Table 1 Pathways of ANNOVAR-, distance- and eQTL-based differentially expressed genes associated with breast cancer CpGs.
Gene association approach | Pathway database | Pathway | FDR |
|---|---|---|---|
ANNOVAR-based | BioPlanet | Cell–cell communication | 2.44 × 10−3 |
Cell junction organisation | 6.13 × 10−3 | ||
Cell adhesion molecules (CAMs) | 3.42 × 10−2 | ||
Circadian rhythm | 3.89 × 10−2 | ||
Elsevier | Oestrogen deficiency in female obesity | 6.64 × 10−3 | |
Circadian clock in sleep regulation | 2.92 × 10−2 | ||
Telogen maintenance in androgenic alopecia | 4.03 × 10−2 | ||
Local oestrogen production in endometriosis | 4.46 × 10−2 | ||
KEGG | Cell adhesion molecules | 2.20 × 10−2 | |
Tight junction | 3.35 × 10−2 | ||
MSigDB | UV response Dn | 1.12 × 10−2 | |
Mitotic spindle | 3.21 × 10−2 | ||
Oestrogen response early | 3.21 × 10−2 | ||
Apical junction | 3.21 × 10−2 | ||
Reactome | Cell–cell communication | 6.87 × 10−3 | |
Cell junction organisation | 1.78 × 10−2 | ||
Distance-based | BioCarta | Role of BRCA1, BRCA2 and ATR in cancer susceptibility | 1.83 × 10−2 |
Caspase cascade in apoptosis | 1.83 × 10−2 | ||
Elsevier | Oestrogen deficiency in female obesity | 9.40 × 10−4 | |
eQTL-based | WikiPathway | Glycerolipids and glycerophospholipids | 2.04 × 10−2 |
Fatty acid beta-oxidation | 3.83 × 10−2 |
