Objective To investigate the association of single nucleotide polymorphisms (SNPs) ofintermediate molecules in the second signal transduction pathway of norepinephrine transporter (NET) withbipolar disorder，and look for biological markers of bipolar disorder. Methods Totals of 152 patients in accord with the diagnostic standard of bipolar disorder in DSM-Ⅳwho were followed for more than 3 years and 187healthy controls were involved. Ligase detection reaction (LDR) was used to detect the genotypes of rs5569 and rs2242446 in NET，and rs5433 in Gβ3. The frequencies of genotypes and alleles were compared between two groups. Optimal scale analysis was used to determine the association between different genotypes and the effect of emotion stabilizer. Results No significant differences were found in frequencies of genotypes and alleles of three SNPs between two groups (P ＞0.05). Emotion stabilizer showed better effect on patients carried with TT genotypeof rs5433 (P ＜0.05). Conclusions There are no association between SNPs rs5569，rs2242446 and rs5433 and bipolar disorder. The polymorphism of Gβ3 gene is related to recurrence prevention effect of emotion stabilizer，suggesting that rs5433 may be a marker SNP of emotion stabilizer.