Abstract:Technological innovation is the key to promoting high-end of Strategic Emerging Industries, high-end of Strategic Emerging Industries and process innovation, product innovation constitute a complex system. Based on building the collaborative model of complex system and using 2000-2012 data to empirically measure and analyze the collaborative degree of complex system constituted by the technological innovation and high-end of Strategic Emerging Industries, use Granger causality test and impulse response analysis to analyze the reasons for changes of collaborative degrees. The complex system collaborative degree of Chinese high-tech industry technology innovation and Strategic Emerging Industries to high-end appears fluctuated rising trend. Process innovation and product innovation play a significant role of the high-end of Strategic Emerging Industries, while the role of high-tech industry to promote technology innovation is not obvious. So that we should take some effective measures, such as establishing idea of using technological innovation to enhance Strategic Emerging Industries to high-end; actively encourage high-tech enterprises implement the strategy of product innovation, perfect integrated and incentives mechanisms of technological innovation.