Our meta-analysis revealed that 15 SNPs were associated with the risk of NPC: TP53 (rs1042522, C>G), GSTM1 (+/DEL), IL-10 (rs1800896, A>G), GABBR1 (rs2076483, T>C; rs29232, G>A), MDM2 (rs2279744, T>G), miR-146a (rs2910164, C>G), MDS1-EVI1 (rs6774494, G>A), XPC (rs2228000, C>T), HCG9 (rs3869062, A>G; rs16896923, T>C), HLA-F (rs3129055, T>C), MMP2 (rs243865, C>T), and SPLUNC1 (rs2752903, T>C; rs750064, A>G). Here, MMP2 is linked to nasopharyngeal carcinoma.