Table 3

Differentially expressed genes selected by the consecutive sampling and coincidence method. List of the probe sets selected by the consecutive sampling and coincidence method using the interval 0.8. The fold change is calculated using the threshold of 10, substituting into the denominator function max(10, Yavg), where Yavg is the mean of the under-expressed values. Bold print indicates the probe sets selected also for the interval 0.9. The probe set GI_4755127 printed in italics showed an inconsistent behavior in comparison of the probe 1 versus probe 2.




Untreated
 Treated
 Fold Change

Illumina probe set
 Gene Name
 Gene Function
 Mean Intensity
 CV
 Mean Intensity
 CV
 Treated/Untr. mean
Upregulated
 GI_4504436
 HMOX1
 Oxidative Stress
 178.9
 0.03
 1060.1
 0.07
 5.92

GI_4505414
 NQO1
 Oxidative Stress
 13.3
 0.09
 56.7
 0.06
 4.27

GI_9790904
 GADD45
 Cell cycle/DNA Repair
 11.1
 0.26
 21.6
 0.10
 1.95

GI_4557514
 DDB2
 Cell cycle/DNA Repair
 24.7
 0.07
 41.8
 0.06
 1.69

GI_4507456
 TFRC
 Oxidative Stress/Iron regulation
 130.7
 0.15
 217.1
 0.01
 1.66

GI_17978494
 P21
 Oxidative Stress/DNA Repair
 676.9
 0.01
 1069.7
 0.02
 1.58

GI_22035635
 MGST1
 Oxidative Stress
 72.4
 0.04
 107.1
 0.09
 1.48

GI_20127459
 XPC
 DNA Repair
 42.5
 0.07
 59.8
 0.04
 1.41

GI_4502884
 CLK3
 Cell Cycle
 52.3
 0.09
 71.7
 0.03
 1.37

GI_5174726
 TCP1
 Molecular Chaperone
 109.5
 0.09
 147.6
 0.05
 1.35

GI_4755127
 ATF3
 Cell Cycle/DNA Repair
 4.3
 0.09
 13.2
 0.21
 1.32
Downregulated
 GI_4826773
 G1P2
 Unknown
 220.3
 0.07
 143.1
 0.07
 1.54

GI_22538813
 CCL5
 Chemokine/Oxidative Stress
 147.9
 0.02
 104.1
 0.08
 1.42

GI_4506844
 CCL4
 Chemokine/inflammatory response
 98.7
 0.04
 71.4
 0.11
 1.38

Novak et al. Biology Direct 2006 1:18   doi:10.1186/1745-6150-1-18

Open Data