At present, the types of scientific research projects are various, and the implementation process is complex, linking with the management of funds and procurement with a wide range of management departments involved, so it is difficult to carry out and implement the project management process. In order to promote the scientific research units to better carry out research work, to implement research projects orderly and complete the indicators, this paper proposes the construction of scientific research management system based on the characteristics of full research project, from the project contract, funding, procurement, knowledge management, and other aspects of the construction. It uses the popular JFinal framework to build the information management system which is easy to be expanded, lightweight, ensuring the implementation of scientific research projects comprehensively.