology, ecology, epidemiology, evolutionary biology, genetics, genomics, immunology, microbiology, molecular biology, neuroscience, paleontology, pathology, pharmacology and toxicology, physiology, plant biology, scientific communication and education, synthetic biology, systems biology, zoology | — | 100%Latency 221ms | 19h ago | |
get_content_statistics | Get bioRxiv submission statistics over time. WHEN TO USE: - Analyze bioRxiv growth trends - Track submission patterns (new vs revised papers) - Generate platform statistics reports RETURNS (per month/year): new_papers, revised_papers, new_authors, cumulative_papers, cumulative_authors, period (YYYY-MM or YYYY) INTERVALS: 'monthly' (default) or 'yearly' NOTE: Returns all historical data from bioRxiv inception to present | — | 100%Latency 917ms | 19h ago | |
get_preprint | Get complete metadata for a specific preprint by DOI. WHEN TO USE: - You have a DOI and need full details - Need abstract, authors, PDF URL, funding info - Checking if preprint was published in a journal RETURNS: title, all authors, corresponding author + institution, full abstract, category, license, version, PDF URL, web URL, funding details, published DOI (if available) DOI FORMATS (all accepted): - '10.1101/2024.01.15.123456' - 'https://doi.org/10.1101/2024.01.15.123456' SERVERS: - 'biorxiv': For bioRxiv preprints (DOI contains biorxiv dates like 2024.01.15) - 'medrxiv': For medRxiv preprints IMPORTANT: Preprints are NOT peer-reviewed RELATED: search_preprints (find DOIs), search_published_articles (find journal version) | — | 100%Latency 296ms | 19h ago | |
get_usage_statistics | Get bioRxiv usage/engagement statistics over time. WHEN TO USE: - Analyze readership trends - Track engagement metrics (views, downloads) - Compare abstract vs full-text vs PDF engagement RETURNS (per month/year): abstract_views, full_text_views, pdf_downloads, cumulative_abstract, cumulative_full_text, cumulative_pdf, period (YYYY-MM or YYYY) INTERVALS: 'monthly' (default) or 'yearly' NOTE: Returns all historical data from bioRxiv inception to present | — | 100%Latency 287ms | 19h ago | |
search_by_funder | Search for preprints funded by a specific organization using ROR ID. WHEN TO USE: - Track research output from specific funding bodies - Analyze funder-specific publication patterns - Monitor grant-funded research areas REQUIRES: funder_ror_id (9-character ROR ID) COMMON FUNDER ROR IDS: - '021nxhr62' - NIH (National Institutes of Health) - '01cwqze88' - NSF (National Science Foundation) - '02mhbdp94' - European Commission - '029chgv08' - Wellcome Trust - '05a28rw58' - HHMI (Howard Hughes Medical Institute) - '006wxqw41' - MRC (Medical Research Council UK) - '00f54p054' - BBSRC (UK) - '01s5ya894' - Chan Zuckerberg Initiative Find more ROR IDs at: https://ror.org/search RETURNS: DOI, title, authors, abstract preview, category (same as search_preprints) IMPORTANT: Date range required. Earliest date is 2025-04-10 (funder metadata inception) SERVERS: 'biorxiv' or 'medrxiv' | — | 100%Latency 222ms | 19h ago | |
search_preprints | Search bioRxiv/medRxiv preprints. Returns DOI, title, authors, abstract preview, category. WHEN TO USE: - Literature review and research discovery - Finding recent research in specific fields - Tracking new submissions by date or category SEARCH METHODS (use only ONE): - Date range: date_from + date_to (e.g., '2024-01-01' to '2024-06-30') - RECOMMENDED - Recent days: recent_days=30 (last 30 days) - Recent count: recent_count=50 (searches last ~90 days, returns up to 'limit' results) IMPORTANT: All searches use date ranges internally. recent_count searches a 90-day window. If no search method specified, defaults to last 60 days. SERVERS: - 'biorxiv': Biological sciences (default) - 'medrxiv': Medical/health sciences CATEGORIES (27 available): biochemistry, bioinformatics, cancer biology, cell biology, genetics, genomics, immunology, microbiology, molecular biology, neuroscience, and 17 more. Use get_categories tool for full list. LIMITATIONS: - NO keyword/text search - filter by category and date only - Results are NOT peer-reviewed preprints EXAMPLES: - Last 30 days of neuroscience: recent_days=30, category='neuroscience' - Cancer biology Q1 2024: date_from='2024-01-01', date_to='2024-03-31', category='cancer biology' PAGINATION: Use cursor for next page (cursor=100 for results 100-199) RELATED: get_preprint (full details by DOI), get_categories (list all categories) | — | 100%Latency 2.9s | 19h ago | |
search_published_preprints | Find preprints that have been published in peer-reviewed journals. WHEN TO USE: - Track which preprints became journal articles - Find the peer-reviewed version of a preprint - Analyze preprint-to-publication patterns - Filter articles by whether they were published by a specific journal SEARCH METHODS (use only ONE): - Date range: date_from + date_to - Recent count: recent_count=50 - Recent days: recent_days=30 FILTERS: - include_details: True for full metadata (slower), False for summary (faster) - publisher: Filter by DOI prefix (e.g., '10.1038' for Nature) - see below COMMON PUBLISHER PREFIXES: - '10.1038' - Nature Publishing Group - '10.1126' - Science/AAAS - '10.1016' - Elsevier - '10.1371' - PLOS - '10.7554' - eLife - '10.1073' - PNAS EXAMPLE: Find recently published medRxiv papers: server='medrxiv', recent_days=30 | — | 100%Latency 318ms | 19h ago |
Discoverability Score
Fair
55 of 100 — how easily AI agents find your app
- Description quality8/20
- Example prompts0/20
- Keyword coverage0/15
- Tool metadata20/20
- Visual assets13/20
- Endpoint health10/10
- Data freshness15/15
How to Improve
Add at least 2 example prompts. Prompt examples strongly improve app matching and click-through intent.
Increase keyword coverage (discovery + trigger) to improve retrieval for long-tail queries.
Expand the app description to 80-160 chars with clear use-cases so ranking and matching quality improve.
Add at least 2 screenshots that show real workflows to increase confidence and conversion.
Technical Details
- Status
- ENABLED
- Type
- AI-Powered App
- Auth
- Open Access
- Listed on
- Claude
- Added
- January 7, 2026
- Last synced
- 3d ago
- Last checked
- 1d ago
- Version
- 1.24.0