Table 4 Bias of estimated gene expression levels (up:down = 9:1) for simulated cDNA microarray data with the R-I plots similar to Figure 3.
From: A robust two-way semi-linear model for normalization of cDNA microarray data
Percentage of DEG | Descriptive Statistics | ||||||
|---|---|---|---|---|---|---|---|
| Â | Method | Mean | Minimum | 25% Quantile | Median | 75% Quantile | Maximum |
1% | OLS | 0.0000 | -0.8219 | -0.0173 | -0.0043 | 0.0094 | 1.4229 |
| Â | Huber | 0.0000 | -0.6011 | -0.0146 | -0.0034 | 0.0080 | 1.2449 |
| Â | Tukey | 0.0000 | -0.4942 | -0.0137 | -0.0031 | 0.0079 | 1.1431 |
| Â | LOWESS | 0.0017 | -0.8382 | -0.0155 | -0.0018 | 0.0116 | 1.4261 |
5% | OLS | 0.0000 | -1.1839 | -0.0307 | -0.0151 | 0.0009 | 1.1853 |
| Â | Huber | 0.0000 | -1.0325 | -0.0258 | -0.0118 | 0.0016 | 0.9497 |
| Â | Tukey | 0.0000 | -0.9366 | -0.0240 | -0.0107 | 0.0024 | 0.8284 |
| Â | LOWESS | 0.0028 | -1.1707 | -0.0257 | -0.0123 | 0.0015 | 1.1979 |
10% | OLS | 0.0000 | -1.2366 | -0.0567 | -0.0351 | -0.0108 | 1.2074 |
| Â | Huber | 0.0000 | -1.0440 | -0.0477 | -0.0297 | -0.0078 | 1.0073 |
| Â | Tukey | 0.0000 | -0.9654 | -0.0444 | -0.0270 | -0.0056 | 0.9112 |
| Â | LOWESS | 0.0034 | -1.2259 | -0.0467 | -0.0310 | -0.0151 | 1.2333 |
20% | OLS | 0.0000 | -1.2168 | -0.0922 | -0.0677 | -0.0368 | 1.3011 |
| Â | Huber | 0.0000 | -0.9445 | -0.0771 | -0.0568 | -0.0286 | 1.0866 |
| Â | Tukey | 0.0000 | -0.8220 | -0.0707 | -0.0510 | -0.0241 | 0.9765 |
| Â | LOWESS | -0.0089 | -1.2455 | -0.0953 | -0.0765 | -0.0537 | 1.3045 |
40% | OLS | 0.0000 | -1.5360 | -0.1722 | -0.1230 | 0.1383 | 1.3821 |
| Â | Huber | 0.0000 | -1.3680 | -0.1451 | -0.1030 | 0.1192 | 1.1008 |
| Â | Tukey | 0.0000 | -1.2384 | -0.1328 | -0.0934 | 0.1114 | 0.9741 |
| Â | LOWESS | -0.1418 | -1.7047 | -0.2937 | -0.2553 | -0.0205 | 1.2253 |
*70% | OLS | 0.0000 | -0.5137 | -0.2925 | -0.0519 | 0.2306 | 1.0736 |
| Â | Huber | 0.0000 | -0.4227 | -0.2466 | -0.0429 | 0.1947 | 0.9327 |
| Â | Tukey | 0.0000 | -0.3924 | -0.2259 | -0.0390 | 0.1802 | 0.8543 |
| Â | LOWESS | -0.5203 | -1.0007 | -0.7719 | -0.5651 | -0.3230 | 0.5017 |