Abstract: The incidents of SARS and A/H1N1 posed a real challenge to our nation’s emergency management, cost tremendous loss of property and personnel to the nation, and also left us with precious experience and invaluable lessons, bringing about a major shift in the management philosophy of Chinese government. This study analyzes management mode for the cases of SARS and A/H1N1 and proposes that the transition of public emergency management from the “Impact-Responsive” mode to the “Prevention-Active” mode is a long-term process which needs to start from global framework, setting up a refining the emergency management institute consisting of a three-stage Center for Disease Control and Prevention (CDC) vertically and a nationwide coordinative emergency management horizontally. Integration of the institutions and mechanisms involves three aspects: prevention in advance and active response, information and resources in both intra- and inter- health systems, as well as the leading role of government and NGO’s involvement.