TABLE 1.
Comparative analysis of the transcriptional profiles of Huh7 cell clones containing replicating NNeo/C5B RNA and their isoclonal, IFN-α-cured progeny
| Probe seta | No. of probe sets
|
||||
|---|---|---|---|---|---|
| 2-3c vs. clone 2-3 with GeneChip:
|
3c vs. clone 3 with GeneChip:
|
2-3c vs. 2-3c + SenV with GeneChip U133A | |||
| U95A | U133A | U95A | U133A | ||
| Total | 12,625 | 22,283 | 12,625 | 22,283 | 22,283 |
| “Present” | 5,350b | 10,698 | 5,102 | 10,359 | 10,698 |
| I >2-fold | 10 ± 0.5b | 5 | 8 | 38 | 307 |
| I >3-fold | 1.5 ± 0.5 | 2 | 2 | 12 | 152 |
| D >2-fold | 9.0 ± 1.0 | 20 | 1 | 5 | 70 |
| D >3-fold | 0.5 ± 0.5 | 5 | 0 | 2 | 12 |
a
“Present,” probe sets with a call of “present” in the absolute expression analysis of the baseline array (IFN-treated 2-3c or 3c cells that are free of HCV RNA), I, increased in the experimental array (2-3 or 3 cells containing HCV RNA) relative to the baseline array; D, decreased in the experimental array (2-3 or 3 cells containing HCV RNA) relative to the baseline array.
b
Mean of results obtained in two independent experiments ± the standard deviation.