gscreend

gscreend implements a statistical test that models asymmetric count ratios in CRISPR screens to detect genes whose knockout decreases or increases cell proliferation while improving hit detection at reduced experiment size.

Key Features:

• Asymmetric count ratio modeling: Accounts for the greater likelihood of random decreases versus increases in gRNA abundance due to bottleneck effects during the cell proliferation phase.
• gRNA count-based input: Takes gRNA counts as input for the analysis of pooled genetic screens.
• Hit detection for proliferation phenotypes: Detects genes whose knockout decreases or increases cell proliferation.
• Reduced experiment size capability: Improves phenotype detection at reduced experiment size compared to standard approaches.

Scientific Applications:

• CRISPR-KO screen analysis: Analyzes pooled CRISPR knockout screens by comparing gRNA abundances before and after a cell proliferation phase.
• Genome-wide genotype-phenotype mapping: Probes genotype-phenotype relationships at genome-wide scale through pooled CRISPR screening.

Methodology:

The method implements a new statistical test that addresses asymmetric gRNA count ratios in CRISPR screens.