Figure 5

Array-CGH profiles and mpFISH of three cancer cell lines displaying different chr3 aberrations. A. Colour coding of banding pattern on the chr3 ideogram. B. Detection of homozygous deletion at 3p12-p13 in U2020. B1. Array-CGH detection of homozygous deletion (circle on the plot) (ANILFR ± 1 sd; 0.28 ± 0.1 as shown in Table 1). See for chart description legend to Fig 3. B2. Schematic representation of chr3 segments on the rearranged chromosomes according to mpFISH results. Grey parts represent translocation partners from other chromosomes. Blue loops show fusion between fragments. Rectangle box marks the chr3 region, corresponding to a homozygous deletion (0 copy number), missing in all rearranged chromosomes. Each piece from chr3 corresponds to the colour code given in A. B3. Interphase mpFISH visualizing the homozygous deletion. Probes RP11-91A15 (red) and RP11-81D17 (green) represent the region 3p11 outside and 3p12.2 within homozygous deletion, respectively. C. Terminal 3q gain in UOK125 using array-CGH (ANILFR ± 1 sd; 1.46 ± 0.08) (C1), metaphase mpFISH (C2) and interphase mpFISH (C3) (3 copies of 3q). The general layout follows the structure described for Fig 5B highlighting 3q gain of 3 copy number. On C3 RP11-8M11 (2 red signals on each nucleus) and RP11-285J14 (3 green signals on each nucleus) are located at 3p12.1 and 3q11.2 respectively. D. Amplification at 3q26 in HONE1 detected by array-CGH (ANILFR ± 1 sd; 2.81 ± 0.05) (D1), metaphase mpFISH (D2) and interphase mpFISH (D3) (13 copies). The general layout follows the structure described for Fig 5B. Arrows on D2 indicate duplication cycles within the amplified region. Interphase FISH image shows higher amplification of region at 173.25 Mb (RP11-163H6; green signals) compared to region at 173.65 Mb (RP11-196F13; red) within 3q26.31. On metaphase mpFISH image red signal corresponds to RP11-141C22 at 170.36 Mb, green signal corresponds to RP11-24L16 at 169.69 Mb within 3q26.2. Red arrows show amplified loci on rearranged chromosomes corresponding to our schematic representation on D2.