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literature-review
Systematic literature review methodology, search strategy, and PRISMA reporting
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Systematic literature review methodology, search strategy, and PRISMA reporting
Shared operational contract for all MedSci agents: sequential execution, planning phase, retry limits, evidence standards.
Isolated exploratory code execution with medsci-sandbox tools. Use when analysis requires custom code beyond existing domain MCP tools.
AlphaFold DB for predicted protein structures and pLDDT confidence scores
Molecular biology toolkit. Use for FASTA parsing, sequence analysis, and translation.
ChEMBL database access for bioactivity data and target search
Datamol for molecular manipulation, SMILES processing, and cheminformatics
| name | literature-review |
| description | Systematic literature review methodology, search strategy, and PRISMA reporting |
A systematic review follows a structured, reproducible methodology to identify, evaluate, and synthesize all relevant evidence on a research question. PRISMA (Preferred Reporting Items for Systematic Reviews and Meta-Analyses) provides the reporting standard.
("breast cancer"[MeSH] OR "breast neoplasms"[tiab])
AND ("immunotherapy"[MeSH] OR "checkpoint inhibitor"[tiab])
AND ("overall survival"[tiab] OR "progression-free survival"[tiab])
from Bio import Entrez
Entrez.email = "user@example.com"
handle = Entrez.esearch(db="pubmed", term="CRISPR AND cancer", retmax=100)
record = Entrez.read(handle)
pmids = record["IdList"]
handle = Entrez.efetch(db="pubmed", id=pmids[:10], rettype="xml")
records = Entrez.read(handle)