From the point of view of transaction cost theory, resource-based theory and value chain theory, it is reasonable and feasible to set up University-Industry alliance (UI alliance). Combining the character of UI alliance with the experience of specialist, the UI alliance partner selection method based on ISM and ANP is put forward. In the UI alliance partner selection evaluation system, ANP method is applied to analyze the interrelationships between one criteria and another. Through ISM method, the complex relationships in UI alliance partner selection evaluation system can be transformed into matrix model, and the final interrelationships of evaluation system will be acquired by a series of matrix operations. Compared with the traditional alliance partner selection method based on AHP, the method based on ISM and ANP has broader practical significance
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