Table 1 Variables and values used in the simulation study.
Variable | Meaning | Value |
|---|---|---|
\(N{}_{BC}\) | Number of Bridging controls | 3, 5, 10, 15, 24 |
\(N{}_{BV}\) | Number of proteins significantly different between the 2 groups of samples | 0, 5,10,15 |
\(\Delta {}_{BV}\) | Difference in mean NPX between the 2 groups of samples | 0, 2.5, 5 |
\(N{}_{BE}\) | Number of proteins with a batch effect on the mean of the normal distribution | 0, 10, 20 |
\(\mu {{}_{i}^{BE}}\) | Mean of the normal distribution followed by the proteins with a batch effect | 0, 2.5, 5 |
\(\sigma {{}_{i}^{noise}}\) | Standard deviation of the normal distribution followed by the proteins with a batch effect | 0, 0.15 |
\(\beta {}_{1}\) | Slope of the plate specific batch effect | 0, 0.025, 0.05, 0.1 |
