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Table 3 Top SNP hits for breast cancer subtype analyses

From: A survey of microRNA single nucleotide polymorphisms identifies novel breast cancer susceptibility loci in a case-control, population-based study of African-American women

Breast Cancer Subtype Hormone Receptor +/− Luminal / Basal-like HER2 +/−
Sample size 2081/997 1613/405 1356/344
SNP ID rs80339298 rs147821319 rs116367195
Chromosome:Position* 1:52244019 5:149217038 3:15693446
Effect/Other A/G A/G G/A
Reference Sequence NT_032977.10 NM_001172698 NM_001195099
OR (95%CI) 2.11 (1.54, 2.89) 2.20 (1.52, 3.19) 2.70 (1.72, 4.24)
EAF 0.02 0.04 0.97
p-value** 2.90 × 10−6 2.34 × 10−5 1.59 × 10−5
FDR p-value*** 0.16 0.37 0.84
  1. Abbreviations: OR: odds ratio; 95% CI of the OR; EAF: effect allele frequency; FDR: false discovery rate
  2. * Chromosome: position from GRCh37/hg19 Assembly
  3. ** Additive genetic model was adjusted for age group (by ~ 10 year intervals), study site, geographic region of residence, DNA source, and ancestry (PCs 5, 6 and 8 - associated with cancer trait, p-value< 0.1)
  4. ***Adjustment for multiple comparisons using the False Discovery Rate (FDR) within each subtype analysis