Table 3. Comparison of methylation levels between subtypes of invasive breast carcinoma.
| Basal-like vs. luminal | Basal-like vs. HER2 | Luminal vs. HER2 | ||||
|---|---|---|---|---|---|---|
| Gene | Global effect1 | p value2 | Global effect1 | p value2 | Global effect1 | p value2 |
| TWIST | 0.412 | 0.0006 | 0.422 | 0.009 | -0.042 | >0.999 |
|
| ||||||
| RASSF1A | 0.522 | <0.0001 | 0.347 | 0.048 | -0.279 | 0.090 |
|
| ||||||
| HIN-1 | 0.355 | 0.006 | 0.467 | 0.003 | 0.020 | >0.999 |
|
| ||||||
| CYCLIN D2 | 0.192 | 0.336 | 0.227 | 0.396 | 0.004 | >0.999 |
|
| ||||||
| APC1 | 0.134 | 0.831 | 0.457 | 0.003 | 0.251 | 0.153 |
|
| ||||||
| CDH1 | -0.234 | 0.168 | 0.350 | 0.048 | 0.548 | <0.0001 |
|
| ||||||
| BRCA1 | -0.284 | 0.012 | -0.184 | 0.402 | 0.142 | 0.480 |
|
| ||||||
| RAR-β | -0.121 | 0.975 | 0.251 | 0.351 | 0.276 | 0.114 |
|
| ||||||
| ESR1 | -0.093 | >0.999 | -0.029 | >0.999 | 0.076 | >0.999 |
|
| ||||||
| 9-gene panel3 | 0.098 | 0.165 | 0.257 | <0.0001 | 0.111 | 0.210 |
|
| ||||||
| 3-gene panel4 | 0.430 | <0.0001 | 0.412 | 0.0002 | -0.100 | 0.861 |
|
| ||||||
| 4-gene panel5 | -0.126 | 0.198 | 0.218 | 0.042 | 0.304 | <0.0001 |
1
An nonparametric estimate measuring the degree of dissimilarity between the two groups.
2
p values obtained using nonparametric rank-sum-type global statistical test and adjusted by Bonferroni correction.
3
9-gene panel includes TWIST, RASSF1A, HIN-1, CYCLIN D2, APC1, CDH1, BRCA1, RAR-β and ESR1.
4
3-gene panel includes TWIST, RASSF1A, HIN-1.
5
4-gene panel includes APC1, RAR-β, CDH1, BRCA1.