Table 1 A comparison of average qRT-PCR, RMA, and MAS 5.0 scores and the corresponding correlation values for the 31 transcript-concordant genes assayed in this study for which the Affymetrix microarray probesets (Affy IDs) were deemed likely to recognize identical transcripts to qRT-PCR probes. Genes are ranked from lowest to highest average log2 RMA scores. Genes with significant correlations (p < 0.05) obtained by either normalization procedure are highlighted in bold. The number of specimens tested for each gene is included (n). Expression levels are shown as log2>.
GENE | EXPRESSION | CORRELATION | |||||
|---|---|---|---|---|---|---|---|
NAME | AFFY ID | n | RMA | MAS 5.0 | qRT-PCR | RMA-qRT-PCR | MAS-qRT-PCR |
LCE | 204256_at | 22 | 4.79 | 7.01 | 0.27 | 0.81 | 0.70 |
ALDH1A1 | 212224_at | 22 | 4.93 | 6.66 | -2.93 | 0.89 | 0.88 |
CFLAR | 211317_s_at | 13 | 5.61 | 7.92 | -0.12 | 0.65 | 0.75 |
REL | 206036_s_at | 13 | 5.63 | 8.36 | 0.53 | 0.76 | 0.77 |
ABCC4 | 203196_at | 22 | 5.84 | 7.54 | 0.09 | 0.78 | 0.89 |
FOXO1A | 202724_s_at | 19 | 5.91 | 7.43 | -2.05 | 0.85 | 0.90 |
NOTCH2 | 212377_s_at | 13 | 6.19 | 8.24 | -0.43 | 0.77 | 0.82 |
TNFRSF21 | 214581_x_at | 13 | 6.22 | 8.03 | 1.98 | 0.83 | 0.97 |
MADH9 | 206320_s_at | 19 | 6.24 | 5.47 | -2.29 | 0.87 | 0.74 |
PPM1D | 204566_at | 30 | 6.29 | 8.80 | 0.50 | 0.73 | 0.72 |
MAP7 | 202889_x_at | 22 | 6.42 | 6.27 | -3.51 | 0.85 | 0.87 |
DMBT1 | 208250_s_at | 19 | 6.49 | 7.25 | -6.49 | 0.20 | -0.11 |
SNIP1 | 219409_at | 13 | 6.57 | 8.34 | 1.08 | 0.69 | 0.77 |
OSF2 | 210809_s_at | 19 | 6.59 | 7.68 | -1.26 | 0.80 | 0.77 |
ATBF1 | 208033_s_at | 19 | 6.64 | 7.14 | 0.27 | 0.81 | 0.84 |
KIT | 205051_s_at | 22 | 6.70 | 7.51 | -2.73 | 0.86 | 0.87 |
P53 | 201746_at | 19 | 7.00 | 8.50 | -3.44 | 0.41 | 0.11 |
BAG3 | 217911_s_at | 19 | 7.04 | 8.61 | -0.98 | 0.79 | 0.82 |
RB | 203132_at | 19 | 7.04 | 9.14 | -2.82 | 0.45 | 0.38 |
WBP4 | 203599_s_at | 19 | 7.28 | 8.97 | -0.24 | 0.62 | 0.74 |
BNIP2 | 209308_s_at | 13 | 7.58 | 9.79 | 0.56 | 0.68 | 0.69 |
UMPCMPK | 217870_s_at | 13 | 8.17 | 10.98 | 1.10 | 0.37 | 0.12 |
DCAMKL1 | 205399_at | 19 | 8.18 | 9.23 | -3.57 | 0.76 | 0.89 |
OAZIN | 201772_at | 30 | 8.22 | 10.36 | -0.36 | 0.72 | 0.77 |
LHFP | 218656_s_at | 19 | 8.37 | 9.27 | -0.46 | 0.89 | 0.90 |
BTG3 | 205548_s_at | 13 | 8.47 | 10.54 | 0.83 | 0.86 | 0.90 |
DCX | 204850_s_at | 19 | 8.81 | 10.08 | 0.62 | 0.87 | 0.88 |
TERF2 | 203611_at | 19 | 9.05 | 10.04 | -0.14 | 0.32 | 0.31 |
GADD45A | 203725_at | 19 | 9.17 | 9.80 | -0.12 | 0.96 | 0.94 |
PRSS11 | 201185_at | 19 | 9.22 | 9.85 | -3.54 | 0.63 | 0.64 |
RAP1 | 201174_s_at | 19 | 10.34 | 11.59 | -0.82 | 0.83 | 0.84 |