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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.