Skip to main content

Table 3 Comparisons of changes in gene expression determined by microarray and rt-PCR in Mayo Clinic kidney transplant specimens.

From: A meta-analysis of kidney microarray datasets: investigation of cytokine gene detection and correlation with rt-PCR and detection thresholds

  

RT-PCR

Microarray

 

Transcript

Analysis

Fold change

p-valuea

Fold change

p-value

%P

Acceptable correlationb

A. Undetectable by microarray

TNFα

       
 

TxNormal (0–12)

1.62

0.288

-1.05

0.051

0%

No

 

TxFibrosis (0–12)

2.05

0.061

-1.01

0.728

0%

No

IFNγ

       
 

TxNormal (0–12)

2.72

0.172

-1.04

0.152

0%

No

 

TxFibrosis (0–12)

3.11

0.028

1.02

0.537

0%

No

IL-10

       
 

TxNormal (0–12)

1.54

0.271

-1.05

0.058

0%

No

 

TxFibrosis (0–12)

3.02

0.000

-1.05

0.134

0%

No

TGFβ1

       
 

TxNormal (0–12)

2.53

0.003

-1.11

0.012

0%

No

 

TxFibrosis (0–12)

2.93

0.000

-1.09

0.002

0%

No

Fox-P3

       
 

TxNormal (0–12)

2.56

0.030

-1.07

0.029

0%

No

 

TxFibrosis (0–12)

2.33

0.000

-1.13

0.001

0%

No

B. Detectable by microarray

GRZMA

       
 

TxNormal (0–12)

7.25

0.021

1.32

0.072

42%

No

 

TxFibrosis (0–12)

9.21

0.000

2.06

0.000

50%

Yes

IL-6

       
 

TxNormal (0–12)

-12.50

0.029

-1.26

0.008

79%

Yes

 

TxFibrosis (0–12)

-7.69

0.005

-1.23

0.000

63%

Yes

FN1

       
 

TxNormal (0–12)

2.84

0.001

2.78

0.020

93%

Yes

 

TxFibrosis (0–12)

2.50

0.002

2.01

0.001

94%

Yes

IFNγ-R1

       
 

TxNormal (0–12)

1.45

0.072

1.35

0.061

100%

Yes

 

TxFibrosis (0–12)

1.63

0.001

1.37

0.008

100%

Yes

IER3

       
 

TxNormal (0–12)

-2.80

0.016

-2.54

0.000

100%

Yes

 

TxFibrosis (0–12)

-2.24

0.005

-1.70

0.000

100%

Yes

STAT2

       
 

TxNormal (0–12)

1.72

0.015

1.40

0.005

100%

Yes

 

TxFibrosis (0–12)

1.88

0.016

1.43

0.001

100%

Yes

COL1A1

       
 

TxNormal (0–12)

8.89

0.037

5.82

0.005

100%

Yes

 

TxFibrosis (0–12)

8.76

0.001

5.34

0.000

100%

Yes

STAT1

       
 

TxNormal (0–12)

2.06

0.001

1.89

0.000

100%

Yes

 

TxFibrosis (0–12)

2.80

0.002

2.19

0.000

100%

Yes

VCAM1

       
 

TxNormal (0–12)

1.42

0.168

1.34

0.254

100%

Yes

 

TxFibrosis (0–12)

2.43

0.000

2.00

0.000

100%

Yes

PSMB8

       
 

TxNormal (0–12)

1.78

0.019

1.40

0.041

100%

Yes

 

TxFibrosis (0–12)

2.82

0.000

1.83

0.000

100%

Yes

  1. a Calculated by TTEST (equal variance, 2-tailed distribution).
  2. b To be considered "acceptable" both the direction of change (up/down- regulation) and significance (p < 0.05 or p > 0.05) must be the same.
Back to article page

BMC Genomics

ISSN: 1471-2164

Contact us