Abstract: Enterprises are not only embedded in geographical units of physical significance, but also embedded in the corporate community of social significance, the community has become a heterogeneous resource for enterprises, and cross-border collaboration has become the new norm for enterprises' R&D. The existing research only selects the data of cooperative R&D in certain industries and cannot demonstrate the global characteristics of collaborative innovation in China. Based on this, using the method of social network research, we build collaborative innovation network of 1999-2007 years by the data from China patent database, explore the topological structure of collaborative innovation networks and the network status and evolutionary pattern of companies, universities and research institutes. Our studies indicate that, firstly, the number of China's patent applications and collaborative innovation has increased year by year, and its growth rate has been accelerating. Secondly, The most intensive areas of collaborative innovation in China are Beijing Tianjin area, Yangtze River Delta region and Pearl River Delta region, the collaborative innovation network has gradually changed from "several alone" to "blooming all over the earth". Thirdly, the core nodes of the collaborative innovation network are mainly large-scale group companies and their subsidiaries and branches, well-known domestic universities, research institutes, and monopoly resources industry companies.