The pulsating heat pipe is a high-efficiency heat transfer element that is applied in electronic components cooling, energy utilization, etc. Many factors affect its start-up and operation characteristics, such as structure, work material, liquid filling rate, etc. The purpose of this paper was to achieve the asymmetric and staggered structure of pulsating heat pipe by adjusting the length of the local pipeline in the structure of the pulsating heat pipe. At the same time, the pulsating heat pipe heat exchanger device with the corresponding asymmetric structure was designed. Through experiments at 60℃ heat source and different liquid filling rates, the pulsating heat pipe with asymmetric structure was researched. The results showed that the lowest start-up vibration heat source temperature of the pulsating heat pipe rose with the increase of the liquid filling rate. Under very low and high liquid filling rate, the pulsating heat pipe was not easy to start and sustain oscillation phenomenon, and oscillation flow frequency and energy intensity were lower. Under lower liquid filling rate, an effective workpiece movement could not form in the tube due to less workpiece. Under higher liquid filling rate, liquid mass was too much, mass running resistance was larger, and oscillation flow was not easy to circulate in the tube; the temperature difference between pulsating heat pipe evaporation section and condensing section was larger, being more than 15℃, and thermal resistance was larger, with lower equivalent coefficient of thermal conductivity and poor heat transfer performance. In 30% liquid filling rate and 50% liquid filling rate, the temperature difference between both ends of the pulsating heat pipe was smaller, being about 3℃, the thermal resistance was smaller, the equivalent thermal conductivity was higher, the pulsating heat pipe was more likely to achieve isothermal heat transfer, and the optimal liquid filling rate was about 50%.