Table 3

QPCR of LCLs was performed to confirm altered gene expression in twelve top schizophrenia candidate genes identified by exon array analysis from Diagnosis × Probeset interactions.

Gene

Symbol

Diagnosis (p-value)

Glucose (p-value)

Diagnosis × Glucose (p-value)

Mean ΔCt (C-GD)

Mean

ΔCt (C-NG)

Mean ΔCt (SZ-GD)

Mean ΔCt

(SZ-NG)

FC


ERO1L

0.0037

0.6354

0.998

-1.45

-1.31

-0.41

-0.26

0.48

DSC2

0.0038

0.5318

0.999

0.18

0.64

2.58

3.03

0.19

MCCC2

0.0057

0.0006

0.713

-2.23

-1.31

-1.53

-0.76

0.65

CR1

0.0068

0.4561

0.797

0.72

1.13

2.06

2.26

0.42

IRF5

0.0104

0.9943

0.897

-0.27

-0.21

-1.63

-1.69

2.68

GLS

0.0325

0.9193

0.441

0.515

0.234

-0.756

-0.380

1.93

DSC3

0.0458

0.5623

0.709

4.38

4.62

6.42

7.53

0.18

ADCY1

0.0478

0.0083

0.893

2.34

3.97

3.52

5.00

0.46

PPFIBP1

0.0630

0.1272

0.746

1.83

2.54

2.69

3.16

0.60

PDE4D

0.0788

0.2563

0.691

2.81

3.66

4.03

4.44

0.50

ZC3HAV1

0.0975

0.9714

0.922

-0.07

-0.03

1.18

1.09

0.44

TNIK

0.1037

0.0390

0.950

0.86

2.21

1.90

3.18

0.50

HEBP2

0.1075

0.7067

0.976

-0.07

0.19

1.15

1.45

0.42


These genes were selected for validation after examining probeset-specific expression for diagnosis related differences. The ΔCt was calculated by subtracting the Ct of the gene of interest from the Ct of the housekeeping gene SLC9A1. Fold change was calculated as 2^-(schizophrenia mean -- control mean). (C -- Control; SZ -- Schizophrenia; GD -- Glucose deprivation; NG -- Normal glucose; FC -- Fold change). The direction of fold change between diagnosis groups using microarray and qPCR data was consistent for 100% of the genes. A total of 62% of attempted validations were significant when gene expression was measured by qPCR. Bold data was significant by microarray and qPCR.

Martin et al. BMC Medical Genomics 2009 2:62   doi:10.1186/1755-8794-2-62

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