Table 1.
Nominal concentration to ALE mapping
| Reported nominal concentration | Average expression value | Proportion of genes below | ALE strata | SD |
|---|---|---|---|---|
| Affymetrix (pM) | ||||
| 0.125 | 5.1 | 0.35 | Low | 0.87 |
| 0.250 | 5.2 | 0.38 | Low | 0.90 |
| 0.500 | 5.3 | 0.40 | Low | 0.74 |
| 1.000 | 5.7 | 0.48 | Low | 0.72 |
| 2.000 | 6.4 | 0.62 | Med | 0.82 |
| 4.000 | 7.1 | 0.73 | Med | 0.79 |
| 8.000 | 7.8 | 0.82 | Med | 0.68 |
| 16.000 | 8.4 | 0.89 | Med | 0.67 |
| 32.000 | 9.3 | 0.94 | Med | 0.79 |
| 64.000 | 10.2 | 0.97 | Med | 0.72 |
| 128.000 | 11.2 | 0.99 | Med | 0.54 |
| 256.000 | 12.0 | 0.99 | High | 0.49 |
| 512.000 | 12.6 | 1.00 | High | 0.51 |
| Agilent (relative concentration) | ||||
| Reported nominal concentration | ||||
| 0.20 | 4.6 | 0.34 | Low | 1.35 |
| 2.00 | 4.8 | 0.36 | Low | 1.40 |
| 20.00 | 6.3 | 0.49 | Low | 0.63 |
| 200.00 | 9.1 | 0.73 | Med | 0.47 |
| 666.67 | 10.9 | 0.86 | Med | 0.36 |
| 2000.00 | 12.5 | 0.94 | Med | 0.3 |
| 6666.67 | 14.2 | 0.97 | Med | 0.21 |
| 20000.00 | 15.6 | 0.99 | Med | 0.16 |
| 66666.67 | 17.1 | 1.00 | High | 0.31 |
| 200000.00 | 18.0 | 1.00 | High | 0.25 |
| Illumina (pM) | ||||
| Reported nominal concentration | ||||
| 0.01 | 2.9 | 0.38 | Low | 0.39 |
| 0.03 | 3.0 | 0.49 | Low | 0.46 |
| 0.10 | 3.9 | 0.68 | Med | 0.83 |
| 0.30 | 5.4 | 0.76 | Med | 1.51 |
| 1.00 | 7.5 | 0.85 | Med | 1.26 |
| 3.00 | 9.5 | 0.94 | Med | 1.05 |
| 10.00 | 11.4 | 0.98 | Med | 1.01 |
| 30.00 | 12.8 | 1.00 | High | 0.81 |
| 100.00 | 14.1 | 1.00 | High | 0.65 |
| 300.00 | 14.8 | 1.00 | High | 0.34 |
| 1000.00 | 15.0 | 1.00 | High | 0.26 |
This table contains summary measures specific to each nominal spike-in level. The first column shows the nominal concentrations as originally reported. The second column shows the average of all observed expression values associated with the row's; nominal concentration. The third column shows the proportion of background RNA with expression values less than the average expression value. The fourth column shows the ALE strata (defined in text) associated with the row's; nominal concentration. Finally, the fifth column shows the SD of all observed expression values associated with the row's; nominal concentration.