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Table 1 Parameter settings in simulation of biomarker validation model

From: Modeling and systematic analysis of biomarker validation using selected reaction monitoring

Parameter

Defaults value

Number of classes

2

Sample size

n=80

Block size

b=5

Block correlation

ρ=0.8

Fold change

h=2, a i U n i f(1,2)

Modification noise

αpm=0.03,βpm=3.6

Peptide efficiency factor

αpe=0.5,e i U(0.5,1)

Gamma parameters

t c =2,θ c =100,t a =5,θ a =10e 6

Purification

β γ =10e−6

Protein mixture

N a pr =250, N c pr =40

Ranking power

d=2, r=0.01