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Table 2 Cytokine genes examined 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

    

Microarray detection

rt-PCR detection

 

Gene Name

Probe Set ID

BLAST of Consensus Probe Sequence OK?

%P of Mayo samples (n = 30)

Min Detection p-value

Max Detection p-value

%Detected in Mayo samples (n = 29)

Min Ct

Max Ct

1

TNF-α

207113_s_at

Yes

0.0%

0.0806

0.3989

100%

30.03

36.48

2

IFNγ

210354_at

Yes

0.0%

0.0562

0.5676

100%

32.97

41.78

3

IL-6

205207_at

Yes

70.0%

0.0007

0.1116

100%

30.83

39.89

4

IL-10

207433_at

Yes

0.0%

0.1116

0.6963

100%

32.82

37.16

5

TGF-β 1

        
  

203085_s_at

Yes

0.0%

0.1497

0.9324

100%

26.55

32.54

  

203084_at

Yes

0.0%

0.1497

0.6338

100%

26.55

32.54

6

FoxP3

        
  

224211_at

Yes

0.0%

0.2742

0.8286

100%

30.87

37.22

  

221333_at

NO a

0.0%

0.6655

0.9539

-

-

-

  

221334_s_at

NO a

0.0%

0.0806

0.6655

-

-

-

7

IFNγ-R1

        
  

202727_s_at

Yes

100.0%

0.0002

0.0020

100%

28.53

33.95

  

242903_at

NO b

100.0%

0.0002

0.0376

-

-

-

  

211676_s_at

Yes

96.7%

0.0007

0.0676

100%

28.53

33.95

  1. a Contains probesets for the FoxP3 gene which overlap with the JM2 gene.
  2. b Contains probesets for the IFNγ-Receptor 1 gene that specifically bind the DNA sequence of the gene.