Table 3.
Replicated in- cis miRNAs and associations with clinical parameters
| miRNA | Chromosomal location (hg19) | Direction | Associated miRNA aberration | P -value (FDR-corrected, discovery cohort) | P -value (FDR-corrected, replication cohort) | |
|---|---|---|---|---|---|---|
|
TP53
status (wild-type versus mutant) |
miR-19a-3p |
13q31.3 |
Up in TP53 mutated samples |
Hypomethylation |
7.5E-03 |
9.1E-03 |
|
Grade (1, 2 and 3) |
miR-30c-2-3p |
6q13 |
Decreasing with grade |
Hypomethylation |
1.7E-02 |
2.8E-02 |
| |
miR-93-5p |
7q22.1 |
Increasing with grade |
Gain |
4.4E-03 |
4.2E-02 |
|
ER status (positive (+) versus negative (-)) |
miR-9-3p |
15q26.1 |
Down in ER+/up in ER- |
Gain |
9.0E-04 |
4.1E-03 |
| |
miR-17-5p |
13q31.3 |
Down in ER+/up in ER- |
Hypomethylation |
1.5E-02 |
2.9E-03 |
| |
miR-19a-3p |
13q31.3 |
Down in ER+/up in ER- |
Hypomethylation |
2.9E-02 |
2.1E-05 |
| |
miR-93-5p |
7q22.1 |
Down in ER+/up in ER- |
Gain |
3.8E-02 |
2.7E-02 |
| |
miR-130b-3p |
22q11.21 |
Down in ER+/up in ER- |
Gain |
3.5E-02 |
5.0E-02 |
| |
miR-30c-2-3p |
6q13 |
Up in ER+/down in ER- |
Hypomethylation |
4.9E-02 |
2.4E-02 |
| |
miR-125a-5p |
19q13.41 |
Up in ER+/down in ER- |
Hypermethylation |
1.1E-02 |
3.1E-03 |
| |
miR-190b |
1q21.3 |
Up in ER+/down in ER- |
Hypomethylation |
3.5E-07 |
3.0E-02 |
|
Luminal versus basal-like subtype |
miR-125a-5p |
19q13.41 |
Up in luminal/down in basal-like |
Hypermethylation |
6.4E-03 |
1.3E-03 |
| |
miR-148b-3p |
12q13.13 |
Up in luminal/down in basal-like |
Gain |
1.6E-05 |
1.0E-02 |
| |
miR-190b |
1q21.3 |
Up in luminal/down in basal-like |
Hypomethylation |
1.6E-05 |
1.7E-04 |
| |
miR-193b-3p |
16p13.12 |
Up in luminal/down in basal-like |
Gain |
2.5E-04 |
4.0E-06 |
| |
let-7e-3p |
19q13.41 |
Up in luminal/down in basal-like |
Hypermethylation |
1.5E-02 |
8.3E-03 |
| |
miR-9-3p |
15q26.1 |
Down in luminal/up in basal-like |
Gain |
2.4E-05 |
4.9E-03 |
| |
miR-17-3p |
13q31.3 |
Down in luminal/up in basal-like |
Hypomethylation |
2.5E-05 |
1.9E-04 |
| |
miR-17-5p |
13q31.3 |
Down in luminal/up in basal-like |
Hypomethylation |
1.8E-04 |
1.2E-04 |
| |
miR-19b-3p |
13q31.3 |
Down in luminal/up in basal-like |
Hypomethylation |
2.8E-05 |
4.0E-06 |
| |
miR-19a-3p |
13q31.3 |
Down in luminal/up in basal-like |
Hypomethylation |
1.4E-04 |
4.0E-06 |
| |
miR-135b-5p |
1q32.1 |
Down in luminal/up in basal-like |
Hypomethylation |
1.6E-05 |
2.8E-03 |
| miR-142-5p | 17q22 | Down in luminal/up in basal-like | Hypomethylation | 8.6E-03 | 1.4E-02 |