Table 4 CNA calling from a control DNA sample HD753
From: A robust targeted sequencing approach for low input and variable quality DNA from clinical samples
Amount of DNA (ng) | Gene | Read depth CNA calling | Varscan2 CNA calling | ||
|---|---|---|---|---|---|
Expected ratio* | Observed ratio, mean (SD) | Expected ratio (log scale)* | Observed ratio (log scale), mean (SD) | ||
100 | MYC | 4.90 | 4.09 (0.04) | 2.29 | 2.51 (0.15) |
MET | 2.25 | 1.87 (0.04) | 1.17 | 1.24 (0.14) | |
ALK | 1.32 | 1.41 (0.04) | 0.40 | 0.66 (0.14) | |
30 | MYC | 4.90 | 3.67 (0.05) | 2.29 | 2.93 (0.08) |
MET | 2.25 | 1.51 (0.03) | 1.17 | 1.61 (0.08) | |
ALK | 1.32 | 1.40 (0.03) | 0.40 | 1.11 (0.09) | |
10 | MYC | 4.90 | 4.52 (0.24) | 2.29 | 3.26 (0.11) |
MET | 2.25 | 1.64 (0.07) | 1.17 | 1.49 (0.20) | |
ALK | 1.32 | 1.49 (0.04) | 0.40 | 1.16 (0.20) | |
