Objective:To understand the present situation of public health emergencies response capacity and preparation in the class Ⅱ and Ⅲ hospitals of Chongqing,to analyze the existing problems,to improve the recognition and response capacity for public health emergencies. Methods:Totally 140 class Ⅱ and Ⅲ hospitals in Chongqing were investigated by using the questionnaire of public health emergencies response capacity of hospitals which was the achievement of Ministry of Science and Technology 863 project. Results:(1)Emergency personnel preparation. 70.3% of the hospitals can ensure the appropriate personnel reserves and 75.4% hired temporary employees or volunteers. (2)Emergency equipment supply and operation ability. 67.2% can obtain emergency equipments from other channels and 24.8% ruled in storage and disposal of the hazardous waste. (3)Emergency supplies reserves. 72.8% had standby emergency resources and 36.8% had drug priority allocation schemes. (4)Emergency method and system. all the hospitals make contingency plans for major infectious diseases and 69.6% had the ability to admit a batch of patients. (5)Emergency communication and collaboration between inter-hospitals. More than 86.4% collaborated with local center of disease control and other hospitals. The emergency equipment supply and operation ability were stronger in class Ⅲ hospitals than in class Ⅱ hospitals(P<0.05). Emergency communication and collaboration between inter-hospitals was stronger in comprehensive hospitals than in non-comprehensive hospitals(P<0.05). The emergency equipment supply and operation ability,method and system were stronger in teaching hospitals than in non-teaching hospitals(P<0.05). Conclusions:The response capacity and emergency preparation already have certain scale in class Ⅱ and Ⅲ hospitals of Chongqing. However,the emergency personnel preparation,equipment supply,disinfection,medical treatment ability construction,communication and collaboration between inter-hospitals need to be further improved.