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

Table 2 Results of FISH, aCGH, Q-PCR analyses of chromosome 1, displayed in relation to NBTs 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

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 ΔΔC_T relative quantification method.

ISSN: 1755-8794