---

name: pubmed-literature-miner description: Biomedical literature mining using PubMed/MEDLINE for systematic review support allowed-tools:

• Bash
• Read
• Write
• Edit
• Glob
• Grep
• WebFetch metadata: specialization: scientific-discovery domain: science category: literature-knowledge phase: 6 graph: domains: [domain:scientific-discovery] specializations: [specialization:scientific-research-methods] skillAreas: [skill-area:data-analysis, skill-area:statistical-analysis, skill-area:deep-web-research] workflows: [workflow:experiment-design, workflow:peer-review-cycle] roles: [role:research-engineer, role:computational-scientist]

---

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