Strategic emerging industries have a significant leading role on the overall economic and the sustainable development of social economy. So making efforts to promote the development of strategic emerging industries is an advisable choice to strong its economic status. However, China's strategic emerging industries are still at a preliminary stage of development, the core competitiveness is not strong and the innovation efficiency is needed to be improved. This article will study the innovation efficiency of strategic emerging industry by DEA (Data Envelopment Analysis) and logit model which estimate the effective production based on a set of input-output observations and then investigate the influencing factors. According to the empirical study, it turned out that China's strategic emerging industries has reached an effective level and increase the input of labor productivity, R and D expenditures, R and D activities staff can increase the efficiency of innovation.
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