Table 3.
Statistical comparison of P-value distributions obtained in differential methylation analyses between tumor/DCIS and adjacent normal tissues.
| Kolmogorov-Smirnov test |
||||
|---|---|---|---|---|
| Cohort | n (cases) | n (normal) | D-statistic | P-value |
| TCGA (invasive-disease) | ||||
| All subtypes | 753 | 95 | 0.032 | 4.6E-02 |
| Luminal A | 399 | 95 | 0.090 | 7.1E-13 |
| Luminal B | 134 | 95 | 0.073 | 1.2E-08 |
| HER2 | 41 | 95 | 0.057 | 2.2E-05 |
| Basal | 129 | 95 | 0.120 | < 2.2E-16 |
| Normal-like | 27 | 95 | 0.027 | 1.5E-01 |
| NHMN (DCIS) | 10 | 28 | 0.036 | 1.7E-02 |
Two-sided Kolmogorov–Smirnov (KS) tests were used to compare P-value distributions from a randomly generated CpG set (see Methods) with those obtained from differential methylation analyses in the indicated data sets. TCGA, The Cancer Genome Atlas; NHMN, New Hampshire Mammography Network.