Hybrid ventilation is a two-mode system, including mechanical and natural ventilation, which can be used in large space to exhaust excessive heat while minimize energy consumption. One mathematical model is developed to calculate indoor vertical temperature distribution by the hybrid ventilation. Here, the mathematical model is proposed to illustrate the running operation of the hybrid ventilation, especially the control strategies of the natural ventilation in this paper. An experimental and theoretical investigation of natural ventilation in the hybrid system in an atrium building has been conducted. A simplified approach for calculating critical outer temperature and a mathematical model of the natural ventilation in the hybrid system are both proposed in this paper. We have restricted our attention to the natural wind within the upper zone of the large space, in which the effects of the outer air temperature, indoor heat, the natural air rate, and the inlet location of the natural wind are discussed by the mathematical model and experimental data.