Abstract: Based on the data of biomedical industry cooperation patent applications in the Yangtze River Delta region from 2001 to 2018, using social network analysis methods to explore the spatial structure of the innovation network between cities in the Yangtze River Delta region, and using the panel negative binomial fixed effect model to analyze the influence mechanism of the network structure. The research found that: the biomedical industry innovation network in Yangtze River Delta presents a simple to complex, low-level to high-level evolution process; a radial structure with Shanghai as the center is presented in geographic space, and the density of the innovation network is high in the east and low in the west. Innovation nodes and innovations Contacts are mainly concentrated on the east side of the Yangtze River Delta. The construction of the biomedical industry innovation network between cities in the Yangtze River Delta is not only affected by its own economic development level, industrial structure, foreign investment and geographic proximity, but also by the density of the innovation network within the city, and the status of cities in the national biomedical industry innovation network will also have a positive effect on the construction of innovation cooperation between cities in the region. At the end of the paper, in view of the practical problems existing in the development of biomedical innovation in the Yangtze River Delta, such as the core-edge structure, the lack of cross-regional cooperation and homogeneous competition, this paper puts forward targeted policy suggestions.