Abstract: This article examines the regional innovative subsystem as a complex of interconnected elements, conditions and factors that initiate and carry out production, distribution and application of the new knowledge ensuring the development of regional economy and its subsystems. The authors review the process of transferring scientific research to the economy that ensures the socioeconomic efficiency of regional development. The article describes substantial essence of the resource provision (personnel, scientific-informative, material-technical) and systemic gaps emerging in the process of transferring scientific knowledge presented in form of the imbalance model. In accordance with the staged of innovative process, the model allows revealing the following imbalances: structural-competent – inconformity of the demand and availability of scientific personnel; demand and supply of scientific research – lack of demand in the industry scientific developments; lack of demand for scientific research – absence of demand in new products. The authors suggest the basic measures for eliminating or reducing the systemic strategic gap and thus ensuring the effective transfer of scientific research into the regional economy.