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Table 3 Results of FISH, aCGH, Q-PCR analyses of chromosome 17, displayed in relation to NBTs ploidy status

From: Differential expression of genes mapping to recurrently abnormal chromosomal regions characterize neuroblastic tumours with distinct ploidy status

Case Number Ploidy MYCN FISH Chromosome 17 a CGH Chr. 17 Q-PCR Gene copy No. (fold change) Disease Status Survival Status
    Cell % (# DNA probe signals: LSI 17p13.1: CEP 17) p cen q RUTBC1 (17p13.3) NME1 (17q21)   
1 near-3n NA n.e G G G 2.3 2.5 NP A
2 near-3n NA 45 (2:2), 55 (3:3) G G G 1.5 1.5 NP A
3 near-3n NA 45 (2:2), 55 (3:3) G G G 1.3 1.4 NP A
4 near-3n NA 30 (2:2), 70 (3:3) G G G 3.6 2.2 NP A
5 near-3n NA 50 (2:2), 50 (3:3) G G G 1.6 1.3 NP A
6 near-3n NA 50 (2:2), 50 (3:3) G G G 1.4 1.5 NP A
7 near-2n NA 5 (1:1), 80 (2:2), 10 (3:3), 5 (4:4) n.e n.e n.e 0.7 1.4 NP A
8 near-2n NA 33 (1:1), 66 (2:2) - - - 0.8 0.7 P D
9 near-2n A 7 (1:1), 7 (2:1), 60 (2:2), 20 (1:2), 6 (2:3) - - G 1.1 1.4 P D
10 near-2n NA 80 (2:2), 15 (2:3), 5 (3:3) - - G 1.2 1.5 NP A
11 near-2n NA 28 (1:1); 11 (2:1), 56 (2:2), 5 (3:2) n.e n.e n.e 1.1 0.9 P D
12 near-4n A 45 (2:2); 55 (3:3) - - G 1 1.4 P D
13 near-4n A 45 (2:2), 45 (3:3), 10 (4:4) G G G 2.2 1.9 P D
  1. Thirteen representative cases drawn from the HSJD cohort analyzed by FISH, aCGH and Q-PCR of chromosome 17. n.e = not evaluable results. MYCN amplification status: NA = not amplified, A = amplified. Disease status: NP = no disease progression, P = disease progression. Survival status: A = alive, D = dead. FISH: results are displayed as percentage of cells exhibiting the observed number of DNA probe signals, and exact number of signals for the DNA probes used: chromosome 1 (LSI 1p36 and LSI 1q25 DNA probes) and chromosome 17(LSI 17p13.1 and CEP 17 DNA probes). Array CGH: p and q = chromosome arms, cen. = centromeric; G = chromosome gain, L = chromosome loss. Q-PCR: gene copy number fold changes are determined by the ΔΔCT relative quantification method.