This paper studies the research cooperation network of Guangdong, Hong Kong and Macao Greater Bay Area, analyzes its cooperation patterns at three levels: intra-regional, domestic and international, and predicts inter-institutional research cooperation relationships. Through the elements of the cooperation framework of the Guangdong-Hong Kong-Macao Greater Bay Area University Consortium and the characteristics of the multi-level governance of education, it proposes a method of predicting institutional cooperative relationships by complex network and link prediction, utilizing the combination of the attention mechanism and the deep learning method, and extracts the three major factors affecting the development of scientific research cooperative relationships in the framework of educational cooperation by combining the scientific research data of Guangdong-Hong Kong-Macao Greater Bay Area in the period of 2017-2024. For the education cooperation framework of Guangdong-Hong Kong-Macao Greater Bay Area University Consortium, the patent cooperation network among universities is structurally analyzed and the development path of research cooperation is proposed. The network structure factor, the scholar factor, and the thesis factor are used as the estimation results of the Guangdong-Hong Kong-Macao research cooperation network link prediction model to influence the development of Guangdong-Hong Kong-Macao research cooperation relationship. Under the support of the education cooperation framework, the thesis support can be further provided to scholars in Guangdong, Hong Kong and Macao, and research conditions can be created to promote the progress of scientific research development in Guangdong, Hong Kong and Macao.
