This paper focuses on the quantitative analysis of the construction and optimization of university innovation system in the integration of Chinese military and civilian. With the integration of military and civilian, colleges and innovation as the key words, data of the literatures is collected from the CNKI from 2005 to 2018, extract and pre-process the retrieval data, and then construct university innovation system in civil-military inosculation. The network uses keyword analysis, network density, centrality measurement, cluster analysis and core-edge structure analysis in the common word network analysis method to analyze keywords. This paper summarizes the characteristics of the research status of the university's innovation system in the integration of military and civilian, and proposes its future research direction, and provides reference for the further deepening and expansion of the university's innovation system under the background of military and civilian integration.