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lit-synthesizer

Search PubMed and preprint servers, summarize literature, and build citation graphs.

1.1k|238|Updated Feb 25, 2026
Search Tags:#llm#bioinformatics#pubmed#biorxiv#literature-review#summarisation#citation-graph
One-click install
npx skills add https://github.com/ClawBio/ClawBio --skill lit-synthesizer-clawbio
Or copy as Structured Prompt for Agent▼
Please help me install this Agent Skill.
Skill: lit-synthesizer
Source: https://github.com/ClawBio/ClawBio/tree/main/skills/lit-synthesizer
Command: npx skills add https://github.com/ClawBio/ClawBio --skill lit-synthesizer-clawbio

SYSTEM DOCUMENTATION & REQUIREMENTS

What problem does it solve?

The Lit Synthesizer reduces the time and cognitive load of finding, reading, and synthesising biomedical literature by automating search, summarisation, citation mapping, and draft generation so researchers and clinicians can produce reproducible review text quickly.

Core Features & Use Cases

  • PubMed and preprint search: Query NCBI Entrez and bioRxiv/medRxiv to retrieve relevant abstracts and metadata.
  • LLM summarisation: Produce concise, structured summaries of abstracts and full texts suitable for inclusion in reviews.
  • Citation graphing and gap analysis: Build citation relationship maps and highlight understudied topics for research planning.
  • Use Case: Quickly discover the most influential recent papers on a gene-editing technique, summarise their findings, map who cites whom, and draft a literature review paragraph with inline citations.

Quick Start

Find the 10 most cited CRISPR papers on sickle cell disease since 2024 and summarise their key findings into a structured literature review paragraph with citations.

Frequently Asked Questions about lit-synthesizer

High-intent search queries and answers about installing and using this skill.

FAQPage Schema
How do I summarize PubMed abstracts into a structured literature review?▼

To summarize PubMed abstracts into a literature review, query the NCBI Entrez API to retrieve abstracts and apply LLM summarization to generate concise, structured text with inline citations.

What is citation graphing and how does it help with biomedical literature discovery?▼

Citation graphing builds citation relationship maps across biomedical papers to highlight understudied topics and identify influential research, enabling more effective literature discovery and research planning.

Can I search bioRxiv and medRxiv preprints alongside PubMed for my systematic review?▼

Yes, you can search both bioRxiv and medRxiv preprint servers alongside NCBI Entrez queries to retrieve abstracts and metadata, ensuring comprehensive coverage for your systematic review.

Does this literature review tool work for genomic, clinical, and molecular topics?▼

Yes, this literature review tool applies to biomedical research workflows across genomic, clinical, and molecular topics, mapping citations and summarizing findings for these specific domains.

How do I generate a reproducible output bundle for a biomedical literature review?▼

Generate a reproducible output bundle by integrating Entrez and preprint APIs, performing LLM-based summarization, and mapping citations to produce structured review text for downstream analysis.

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