Table 4. Summary of 7 genes validated with quantitative RT-PCR and comparison with microarray results.
| RNA expression analysis method | |||||||
|---|---|---|---|---|---|---|---|
| Quantitative RT-PCR (N=51) |
Affymetrix U133A/B chip (N=53) |
8K cDNA chip (N=19)* |
|||||
| No. | Gene | N (frequency) Under-expressed (fold change ≤ 0.5) |
N (frequency) Normal expression (fold change 0.5001- 1.9999) |
N (frequency) Over-expressed (fold change ≥ 2.0) |
Fold change (median) |
Fold change (average) |
Fold change (average) |
| Up-regulated genes | |||||||
| 1 | KRT14 | 5 (0.10) | 12 (0.24) | 34 (0.67) | 7.3 | 2.5 | 2.31 |
| 2 | COL1A2 | 2 (0.04) | 15 (0.29) | 34 (0.67) | 3.4 | 6.49 | 2.01 |
| 3 | COL3A1 | 2 (0.04) | 6 (0.12) | 43 (0.84) | 6.8 | 4.48 | 2.91 |
| 4 | MET | 5 (0.10) | 9 (0.18) | 37 (0.72) | 5.5 | 2.76 | NA |
| Down-regulated genes | |||||||
| 5 | SPINK7/ECG2 | 43 (0.84) | 2 (0.04) | 6 (0.12) | 0.02 | 0.08 | NA |
| 6 | HPGD | 41 (0.80) | 5 (0.10) | 5 (0.10) | 0.07 | 0.16 | 0.45 |
| 7 | SASH1 | 34 (0.67) | 11 (0.21) | 6 (0.12) | 0.27 | 0.38 | NA |
*
NA = not available