The expression pattern of genes and protein interactions in specific tissues are important frameworks for studying gene regulation, protein function, and cellular processes.Compared with the research progress of other model organisms in the interactome, the tissue-specific protein interaction research and development in higher plants is very slow, especially in rice.With this motivation, we have proposed a computing framework to predict tissue-specific protein-protein networks for rice.This framework consists of three parts:(a) identification of tissue-specific genes by integrating multiple dataset under a unified criterion; (b) prediction and evaluation of the protein interaction network based on the resource of six model organisms by using the proposed novel Interolog mapping method; (c) tissue-specific subnet construction in each tissue and high reliable interactions filter based on co-expression correlation.To evaluate the effectiveness of our framework, PTSN4R (Predicted Tissue-Specific Networks for Rice) is constructed and analyzed.PTSN4R is the first integrated database for tissue-specific protein interactions of rice, which contains tissue-specific genes and the interaction networks of 23 rice tissues.And, it provides a tissue-specific perspective to conveniently analyze the gene expression and protein interaction.These resources can help researchers understand the intrinsic regulatory mechanisms of rice growth and development and provide clues for rice yield increase.In addition, the proposed framework can extend to other species easily to improve the research of tissue-specific protein interactions.