Computational Methods for the Prediction of Drug-Target Interactions from Drug Fingerprints and Protein Sequences by Stacked Auto-Encoder Deep Neural Network. - Lei Wang 121; Zhu-Hong You; Xing Chen 001; Shixiong Xia; Feng Liu 039; Xin Yan; Yong Zhou 003 (ISBRA, 2017)

Predicting miRNA-disease association based on inductive matrix completion. - Xing Chen 001; Lei Wang 121; Jia Qu; Na-Na Guan; Jian-Qiang Li 001 (Bioinform., 2018)

BNPMDA: Bipartite Network Projection for MiRNA-Disease Association prediction. - Xing Chen 001; Di Xie; Lei Wang 121; Qi Zhao; Zhu-Hong You; Hongsheng Liu 001 (Bioinform., 2018)

A Computational-Based Method for Predicting Drug-Target Interactions by Using Stacked Autoencoder Deep Neural Network. - Lei Wang 121; Zhu-Hong You; Xing Chen 001; Shixiong Xia; Feng Liu 039; Xin Yan; Yong Zhou 003; Kejian Song (J. Comput. Biol., 2018)

An improved efficient rotation forest algorithm to predict the interactions among proteins. - Lei Wang 121; Zhu-Hong You; Shixiong Xia; Xing Chen 001; Xin Yan; Yong Zhou 003; Feng Liu 039 (Soft Comput., 2018)

Predicting circRNA-disease associations using deep generative adversarial network based on multi-source fusion information. - Lei Wang 121; Zhu-Hong You; Li-Ping Li 003; Kai Zheng 020; Yan-Bin Wang (BIBM, 2019)

Precise Prediction of Pathogenic Microorganisms Using 16S rRNA Gene Sequences. - Yu-An Huang; Zhi-An Huang; Zhu-Hong You; Pengwei Hu 001; Li-Ping Li 003; Zheng-Wei Li 001; Lei Wang 121 (ICIC (2), 2019)

MISSIM: Improved miRNA-Disease Association Prediction Model Based on Chaos Game Representation and Broad Learning System. - Kai Zheng 020; Zhu-Hong You; Lei Wang 121; Yi-Ran Li; Yan-Bin Wang; Han-Jing Jiang (ICIC (3), 2019)

CGMDA: An Approach to Predict and Validate MicroRNA-Disease Associations by Utilizing Chaos Game Representation and LightGBM. - Kai Zheng 020; Lei Wang 121; Zhu-Hong You (IEEE Access, 2019)

LMTRDA: Using logistic model tree to predict MiRNA-disease associations by fusing multi-source information of sequences and similarities. - Lei Wang 121; Zhu-Hong You; Xing Chen 001; Yang-Ming Li; Ya-Nan Dong; Li-Ping Li 003; Kai Zheng 020 (PLoS Comput. Biol., 2019)

GCNSP: A Novel Prediction Method of Self-Interacting Proteins Based on Graph Convolutional Networks. - Lei Wang 121; Zhu-Hong You; Xin Yan; Kai Zheng 020; Zheng-Wei Li 001 (ICIC (2), 2020)

DTIFS: A Novel Computational Approach for Predicting Drug-Target Interactions from Drug Structure and Protein Sequence. - Xin Yan; Zhu-Hong You; Lei Wang 121; Li-Ping Li 003; Kai Zheng 020; Mei-Neng Wang (ICIC (2), 2020)

Image Classification Based on Deep Belief Network and YELM. - ChengYong Zhang; Zhengwei Li 001; Ru Nie; Lei Wang 121; Huan Zhao (ICIC (1), 2020)

Predicting Human Disease-Associated piRNAs Based on Multi-source Information and Random Forest. - Kai Zheng 020; Zhu-Hong You; Lei Wang 121; Hao-Yuan Li; Bo-Ya Ji (ICIC (2), 2020)

Inferring Disease-Associated Piwi-Interacting RNAs via Graph Attention Networks. - Kai Zheng 020; Zhu-Hong You; Lei Wang 121; Leon Wong; Zhan-Heng Chen (ICIC (2), 2020)

An efficient approach based on multi-sources information to predict circRNA-disease associations using deep convolutional neural network. - Lei Wang 121; Zhu-Hong You; Yu-An Huang; De-Shuang Huang; Keith C. C. Chan (Bioinform., 2020)

GANCDA: a novel method for predicting circRNA-disease associations based on deep generative adversarial network. - Xin Yan; Lei Wang 121; Zhu-Hong You; Li-Ping Li 003; Kai Zheng 020 (Int. J. Data Min. Bioinform., 2020)

GCNCDA: A new method for predicting circRNA-disease associations based on Graph Convolutional Network Algorithm. - Lei Wang 121; Zhu-Hong You; Yang-Ming Li; Kai Zheng 020; Yu-An Huang (PLoS Comput. Biol., 2020)

iCDA-CGR: Identification of circRNA-disease associations based on Chaos Game Representation. - Kai Zheng 020; Zhu-Hong You; Jian-Qiang Li 001; Lei Wang 121; Zhen-Hao Guo; Yu-An Huang (PLoS Comput. Biol., 2020)

Combining High Speed ELM Learning with a Deep Convolutional Neural Network Feature Encoding for Predicting Protein-RNA Interactions. - Lei Wang 121; Zhu-Hong You; De-Shuang Huang; Fengfeng Zhou (IEEE ACM Trans. Comput. Biol. Bioinform., 2020)

Predicting miRNA-Disease Associations via a New MeSH Headings Representation of Diseases and eXtreme Gradient Boosting. - Bo-Ya Ji; Zhu-Hong You; Lei Wang 121; Leon Wong; Xiao-Rui Su 001; Bo-Wei Zhao (ICIC (3), 2021)

CNNEMS: Using Convolutional Neural Networks to Predict Drug-Target Interactions by Combining Protein Evolution and Molecular Structures Information. - Xin Yan; Zhu-Hong You; Lei Wang 121; Peng-Peng Chen (ICIC (3), 2021)

SANE: A sequence combined attentive network embedding model for COVID-19 drug repositioning. - Xiao-Rui Su 001; Zhuhong You; Lei Wang 121; Lun Hu; Leon Wong; Boya Ji; Bo-Wei Zhao (Appl. Soft Comput., 2021)

NMFCDA: Combining randomization-based neural network with non-negative matrix factorization for predicting CircRNA-disease association. - Lei Wang 121; Zhu-Hong You; Xi Zhou; Xin Yan; Hao-Yuan Li; Yu-An Huang (Appl. Soft Comput., 2021)

Predicting microRNA-disease associations from lncRNA-microRNA interactions via Multiview Multitask Learning. - Yu-An Huang; Keith C. C. Chan; Zhu-Hong You; Pengwei Hu 001; Lei Wang 121; Zhi-An Huang (Briefings Bioinform., 2021)

SGANRDA: semi-supervised generative adversarial networks for predicting circRNA-disease associations. - Lei Wang 121; Xin Yan; Zhu-Hong You; Xi Zhou; Hao-Yuan Li; Yu-An Huang (Briefings Bioinform., 2021)

LDGRNMF: LncRNA-disease associations prediction based on graph regularized non-negative matrix factorization. - Mei-Neng Wang; Zhu-Hong You; Lei Wang 121; Li-Ping Li 003; Kai Zheng 020 (Neurocomputing, 2021)

MISSIM: An Incremental Learning-Based Model With Applications to the Prediction of miRNA-Disease Association. - Kai Zheng 020; Zhu-Hong You; Lei Wang 121; Yi-Ran Li; Ji-Ren Zhou; Haitao Zeng (IEEE ACM Trans. Comput. Biol. Bioinform., 2021)

IMS-CDA: Prediction of CircRNA-Disease Associations From the Integration of Multisource Similarity Information With Deep Stacked Autoencoder Model. - Lei Wang 121; Zhu-Hong You; Jian-Qiang Li 001; Yu-An Huang (IEEE Trans. Cybern., 2021)

Predicting circRNA-disease associations using similarity assessing graph convolution from multi-source information networks. - Yang Li 111; Xue-Gang Hu; Pei-Pei Li 001; Lei Wang 121; Zhu-Hong You (BIBM, 2022)

A novel circRNA-miRNA association prediction model based on structural deep neural network embedding. - Lu-Xiang Guo; Zhu-Hong You; Lei Wang 121; Changqing Yu; Bo-Wei Zhao; Zhong-Hao Ren; Jie Pan 007 (Briefings Bioinform., 2022)

MNMDCDA: prediction of circRNA-disease associations by learning mixed neighborhood information from multiple distances. - Yang Li 111; Xue-Gang Hu; Lei Wang 121; Pei-Pei Li 001; Zhu-Hong You (Briefings Bioinform., 2022)

A deep learning method for repurposing antiviral drugs against new viruses via multi-view nonnegative matrix factorization and its application to SARS-CoV-2. - Xiao-Rui Su 001; Lun Hu; Zhuhong You; Pengwei Hu 001; Lei Wang 121; Bo-Wei Zhao (Briefings Bioinform., 2022)

A machine learning framework based on multi-source feature fusion for circRNA-disease association prediction. - Lei Wang 121; Leon Wong; Zheng-Wei Li 001; Yuan Huang; Xiao-Rui Su 001; Bo-Wei Zhao; Zhuhong You (Briefings Bioinform., 2022)

iGRLCDA: identifying circRNA-disease association based on graph representation learning. - Han-Yuan Zhang; Lei Wang 121; Zhu-Hong You; Lun Hu; Bo-Wei Zhao; Zheng-Wei Li 001; Yang-Ming Li (Briefings Bioinform., 2022)

HINGRL: predicting drug-disease associations with graph representation learning on heterogeneous information networks. - Bo-Wei Zhao; Lun Hu; Zhu-Hong You; Lei Wang 121; Xiao-Rui Su 001 (Briefings Bioinform., 2022)

Line graph attention networks for predicting disease-associated Piwi-interacting RNAs. - Kai Zheng 020; Xin-Lu Zhang; Lei Wang 121; Zhu-Hong You; Zhaohui Zhan; Hao-Yuan Li (Briefings Bioinform., 2022)

NSECDA: Natural Semantic Enhancement for CircRNA-Disease Association Prediction. - Lei Wang 121; Leon Wong; Zhu-Hong You; De-Shuang Huang; Xiao-Rui Su 001; Bo-Wei Zhao (IEEE J. Biomed. Health Informatics, 2022)

ADARES: A Single-cell Classification Model Based on Adversarial Data Augmentation and Residual Networks. - Zhi-Peng Zhu; Pengyong Han; Lei Wang 121; Xishang Dong; San-Rong Liu; Zheng-Wei Li 001 (SPML, 2023)

Relation-propagation meta-learning on an explicit preference graph for cold-start recommendation. - Huiting Liu 001; Lei Wang 121; Peipei Li 001; Cheng Qian; Peng Zhao 010; Xindong Wu 001 (Knowl. Based Syst., 2023)

Predicting MiRNA-Disease Associations by Graph Representation Learning Based on Jumping Knowledge Networks. - Zheng-Wei Li 001; Qiankun Wang; Chang-An Yuan 001; Pengyong Han; Zhu-Hong You; Lei Wang 121 (IEEE ACM Trans. Comput. Biol. Bioinform., 2023)

MGRCDA: Metagraph Recommendation Method for Predicting CircRNA-Disease Association. - Lei Wang 121; Zhu-Hong You; De-Shuang Huang; Jianqiang Li 001 (IEEE Trans. Cybern., 2023)

PPAEDTI: Personalized Propagation Auto-Encoder Model for Predicting Drug-Target Interactions. - Yue-Chao Li; Zhu-Hong You; Changqing Yu; Lei Wang 121; Leon Wong; Lun Hu; Pengwei Hu 001; Yu-An Huang (IEEE J. Biomed. Health Informatics, 2023)

SPRDA: a link prediction approach based on the structural perturbation to infer disease-associated Piwi-interacting RNAs. - Kai Zheng 020; Xin-Lu Zhang; Lei Wang 121; Zhu-Hong You; Bo-Ya Ji; Xiao Liang; Zheng-Wei Li 001 (Briefings Bioinform., 2023)

Biomedical Knowledge Graph Embedding With Capsule Network for Multi-Label Drug-Drug Interaction Prediction. - Xiaorui Su 001; Zhuhong You; Deshuang Huang; Lei Wang 121; Leon Wong; Boya Ji; Bowei Zhao (IEEE Trans. Knowl. Data Eng., 2023)

BCMCMI: A Fusion Model for Predicting circRNA-miRNA Interactions Combining Semantic and Meta-path. - Mengmeng Wei; Chang-Qing Yu; Li-Ping Li 003; Zhu-Hong You; Lei Wang 121 (J. Chem. Inf. Model., 2023)

GKLOMLI: a link prediction model for inferring miRNA-lncRNA interactions by using Gaussian kernel-based method on network profile and linear optimization algorithm. - Leon Wong; Lei Wang 121; Zhu-Hong You; Chang-An Yuan 001; Yu-An Huang; Mei-Yuan Cao (BMC Bioinform., 2023)

Predicting CircRNA-Disease Associations Through Non-negative Matrix Factorization and Adversarially Regularized Variational Graph Autoencoder. - Mianshuo Lu; Lei Wang 121; Jinzhu Sun; Yang Li 111; Mengmeng Wei; Yu Wei; Changchun Liu; Zhengwei Li 001 (BIBM, 2024)

EELMCDA: Combining evolutionary ensemble learning with matrix feature decomposition for predicting circRNA-disease associations. - Zheng Wang 065; Lei Wang 030; Zhu-Hong You; Lei Wang 121; Yang Li 111; Zhenyu Wang (BIBM, 2024)

A PiRNA-disease association model incorporating sequence multi-source information with graph convolutional networks. - Lei Wang 121; Zheng-Wei Li 001; Jing Hu; Leon Wong; Bo-Wei Zhao; Zhu-Hong You (Appl. Soft Comput., 2024)

Biolinguistic graph fusion model for circRNA-miRNA association prediction. - Lu-Xiang Guo; Lei Wang 121; Zhu-Hong You; Chang-Qing Yu; Meng-Lei Hu; Bo-Wei Zhao; Yang Li 111 (Briefings Bioinform., 2024)

A multi-task prediction method based on neighborhood structure embedding and signed graph representation learning to infer the relationship between circRNA, miRNA, and cancer. - Lan Huang 002; Xin-Fei Wang; Yan Wang 028; Ren-Chu Guan; Nan Sheng; Xuping Xie; Lei Wang 121; Ziqi Zhao (Briefings Bioinform., 2024)

HHOMR: a hybrid high-order moment residual model for miRNA-disease association prediction. - Zhengwei Li 001; Lipeng Wan; Lei Wang 121; Wenjing Wang; Ru Nie (Briefings Bioinform., 2024)

BioKG-CMI: a multi-source feature fusion model based on biological knowledge graph for predicting circRNA-miRNA interactions. - Mengmeng Wei; Lei Wang 121; Yang Li; Zhengwei Li; Bowei Zhao; Xiao-Rui Su 001; Yu Wei; Zhuhong You (Sci. China Inf. Sci., 2024)

LMGATCDA: Graph Neural Network With Labeling Trick for Predicting circRNA-Disease Associations. - Wenjing Wang; Pengyong Han; Zhengwei Li 001; Ru Nie; Kangwei Wang; Lei Wang 121; Hongmei Liao (IEEE ACM Trans. Comput. Biol. Bioinform., 2024)

Fusing Higher and Lower-Order Biological Information for Drug Repositioning via Graph Representation Learning. - Bo-Wei Zhao; Lei Wang 121; Pengwei Hu 001; Leon Wong; Xiao-Rui Su 001; Bao-Quan Wang; Zhu-Hong You; Lun Hu (IEEE Trans. Emerg. Top. Comput., 2024)

Likelihood-based feature representation learning combined with neighborhood information for predicting circRNA-miRNA associations. - Lu-Xiang Guo; Lei Wang 121; Zhu-Hong You; Chang-Qing Yu; Meng-Lei Hu; Bo-Wei Zhao; Yang Li 111 (Briefings Bioinform., 2024)

GSLCDA: An Unsupervised Deep Graph Structure Learning Method for Predicting CircRNA-Disease Association. - Lei Wang 121; Zheng-Wei Li 001; Zhu-Hong You; De-Shuang Huang; Leon Wong (IEEE J. Biomed. Health Informatics, 2024)

MAGCDA: A Multi-Hop Attention Graph Neural Networks Method for CircRNA-Disease Association Prediction. - Lei Wang 121; Zheng-Wei Li 001; Zhu-Hong You; De-Shuang Huang; Leon Wong (IEEE J. Biomed. Health Informatics, 2024)

AMDECDA: Attention Mechanism Combined With Data Ensemble Strategy for Predicting CircRNA-Disease Association. - Lei Wang 121; Leon Wong; Zhu-Hong You; De-Shuang Huang (IEEE Trans. Big Data, 2024)

BEROLECMI: a novel prediction method to infer circRNA-miRNA interaction from the role definition of molecular attributes and biological networks. - Xin-Fei Wang; Chang-Qing Yu; Zhu-Hong You; Yan Wang 028; Lan Huang 002; Yan Qiao; Lei Wang 121; Zheng-Wei Li 001 (BMC Bioinform., 2024)

Deep-Learning-Based Integration of Sequence and Structure Information for Efficiently Predicting miRNA-Drug Associations. - Nan Sheng; Yunzhi Liu; Ling Gao; Lei Wang 121; Chenxu Si; Lan Huang 002; Yan Wang 028 (J. Chem. Inf. Model., 2025)

Hypergraph representation learning for identifying circRNA-disease associations. - Yang Li 111; Xuegang Hu; Peipei Li; Lei Wang 121; Zhuhong You (Pattern Recognit., 2025)

Self-Supervised Contrastive Learning on Attribute and Topology Graphs for Predicting Relationships Among lncRNAs, miRNAs and Diseases. - Lan Huang 002; Nan Sheng; Ling Gao; Lei Wang 121; Wenju Hou; Jie Hong; Yan Wang 028 (IEEE J. Biomed. Health Informatics, 2025)

Integrating Transformer and Graph Attention Network for circRNA-miRNA Interaction Prediction. - Mengmeng Wei; Lei Wang 121; Bo-Wei Zhao; Xiao-Rui Su 001; Zhu-Hong You; De-Shuang Huang (IEEE J. Biomed. Health Informatics, 2025)

Local-Global Structure-Aware Geometric Equivariant Graph Representation Learning for Predicting Protein-Ligand Binding Affinity. - Shihong Chen; Haicheng Yi; Zhuhong You; Xuequn Shang 001; Yu-An Huang; Lei Wang 121; Zhen Wang 020 (IEEE Trans. Neural Networks Learn. Syst., 2025)

Multi-hop graph structural modeling for cancer-related circRNA-miRNA interaction prediction. - Mengmeng Wei; Lei Wang 121; Xiao-Rui Su 001; Bowei Zhao; Zhuhong You (Pattern Recognit., 2026)