Objective To establish a finite element model of cell perfusion culture, and study the effect of different perfusion speeds on the movement of suspended cells. Methods The two-dimensional (2D) model of cell and microchannels was established using COMSOL Multiphysics and meshed. Three groups were established according to the perfusion speed, namely, u0=0.196 mm/s, u1=0.117 mm/s, u2=0.04 mm/s. The fluid-structure interaction module was used for calculation. Results The flow field distribution in the microchannel was relatively uniform. During the equal period of time, the ratio of cell suspension perfusion speed was u0∶u1∶u2=5∶3∶1, and the ratio of cell displacement in the microchannel was D0∶D1∶D2=4.1∶ 2.9∶1. When the speed was proportional, the displacement of cells also roughly followed the corresponding proportional change. With the increase of perfusion speed, stress concentration in cells during movement would occur. The stress and fluid shear force (FSS) of cells during movement were within the safe value range, and cell destruction would not occur. Conclusions The suspended cells can enter into the microchannel without injury at a certain perfusion speed. Perfusion techniques can be used in cell implantation of in vitro tissue engineering products.