A Novel Group Wise-Based Method for Calculating Human miRNA Functional Similarity. - Pingjian Ding; Jiawei Luo 001; Cheng Liang 001; Jie Cai; Ying Liu 027; Xiangtao Chen (IEEE Access, 2017)

Predicting MicroRNA-Disease Associations Using Network Topological Similarity Based on DeepWalk. - Guanghui Li 003; Jiawei Luo 001; Qiu Xiao; Cheng Liang 001; Pingjian Ding; Buwen Cao (IEEE Access, 2017)

Predicting MicroRNA-Disease Associations Using Kronecker Regularized Least Squares Based on Heterogeneous Omics Data. - Jiawei Luo 001; Qiu Xiao; Cheng Liang 001; Pingjian Ding (IEEE Access, 2017)

Collective Prediction of Disease-Associated miRNAs Based on Transduction Learning. - Jiawei Luo 001; Pingjian Ding; Cheng Liang 001; Buwen Cao; Xiangtao Chen (IEEE ACM Trans. Comput. Biol. Bioinform., 2017)

GRTR: Drug-Disease Association Prediction Based on Graph Regularized Transductive Regression on Heterogeneous Network. - Qiao Zhu; Jiawei Luo 001; Pingjian Ding; Qiu Xiao (ISBRA, 2018)

A graph regularized non-negative matrix factorization method for identifying microRNA-disease associations. - Qiu Xiao; Jiawei Luo 001; Cheng Liang 001; Jie Cai; Pingjian Ding (Bioinform., 2018)

Semi-supervised prediction of human miRNA-disease association based on graph regularization framework in heterogeneous networks. - Jiawei Luo 001; Pingjian Ding; Cheng Liang 001; Xiangtao Chen (Neurocomputing, 2018)

Human disease MiRNA inference by combining target information based on heterogeneous manifolds. - Pingjian Ding; Jiawei Luo 001; Cheng Liang 001; Qiu Xiao; Buwen Cao (J. Biomed. Informatics, 2018)

Predicting microRNA-disease associations using label propagation based on linear neighborhood similarity. - Guanghui Li 003; Jiawei Luo 001; Qiu Xiao; Cheng Liang 001; Pingjian Ding (J. Biomed. Informatics, 2018)

Identification of overlapping protein complexes by fuzzy K-medoids clustering algorithm in yeast protein-protein interaction networks. - Buwen Cao; Shuguang Deng; Jiawei Luo 001; Pingjian Ding; Shulin Wang (J. Intell. Fuzzy Syst., 2018)

Prediction of LncRNA-Disease Associations Based on Network Consistency Projection. - Guanghui Li 003; Jiawei Luo 001; Cheng Liang 001; Qiu Xiao; Pingjian Ding; Yuejin Zhang (IEEE Access, 2019)

Ensemble Prediction of Synergistic Drug Combinations Incorporating Biological, Chemical, Pharmacological, and Network Knowledge. - Pingjian Ding; Rui Yin 002; Jiawei Luo 001; Chee Keong Kwoh 001 (IEEE J. Biomed. Health Informatics, 2019)

Inferring MicroRNA Targets Based on Restricted Boltzmann Machines. - Ying Liu 027; Jiawei Luo 001; Pingjian Ding (IEEE J. Biomed. Health Informatics, 2019)

Heterogeneous information network and its application to human health and disease. - Pingjian Ding; Wenjue Ouyang; Jiawei Luo 001; Chee-Keong Kwoh 001 (Briefings Bioinform., 2020)

Potential circRNA-disease association prediction using DeepWalk and network consistency projection. - Guanghui Li 003; Jiawei Luo 001; Diancheng Wang; Cheng Liang 001; Qiu Xiao; Pingjian Ding; Hailin Chen (J. Biomed. Informatics, 2020)

Incorporating Multisource Knowledge To Predict Drug Synergy Based on Graph Co-regularization. - Pingjian Ding; Cong Shen 002; Zihan Lai; Cheng Liang 001; Guanghui Li 003; Jiawei Luo 001 (J. Chem. Inf. Model., 2020)

Multiview Joint Learning-Based Method for Identifying Small-Molecule-Associated MiRNAs by Integrating Pharmacological, Genomics, and Network Knowledge. - Cong Shen 002; Jiawei Luo 001; Zihan Lai; Pingjian Ding (J. Chem. Inf. Model., 2020)

Identification of Small Molecule-miRNA Associations with Graph Regularization Techniques in Heterogeneous Networks. - Cong Shen 002; Jiawei Luo 001; Wenjue Ouyang; Pingjian Ding; Hao Wu (J. Chem. Inf. Model., 2020)

Identifying lncRNA and mRNA Co-Expression Modules from Matched Expression Data in Ovarian Cancer. - Qiu Xiao; Jiawei Luo 001; Cheng Liang 001; Guanghui Li 003; Jie Cai; Pingjian Ding; Ying Liu 027 (IEEE ACM Trans. Comput. Biol. Bioinform., 2020)

IDDkin: network-based influence deep diffusion model for enhancing prediction of kinase inhibitors. - Cong Shen 002; Jiawei Luo 001; Wenjue Ouyang; Pingjian Ding; Xiangtao Chen (Bioinform., 2021)

Inferring Synergistic Drug Combinations Based on Symmetric Meta-Path in a Novel Heterogeneous Network. - Pingjian Ding; Cheng Liang 001; Wenjue Ouyang; Guanghui Li 003; Qiu Xiao; Jiawei Luo 001 (IEEE ACM Trans. Comput. Biol. Bioinform., 2021)

Incorporating Clinical, Chemical and Biological Information for Predicting Small Molecule-microRNA Associations Based on Non-Negative Matrix Factorization. - Jiawei Luo 001; Cong Shen 002; Zihan Lai; Jie Cai; Pingjian Ding (IEEE ACM Trans. Comput. Biol. Bioinform., 2021)

A knowledge graph-driven disease-gene prediction system using multi-relational graph convolution networks. - Zhenxiang Gao; Rong Xu; Yiheng Pan; Pingjian Ding (AMIA, 2022)

iEnhancer-BERT: A Novel Transfer Learning Architecture Based on DNA-Language Model for Identifying Enhancers and Their Strength. - Hanyu Luo; Cheng Chen; Wenyu Shan; Pingjian Ding; Lingyun Luo (ICIC (2), 2022)

Prediction and evaluation of combination pharmacotherapy using natural language processing, machine learning and patient electronic health records. - Pingjian Ding; Yiheng Pan; QuanQiu Wang; Rong Xu (J. Biomed. Informatics, 2022)

KG-Predict: A knowledge graph computational framework for drug repurposing. - Zhenxiang Gao; Pingjian Ding; Rong Xu (J. Biomed. Informatics, 2022)

Curvature-enhanced Graph Convolutional Network for Biomolecular Interaction Prediction. - Cong Shen 002; Pingjian Ding; Junjie Wee; Jialin Bi; Jiawei Luo 001; Kelin Xia (CoRR, 2023)

SENet: A deep learning framework for discriminating super- and typical enhancers by sequence information. - Hanyu Luo; Ye Li; Huan Liu; Pingjian Ding; Ying Yu; Lingyun Luo (Comput. Biol. Chem., 2023)

Self-prediction of relations in GO facilitates its quality auditing. - Cheng Chen; Lingyun Luo; Chunlei Zheng; Pingjian Ding; Huan Liu; Hanyu Luo (J. Biomed. Informatics, 2023)

Multitask joint learning with graph autoencoders for predicting potential MiRNA-drug associations. - Yichen Zhong; Cong Shen 002; Xiaoting Xi; Yuxun Luo; Pingjian Ding; Lingyun Luo (Artif. Intell. Medicine, 2023)

SGCL-LncLoc: An Interpretable Deep Learning Model for Improving IncRNA Subcellular Localization Prediction with Supervised Graph Contrastive Learning. - Min Li 007; Baoying Zhao; Yiming Li; Pingjian Ding; Rui Yin 002; Shichao Kan; Min Zeng (Big Data Min. Anal., 2024)

Multi-scale DNA language model improves 6 mA binding sites prediction. - Anlin Hou; Hanyu Luo; Huan Liu; Lingyun Luo; Pingjian Ding (Comput. Biol. Chem., 2024)

Predicting associations between drugs and G protein-coupled receptors using a multi-graph convolutional network. - Yuxun Luo; Shasha Li; Li Peng; Pingjian Ding; Wei Liang 005 (Comput. Biol. Chem., 2024)

HKFGCN: A novel multiple kernel fusion framework on graph convolutional network to predict microbe-drug associations. - Ziyu Wu; Shasha Li; Lingyun Luo; Pingjian Ding (Comput. Biol. Chem., 2024)

A Computational Framework for Predicting Novel Drug Indications Using Graph Convolutional Network With Contrastive Learning. - Yuxun Luo; Wenyu Shan; Li Peng; Lingyun Luo; Pingjian Ding; Wei Liang 005 (IEEE J. Biomed. Health Informatics, 2024)

Geometric Molecular Graph Representation Learning Model for Drug-Drug Interactions Prediction. - Zhenyu Jiang; Pingjian Ding; Cong Shen 002; Xiaopeng Dai (IEEE J. Biomed. Health Informatics, 2024)

FCGR-Enhancer: A Lightweight Multi-scale CNN Model for Super-Enhancer Identification via Chaos Game Representation. - Huan Liu; Yidong He; Lingyun Luo; Pingjian Ding (ICIC (27), 2025)