In addition, we disclosed the regulatory pathway for rs684232 sites, in which the SNP site altered the chromatin binding of FOXA1 and led to the misregulated expression of VPS53, FAM57A, and GEMIN4. Notably, mutating the rs684232 element through genome editing or knockdown the expression of VPS53, FAM57A, and GEMIN4 genes led to impeded cancer malignancy of 22Rv1 cells. The gene discussed is TLCD3A; the disease is cancer.