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Table 2 Mean and standard deviation of the (absolute) Student's t statistics to test the null hypothesis of equal means in two flanking PCN regions based on heterozygous SNPs only.

From: TumorBoost: Normalization of allele-specific tumor copy numbers from a single pair of tumor-normal genotyping microarrays

Heterozygous SNPs only

Signals

Genotypes

N/G

G/L

N/D

D/L

N/N

Raw DH (ρ T )

Birdseed

7.17 ± 1.13

27.79 ± 1.93

24.22 ± 1.35

8.88 ± 1.04

0.78 ± 0.64

Normalized DH ()

Birdseed

21.00 ± 1.45

39.42 ± 2.54

40.22 ± 2.36

11.04 ± 1.13

0.74 ± 0.59

Normalized DH ()

naive

18.61 ± 1.39

33.38 ± 2.31

35.40 ± 2.07

9.40 ± 1.01

1.06 ± 0.68

TCN (C T )

Birdseed

16.43 ± 1.05

18.55 ± 1.26

25.69 ± 1.32

20.57 ± 1.23

2.19 ± 0.99

  1. Greater mean values correspond to greater power to detect a change point. Raw (top line) and TumorBoost-normalized (second and third line) DHs, and TCNs (bottom line).