Skip to main content

Advertisement

Table 1 Misclassification rates from simulation study.

From: Bayesian estimation of genomic copy number with single nucleotide polymorphism genotyping arrays

CN # SNP Scenario 1
.05/7.3/0
Scenario 2
.15/2.4/0
3 5 0 16
1 10 0 2
3 20 0 5
3 40 0 1
CN # SNP Scenario 3
.2/1.8/0
Scenario 4
.2/1.5/20
3 5 51 50
1 10 11 37
3 20 9 11
3 40 6 6
CN # SNP Scenario 5
.05/7.3/0
Scenario 6
.15/2.4/0
4 5 6 87
3 10 0 14
0 20 0 0
3 40 0 9
CN # SNP Scenario 7
.2/1.8/0
Scenario 8
.2/1.5/20
4 5 77 98
3 10 31 31
0 20 0 0
3 40 17 4
  1. The entry is the misclassification rate, expressed as a percentage, over 50 replicates of one chromosome. Eight scenarios were simulated and defined by the given combination of true CN, number SNPs within the region of aberration, and SD/SNR/percent contamination. The SD and SNR are given on the log2 ratio scale under a true CN of 3. The true CN profile for Scenarios 1-4 is CN(#SNPs): 2(10), 3(5), 2(50), 1(10), 2(50), 3(20), 2(50), 3(40), 2(10). The true CN profile for Scenarios 5-8 is CN(#SNPs):2(10), 4(5), 2(50), 3(10), 2(50), 0(20), 2(50), 3(40), 2(10).