Identifying Associations between Small Nucleolar RNAs and Diseases via Graph Convolutional Network and Attention Mechanism.

Abstract

Research has shown that small nucleolar RNAs (snoRNAs) play crucial roles in various biological processes, and understanding disease pathogenesis by studying their relationship with diseases is beneficial. Currently, known associations are insufficient, and conventional biological experiments are costly and time-consuming. Therefore, developing efficient computational methods is crucial for identifying potential snoRNA-disease associations. In this paper, a method to identify snoRNA-disease associations based on graph convolutional network and multi-view graph attention mechanism (GCASDA) is proposed. Firstly, the similarity matrices of snoRNAs and diseases are calculated based on biological entity-related information, and the weights of the edges between the snoRNA nodes and the disease nodes are supplemented by random forest. Then two homogeneous graphs and one heterogeneous graph are constructed. Subsequently, different types of embedded features are extracted from the graphs using specific graph convolutional network structure and integrated through a multi-view graph attention mechanism to obtain node embedded feature representations. Finally, for each pair of nodes, in addition to their global features, node interaction features are passed together to a multilayer perceptron neural network (MLP) to identify snoRNA-disease associations. Experimental results show that GCASDA achieves 0.9356 and 0.9294 in AUC and AUPR, respectively, and significantly outperformed other state-of-the-art methods on the basis of different evaluation metrics. Furthermore, the case study could further demonstrate the realistic feasibility of GCASDA.