Identification of Protein-Protein Interactions by Detecting Correlated Mutation at the Interface. - Fei Guo 001; Yijie Ding; Zhao Li; Jijun Tang (J. Chem. Inf. Model., 2015)

Predicting protein-protein interactions via multivariate mutual information of protein sequences. - Yijie Ding; Jijun Tang; Fei Guo 001 (BMC Bioinform., 2016)

Protein-protein interface prediction based on hexagon structure similarity. - Fei Guo 001; Yijie Ding; Shuai Cheng Li 001; Chao Shen; Lusheng Wang 001 (Comput. Biol. Chem., 2016)

Identification of drug-target interactions via multiple information integration. - Yijie Ding; Jijun Tang; Fei Guo 001 (Inf. Sci., 2017)

Identification of Protein-Ligand Binding Sites by Sequence Information and Ensemble Classifier. - Yijie Ding; Jijun Tang; Fei Guo 001 (J. Chem. Inf. Model., 2017)

Prediction of human protein subcellular localization using deep learning. - Leyi Wei; Yijie Ding; Ran Su; Jijun Tang; Quan Zou 001 (J. Parallel Distributed Comput., 2018)

Identification of DNA-Binding Proteins via Fuzzy Multiple Kernel Model and Sequence Information. - Yijie Ding; Jijun Tang; Fei Guo 001 (ICIC (2), 2019)

Research on RNA Secondary Structure Prediction Based on Decision Tree. - Weizhong Lu; Yan Cao; Hongjie Wu; Hongmei Huang; Yijie Ding (ICIC (2), 2019)

A Prediction Method of DNA-Binding Proteins Based on Evolutionary Information. - Weizhong Lu; Zhengwei Song; Yijie Ding; Hongjie Wu; Hongmei Huang (ICIC (2), 2019)

LPI-KTASLP: Prediction of LncRNA-Protein Interaction by Semi-Supervised Link Learning With Multivariate Information. - Cong Shen; Yijie Ding; Jijun Tang; Limin Jiang; Fei Guo 001 (IEEE Access, 2019)

Ranking near-native candidate protein structures via random forest classification. - Hongjie Wu; Hongmei Huang; Weizhong Lu; Qiming Fu 001; Yijie Ding; Jing Qiu; Haiou Li (BMC Bioinform., 2019)

Identification of drug-side effect association via multiple information integration with centered kernel alignment. - Yijie Ding; Jijun Tang; Fei Guo 001 (Neurocomputing, 2019)

Identification of Drug-Side Effect Association via Semisupervised Model and Multiple Kernel Learning. - Yijie Ding; Jijun Tang; Fei Guo 001 (IEEE J. Biomed. Health Informatics, 2019)

An two-layer predictive model of ensemble classifier chain for detecting antimicrobial peptides. - Jinhao Zhang; Shuhao Li; Yijie Ding; Jijun Tang; Fei Guo 001 (BIBM, 2020)

Human protein subcellular localization identification via fuzzy model on Kernelized Neighborhood Representation. - Yijie Ding; Jijun Tang; Fei Guo 001 (Appl. Soft Comput., 2020)

Critical evaluation of web-based prediction tools for human protein subcellular localization. - Yinan Shen; Yijie Ding; Jijun Tang; Quan Zou 001; Fei Guo 001 (Briefings Bioinform., 2020)

Identification of human microRNA-disease association via hypergraph embedded bipartite local model. - Yijie Ding; Limin Jiang; Jijun Tang; Fei Guo 001 (Comput. Biol. Chem., 2020)

Identification of membrane protein types via multivariate information fusion with Hilbert-Schmidt Independence Criterion. - Hao Wang; Yijie Ding; Jijun Tang; Fei Guo 001 (Neurocomputing, 2020)

Identification of Drug-Target Interactions via Dual Laplacian Regularized Least Squares with Multiple Kernel Fusion. - Yijie Ding; Jijun Tang; Fei Guo 001 (Knowl. Based Syst., 2020)

Identification of drug-target interactions via fuzzy bipartite local model. - Yijie Ding; Jijun Tang; Fei Guo 001 (Neural Comput. Appl., 2020)

Membrane Protein Identification via Multi-view Graph Regularized k-Local Hyperplane Distance Nearest Neighbor Model. - Mengwei Sun; Yuqing Qian; Yijie Ding; Jijun Tang; Quan Zou 001 (BIBM, 2021)

A Reinforcement Learning-Based Model for Human MicroRNA-Disease Association Prediction. - Linqian Cui; You Lu 004; Qiming Fu 001; Jiacheng Sun; Xiao Xu; Yijie Ding; Hongjie Wu (ICIC (3), 2021)

Research on RNA Secondary Structure Prediction Based on MLP. - Weizhong Lu; Xiaoyi Chen; Yu Zhang 027; Hongjie Wu; Jiawei Shen; Nan Zhou; Yijie Ding (ICIC (3), 2021)

Membrane Protein Identification via Multiple Kernel Fuzzy SVM. - Weizhong Lu; Jiawei Shen; Yuqing Qian; Hongjie Wu; Yijie Ding; Xiaoyi Chen (ICIC (3), 2021)

Drug-disease associations prediction via Multiple Kernel-based Dual Graph Regularized Least Squares. - Hongpeng Yang; Yijie Ding; Jijun Tang; Fei Guo 001 (Appl. Soft Comput., 2021)

Exploring associations of non-coding RNAs in human diseases via three-matrix factorization with hypergraph-regular terms on center kernel alignment. - Hao Wang; Jijun Tang; Yijie Ding; Fei Guo 001 (Briefings Bioinform., 2021)

Research on RNA secondary structure predicting via bidirectional recurrent neural network. - Weizhong Lu; Yan Cao; Hongjie Wu; Yijie Ding; Zhengwei Song; Yu Zhang 027; Qiming Fu 001; Haiou Li (BMC Bioinform., 2021)

A sequence-based multiple kernel model for identifying DNA-binding proteins. - Yuqing Qian; Limin Jiang; Yijie Ding; Jijun Tang; Fei Guo 001 (BMC Bioinform., 2021)

Identification of drug-target interactions via multi-view graph regularized link propagation model. - Yijie Ding; Jijun Tang; Fei Guo 001 (Neurocomputing, 2021)

Granular multiple kernel learning for identifying RNA-binding protein residues via integrating sequence and structure information. - Chao Yang; Yijie Ding; Qiaozhen Meng; Jijun Tang; Fei Guo 001 (Neural Comput. Appl., 2021)

Protein Crystallization Identification via Fuzzy Model on Linear Neighborhood Representation. - Yijie Ding; Jijun Tang; Fei Guo 001 (IEEE ACM Trans. Comput. Biol. Bioinform., 2021)

iEnhancer-KL: A Novel Two-Layer Predictor for Identifying Enhancers by Position Specific of Nucleotide Composition. - Yinuo Lyu; Zhen Zhang; Jiawei Li 018; Wenying He; Yijie Ding; Fei Guo 001 (IEEE ACM Trans. Comput. Biol. Bioinform., 2021)

CrystalM: A Multi-View Fusion Approach for Protein Crystallization Prediction. - Yubo Wang; Yijie Ding; Jijun Tang; Yu Dai 005; Fei Guo 001 (IEEE ACM Trans. Comput. Biol. Bioinform., 2021)

Empirical Potential Energy Function Toward ab Initio Folding G Protein-Coupled Receptors. - Hongjie Wu; Huajing Ling; Lei Gao; Qiming Fu 001; Weizhong Lu; Yijie Ding; Min Jiang 009; Haiou Li (IEEE ACM Trans. Comput. Biol. Bioinform., 2021)

CEPZ: A Novel Predictor for Identification of DNase I Hypersensitive Sites. - Yan Zheng; Hao Wang; Yijie Ding; Fei Guo 001 (IEEE ACM Trans. Comput. Biol. Bioinform., 2021)

Kernel Risk Sensitive Loss-based Echo State Networks for Predicting Therapeutic Peptides with Sparse Learning. - Xiaoyi Guo; Yuqing Qian; Prayag Tiwari; Quan Zou 001; Yijie Ding (BIBM, 2022)

Prompt Learning for Multi-modal COVID-19 Diagnosis. - Yang Yu 044; Lu Rong; Mengyao Wang; Min Huang 001; Yazhou Zhang; Yijie Ding (BIBM, 2022)

A Hybrid Model for Depression Detection With Transformer and Bi-directional Long Short-Term Memory. - Yazhou Zhang; Yu He; Lu Rong; Yijie Ding (BIBM, 2022)

Identification of protein-nucleotide binding residues via graph regularized k-local hyperplane distance nearest neighbor model. - Yijie Ding; Chao Yang; Jijun Tang; Fei Guo 001 (Appl. Intell., 2022)

Identification of DNA N4-methylcytosine sites via fuzzy model on self representation. - Leyao Wang; Yijie Ding; Junhai Xu; Wenhuan Lu; Jijun Tang; Fei Guo 001 (Appl. Soft Comput., 2022)

Identification of drug-target interactions via multiple kernel-based triple collaborative matrix factorization. - Yijie Ding; Jijun Tang; Fei Guo 001; Quan Zou 001 (Briefings Bioinform., 2022)

Identification of drug-side effect association via restricted Boltzmann machines with penalized term. - Yuqing Qian; Yijie Ding; Quan Zou 001; Fei Guo 001 (Briefings Bioinform., 2022)

RGCNCDA: Relational graph convolutional network improves circRNA-disease association prediction by incorporating microRNAs. - Yaojia Chen; Yanpeng Wang; Yijie Ding; Xi Su; Chunyu Wang 002 (Comput. Biol. Medicine, 2022)

Random Fourier features-based sparse representation classifier for identifying DNA-binding proteins. - Xiaoyi Guo; Prayag Tiwari; Ying Zhang 060; Shuguang Han; Yansu Wang; Yijie Ding (Comput. Biol. Medicine, 2022)

Using a machine learning-based risk prediction model to analyze the coronary artery calcification score and predict coronary heart disease and risk assessment. - Yue Huang; YingBo Ren; Hai Yang; YiJie Ding; Yan Liu 085; YunChun Yang; AnQiong Mao; Tan Yang; YingZi Wang; Feng Xiao; QiZhou He; Ying Zhang 060 (Comput. Biol. Medicine, 2022)

Impact of quarantine on fractional order dynamical model of Covid-19. - Ram Singh; Prayag Tiwari; Shahab S. Band; Attiq U. Rehman; Shubham Mahajan; Yijie Ding; Xiaobin Liu; Amit Kant Pandit (Comput. Biol. Medicine, 2022)

HKAM-MKM: A hybrid kernel alignment maximization-based multiple kernel model for identifying DNA-binding proteins. - Shulin Zhao 003; Yijie Ding; Xiaobin Liu; Xi Su (Comput. Biol. Medicine, 2022)

A multi-layer multi-kernel neural network for determining associations between non-coding RNAs and diseases. - Chengwei Ai; Hongpeng Yang; Yijie Ding; Jijun Tang; Fei Guo 001 (Neurocomputing, 2022)

Sparse regularized joint projection model for identifying associations of non-coding RNAs and human diseases. - Ping Li; Prayag Tiwari; Junhai Xu; Yuqing Qian; Chengwei Ai; Yijie Ding; Fei Guo 001 (Knowl. Based Syst., 2022)

MLapSVM-LBS: Predicting DNA-binding proteins via a multiple Laplacian regularized support vector machine with local behavior similarity. - Mengwei Sun; Prayag Tiwari; Yuqing Qian; Yijie Ding; Quan Zou 001 (Knowl. Based Syst., 2022)

Inferring human microbe-drug associations via multiple kernel fusion on graph neural network. - Hongpeng Yang; Yijie Ding; Jijun Tang; Fei Guo 001 (Knowl. Based Syst., 2022)

Shared subspace-based radial basis function neural network for identifying ncRNAs subcellular localization. - Yijie Ding; Prayag Tiwari; Fei Guo 001; Quan Zou 001 (Neural Networks, 2022)

G Protein-Coupled Receptor Interaction Prediction Based on Deep Transfer Learning. - Tengsheng Jiang; Yuhui Chen; Shixuan Guan; Zhongtian Hu; Weizhong Lu; Qiming Fu 001; Yijie Ding; Haiou Li; Hongjie Wu (IEEE ACM Trans. Comput. Biol. Bioinform., 2022)

Identify ncRNA Subcellular Localization via Graph Regularized $k$k-Local Hyperplane Distance Nearest Neighbor Model on Multi-Kernel Learning. - Haohao Zhou; Hao Wang; Jijun Tang; Yijie Ding; Fei Guo 001 (IEEE ACM Trans. Comput. Biol. Bioinform., 2022)

C-Loss Based Higher Order Fuzzy Inference Systems for Identifying DNA N4-Methylcytosine Sites. - Yijie Ding; Prayag Tiwari; Quan Zou 001; Fei Guo 001; Hari Mohan Pandey (IEEE Trans. Fuzzy Syst., 2022)

Low Rank Matrix Factorization Algorithm Based on Multi-Graph Regularization for Detecting Drug-Disease Association. - Chengwei Ai; Hongpeng Yang; Yijie Ding; Jijun Tang; Fei Guo 001 (IEEE ACM Trans. Comput. Biol. Bioinform., 2023)

Laplacian Regularized Sparse Representation Based Classifier for Identifying DNA N4-Methylcytosine Sites via $L_{2,1/2}$L2,1/2-Matrix Norm. - Yijie Ding; Wenying He; Jijun Tang; Quan Zou 001; Fei Guo 001 (IEEE ACM Trans. Comput. Biol. Bioinform., 2023)

MV-H-RKM: A Multiple View-Based Hypergraph Regularized Restricted Kernel Machine for Predicting DNA-Binding Proteins. - Shixuan Guan; Yuqing Qian; Tengsheng Jiang; Min Jiang 009; Yijie Ding; Hongjie Wu (IEEE ACM Trans. Comput. Biol. Bioinform., 2023)

Protein-DNA Binding Residues Prediction Using a Deep Learning Model With Hierarchical Feature Extraction. - Shixuan Guan; Quan Zou 001; Hongjie Wu; Yijie Ding (IEEE ACM Trans. Comput. Biol. Bioinform., 2023)

Multi-View Kernel Sparse Representation for Identification of Membrane Protein Types. - Yuqing Qian; Yijie Ding; Quan Zou 001; Fei Guo 001 (IEEE ACM Trans. Comput. Biol. Bioinform., 2023)

A review of methods for predicting DNA N6-methyladenine sites. - Ke Han; Jianchun Wang; Yu Wang; Lei Zhang; Mengyao Yu; Fang Xie; Dequan Zheng; Yaoqun Xu; Yijie Ding; Jie Wan (Briefings Bioinform., 2023)

Subspace projection-based weighted echo state networks for predicting therapeutic peptides. - Xiaoyi Guo; Prayag Tiwari; Quan Zou 001; Yijie Ding (Knowl. Based Syst., 2023)

Identification of DNA-binding proteins by Kernel Sparse Representation via L2,1-matrix norm. - Yutong Ming; Hongzhi Liu; Yizhi Cui; Shaoyong Guo; Yijie Ding; Ruijun Liu (Comput. Biol. Medicine, 2023)

Prediction of drug-target interactions via neural tangent kernel extraction feature matrix factorization model. - Yu Wang; Yu Zhang 027; Jianchun Wang; Fang Xie; Dequan Zheng; Xiang Zou; Mian Guo; Yijie Ding; Jie Wan; Ke Han (Comput. Biol. Medicine, 2023)

A deep multiple kernel learning-based higher-order fuzzy inference system for identifying DNA N4-methylcytosine sites. - Leyao Wang; Yijie Ding; Prayag Tiwari; Junhai Xu; Wenhuan Lu; Khan Muhammad 001; Victor Hugo C. de Albuquerque; Fei Guo 001 (Inf. Sci., 2023)

MVML-MPI: Multi-View Multi-Label Learning for Metabolic Pathway Inference. - Xiaoyi Liu; Hongpeng Yang; Chengwei Ai; Yijie Ding; Fei Guo 001; Jijun Tang (Briefings Bioinform., 2023)

DNA protein binding recognition based on lifelong learning. - Yongsan Liu; Shixuan Guan; Tengsheng Jiang; Qiming Fu 001; Jieming Ma; Zhiming Cui; Yijie Ding; Hongjie Wu (Comput. Biol. Medicine, 2023)

Identification of DNA N4-methylcytosine Sites via Multiview Kernel Sparse Representation Model. - Chengwei Ai; Prayag Tiwari; Hongpeng Yang; Yijie Ding; Jijun Tang; Fei Guo 001 (IEEE Trans. Artif. Intell., 2023)

MLapRVFL: Protein sequence prediction based on Multi-Laplacian Regularized Random Vector Functional Link. - Xingyue Gu; Yijie Ding; Pengfeng Xiao (Comput. Biol. Medicine, 2023)

Multi-correntropy fusion based fuzzy system for predicting DNA N4-methylcytosine sites. - Yijie Ding; Prayag Tiwari; Fei Guo 001; Quan Zou 001 (Inf. Fusion, 2023)

AAHLDMA: Predicting Drug-Microbe Associations Based on Bridge Graph Learning. - Yaojia Chen; Mengting Niu; Yi Liu 112; Jiacheng Wang 009; Yijie Ding; Quan Zou 001 (ICIC (LNBI 2), 2024)

Fuzzy kernel evidence Random Forest for identifying pseudouridine sites. - Mingshuai Chen; Mingai Sun; Xi Su; Prayag Tiwari; Yijie Ding (Briefings Bioinform., 2024)

Therapeutic peptides identification via kernel risk sensitive loss-based k-nearest neighbor model and multi-Laplacian regularization. - Wenyu Zhang; Yijie Ding; Leyi Wei; Xiaoyi Guo; Fengming Ni (Briefings Bioinform., 2024)

SBSM-Pro: support bio-sequence machine for proteins. - Yizheng Wang; Yixiao Zhai; Yijie Ding; Quan Zou 001 (Sci. China Inf. Sci., 2024)

A generalizable framework for unlocking missing reactions in genome-scale metabolic networks using deep learning. - Xiaoyi Liu; Hongpeng Yang; Chengwei Ai; Ruihan Dong; Yijie Ding; Qianqian Yuan; Jijun Tang; Fei Guo 001 (CoRR, 2024)

Inductive Generative Recommendation via Retrieval-based Speculation. - Yijie Ding; Yupeng Hou; Jiacheng Li 003; Julian J. McAuley (CoRR, 2024)

MvG-NRLMF: Multi-view graph neighborhood regularized logistic matrix factorization for identifying drug-target interaction. - Yu Zhang 027; Qian Liao; Prayag Tiwari; Ying Chu; Yu Wang; Yi Ding; Xianyi Zhao; Jie Wan; Yijie Ding; Ke Han (Future Gener. Comput. Syst., 2024)

Drug repositioning by multi-aspect heterogeneous graph contrastive learning and positive-fusion negative sampling strategy. - Junkai Liu; Fuyuan Hu; Quan Zou 001; Prayag Tiwari; Hongjie Wu; Yijie Ding (Inf. Fusion, 2024)

AMDGT: Attention aware multi-modal fusion using a dual graph transformer for drug-disease associations prediction. - Junkai Liu; Shixuan Guan; Quan Zou 001; Hongjie Wu; Prayag Tiwari; Yijie Ding (Knowl. Based Syst., 2024)

Sequence homology score-based deep fuzzy network for identifying therapeutic peptides. - Xiaoyi Guo; Ziyu Zheng; Kang Hao Cheong; Quan Zou 001; Prayag Tiwari; Yijie Ding (Neural Networks, 2024)

MTMol-GPT: De novo multi-target molecular generation with transformer-based generative adversarial imitation learning. - Chengwei Ai; Hongpeng Yang; Xiaoyi Liu; Ruihan Dong; Yijie Ding; Fei Guo 001 (PLoS Comput. Biol., 2024)

scRNMF: An imputation method for single-cell RNA-seq data by robust and non-negative matrix factorization. - Yuqing Qian; Quan Zou 001; Mengyuan Zhao; Yi Liu 112; Fei Guo 001; Yijie Ding (PLoS Comput. Biol., 2024)

PseU-KeMRF: A Novel Method for Identifying RNA Pseudouridine Sites. - Mingshuai Chen; Quan Zou 001; Ren Qi; Yijie Ding (IEEE ACM Trans. Comput. Biol. Bioinform., 2024)

Multiple Kronecker RLS fusion-based link propagation for drug-side effect prediction. - Yuqing Qian; Ziyu Zheng; Prayag Tiwari; Yijie Ding; Quan Zou 001 (Trans. Mach. Learn. Res., 2024)

Structured Sparse Regularization based Random Vector Functional Link Networks for DNA N4-methylcytosine sites prediction. - Hao Xie; Yijie Ding; Yuqing Qian; Prayag Tiwari; Fei Guo 001 (Expert Syst. Appl., 2024)

AttentionMGT-DTA: A multi-modal drug-target affinity prediction using graph transformer and attention mechanism. - Hongjie Wu; Junkai Liu; Tengsheng Jiang; Quan Zou 001; Shujie Qi; Zhiming Cui; Prayag Tiwari; Yijie Ding (Neural Networks, 2024)

Postoperative delirium prediction after cardiac surgery using machine learning models. - Tan Yang; Hai Yang; Yan Liu 085; Xiao Liu; Yijie Ding; Run Li; AnQiong Mao; Yue Huang; Xiao-Liang Li; Ying Zhang 060; Feng-Xu Yu (Comput. Biol. Medicine, 2024)

Weighted Fuzzy System for Identifying DNA N4-Methylcytosine Sites With Kernel Entropy Component Analysis. - Leyao Wang; Prayag Tiwari; Yijie Ding; Fei Guo 001 (IEEE Trans. Artif. Intell., 2024)

A Multi-Modal ELMo Model for Image Sentiment Recognition of Consumer Data. - Lu Rong; Yijie Ding; Mengyao Wang; Abdulmotaleb El-Saddik; M. Shamim Hossain (IEEE Trans. Consumer Electron., 2024)

Identification of human microRNA-disease association via low-rank approximation-based link propagation and multiple kernel learning. - Yizheng Wang; Xin Zhang 103; Ying Ju; Qing Liu; Quan Zou 001; Yazhou Zhang; Yijie Ding; Ying Zhang 060 (Frontiers Comput. Sci., 2024)

Identification of Drug-Side-Effect Association via Multiview Semisupervised Sparse Model. - Yijie Ding; Fei Guo 001; Prayag Tiwari; Quan Zou 001 (IEEE Trans. Artif. Intell., 2024)

Drug-Drug Interaction Relation Extraction Based on Deep Learning: A Review. - Mingliang Dou; Jijun Tang; Prayag Tiwari; Yijie Ding; Fei Guo 001 (ACM Comput. Surv., 2024)

Fuzzy Neural Tangent Kernel Model for Identifying DNA N4-Methylcytosine Sites. - Yijie Ding; Prayag Tiwari; Fei Guo 001; Quan Zou 001; Weiping Ding 001 (IEEE Trans. Fuzzy Syst., 2024)

SeqAlignXGBoost: Sequence Alignment and Feature Selection for m1A Modification Site Identification. - Yizheng Wang; Yijie Ding; Quan Zou 001 (ICIC (28), 2025)

EDDINet: Enhancing drug-drug interaction prediction via information flow and consensus constrained multi-graph contrastive learning. - Hong Wang 015; Luhe Zhuang; Yijie Ding; Prayag Tiwari; Cheng Liang 001 (Artif. Intell. Medicine, 2025)

Multiple kernel-based fuzzy system for identifying enhancers. - Zhichao Xiao; Yijie Ding; Liang Yu (Expert Syst. Appl., 2025)

A survey on multi-view fusion for predicting links in biomedical bipartite networks: Methods and applications. - Yuqing Qian; Yizheng Wang; Junkai Liu; Quan Zou 001; Yijie Ding; Xiaoyi Guo; Weiping Ding 001 (Inf. Fusion, 2025)

Beyond ST-246: Unveiling Potential Inhibitors Targeting VP37 Protein in Silico From Herb and Marine Databases. - Runhua Zhang; Xin Zhang 103; Shulin Zhao 003; Quan Zou 001; Yijie Ding; Xiaoyi Guo; Hongjie Wu (J. Comput. Chem., 2025)

Structured Sparse Regularization-Based Deep Fuzzy Networks for RNA N6-Methyladenosine Sites Prediction. - Leyao Wang; Yuqing Qian; Hao Xie; Yijie Ding; Fei Guo 001 (IEEE Trans. Fuzzy Syst., 2025)