Figure 3

Side-by-side comparative whole genome overview of the array-CGH results from case Nr 10. A: Array CGH profile of FFPE tissue isolated DNA sample after ULS labelling (FFPE-ULS). B: Array CGH profile of FFPE tissue isolated DNA sample after using a Random Primer labelling especially designed to label FFPE samples (FFPE-RP). C: Array-CGH profile of frozen tissue isolated DNA after standard Random Prime Labelling reaction (Fr-RP). Normalized log2-ratios are plotted with the scale on the right axis. Vertical bars indicate loss and gain probabilities. Probability scale is on the left axis; reversed ('1-') for the gains. Segments are plotted as horizontal blue lines. Segments with a bar extending beyond the middle axis (probability >0.5) are called as gain or losses. All plots were generated using the CGHCall R software package. The variation of the reporter signals was the highest (black dots represent individual reporter elements) in case of FFPE-RP labelling (see also Figures 2a) followed by FFPE-ULS and Fr-RP. In all three profiles almost identical calls were present (see Table 3 for details on the called regions).