Table 1. Influence of copy number alterations in gene deregulation in cervical cancer cell lines.

		Frequency of deregulated genesa
		CN+			CN−			All
Cell line	Genesb CN+	n	EX+	%	n	EX+	%	EX+	%
CaLo	6,864	4,487	532	11.9	16,254	1,686	10.4	2,218	10.7
CaSki	7,706	4,912	728	14.8	15,829	2,197	13.9	2,925	14.1
HeLa	14,276	8,875	2,207	24.9	11,866	3,088	26	5,295	25.5
SiHa	17,829	11,120	1,125	10.1	9,621	944	9.8	2,069	10
Average	11,669	7,349	1,148	15.6	13,393	1,979	14.8	3,127	15
Recurrent genese	1,264c	783	147	18.8	19,958	2,975	14.9	3,122d	15.1

^a20,741 genes were explored for changes in expression with HG-ST1.0 microarray. On average 7,349 of them were CN-altered (CN+) and 13,393 did not have copy number alterations (CN−).

^bPotentially copy number altered genes according to data obtained with 100 k microarray. On average only 63% of those genes were explored for changes in gene expression (numbers in column n of CN+ subset).

^cGenes who were copy number altered in the four cell lines.

^dGenes who were found deregulated when all four cell lines, by triplicate, were compared together against the control sample (n = 10).

^eIn the genome, included genes that were found in MRRs, and in the transcriptome, include genes which were found deregulated uniformly in the four cell lines (described in d).

EX+ = Genes that were up- or down- regulated in cancer cell lines compared with the control sample.