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Table 2 Differentially expressed genes from Affymetrix array, validated by qRT-PCR

From: Molecular targets and signaling pathways regulated by nuclear translocation of syndecan-1

Comparison Gene product Microarray
(FC)
qPCR (FC, relative expression ± SD, P-value)
a. FLs1 vs NLSdel EGR1
NEK11
DOCK8
1.85
1.77
1.72
1.39 ± 0.06 (p = 0.0004)
1.67 ± 0.41 (p = 0.04)
2.13 ± 0.49 (p = 0.08)
b. FLs1 vs V COL1A2
PCDH18
ITGA8
PIP5K1B
DACH1
AREG
SERPINB4
0.58
0.54
0.48
0.47
0.41
0.40
0.36
0.51 ± 0,07 (p = 0.00001)
0.46 ± 0,04 (p = 0.00001)
0.50 ± 0.22 (p = 0.0019)
0.28 ± 0.18 (p = 0.0001)
0.29 ± 0.09 (p = 0.0001)
0.28 ± 0.25 (p = 0.0005)
0.21 ± 0.13 (p = 0.0005)
c. NLSdel vs V COL19A1
FAP
SERPINA3
SERPINB4
IL2RB
0.89
0.59
0.48
0.37
0.33
0.53 ± 0.37 (p = 0.02)
0.67 ± 0.07 (p = 0.00003)
0.59 ± 0.26 (p = 0.009)
0.66 ± 0.24 (p = 0.03)
0.55 ± 0.25 (p = 0.02)
  1. Quantitative real-time PCR analysis of gene expression in B6FS cells overexpressing full-length syndecan-1 (FLs1), cells overexpressing NLS deleted syndecan-1 (NLSdel) and control cells (V). A subset of genes fulfilling the criteria of >1.5 fold up- or downregulation and a false discovery rate (q) ≤0.05 were further analyzed by qPCR. The table shows the significantly altered genes by both microarray and qPCR. FC fold change, SD-standard deviation. qPCR was performed three times, each in triplicates