In stage II, among the 15 SNPs identified from stage I, the SNP rs8752 in HPGD gene (the duplex structure between miR-485-5p and HPGD was shown in Figure S1 in File S1) was significantly associated with breast cancer risk in an independent replication set (P = 0.018). The gene discussed is HPGD; the disease is breast carcinoma.