Table 5.
Results for the LEP amplicon measurement.
| Standard deviation | CpG_1 | CpG_2 | CpG_3 | CpG_4 |
|---|---|---|---|---|
| Warning | L_mass | NA | SN3 | NA |
| Sample | ||||
| 1 | NA | 0.025 | 0.103 | 0.010 |
| 2 | NA | 0.012 | 0.076 | 0.000 |
| 3 | NA | 0.012 | 0.119 | 0.010 |
| 4 | NA | 0.015 | 0.248 | 0.006 |
| 5 | NA | 0.010 | 0.025 | 0.006 |
| 6 | NA | 0.067 | 0.319 | 0.055 |
| 7 | NA | 0.021 | 0.154 | 0.006 |
| 8 | NA | 0.035 | 0.112 | 0.006 |
| 9 | NA | 0.015 | 0.020 | 0.006 |
| 10 | NA | 0.026 | 0.140 | 0.012 |
| gDNA | NA | NA | NA | NA |
| water | NA | NA | NA | NA |
| Filtered Methylation values | CpG_1 | CpG_2 | CpG_3 | CpG_4 |
| Sample | ||||
| 1 | NA | 0.713 | NA | 0.930 |
| 2 | NA | 0.813 | 0.487 | 0.930 |
| 3 | NA | 0.783 | NA | 0.930 |
| 4 | NA | 0.817 | NA | 0.937 |
| 5 | NA | 0.790 | 0.897 | 0.923 |
| 6 | NA | 0.757 | NA | 0.903 |
| 7 | NA | 0.797 | NA | 0.927 |
| 8 | NA | 0.807 | NA | 0.937 |
| 9 | NA | 0.787 | 0.880 | 0.933 |
| 10 | NA | 0.830 | NA | 0.937 |
| gDNA | NA | NA | NA | NA |
The standard deviation and filtered final methylation values (ratio) is given. CpG unit 1 has a low mass and cannot be measured (data is all missing: NA) while CpG unit 3 has a warning message (“SN3”) denoting a non-CpG containing fragment overlapping the unit. This results in an overall higher technical variability between the triplicates, resulting that only 3 out of 10 samples have a measurement passing the QC steps.