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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
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Breast Cancer Research

ISSN: 1465-542X

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