Agent-Skills.md

Agent Skills: PubMed Literature Miner

Biomedical literature mining using PubMed/MEDLINE for systematic review support

literature-knowledgeID: a5c-ai/babysitter/pubmed-literature-miner

Repository

a5c-ai/babysitter
a5c-aiLicense: MIT
244

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plugins/babysitter/skills/babysit/process/specializations/domains/science/scientific-discovery/skills/pubmed-literature-miner/SKILL.md

Skill Metadata

Name
pubmed-literature-miner
Description
Biomedical literature mining using PubMed/MEDLINE for systematic review support

PubMed Literature Miner

Purpose

Provides biomedical literature mining capabilities using PubMed/MEDLINE for systematic review support and PICO framework analysis.

Capabilities

  • MeSH term-based search
  • PICO element extraction
  • Abstract screening automation
  • Citation deduplication
  • PRISMA flow diagram data generation
  • Full-text retrieval coordination

Usage Guidelines

  1. MeSH Terms: Use controlled vocabulary for precise searches
  2. PICO Framework: Structure searches around population, intervention, comparison, outcome
  3. Screening: Apply inclusion/exclusion criteria systematically
  4. PRISMA Compliance: Generate required flow diagram data

Tools/Libraries

  • Biopython
  • PyMed
  • NCBI E-utilities