Table 1.
Real-time quantitative RT-PCR for validation of microarray data
| Gene | Microarray data | ΔCt (Ct LP-1D1b-Ct LP-1cl1) | Fold change | FC (microarray) |
|---|---|---|---|---|
| 36B4 | nm* | -0.78/-0.52/-0.42** | 1 | - |
| CSN2 | +7.33 | -2.16/-2.70 | +7.67/+6.34 | +7.33 |
| FGFR3 | +5.07 | -2.78/-1.62 | +11.79/+4.25 | +5.09 |
| FHIT | +4.67 | -1.41/-1.10 | +3.68/+3.68 | +4.67 |
| HSP90B1 | +2.25 | -1.21 | +3.20 | +2.26 |
| TUBB2B | -2.32 | 1.01 | -1.45 | -2.32 |
| TFRC | -6.48 | 3.77/3.14 | -9.51/-6.36 | -6.48 |
| CD48 | -12.27 | 4.05/4.18 | -9.64/-13.08 | -12.27 |
| Gene | Microarray data | ΔCt (Ct LP-1K- Ct LP-1cl1) | Fold change | FC (microarray) |
| 36B4 | nm* | -0.25/-0.40/-0.20/-0.36 | 1 | - |
| LTB | +40.66 | -5.7 | +43.71 | +40.67 |
| FN1 | +13.54 | -3.55 | +8.87 | +13.54 |
| BCL2 | +3.17 | -2.36 | +3.89 | +3.17 |
| CDK6 | -4.14 | 1.83/1.95 | -4.08/-4.43 | -4.14 |
| GAPDH | -5.15 | 1.09 | -2.44 | -6.15 |
| UCHL1 | -63.82 | 11.11/11.25 | -2538/-2797 | -63.82 |
* nm, not modified. **When several numbers are indicated, they refer to the results obtained with different runs of PCR. For each sample, the average Ct value for the internal standard 36B4 was subtracted from the average Ct value for each gene to yield ΔCt. The relative amount of each mRNA compared to the calibrator (36B4) in each run was calculated by the formula N = 2-ΔΔCt to give the fold change. For each gene, the Fc calculated from microarray data (in bold) is reported in the right column.