The Power Decoder Simulator for the Evaluation of Pooled shRNA Screen Performance.

ABSTRACT: RNA interference screening using pooled, short hairpin RNA (shRNA) is a powerful, high-throughput tool for determining the biological relevance of genes for a phenotype. Assessing an shRNA pooled screen's performance is difficult in practice; one can estimate the performance only by using reproducibility as a proxy for power or by employing a large number of validated positive and negative controls. Here, we develop an open-source software tool, the Power Decoder simulator, for generating shRNA pooled screening experiments in silico that can be used to estimate a screen's statistical power. Using the negative binomial distribution, it models both the relative abundance of multiple shRNAs within a single screening replicate and the biological noise between replicates for each individual shR

SUBMITTER: Stombaugh J 

PROVIDER: S-EPMC4543901 | biostudies-literature | 2015 Sep

REPOSITORIES: biostudies-literature