Table 1.
RNA purity and quality assessment for microarray experiments
| Sample | Nanodrop |
Bioanalyzer |
||
|---|---|---|---|---|
| A260/280a | A260/230a | RINb | ||
| hTERT/E6/E7 | Control #1 | 2.12 | 1.90 | 9.1 |
| HOXA9 #1 | 2.11 | 1.89 | 9.6 | |
| Control #2 | 2.10 | 2.03 | 9.9 | |
| HOXA9 #2 | 2.09 | 2.17 | 9.4 | |
| Control #3 | 2.10 | 2.22 | 9.3 | |
| HOXA9 #3 | 2.07 | 2.19 | 9.6 | |
| U87MG | Control #1 | 2.07 | 2.16 | 9.6 |
| HOXA9 #1 | 2.09 | 1.91 | 9.5 | |
| Control #2 | 2.10 | 2.16 | 9.3 | |
| HOXA9 #2 | 2.08 | 1.87 | 9.1 | |
| Control #3 | 2.11 | 2.17 | 9.4 | |
| HOXA9 #3 | 2.12 | 2.20 | 9.5 | |
| U251 | shCtrl #1 | 2.09 | 2.22 | 9.1 |
| shHOXA9 #1 | 2.11 | 2.03 | 9.3 | |
| shCtrl #2 | 2.08 | 2.02 | 9.5 | |
| shHOXA9 #2 | 2.09 | 2.09 | 9.4 | |
| shCtrl #3 | 2.09 | 1.94 | 9.6 | |
| shHOXA9 #3 | 2.10 | 2.06 | 9.1 | |
| GBML18 | shCtrl #1 | 2.05 | 1.99 | 9.9 |
| shHOXA9 #1 | 2.10 | 2.05 | 9.6 | |
| shCtrl #2 | 2.07 | 1.81 | 8.0 | |
| shHOXA9 #2 | 2.04 | 2.13 | 9.6 | |
| shCtrl #3 | 2.14 | 2.23 | 9.6 | |
| shHOXA9 #3 | 2.13 | 2.18 | 9.8 | |
a
Nucleic acid is detected at 260 nm, whereas proteins, salts and solvents are detected at 280 and 230 nm. Thus, ratios demonstrate if the RNA is devoid of these contaminants. For microarray experiments, ratios should be ≥ 1.8;
b
RIN = RNA integrity number, and provides a quantitative value for RNA integrity that facilitates the standardization of quality interpretation. For microarray experiments, RIN should be ≥ 7.