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Table 2 Results of FISH, aCGH, Q-PCR analyses of chromosome 1, 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 1 a CGH Chr. 1 Q-PCR Gene copy No. (fold change) Disease Status Survival Status
    Cell % (#DNA probe signals: LSI 1p36: LSI 1q25) p cen q GNB1 (1p36.33) RERE (1p36.1)   
1 near-3n NA n.e G G G 1.6 3.2 NP A
2 near-3n NA 50 (2:2), 20 (3:3), 15 (1:3), 15 (2:3) L - - 0.8 1.1 NP A
3 near-3n NA 60 (2:2), 40 (3:3) - - - 1.5 2 NP A
4 near-3n NA 5 (2:2), 95 (3:3) G G G 2.6 2.4 NP A
5 near-3n NA 40 (2:2), 60 (3:3) - - - 1.4 1.3 NP A
6 near-3n NA 50 (2:2), 50 (3:3) G G G 1.4 3 NP A
7 near-2n A n.e. L - - 0.5 2.2 P D
8 near-2n NA n.e. G G G 1.6 1.5 NP A
9 near-2n NA 95 (2:2), 5 (3:3) n.e n.e n.e 0.7 0.5 NP A
10 near-2n NA 100 (2:2) - - - 0.7 0.5 P D
11 near-2n NA 35 (2:2), 65 (1:3) n.e n.e n.e 1 2.3 P D
12 near-4n A 51 (1:2), 30 (2:2), 19 (1:3) - - G 0.5 0.6 P D
13 near-4n A 60 (2:2), 30 (3:3), 10 (4:4) - - - 1.3 2.7 P D
  1. Thirteen representative cases drawn from the HSJD cohort analyzed by FISH, aCGH and Q-PCR of chromosome 1. 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.