Fig. 3

MDM2-CNOT2 co-amplifications are associated with TP53-loss phenocopy score. a Top: Somatic CNVs of MDM2 gene neighborhood (20 Mb segment). Y axis represents the percentage of the GISTIC CNV gain states + 1 (blue) and + 2 (red), compared to the neutral CNV state (0). Bottom: CRISPR screening TP53-codependency scores (y axis) shown by gene on chromosome 12 (x axis). Genes with labels have a codependency score < -0.1, suggesting possible TP53 phenocopying effects. Color shows the frequency of CNV amplification of each gene, together with MDM2 amplifications. b Co-dependency analysis underlying data from cell line panels. CRISPR and RNAi fitness effect scores for phenocopying gene MDM2 and candidate gene CNOT2 (y axes), and fitness effect scores for TP53 in the genetic screens (x axes). Top plots show RNAi screening data and bottom plots CRISPR screening data. c Association between MDM2 and CNOT2 gene expression (top) and CNV status (bottom). Each dot represents a tumor sample, coloured based on the TP53-loss phenocopy score . Dashed lines represent the 97th quantile across genes, for each data type