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Table 4 Validation of fold-changes from microarray analyses by real-time RT-PCR

From: Epigenetics of gene expression in human hepatoma cells: expression profiling the response to inhibition of DNA methylation and histone deacetylation

   5-aza-dC TSA 5-aza-dC and TSA
  Control Array1 RT-PCR1 Array RT-PCR Array RT-PCR
CDK10 3 300* 3.5 (.00013) 8.3 (.00000) NT2 NT 3.8 (.00001) 7.2 (.00000)
CEBPA 3 3106 NT NT 1.43 (.0038) 4.16 (.004) 1.7 (.00049) 10.4 (.00000)
CEBPB 3 28789 -2.0 (.019) -2.6 (.0008) NT NT -2.0 (.019) -3.5 (.00009)
CYP3A7 3 515* 4.0 (.0043) 11 (.00000) NT NT 4.3 (.0043) 8.0 (.00000)
GSTP1 3 367** 8.5 (.00014) 18200 (.00000) NT NT 12 (.00005) 107000 (.00000)
H19 3 255 156 (.00000) 5080 (.00000) NT NT 141 (.00000) 330 (.00000)
NNAT 205* 8.0 (.0073) 38 (.00000) NT NT 10.8 (.0053) 33 (.00000)
PKIB 464* 7.4 (.0029) 70 (.00000) NT NT 6.6 (.0013) 35 (.00000)
S100A4 3 281* 8.8 (.0012) 27 (.00000) 3.0 (.00039) 4.9 (.00000) 8.2 (.00018) 11 (.00000)
TSPY1 11* 96 (.00002) 532 (.00000) NT NT 153 (.00000) 1290 (.00000)
  1. *: Called "Absent" on all 4 control arrays; **: called "Absent" on 3 of 4 control arrays
  2. 1The fold-change for either the microarray analyses or real-time RT-PCR assays (relative fold-change). P-values (Welch's t-test) are shown in parentheses.
  3. 2NT = not tested, because it was not significantly affected in the microarray analyses.
  4. 3Expression is observed in the fetal liver.