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Table 4 Fold changes of gene expression in three datasets reanalyzed by CANEapp and compared to qRT-PCR results

From: CANEapp: a user-friendly application for automated next generation transcriptomic data analysis

Gene Name

Cuffdiff

edgeR_GML

edgeR_et

DESeq2

QRT-PCR

Alzheimer’s disease dataset

 SERPINE1

1.41

1.71

1.54

0.98

1.66

 TAC1

−1.77

−1.65

−1.85

−1.56

−0.42

 ID2

0.98

1.07

0.88

−0.73

1.17

 GRM2

0.86

0.98

0.78

0.63

0.44

 LINC01314

−0.25

−1.19

−1.38

−1.05

−0.50

 RP11-87E22.2

3.63

2.01

1.85

1.31

2.30

Mouse cortex dataset

 Vax1

−2.12

−2.02

−1.74

−1.71

−3.18

 Caly

1.93

1.79

2.08

2.09

2.10

 Igf2bp1

−9.40

−8.72

−8.45

−8.16

−5.61

 Draxin

−5.98

−5.26

−4.98

−4.94

−6.80

 Nrp1

−2.17

−2.22

−1.94

−1.92

−2.46

 Ttr

11.04

11.18

11.46

11.28

11.63

 Mobp

12.44

12.08

12.36

12.24

12.69

 Wipf1

2.22

1.74

2.02

2.03

1.71

Rat liver dataset

 Bax-AFL

1.78

1.86

1.75

1.96

2.62

 Cdkn1a-AFL

4.19

4.28

3.30

8.00

23.50

 Myc-AFL

0.97

1.03

0.82

0.99

2.10

 Met-AFL

−1.02

−0.94

−0.88

−0.89

−1.90

 Bax-NIT

1.62

1.22

1.19

1.25

1.98

 Cdkn1a-NIT

3.22

2.82

2.56

3.05

8.07

 Figf-NIT

4.18

3.76

3.51

3.72

10.27

 Fzd4-NIT

−0.30

−0.70

−0.69

−0.73

−2.07