Transcriptomic effects of large-scale genomic rearrangements in adult-type GCTs. a. The CGH data (ratios tumor/reference) are displayed as log2 values averaged for sliding windows of 130 kb over the relevant chromosomes. For the transcriptomic data, we first computed the average expression levels for each gene (data from two transcriptomic hybridizations). Then we normalized gene expression as described in Methods. Normalized expression values were averaged over 30 windows (of the same size) per chromosome. Notice the close “correlation” between the chromosome copy-number and the expression levels of the genes involved in the imbalances. b. Comparison of the mean CGH values (ratios tumor/reference, in the natural scale) for the amplified Chr1q in H4 or the deleted segment of Chr1 in H33 with respect to the rest (non imbalanced) of the chromosome. For the transcriptome, the means of the normalized expression levels for genes located in altered segments (according to CGH) were significantly different from the means for genes located outside on the same chromosome (using both a t-test and a Mann–Whitney non-parametric test).