Skip to main content

Table 2 Single nucleotide polymorphisms associated with percent and absolute mammographic density

From: Identification of two novel mammographic density loci at 6Q25.1

      KARMA SASBAC LIBRO-1   
CHR SNP BP Genes Allelesa MAF beta (se) P MAF beta (se) P MAF beta (se) P P overall P het
Percent density
6 rs9485370 149606801 TAB2 G/T 0.18 −0.05 (0.01) 2.3 × 10−5 0.17 −0.16 (0.08) 0.04 0.17 −0.16 (0.05) 3,9 × 10−4 4.8 × 10−9 0.88
10b rs10995194 64288130 ZNF365 G/C 0.16 −0.05 (0.01) 7.1 × 10−6 0.15 −0.13 (0.08) 0.10 0.15 −0.15 (0.05) 1.9 × 10−3 2.3 × 10−8 0.62
Absolute dense
4b rs10034692 75419787 AREG A/G 0.32 −0.04 (0.01) 9.6 × 10−5 0.31 −0.23 (0.08) 6.1 × 10−3 0.31 −0.14 (0.04) 5.5 × 10−4 6.7 × 10−9 0.96
6 rs9485370 149606801 TAB2 G/T 0.18 −0.04 (0.01) 2.0 × 10−3 0.17 −0.22 (0.10) 0.03 0.17 −0.22 (0.05) 1.0 × 10−5 2.5 × 10−8 0.37
6 rs60705924 151955985 CCDC170-ESR1 A/G 0.31 0.04 (0.01) 1.9 × 10−4 0.31 0.33 (0.08) 3.0 × 10−5 0.31 0.09 (0.04) 0.03 2.2 × 10−8 0.13
10b rs10995194 664288130 ZNF365 G/C 0.16 −0.07 (0.01) 1.1 × 10−6 0.15 −0.21 (0.10) 0.05 0.15 −0.15 (0.05) 5.1 × 10−3 8.7 × 10−9 0.55
  1. Genes refer to genes and nearby genes
  2. MD mammographic density, CHR chromosome, SNP single nucleotide polymorphism, BP base pair position (NCBI Build 37), MAF minor allele frequencies; P overall = P value meta-analysis; P het = P value chi-square test for heterogeneity
  3. aMajor allele (reference allele)/minor allele (effect allele)
  4. bPreviously identified in the Marker of Density (MODE) consortium: R2 rs10995194 and MODE SNP rs10995190 = 1 (1000 Genomes Project, Pilot 1 (CEU))