An Effective GCN-based Hierarchical Multi-label classification for Protein Function Prediction

Abstract: We propose an effective method to improve Protein Function Prediction (PFP) utilizing hierarchical features of Gene Ontology (GO) terms. Our method consists of a LLM for encoding the protein sequence and a Graph Convolutional Network (GCN) for representing GO terms. To reflect the hierarchical structure of GO to GCN, we employ node(GO term)-wise representations containing the whole hierarchical information. Our algorithm shows effectiveness in a large-scale graph by expanding the GO graph compared to previous models. Experimental results show that our method outperformed state-of-the-art PFP approaches.