Optimal construction of a functional interaction network from pooled library CRISPR fitness screens.

ABSTRACT:

Background

Functional interaction networks, where edges connect genes likely to operate in the same biological process or pathway, can be inferred from CRISPR knockout screens in cancer cell lines. Genes with similar knockout fitness profiles across a sufficiently diverse set of cell line screens are likely to be co-functional, and these "coessentiality" networks are increasingly powerful predictors of gene function and biological modularity. While several such networks have been published, most use different algorithms for each step of the network construction process.

Results

In this study, we identify an optimal measure of functional interaction and test all combinations of options at each step-essentiality scoring, sample variance and covariance normalization, and simila

SUBMITTER: Gheorghe V 

PROVIDER: S-EPMC9707256 | biostudies-literature | 2022 Nov

REPOSITORIES: biostudies-literature