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

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

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 ΔΔC_T relative quantification method.

ISSN: 1755-8794