Abstract: Objective To investigate the association between polymorphisms and haplotypes of IKBKAP and the risk of developing lung cancer. Methods Case control study was conducted to recruit subjects, and MALDI-TOF was employed to determine the genotype of SNPs in IKBKAP gene. The unconditional Logistic regression was performed to analyze the association between selected lung cancer susceptibility and SNPs. The Haplo.stats package of R software was used to investigate the association between haplotypes and lung cancer risk. Results Comparing with the carriers of AA and AC genotype of rs2230793, the OR for those with CC genotype was 1.386(95% CI:1.007-1.907). After adjustment for demographic characteristics, the TT genotype of rs1538660 demonstrated a reduced lung cancer risk with an adjusted OR of 0.713 (95% CI:0.515-0.986) when comparing with CC genotype. Similarly, the TT genotype of rs1538660 was also associated with reduced lung cancer risk when comparing with the carriers with CC and CT genotype with an adjusted OR of 0.724 (95% CI:0.530-0.988). The carriers of TA haplotype consisted by rs1538660 and rs3204145 demonstrated a reduced lung cancer risk with an OR of 0.862 (95% CI:0.753-0.987). Conclusions The polymorphisms in IKBKAP gene may be associated with lung cancer risk.