Objective To evaluate the effect of vasodilators in different therapies on pulmonary hypertension of neonates. Methods Vasodilators were given by i.v infusion in the usual way and the air compressor pump was used as nebulizer to inhale Neb-NTG (20 ?g/kg) 2 times daily for 3 days. The changes of heart rate, breath, blood pressure and pulmonary artery mean pressure (PAMP) were monitored before and after the treatment. Results PAMP of the patients with abnormal heart structure was (31.7?6.4) mm Hg(1 mm Hg=0.133 kPa) while PAMP of the patients with oxygen deficiency was (26.9?4.2) mm Hg. There was a significant difference in PAMP between the two groups ( t=2.14,P 0.05 ). Conclusion Pulmonary artery pressure can be decreased by inhaling Neb-NTG and its therapeutic efficacy maybe equales that of vasodilators IV infusion. The nebulized inhalation of Neb-NTC may be an easy and effective therapy for the treatment of pulmonary hypertension in neonates.