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Table 3 Validation of array data by QRT-PCR

From: Function-informed transcriptome analysis of Drosophila renal tubule

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

  1. 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.