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Background  This study is to investigate the association of fibroblast growth factor receptor 2 ( FGFR2 ) rs2981582, trinucleotide-repeat-containing 9 ( TNRC9 ) rs3803662, rs12443621, and leukocyte-specific protein 1 ( LSP1 ) rs3817198 polymorphisms with breast cancer and mammographic density in Han Chinese population.    Methods  TaqMan Single Nucleotide Polymorphism (SNP) Genotyping Assays and unconditional logistic regression analysis were used to examine these SNPs in 105 breast cancer cases and 382 controls.    Results  The genotype frequencies of rs12443621 and rs2981582 were significantly different between controls and cases ( P  = 0.017 and 0.006, respectively). Subjects carrying G allele of rs12443621 had increased breast cancer risk (AG vs AA: OR = 2.017, 95 % CI = 0.910–4.471; GG vs AA: OR = 2.684, 95 % CI = 1.318–5.463). Subjects carrying an allele of rs2981582 had reduced breast cancer risk (GA vs GG: OR = 0.444, 95 % CI = 0.262–0.752; AA vs GG: OR = 0.579, 95 % CI = 0.342–0.983). rs3803662 and rs3817198 SNPs did not significantly differ between cases and controls ( P  = 0.408 and 0.116, respectively). Interestingly, the AA genotype of rs2981582 was also associated with reduced mammographic densities ( P  = 0.0092, 95 % CI = 0.334–0.926).    Conclusions  Our findings indicate that the GG genotype of rs12443621 is associated with increased breast cancer risk whereas the GA and AA genotypes of rs2981582 are reduced risk in Han Chinese population.

TNRC9 rs12443621 and FGFR2 rs2981582 polymorphisms and breast cancer risk