Figure 4

Copy number and expression. RNA-Seq analysis of S2-DRSC, S2R+, Sg4, mbn2, Kc167, D8, D9 and D17-c2 cells. Boxplots show interquartile ranges of the distribution of FPKM (fragments per kilobase per million reads) values of expressed genes (FPKM >1) for different copy number classes in the indicated lines. The number of genes in each class is shown. All FPKM values are centered to have the median of normal copy number gene expression as 0. Top, middle, and bottom lines of boxes correspond to upper quartile (Q3), median, and lower quartile (Q1) in the distribution, respectively. Notches show the 95% confidence interval of each median. Whiskers indicate the maximum, or minimum, value that is still within 1.5 times of interquartile distance (Q3 - Q1) from Q3 or Q1, respectively. Horizontal dashed lines indicate the expected FPKM values based on a one-to-one relationship between gene dose and expression. Asterisks display P-values, determined by Mann-Whitney U test (*P < 0.05, **P < 0.01, ***P < 0.001).