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Table 6 Comparison of the signal of first and second probe. Comparison of the probe 1 versus probe 2, nt and tr stand for "non-treated" and "treated," respectively and CV is the coefficient of variation. The ratio pr1/pr1&2 is the fold difference obtained using probe 1 only versus the fold difference obtained from the probe set; similarly for pr2/pr1&2. The last two columns give the absolute values of the difference of coefficient of variation. The minimum and maximum values in the last two rows were calculated excluding the gene GI_4755127, which shows abnormal behavior (printed in italics). Fourteen genes listed were obtained using the interval 0.8; 11 genes printed in bold are the genes, obtained for the interval 0.9*) Excluding the probe set GI_4755127.

From: Variation in fiberoptic bead-based oligonucleotide microarrays: dispersion characteristics among hybridization and biological replicate samples

Probe Set

Gene Name

Avg(Tr)/Avg(Nt)

Ratio (probe1/probe1&2)

Ratio (probe2/probe1&2)

Probe 1 |CV(nt)-CV(tr)|

Probe 2 |CV(nt)-CV(tr)|

GI_4504436

HMOX1

5.61

0.99

1.08

0.02

0.01

GI_4505414

NQO1

4.12

1.05

0.97

0.03

0.12

GI_4755127

GADD45

2.78

0.67

1.11

0.43

0.40

GI_9790904

DDB2

1.84

0.97

1.05

0.03

0.23

GI_4557514

TFRC

1.62

0.97

1.01

0.19

0.20

GI_4507456

P21

1.58

1.05

0.96

0.03

0.02

GI_17978494

MGST1

1.52

1.04

0.98

0.01

0.02

GI_22035635

XPC

1.41

1.00

1.01

0.03

0.11

GI_20127459

CLK3

1.34

1.03

0.92

0.11

0.07

GI_4502884

TCP1

1.30

0.99

1.06

0.14

0.01

GI_5174726

ATF3

1.27

1.05

1.00

0.08

0.13

GI_4506844

G1P2

0.69

1.07

0.95

0.03

0.04

GI_22538813

CCL5

0.67

1.01

0.96

0.04

0.06

GI_4826773

CCL4

0.62

1.05

0.88

0.04

0.04

min *

 

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0.97

0.88

0.01

0.01

max *

 

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1.07

1.08

0.19

0.23