GRETA

GRETA performs in silico genetic interaction screens and essentiality network analyses using publicly available datasets from human cell lines to map genetic interactions, identify gene essentiality, and associate novel functions with genes.

Key Features:

• In Silico Genetic Interaction Screens: Performs computational mapping of genetic interaction networks from publicly available human cell line datasets.
• Essentiality Network Analysis: Analyzes essentiality networks to identify gene dependencies and associate novel functions with genes.
• Public Data Integration: Leverages publicly available datasets from human cell lines to derive interaction and essentiality measurements.
• High-throughput Analysis: Supports large-scale analysis across many human cell lines to enable broad genetic studies.
• R Package Implementation: Provided as an R package for computational analysis and reproducible workflows.

Scientific Applications:

• Mapping Genetic Interactions: Maps genetic interaction networks in human cell lines to characterize gene-gene relationships.
• Identifying Cellular Vulnerabilities: Identifies cellular vulnerabilities associated with specific genetic alterations to inform target discovery.
• Inferring Gene Function: Associates novel functions to genes by integrating interaction and essentiality information.
• Large-scale Genetics and Genomics Studies: Enables high-throughput investigations of genetic dependencies across cell line panels.

Methodology:

Performs in silico genetic interaction screens and essentiality network analyses on publicly available human cell line datasets and is implemented as an R package.