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Table 3 tagSNP haplotypes in the ATM, CHEK2 and ERBB2 genes in relation to breast cancer survival

From: Comprehensive analysis of the ATM, CHEK2 and ERBB2genes in relation to breast tumour characteristics and survival: a population-based case-control and follow-up study

Haplotype no. Haplotypes Haplotype proportions (cases) HR (95% CI)
ATM   n = 1,574 a  
1 AACGCCT 0.414 1.00 (Reference)
2 AACGCTC 0.231 0.85 (0.65–1.13)
3 AGCACCC 0.150 0.89 (0.66–1.21)
4 AACGCCC 0.062 0.86 (0.52–1.44)
5 TACGCCT 0.064 0.88 (0.55–1.40)
6 AACGGTC 0.043 0.95 (0.57–1.57)
  Rareb 0.037 0.95 (0.53–1.68)
Global P valuec   0.95
CHEK2   n = 1,571 a  
1 GCCCCC 0.223 1.00 (Reference)
2 GGCTGC 0.231 0.72 (0.52–0.98)
3 GCCCCG 0.140 1.02 (0.72–1.43)
4 ACCCGC 0.113 1.00 (0.70–1.41)
5 GCTCGG 0.089 1.08 (0.73–1.57)
6 GGCCGC 0.052 0.61 (0.34–1.10)
7 GCCCGC 0.027 0.60 (0.26–1.41)
  Rared 0.125 0.95 (0.67–1.35)
Global P valuec   0.15
ERBB2   n = 1,579 a  
1 GGCGACT 0.296 1.00 (Reference)
2 AGTAACG 0.166 0.98 (0.71–1.34)
3 GGCGGCG 0.135 1.01 (0.73–1.40)
4 GACGACG 0.116 0.98 (0.69–1.39)
5 AGTAGCG 0.075 1.21 (0.81–1.81)
6 AGCAACG 0.068 1.16 (0.76–1.77)
7 GGCGACG 0.079 1.06 (0.69–1.63)
8 GGCGGTG 0.048 0.81 (0.47–1.39)
  Raree 0.018 2.21 (1.22–4.02)
Global P valuec   0.45
  1. aInformation on at least one tagSNP.
  2. b11 rare haplotypes combined. Each haplotype has frequency <3% among the controls.
  3. cProbability ratio test.
  4. d19 rare haplotypes combined. Each haplotype has frequency <3% among the controls.
  5. e19 rare haplotypes combined. Each haplotype has frequency <3% among the controls.
  6. ATM, ataxia-telangiectasia mutated; CHEK2, checkpoint kinase 2; CI, confidence interval; ERBB2, v-erb-b2 avian erythroblastic leukemia viral oncogene homolog 2; HR, hazard ratio; tagSNP, haplotype-tagging SNP.