Cooperation network of scientific research institutions about electronic commerce in China are analyzed, introducing the concept of the core institutions and authority institutions, the number of papers published of authority institutions are counted, the cooperation association complex network of authority institutions are constructed. study shows that the volume of papers cooperation about electronic commerce between scientific research institutions are smaller and low level in our country, cooperation mode is single and less communication and cooperation between scientific research institutions, to strengthen the exchanges and cooperation between the different research institutions and scholars has an important significance for enhancing the level of scientific research in our country.