Table 2:
Fold changes of of DEGs (Differentially expressed genes)up-regulated upon HIV-1 exposure on cervical tissues compared to tissues exposed to media control
| Sample Number | CXCL10 | SAA1/SAA2 | MUC1 | IL36A | FMO2 | IL8 | WARS |
|---|---|---|---|---|---|---|---|
| E-8776 (HIV) | 11.16 | 8.75 | 6.54 | 3.29 | 5.06 | 3.51 | 4 |
| E-7688 (HIV) | 40.22 | 2.22 | 2.83 | 0.99 | 2.6 | 1.56 | 9.45 |
| E-8901 (HIV) | 5.7 | 0.72 | 1.32 | 0.84 | 0.8 | 0.99 | 1.51 |
| E-8916 (HIV) | 19.7 | 16 | 580.04 | 235.57 | 34.06 | 34.78 | 5.31 |
| E-9274 (HIV) | 12.64 | 4.11 | 3.76 | 2.95 | 3.41 | 5.39 | 9.45 |
| E-9301 (HIV) | 1.41 | 0.26 | 0.37 | 1.41 | 0.79 | 2.16 | 1.03 |
| E-9323 (HIV) | 9.19 | 4.06 | 2.57 | 1.61 | 1.3 | 0.75 | 3.66 |
| E-9387 (HIV) | 15.67 | 1.57 | 0.79 | 0.58 | 1.09 | 1.42 | 1.69 |
| E-9483 (HIV) | 3.56 | 0.93 | 1.75 | 2.53 | 2.19 | 2.19 | 2.11 |
| E-9493 (HIV) | 2.51 | 1.2 | 0.68 | 1.57 | 1.59 | 1.12 | 1.69 |
| E-9564 (HIV) | 15.24 | 1.8 | 10.27 | NA | 9.65 | 3.16 | 10.34 |
| E-9571 (HIV) | 2.57 | 0.2 | 1.04 | 0.38 | 0.47 | 0.29 | 1.09 |
| E-9769 (HIV) | 7.26 | 0.74 | 0.18 | 2.04 | 0.8 | 0.26 | 0.33 |
| E-9864 (HIV) | 13.27 | 1.21 | 5.39 | NA | 8.51 | 1.79 | 11.16 |
| Average Fold Change (n=14) | 11.44 * | 3.13 | 44.11 * | 21.15 * | 5.17 * | 4.24 * | 4.49 * |
| p value | 0.0001 | 0.104 | 0.0245 | 0.05 | 0.0157 | 0.0245 | 0.0009 |
The upregulated genes found in the transcriptome analysis was verified using RT-PCR on additional tissues (n=14). Numbers denote fold changes of DEGs in tissues exposed to HIV-1 compared to tissues exposed to media control.
*
Six genes out of the seven genes were found to be statistically upregulated by RTPCR. A non parametric paired t test was used for calculating the statistical significance.