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Table 3 Average methylation frequency for the 196 subtype-associated CpGs

From: Molecular subtypes of breast cancer are associated with characteristic DNA methylation patterns

  Methylation frequency (%) Number of patients P-value1
  Average SD   
Molecular subtype2     2 × 10 -7
   Basal-like 27.6 4.1 43  
   LumA 31.1 5.5 46  
   LumB 35.1 7.9 35  
   HER2-enriched 27.8 6.4 14  
   Normal-like 27.5 3.6 17  
   Non-classified 29.9 6.4 24  
   Non-GEX 34.3 8.7 10  
Family status     0.007
   BRCA1 29.8 7.4 15  
   BRCA2 36.5 8.3 13  
   Familial 30.3 6.6 43  
   Sporadic 29.9 6.0 115  
ER status3     0.005
   Positive 31.3 7.0 113  
   Negative 28.6 5.4 61  
PgR status3     0.02
   Positive 31.3 6.8 108  
   Negative 28.9 6.0 66  
Histological grade     0.7
   Grade 1 29.6 6.7 18  
   Grade 2 30.9 6.2 48  
   Grade 3 29.7 7.0 82  
Node status     0.7
   Positive 29.8 6.5 49  
   Negative 30.3 6.4 117  
Age (years)     0.5
   < 50 30.0 6.4 108  
   ≥ 50 30.7 6.4 71  
Size (mm)     0.3
   ≤ 20 30.6 6.4 90  
   > 20 28.7 6.3 76  
Tissue     2 × 10 -4
   Normal breast 27.3 0.9 4  
   Tumour 30.5 6.6 189  
  1. 1t-test for two categories, otherwise one-way analysis of variance. P-values < 0.05 in bold.
  2. 2P-value between subtypes basal-like, lumA, lumB, HER2-enriched and normal-like.
  3. 3Tumours with an ER or PgR content of at least 25 fmol/mg protein were considered positive for ER and PgR, respectively.
  4. ER, oestrogen receptor; GEX, gene expression; HER2, human epidermal growth factor receptor 2; lumA, luminal A; lumB, luminal B; na, not available; PgR, progesterone receptor.