Table 3.
Comparison of Array-Derived and Real-Time PCR Measured Ratios of Gene Expression in Hypoxic versus Normoxic Vessels
| Gene/accession no. | Array: signal ratio in experiment 1/2/3 | Array: mean signal ratio ± SEM | Real-time PCR (normalized to PBGD): ratio ± SEM |
|---|---|---|---|
| Procollagen 1 α1 subunit/U08020 | 7.79 /4.29/4.20 | 5.43 ± 1.18 | 2.49 ± 0.41 |
| Procollagen 1 α2 subunit/X58251 | 4.46 /3.60/3.30 | 3.79 ± 0.35 | 2.34 ± 0.20 |
| Procollagen 3 α1 subunit/X52046 | 2.81 /1.11/2.37 | 2.10 ± 0.51 | 2.26 ± 0.53 |
| Carbonic anhydrase 3/M27796 | Up /4.11/6.46 | 5.29 | 3.39 ± 0.78 |
| Matrix gamma-carboxy-glutamate (gla) protein/D00613 | 3.29 /3.34/3.96 | 3.53 ± 0.22 | 2.38 ± 0.45 |
| Non-muscle myosin light chain 3/U04443 | 2.22 /1.26/3.41 | 2.30 ± 0.62 | 1.35 ± 0.35 |
| Serine proteinase inhibitor 3/U25844 | 1.94 /1.45/2.31 | 1.90 ± 0.25 | 1.84 ± 0.26 |
| Cytochrome b-245 α polypeptide/M31775 | 2.15 /1.26/1.24 | 1.55 ± 0.30 | 1.45 ± 0.31 |
| AXL receptor tyrosine kinase/X63535 | 1.53 /1.00/1.14 | 1.22 ± 0.16 | 1.52 ± 0.36 |
In three independent experiments, array comparison was performed. Nine genes with different extent of mRNA up-regulation during hypoxia were then additionally investigated by an alternative method. RNA was extracted from isolated vessels and quantified by real-time PCR. After normalization to the standard gene PBGD, the ratios of expression in hypoxic versus normoxic vessels were calculated (n = 3 each; mean ± SEM is given).