Table 3

Validation of array data by QRT-PCR

Gene

MAS enrichment

SAM enrichment

QRT-PCR enrichment


Highly enriched

CG13665

98.9

8.7

9.0

CG14957

95.9

21.9

23.8

CG13905

22.6

17.4

110

CG13836

80.6

30.1

11.7

Evenly expressed

CG17737

1.0

0.9

0.74

CG10731

1.0

1.1

0.68

CG8327

1.0

0.8

1.2

Arp66

1.0

1.1

0.47

Highly depleted

CG13421

0.00

0.067

0.19

CG12408

0.01

0.11

0.14

Act88F

0.01

0.14

0.03

CG15575

0.01

0.082

0.008


Enrichment in tubule mRNA compared to whole fly mRNA, computed from the microarray dataset with MAS 5.0 or SAM (see text), were compared with real values obtained by QRT-PCR. Four separate fly and tubule samples were run with primers for each gene, and for rp49, a ribosomal gene generally considered to be invariant. RNA quantities were calculated, and the gene:rp49 ratio calculated for each sample pair. Tubule enrichment was calculated as the (gene:rp49)tubule/(gene:rp49)fly.

Wang et al. Genome Biology 2004 5:R69   doi:10.1186/gb-2004-5-9-r69

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