Cooperation of local features and global representations by a dual-branch network for transcription factor binding sites prediction. - Yutong Yu; Pengju Ding; Hongli Gao; Guozhu Liu; Fa Zhang 001; Bin Yu 007 (Briefings Bioinform., 2023)

DeepSTF: predicting transcription factor binding sites by interpretable deep neural networks combining sequence and shape. - Pengju Ding; Yifei Wang; Xinyu Zhang; Xin Gao 001; Guozhu Liu; Bin Yu 007 (Briefings Bioinform., 2023)

A weighted integration method based on graph representation learning for drug repositioning. - Haojie Lian; Pengju Ding; Chao Yu; Xinyu Zhang; Guozhu Liu; Bin Yu 007 (Appl. Soft Comput., 2024)

Dynamic weighted knowledge distillation for brain tumor segmentation. - Dianlong An; Panpan Liu; Yan Feng; Pengju Ding; Weifeng Zhou; Bin Yu 007 (Pattern Recognit., 2024)

ML-FGAT: Identification of multi-label protein subcellular localization by interpretable graph attention networks and feature-generative adversarial networks. - Congjing Wang; Yifei Wang; Pengju Ding; Shan Li; Xu Yu; Bin Yu 007 (Comput. Biol. Medicine, 2024)

MSN-DTA: A multi-scale node adaptive graph neural network for interpretable drug-target binding affinity prediction. - Jianxin Wang; Pengju Ding; Yongxin Zhu; Xin Gao 001; Xu Yu; Bin Yu 007 (Knowl. Based Syst., 2025)

DeepUTF: Locating transcription factor binding sites via interpretable dual-channel encoder-decoder structure. - Pengju Ding; Jianxin Wang; Shiyue He; Xin Gao 001; Xu Yu; Bin Yu 007 (Pattern Recognit., 2025)

RPI-GGCN: Prediction of RNA-Protein Interaction Based on Interpretability Gated Graph Convolution Neural Network and Co-Regularized Variational Autoencoders. - Yifei Wang; Pengju Ding; Congjing Wang; Shiyue He; Xin Gao 001; Bin Yu 007 (IEEE Trans. Neural Networks Learn. Syst., 2025)