Influence of data set size and context on ATARiS results. (A,B) Robustness of ATARiS for data sets of smaller sample size. ATARiS results from 100 sets of randomly selected samples for each indicated sample size were compared with ATARiS results from the full 102-sample Achilles data set. We determined the percentage of genes with a solution in the Achilles data set results that are also represented in results from fewer samples (A). For 100 randomly selected genes, we also compared phenotype values in each sample to the values generated by ATARiS for the corresponding sample when using the full 102-sample data set (B). Standard deviations are based on phenotype values across all 102 samples for each gene independently. For each gene, differences between phenotype values from smaller data sets compared with the full data set are depicted in standard deviation units. (C) The robustness of shRNA selection by ATARiS is demonstrated by simulating independent screening data sets. One hundred pairs of disjoint sets of samples were randomly generated for the sample sizes indicated. Each set was independently analyzed by ATARiS. For each pair of sets, the overlap in shRNA used to generate solutions was determined. Boxplot displays the size of the overlap for each pair as a fraction of the average number of shRNAs used in the analysis of each set. P-value < 2.2 × 10−16 for all results, χ2 test of independence. (D) ATARiS was used to analyze sets of samples that harbor either wild-type BRAF only, or an equal number of samples that harbor wild-type and mutant BRAF. One hundred randomly generated sets of samples were analyzed for each sampling size. The percentage of sets for which a BRAF solution was found is shown.
