Table 1 Proteomics pipeline model summary
Parameters | Default values |
|---|---|
No. of classes | 2 |
Sample size of each class | M = 50 |
Proteome | Homo sapiens |
No. of marker proteins | 20 |
No. of non-markers | 500 |
Protein block size | D = 2 |
Protein block correlation | ρ = 0.6 |
Fold change | a l ~ Unif(1.5, 2) |
Instrument response | κ = 5 |
Instrument saturation effect | sat = Inf |
Noise level | α = 0.03, β = 3.6 |
Peptide efficiency factor | e i ~ Unif(0.1, 1) |
Peptide detection algorithm | b = 0, k = .0016, p = 2 |
No. of MS2 replicates | 1 |