Table 5. Comparison of Genechip and qPCR data.
| Gene |
qPCR |
GeneChip |
||||
|---|---|---|---|---|---|---|
| Day 3 | Day 7 | Day 14 | Day 3 | Day 7 | Day 14 | |
|
BCL-3 |
1.21 |
1.03 |
3.66 |
NC |
NC |
4.1 |
|
C3 |
−1.11 |
1 |
2.8 |
NC |
−6.21 |
10.42 |
|
Edn2 |
1.46 |
1.48 |
4.71 |
2.93 |
NC |
13.15 |
|
Gadd45b |
1.37 |
1.77 |
3.35 |
NC |
NC |
4.54 |
|
GFAP |
−1.33 |
2.14 |
7.2 |
NC |
2.31 |
16.64 |
|
HIF1a |
1.5 |
1.4 |
1.1 |
3.48 |
NC |
−3.37 |
|
Lin7b |
1.72 |
1.45 |
1.96 |
NC |
NC |
4.39 |
|
L/M-opsin |
1.4 |
1.2 |
1.1 |
NC |
NC |
NC |
|
Oxr1 |
1.83 |
1.08 |
−1.25 |
3.3 |
NC |
−2.6 |
|
Rhodopsin |
−1.11 |
1 |
−1.11 |
NC |
NC |
NC |
|
Siva |
1.47 |
1.45 |
1.42 |
NC |
NC |
2.3 |
|
S-opsin |
1 |
1 |
1 |
NC |
NC |
NC |
|
DMD |
−1.25 |
−1.23 |
−2 |
NC |
NC |
−5.38, −2.3, −4.13 |
|
Prpf3 |
1.1 |
1 |
1 |
NC |
NC |
−5.2 |
| GAPDH* | 1 | 1 | 1 | NC | NC | NC |
Generally, genes showed the same trend in regulation in the qPCR and microarray experiments, but not necessarily by the same fold change. No change (NC) refers to a gene whose expression was below twofold for the microarray experiment and therefore the results were not statistically significant. The asterisk indicates a housekeeping gene. Validation, using qPCR, of genes linked to human retinal diseases were found to have differential expression at day 14 exposure to hyperoxia. Multiple entries indicate multiple probe identification (ID)’s from the GeneChip® analysis. Note that Prpf3 did appear to change when tested using qPCR.