Effect of sample size and P-value filtering techniques on the detection of transcriptional changes induced in rat neuroblastoma (NG108) cells by mefloquine

Table 2 Transcriptional changes induced in rat neuroblastoma (NG108) cells by a two-hour treatment with 10 μM mefloquine.

Gene	Accession	Fold-change	P-value¹	Result of RT-PCR (Expression Designation)²
GADD153	U30186	4.6	0.00013	Confirmed (altered)
IkappaB	X63594	2.2	0.00059	Confirmed (altered)
IkappaB	X63594	2.8	0.0014	Not tested (altered)
CJun	X17163	5.9	0.00165	Not tested (altered)
Dual specificity phosphatase	X94185	0.58	0.00184	Not tested (altered)
EST-cJun	AA945867	2.2	0.00186	Not tested (altered)
EST-cJun	AI175959	3.6	0.00282	Confirmed (altered)
DNA Polymerase α	M15114	1.3	0.00339	Not confirmed (unaltered)
PjunB	X54686	2.0	0.00383	Not confirmed (unaltered)
Acyl CoA hydrolase	AB010428	1.7	0.00391	Not tested (unaltered)
Unknown EST	AI237378	0.72	0.00663	Not confirmed (unaltered)

Notes 1. Paired t (df = 7) comparing mefloquine and DMSO (array data). 2. Expression was either confirmed (paired t-test, df = 7, P < 0.05) not confirmed (paired t-test, df = 7, P > 0.05) by RT-PCR or RT-PCR was not conducted (not tested). For the purposes of comparing the utility of different expression data filtering methods, genes were defined as having altered (array P < 0.003) or unaltered (array P > 0.003) expression. This threshold represents the highest array P-Value for which expression changes could be (were) confirmed by RT-PCR.

ISSN: 1475-2875