In the present study, by using the summary data-based Mendelian randomization analysis, we identified ASB16-AS1 associated with FN-BMD and SYN2 associated with LS-BMD and successfully verified by using another eQTL study. Under the WGCNA analysis, we found that ASB16-AS1 was co-expressed with dozens of known putative osteoporosis genes including CTNNB1, TNFSF11 and RUNX2. Over-expressed ASB16-AS1 would increase the expression of osteoblastic genes (BMP2 and ALPL).