Leyi Wei - RankMe

146 papers A* 1B 1Journal 136Unranked 8

Year	Rank	Type	Title / Venue / Authors
2026	J	`jnl`	A Multi-Modal Contrastive Learning Framework for Cyclic Peptide Permeability Prediction. IEEE Trans. Comput. Biol. Bioinform. Shuwen Xiong, Feifei Cui, Zilong Zhang, Rao Zeng, Ran Su, Leyi Wei
2026	J	`jnl`	CNNCaps-DBP: Leveraging protein language models with attention-augmented convolution for DNA-binding protein prediction. Neural Networks Ziyuan Yan, Aoyun Geng, Yazi Li, Jiajing Wang, Junlin Xu, Yajie Meng, Leyi Wei, Quan Zou, Zilong Zhang, Feifei Cui
2026	J	`jnl`	DeepNhKcr: Explainable Deep Learning Framework for the Prediction of Crotonylation Sites of Non-Histone Lysine in Plants Based on Pre-Trained Protein Language Model. IEEE Trans. Comput. Biol. Bioinform. Jinwei Wang, Zhenjie Luo, Aoyun Geng, Junlin Xu, Yajie Meng, Shankai Yan, Leyi Wei, Zilong Zhang, Qingchen Zhang, Quan Zou, Feifei Cui
2026	J	`jnl`	DeepR2OM: Accurate Recognition for RNA 2′-O-Methylation Sites in Human Genome Using Deep Learning. IEEE Trans. Comput. Biol. Bioinform. Jiahao Yuan, Shun Gao, Ziyuan Yan, Feifei Cui, Leyi Wei, Qingchen Zhang, Quan Zou, Zilong Zhang
2026	J	`jnl`	DiffuScope: A diffusion-regularized autoencoder for spatial transcriptomic clustering. Comput. Biol. Chem. Hua Shi, Ding Yi, Yang Cui, Ruheng Wang, Yan Li, Chunyan Ao, Ruihua Guo, Weihang Zhang, Tao Peng, Yuying Le, Yaxuan Cui, Leyi Wei
2026	J	`jnl`	MFDL-DDI: An effective deep learning-based framework for predicting drug-drug interactions through multimodal information fusion. Pattern Recognit. Yan Xia, Yazi Li, Shuting Jin, Junlin Xu, Yajie Meng, Leyi Wei, Zilong Zhang, Xin Gao, Feifei Cui
2026	J	`jnl`	PepGraphormer: an ESM-GAT hybrid deep learning framework for antimicrobial peptide prediction. J. Cheminformatics Changhang Lin, Shuwen Xiong, Jinjin Li, Feifei Cui, Zilong Zhang, Hua Shi, Leyi Wei
2026	J	`jnl`	Protein Solubility Prediction Using Fused Graph Convolutional Networks and Improved Attention Networks with AlphaFold3-Derived Features. J. Chem. Inf. Model. Guanjie Song, Zhenjie Luo, Aoyun Geng, Junlin Xu, Yajie Meng, Feifei Cui, Leyi Wei, Quan Zou, Zilong Zhang
2026	J	`jnl`	SHAPE: Structure-aware Hierarchical Unsupervised Domain Adaptation with Plausibility Evaluation for Medical Image Segmentation. CoRR Linkuan Zhou, Yinghao Xia, Yufei Shen, Xiangyu Li, Wenjie Du, Cong Cong, Leyi Wei, Ran Su, Qiangguo Jin
2026	J	`jnl`	TK-DDI: Accurate and efficient drug-drug interaction prediction via token encoding. Comput. Biol. Chem. Yue Cheng, Jianbo Qiao, Siqi Chen, Leyi Wei, Guangmin Liang
2026	A*	`conf`	TRACE: Transformation-Aware Graph Refinement for Reaction Condition Prediction. AAAI Yujie Chen, Tengfei Ma, Yuansheng Liu, Leyi Wei, Shu Wu, Dongsheng Cao, Yiping Liu, Xiangxiang Zeng
2025	J	`jnl`	A Multi-Objective Comprehensive Framework for Predicting Protein-Peptide Interactions and Binding Residues. IEEE J. Biomed. Health Informatics Ruheng Wang, Xuetong Yang, Chao Pang, Leyi Wei
2025	J	`jnl`	ACP-CLB: An Anticancer Peptide Prediction Model Based on Multichannel Discriminative Processing and Integration of Large Pretrained Protein Language Models. J. Chem. Inf. Model. Aoyun Geng, Zhenjie Luo, Aohan Li, Zilong Zhang, Quan Zou, Leyi Wei, Feifei Cui
2025	—	`conf`	ADSA-Net: Addressing Intra- and Inter-Class Variabilities for Severity Assessment of Atopic Dermatitis. BIBM Qiangguo Jin, Xurong Chen, Hui Cui, Changming Sun, Youpeng Deng, Cong Cong, Yuqi Fang, Ran Su, Leyi Wei, Xiaoqing Zhao
2025	J	`jnl`	AFPDeepPred: A Deep Learning Framework for Accurate Identification of Antifreeze Proteins. J. Chem. Inf. Model. Xingqiao Lin, Jiahui Guan, Feng Wang, Peilin Xie, Yiyang Zhao, Zhihao Zhao, Mingyi Xiang, Leyi Wei, Xiangrong Liu, Tzong-Yi Lee, Ying-Chih Chiang, Junwen Wang, Lantian Yao
2025	J	`jnl`	AVP-HNCL: Innovative Contrastive Learning with a Queue-Based Negative Sampling Strategy for Dual-Phase Antiviral Peptide Prediction. J. Chem. Inf. Model. Yuanhao Li, Aoyun Geng, Zheyu Zhou, Feifei Cui, Junlin Xu, Yajie Meng, Leyi Wei, Quan Zou, Qingchen Zhang, Zilong Zhang
2025	J	`jnl`	AcidProNet: Acidophilic Protein Classification via DCGAN-GP-Based Data Augmentation and Parameter-Shared Mixture-of-Experts Transformer. J. Chem. Inf. Model. Jiaxing Song, Aoyun Geng, Qianmao Wen, Junlin Xu, Yajie Meng, Feifei Cui, Quan Zou, Leyi Wei, Zilong Zhang
2025	J	`jnl`	BFGTP: A BERT-Guided Two-Stage Molecular Representation Learning Framework for Toxicity Prediction. IEEE J. Biomed. Health Informatics Kaimiao Hu, Yuan He, Jianguo Wei, Changming Sun, Jie Geng, Leyi Wei, Ran Su
2025	J	`jnl`	CMI-MTL: Cross-Mamba interaction based multi-task learning for medical visual question answering. CoRR Qiangguo Jin, Xianyao Zheng, Hui Cui, Changming Sun, Yuqi Fang, Cong Cong, Ran Su, Leyi Wei, Ping Xuan, Junbo Wang
2025	J	`jnl`	Deep Learning in Antimicrobial Peptide Prediction. J. Chem. Inf. Model. Changhang Lin, Shuwen Xiong, Feifei Cui, Zilong Zhang, Hua Shi, Leyi Wei
2025	J	`jnl`	DeepDR: an integrated deep-learning model web server for drug repositioning. CoRR Shuting Jin, Yi Jiang, Yimin Liu, Tengfei Ma, Dong-Sheng Cao, Leyi Wei, Xiangrong Liu, Xiangxiang Zeng
2025	J	`jnl`	DeepMaT: Prediction of Target Peptide Classification and Cleavage Site by Combining Mamba2 and Multiple Attention Mechanisms. J. Chem. Inf. Model. Qianmao Wen, Aoyun Geng, Junlin Xu, Yajie Meng, Leyi Wei, Zilong Zhang, Quan Zou, Feifei Cui
2025	J	`jnl`	ERSR: An Ellipse-constrained pseudo-label refinement and symmetric regularization framework for semi-supervised fetal head segmentation in ultrasound images. CoRR Linkuan Zhou, Zhexin Chen, Yufei Shen, Junlin Xu, Ping Xuan, Yixin Zhu, Yuqi Fang, Cong Cong, Leyi Wei, Ran Su, Jia Zhou, Qiangguo Jin
2025	J	`jnl`	Elucidating spatiotemporal chromatin dynamics with multi-stage differential variations from Hi-C. Knowl. Based Syst. Zhongshen Li, Jixiang Yu, Shen You, Leyi Wei, Qiuzhen Lin, Xiangtao Li, Ka-Chun Wong
2025	J	`jnl`	GCNLA: Inferring Cell-Cell Interactions From Spatial Transcriptomics With Long Short-Term Memory and Graph Convolutional Networks. IEEE J. Biomed. Health Informatics Chao Yang, Xiuhao Fu, Zhenjie Luo, Leyi Wei, Jingbing Li, Feifei Cui, Quan Zou, Qingchen Zhang, Zilong Zhang
2025	J	`jnl`	GICL: A Cross-Modal Drug Property Prediction Framework Based on Knowledge Enhancement of Large Language Models. J. Chem. Inf. Model. Na Li, Jianbo Qiao, Fei Gao, Yanling Wang, Hua Shi, Zilong Zhang, Feifei Cui, Lichao Zhang, Leyi Wei
2025	J	`jnl`	Guest Editorial: Large Language Models With Applications in Bioinformatics and Biomedicine. IEEE J. Biomed. Health Informatics Quan Zou, Limin Jiang, Leyi Wei
2025	J	`jnl`	Integrating Protein Language Models and Geometric Deep Learning for Peptide Toxicity Prediction. J. Chem. Inf. Model. Yanling Wang, Na Li, Xiao Wang, Feng Cao, Shuwen Xiong, Leyi Wei
2025	J	`jnl`	Iterative clustering algorithm G-DESC-E and pan-cancer key gene analysis based on single-cell sequencing data. Briefings Bioinform. Ke Wu, Changming Sun, Jie Geng, Ping Wang, Qi Dai, Leyi Wei, Ran Su
2025	J	`jnl`	Iterative pseudo-labeling based adaptive copy-paste supervision for semi-supervised tumor segmentation. CoRR Qiangguo Jin, Hui Cui, Junbo Wang, Changming Sun, Yimiao He, Ping Xuan, Linlin Wang, Cong Cong, Leyi Wei, Ran Su
2025	J	`jnl`	Iterative pseudo-labeling based adaptive copy-paste supervision for semi-supervised tumor segmentation. Knowl. Based Syst. Qiangguo Jin, Hui Cui, Junbo Wang, Changming Sun, Yimiao He, Ping Xuan, Linlin Wang, Cong Cong, Leyi Wei, Ran Su
2025	J	`jnl`	MC-MSTLoc: Self-Supervised Pre-Training for Imbalanced Multi-Label Protein Subcellular Localization Prediction Using Immunofluorescence Images. IEEE Trans. Comput. Biol. Bioinform. Fengsheng Wang, Jianbo Qiao, Xu Guo, Leyi Wei
2025	J	`jnl`	MCAMEF-BERT: an efficient deep learning method for RNA N7-methylguanosine site prediction via multi-branch feature integration. Briefings Bioinform. Junlei Yu, Wenjia Gao, Siqi Chen, Ronglin Lu, Jianbo Qiao, Junru Jin, Leyi Wei, Hua Shi, Zilong Zhang, Feifei Cui, Xinbo Jiang, Zhongmin Yan
2025	J	`jnl`	Molecular pretraining models towards molecular property prediction. Sci. China Inf. Sci. Jianbo Qiao, Wenjia Gao, Junru Jin, Ding Wang, Xu Guo, Balachandran Manavalan, Leyi Wei
2025	J	`jnl`	Multi-Modal Deep Representation Learning Accurately Identifies and Interprets Drug-Target Interactions. IEEE J. Biomed. Health Informatics Jiayue Hu, Yuhang Liu, Xiangxiang Zeng, Quan Zou, Ran Su, Leyi Wei
2025	J	`jnl`	Multiview Deep Learning-Based Molecule Design and Structural Optimization Accelerates Inhibitor Discover. IEEE Trans. Neural Networks Learn. Syst. Chao Pang, Yu Wang, Yi Jiang, Ruheng Wang, Xiaojun Yao, Quan Zou, Xiangxiang Zeng, Ran Su, Leyi Wei
2025	J	`jnl`	NeuroPred-AIMP: Multimodal Deep Learning for Neuropeptide Prediction via Protein Language Modeling and Temporal Convolutional Networks. J. Chem. Inf. Model. Jinjin Li, Shuwen Xiong, Hua Shi, Feifei Cui, Zilong Zhang, Leyi Wei
2025	J	`jnl`	PKDF-Net: Anticancer peptide prediction via a prior-knowledge-aware dual-path feature-entangled network. Eng. Appl. Artif. Intell. Qiangguo Jin, Ankang Wu, Leyi Wei, Hui Cui, Ping Xuan, Xikang Feng, Ran Su
2025	J	`jnl`	PLM-IL4: Enhancing IL-4-inducing peptide prediction with protein language model. Comput. Biol. Chem. Ruiqi Liu, Shankai Yan, Zilong Zhang, Junlin Xu, Yajie Meng, Qingchen Zhang, Leyi Wei, Quan Zou, Feifei Cui
2025	J	`jnl`	ProjFusNet: deep neural network for peptide precursor prediction using projection-fused protein language model and structural features. J. Cheminformatics Jinjin Li, Fang Fang, Changhang Lin, Hua Shi, Feifei Cui, Zilong Zhang, Leyi Wei
2025	J	`jnl`	Synergizing multimodal data and fingerprint space exploration for mechanism of action prediction. Bioinform. Kaimiao Hu, Jianguo Wei, Changming Sun, Jie Geng, Leyi Wei, Qi Dai, Ran Su
2025	J	`jnl`	TCN-RDP: Predicting Drug-Induced Liver Injury from Time-Series Toxicogenomic Data. J. Chem. Inf. Model. Zhongyan Zhao, Bin Li, Haochen Zuo, Ruibing Chen, Rui Deng, Jie Geng, Changming Sun, Leyi Wei, Mingxiao Lang, Ran Su
2025	J	`jnl`	Taco-DDI: accurate prediction of drug-drug interaction events using graph transformer-based architecture and dynamic co-attention matrices. Neural Networks Jianbo Qiao, Xu Guo, Junru Jin, Ding Wang, Kefei Li, Wenjia Gao, Feifei Cui, Zilong Zhang, Hua Shi, Leyi Wei
2025	J	`jnl`	UMPPI: Unveiling Multilevel Protein-Peptide Interaction Prediction via Language Models. J. Chem. Inf. Model. Shuwen Xiong, Jiajie Cai, Hua Shi, Feifei Cui, Zilong Zhang, Leyi Wei
2025	J	`jnl`	m5U-HybridNet: Integrating an RNA Foundation Model with CNN Features for Accurate Prediction of 5-Methyluridine Modification Sites. J. Chem. Inf. Model. Xinyu Li, Zhenjie Luo, Jingwei Lv, Chao Yang, Shankai Yan, Junlin Xu, Yajie Meng, Leyi Wei, Zilong Zhang, Quan Zou, Feifei Cui
2025	J	`jnl`	xBitterT5: an explainable transformer-based framework with multimodal inputs for identifying bitter-taste peptides. J. Cheminformatics Nguyen Doan Hieu Nguyen, Nhat Truong Pham, Duong Thanh Tran, Leyi Wei, Adeel Malik, Balachandran Manavalan
2024	J	`jnl`	AttenSyn: An Attention-Based Deep Graph Neural Network for Anticancer Synergistic Drug Combination Prediction. J. Chem. Inf. Model. Tianshuo Wang, Ruheng Wang, Leyi Wei
2024	J	`jnl`	CACPP: A Contrastive Learning-Based Siamese Network to Identify Anticancer Peptides Based on Sequence Only. J. Chem. Inf. Model. Xuetong Yang, Junru Jin, Ruheng Wang, Zhongshen Li, Yu Wang, Leyi Wei
2024	J	`jnl`	CELA-MFP: a contrast-enhanced and label-adaptive framework for multi-functional therapeutic peptides prediction. Briefings Bioinform. Yitian Fang, Mingshuang Luo, Zhixiang Ren, Leyi Wei, Dong-Qing Wei
2024	J	`jnl`	Deep Generative Models in J. Chem. Inf. Model. Chao Pang, Jianbo Qiao, Xiangxiang Zeng, Quan Zou, Leyi Wei
2024	J	`jnl`	Inter- and intra-uncertainty based feature aggregation model for semi-supervised histopathology image segmentation. CoRR Qiangguo Jin, Hui Cui, Changming Sun, Yang Song, Jiangbin Zheng, Leilei Cao, Leyi Wei, Ran Su
2024	J	`jnl`	Inter- and intra-uncertainty based feature aggregation model for semi-supervised histopathology image segmentation. Expert Syst. Appl. Qiangguo Jin, Hui Cui, Changming Sun, Yang Song, Jiangbin Zheng, Leilei Cao, Leyi Wei, Ran Su
2024	—	`conf`	Location Embedding Based Pairwise Distance Learning for Fine-Grained Diagnosis of Urinary Stones. MICCAI (11) Qiangguo Jin, Jiapeng Huang, Changming Sun, Hui Cui, Ping Xuan, Ran Su, Leyi Wei, Yu-Jie Wu, Chia-An Wu, Henry B. L. Duh, Yueh-Hsun Lu
2024	J	`jnl`	Location embedding based pairwise distance learning for fine-grained diagnosis of urinary stones. CoRR Qiangguo Jin, Jiapeng Huang, Changming Sun, Hui Cui, Ping Xuan, Ran Su, Leyi Wei, Yu-Jie Wu, Chia-An Wu, Henry B. L. Duh, Yueh-Hsun Lu
2024	—	`conf`	MSKI-Net: Towards modality-specific knowledge interaction for glioma survival prediction. BIBM Ran Su, Jin Xiao, Hui Cui, Ping Xuan, Xikang Feng, Leyi Wei, Qiangguo Jin
2024	J	`jnl`	Moss-m7G: A Motif-Based Interpretable Deep Learning Method for RNA N7-Methlguanosine Site Prediction. J. Chem. Inf. Model. Yanxi Zhao, Junru Jin, Wenjia Gao, Jianbo Qiao, Leyi Wei
2024	J	`jnl`	MucLiPred: Multi-Level Contrastive Learning for Predicting Nucleic Acid Binding Residues of Proteins. J. Chem. Inf. Model. Jiashuo Zhang, Ruheng Wang, Leyi Wei
2024	J	`jnl`	Multi-CGAN: Deep Generative Model-Based Multiproperty Antimicrobial Peptide Design. J. Chem. Inf. Model. Haoqing Yu, Ruheng Wang, Jianbo Qiao, Leyi Wei
2024	J	`jnl`	NanoCon: contrastive learning-based deep hybrid network for nanopore methylation detection. Bioinform. Chenglin Yin, Ruheng Wang, Jianbo Qiao, Hua Shi, Hongliang Duan, Xinbo Jiang, Saisai Teng, Leyi Wei
2024	J	`jnl`	StructuralDPPIV: a novel deep learning model based on atom structure for predicting dipeptidyl peptidase-IV inhibitory peptides. Bioinform. Ding Wang, Junru Jin, Zhongshen Li, Yu Wang, Mushuang Fan, Sirui Liang, Ran Su, Leyi Wei
2024	J	`jnl`	Therapeutic peptides identification via kernel risk sensitive loss-based k-nearest neighbor model and multi-Laplacian regularization. Briefings Bioinform. Wenyu Zhang, Yijie Ding, Leyi Wei, Xiaoyi Guo, Fengming Ni
2024	J	`jnl`	Towards retraining-free RNA modification prediction with incremental learning. Inf. Sci. Jianbo Qiao, Junru Jin, Haoqing Yu, Leyi Wei
2023	J	`jnl`	A general hypergraph learning algorithm for drug multi-task predictions in micro-to-macro biomedical networks. PLoS Comput. Biol. Shuting Jin, Yue Hong, Li Zeng, Yinghui Jiang, Yuan Lin, Leyi Wei, Zhuohang Yu, Xiangxiang Zeng, Xiangrong Liu
2023	J	`jnl`	AFP-MFL: accurate identification of antifungal peptides using multi-view feature learning. Briefings Bioinform. Yitian Fang, Fan Xu, Lesong Wei, Yi Jiang, Jie Chen, Leyi Wei, Dong-Qing Wei
2023	J	`jnl`	Advanced deep learning methods for molecular property prediction. Quant. Biol. Chao Pang, Henry H. Y. Tong, Leyi Wei
2023	J	`jnl`	ConPep: Prediction of peptide contact maps with pre-trained biological language model and multi-view feature extracting strategy. Comput. Biol. Medicine Qingxin Wei, Ruheng Wang, Yi Jiang, Leyi Wei, Yu Sun, Jie Geng, Ran Su
2023	J	`jnl`	CoraL: interpretable contrastive meta-learning for the prediction of cancer-associated ncRNA-encoded small peptides. Briefings Bioinform. Zhongshen Li, Junru Jin, Wenjia He, Wentao Long, Haoqing Yu, Xin Gao, Kenta Nakai, Quan Zou, Leyi Wei
2023	J	`jnl`	DeepProSite: structure-aware protein binding site prediction using ESMFold and pretrained language model. Bioinform. Yitian Fang, Yi Jiang, Leyi Wei, Qin Ma, Zhixiang Ren, Qianmu Yuan, Dong-Qing Wei
2023	J	`jnl`	DrugormerDTI: Drug Graphormer for drug-target interaction prediction. Comput. Biol. Medicine Jiayue Hu, Yu Wang, Chao Pang, Junru Jin, Nhat Truong Pham, Balachandran Manavalan, Leyi Wei
2023	J	`jnl`	ExamPle: explainable deep learning framework for the prediction of plant small secreted peptides. Bioinform. Zhongshen Li, Junru Jin, Yu Wang, Wentao Long, Yuanhao Ding, Haiyan Hu, Leyi Wei
2023	J	`jnl`	MPI-VGAE: protein-metabolite enzymatic reaction link learning by variational graph autoencoders. Briefings Bioinform. Cheng Wang, Chuang Yuan, Yahui Wang, Ranran Chen, Yuying Shi, Tao Zhang, Fuzhong Xue, Gary J. Patti, Leyi Wei, Qingzhen Hou
2023	J	`jnl`	MolCAP: Molecular Chemical reActivity Pretraining and prompted-finetuning enhanced molecular representation learning. Comput. Biol. Medicine Yu Wang, Jingjie Zhang, Junru Jin, Leyi Wei
2023	J	`jnl`	MolCAP: Molecular Chemical reActivity pretraining and prompted-finetuning enhanced molecular representation learning. CoRR Yu Wang, Jingjie Zhang, Junru Jin, Leyi Wei
2023	J	`jnl`	MolFPG: Multi-level fingerprint-based Graph Transformer for accurate and robust drug toxicity prediction. Comput. Biol. Medicine Saisai Teng, Chenglin Yin, Yu Wang, Xiandong Chen, Zhongmin Yan, Lizhen Cui, Leyi Wei
2023	—	`conf`	Multi-modality Contrastive Learning for Sarcopenia Screening from Hip X-rays and Clinical Information. MICCAI (6) Qiangguo Jin, Changjiang Zou, Hui Cui, Changming Sun, Shu-Wei Huang, Yi-Jie Kuo, Ping Xuan, Leilei Cao, Ran Su, Leyi Wei, Henry B. L. Duh, Yu-Pin Chen
2023	J	`jnl`	PLPMpro: Enhancing promoter sequence prediction with prompt-learning based pre-trained language model. Comput. Biol. Medicine Zhongshen Li, Junru Jin, Wentao Long, Leyi Wei
2023	J	`jnl`	Rm-LR: A long-range-based deep learning model for predicting multiple types of RNA modifications. Comput. Biol. Medicine Sirui Liang, Yanxi Zhao, Junru Jin, Jianbo Qiao, Ding Wang, Yu Wang, Leyi Wei
2023	—	`conf`	Shape-aware contrastive deep supervision for esophageal tumor segmentation from CT scans. BIBM Qiangguo Jin, Hui Cui, Changming Sun, Jiapeng Huang, Ping Xuan, Yiyue Xu, Linlin Wang, Leilei Cao, Leyi Wei, Ran Su
2023	J	`jnl`	SiameseCPP: a sequence-based Siamese network to predict cell-penetrating peptides by contrastive learning. Briefings Bioinform. Xin Zhang, Lesong Wei, Xiucai Ye, Kai Zhang, Saisai Teng, Zhongshen Li, Junru Jin, Min Jae Kim, Tetsuya Sakurai, Lizhen Cui, Balachandran Manavalan, Leyi Wei
2022	J	`jnl`	A multi-label learning model for predicting drug-induced pathology in multi-organ based on toxicogenomics data. PLoS Comput. Biol. Ran Su, Haitang Yang, Leyi Wei, Siqi Chen, Quan Zou
2022	J	`jnl`	Accelerating bioactive peptide discovery via mutual information-based meta-learning. Briefings Bioinform. Wenjia He, Yi Jiang, Junru Jin, Zhongshen Li, Jiaojiao Zhao, Balachandran Manavalan, Ran Su, Xin Gao, Leyi Wei
2022	J	`jnl`	Deep convolutional neural networks with ensemble learning and transfer learning for automated detection of gastrointestinal diseases. Comput. Biol. Medicine Qiaosen Su, Fengsheng Wang, Dong Chen, Gang Chen, Chao Li, Leyi Wei
2022	J	`jnl`	Distant metastasis identification based on optimized graph representation of gene interaction patterns. Briefings Bioinform. Ran Su, Yingying Zhu, Quan Zou, Leyi Wei
2022	J	`jnl`	EOCSA: Predicting Prognosis of Epithelial Ovarian Cancer with Whole Slide Histopathological Images. CoRR Tianling Liu, Ran Su, Changming Sun, Xiuting Li, Leyi Wei
2022	J	`jnl`	EOCSA: Predicting prognosis of Epithelial ovarian cancer with whole slide histopathological images. Expert Syst. Appl. Tianling Liu, Ran Su, Changming Sun, Xiuting Li, Leyi Wei
2022	J	`jnl`	GSAML-DTA: An interpretable drug-target binding affinity prediction model based on graph neural networks with self-attention mechanism and mutual information. Comput. Biol. Medicine Jiaqi Liao, Haoyang Chen, Lesong Wei, Leyi Wei
2022	J	`jnl`	MSMG-Net: Multi-scale Multi-grained Supervised Metworks for Multi-task Image Manipulation Detection and Localization. CoRR Fengsheng Wang, Leyi Wei
2022	J	`jnl`	MechRetro is a chemical-mechanism-driven graph learning framework for interpretable retrosynthesis prediction and pathway planning. CoRR Yu Wang, Chao Pang, Yuzhe Wang, Yi Jiang, Junru Jin, Sirui Liang, Quan Zou, Leyi Wei
2022	J	`jnl`	Multi-scale deep learning for the imbalanced multi-label protein subcellular localization prediction based on immunohistochemistry images. Bioinform. Fengsheng Wang, Leyi Wei
2022	J	`jnl`	Multi-view deep learning based molecule design and structural optimization accelerates the SARS-CoV-2 inhibitor discovery. CoRR Chao Pang, Yu Wang, Yi Jiang, Ruheng Wang, Ran Su, Leyi Wei
2022	J	`jnl`	PESA-Net: Permutation-Equivariant Split Attention Network for correspondence learning. Inf. Fusion Zhen Zhong, Guobao Xiao, Shiping Wang, Leyi Wei, Xiaoqin Zhang
2022	J	`jnl`	Predicting protein-peptide binding residues via interpretable deep learning. Bioinform. Ruheng Wang, Junru Jin, Quan Zou, Kenta Nakai, Leyi Wei
2022	J	`jnl`	Recent Advances in the Prediction of Subcellular Localization of Proteins and Related Topics. Frontiers Bioinform. Kenta Nakai, Leyi Wei
2022	J	`jnl`	Robust Feature Matching for Remote Sensing Image Registration via Guided Hyperplane Fitting. IEEE Trans. Geosci. Remote. Sens. Guobao Xiao, Huan Luo, Kun Zeng, Leyi Wei, Jiayi Ma
2022	J	`jnl`	SRDFM: Siamese Response Deep Factorization Machine to improve anti-cancer drug recommendation. Briefings Bioinform. Ran Su, Yixuan Huang, De-gan Zhang, Guobao Xiao, Leyi Wei
2022	—	`conf`	Semi-supervised Histological Image Segmentation via Hierarchical Consistency Enforcement. MICCAI (2) Qiangguo Jin, Hui Cui, Changming Sun, Jiangbin Zheng, Leyi Wei, Zhenyu Fang, Zhaopeng Meng, Ran Su
2022	J	`jnl`	StackTADB: a stacking-based ensemble learning model for predicting the boundaries of topologically associating domains (TADs) accurately in fruit flies. Briefings Bioinform. Hao Wu, Pengyu Zhang, Zhaoheng Ai, Leyi Wei, Hongming Zhang, Fan Yang, Lizhen Cui
2022	J	`jnl`	ToxIBTL: prediction of peptide toxicity based on information bottleneck and transfer learning. Bioinform. Lesong Wei, Xiucai Ye, Tetsuya Sakurai, Zengchao Mu, Leyi Wei
2021	J	`jnl`	ATSE: a peptide toxicity predictor by exploiting structural and evolutionary information based on graph neural network and attention mechanism. Briefings Bioinform. Lesong Wei, Xiucai Ye, Yuyang Xue, Tetsuya Sakurai, Leyi Wei
2021	J	`jnl`	Classification and gene selection of triple-negative breast cancer subtype embedding gene connectivity matrix in deep neural network. Briefings Bioinform. Jin Liu, Ran Su, Jiahang Zhang, Leyi Wei
2021	J	`jnl`	Computational prediction and interpretation of cell-specific replication origin sites from multiple eukaryotes by exploiting stacking framework. Briefings Bioinform. Leyi Wei, Wenjia He, Adeel Malik, Ran Su, Lizhen Cui, Balachandran Manavalan
2021	J	`jnl`	Domain adaptation based self-correction model for COVID-19 infection segmentation in CT images. CoRR Qiangguo Jin, Hui Cui, Changming Sun, Zhaopeng Meng, Leyi Wei, Ran Su
2021	J	`jnl`	Domain adaptation based self-correction model for COVID-19 infection segmentation in CT images. Expert Syst. Appl. Qiangguo Jin, Hui Cui, Changming Sun, Zhaopeng Meng, Leyi Wei, Ran Su
2021	J	`jnl`	EP3: an ensemble predictor that accurately identifies type III secreted effectors. Briefings Bioinform. Jing Li, Leyi Wei, Fei Guo, Quan Zou
2021	J	`jnl`	FEGS: a novel feature extraction model for protein sequences and its applications. BMC Bioinform. Zengchao Mu, Ting Yu, Xiaoping Liu, Hongyu Zheng, Leyi Wei, Juntao Liu
2021	J	`jnl`	IEEE Access Special Section Editorial: Feature Representation and Learning Methods With Applications in Large-Scale Biological Sequence Analysis. IEEE Access Feifei Cui, Quan Zou, Qin Ma, Leyi Wei, Jijun Tang, Dariusz Mrozek
2021	J	`jnl`	Identification of glioblastoma molecular subtype and prognosis based on deep MRI features. Knowl. Based Syst. Ran Su, Xiaoying Liu, Qiangguo Jin, Xiaofeng Liu, Leyi Wei
2021	J	`jnl`	Integrative machine learning framework for the identification of cell-specific enhancers from the human genome. Briefings Bioinform. Shaherin Basith, Md. Mehedi Hasan, Gwang Lee, Leyi Wei, Balachandran Manavalan
2021	J	`jnl`	Iterative feature representation algorithm to improve the predictive performance of N7-methylguanosine sites. Briefings Bioinform. Chichi Dai, Pengmian Feng, Lizhen Cui, Ran Su, Wei Chen, Leyi Wei
2021	J	`jnl`	Learning embedding features based on multisense-scaled attention architecture to improve the predictive performance of anticancer peptides. Bioinform. Wenjia He, Yu Wang, Lizhen Cui, Ran Su, Leyi Wei
2021	J	`jnl`	PSSP-MVIRT: peptide secondary structure prediction based on a multi-view deep learning architecture. Briefings Bioinform. Xiao Cao, Wenjia He, Zitan Chen, Yifan Li, Kexin Wang, Hongbo Zhang, Lesong Wei, Lizhen Cui, Ran Su, Leyi Wei
2021	J	`jnl`	Predicting drug-induced hepatotoxicity based on biological feature maps and diverse classification strategies. Briefings Bioinform. Ran Su, Huichen Wu, Xinyi Liu, Leyi Wei
2021	J	`jnl`	Protein subcellular localization based on deep image features and criterion learning strategy. Briefings Bioinform. Ran Su, Linlin He, Tianling Liu, Xiaofeng Liu, Leyi Wei
2021	J	`jnl`	iDNA-ABT: advanced deep learning model for detecting DNA methylation with adaptive features and transductive information maximization. Bioinform. Yingying Yu, Wenjia He, Junru Jin, Guobao Xiao, Lizhen Cui, Rao Zeng, Leyi Wei
2020	J	`jnl`	ACPred-Fuse: fusing multi-view information improves the prediction of anticancer peptides. Briefings Bioinform. Bing Rao, Chen Zhou, Guoying Zhang, Ran Su, Leyi Wei
2020	J	`jnl`	CPPred-FL: a sequence-based predictor for large-scale identification of cell-penetrating peptides by feature representation learning. Briefings Bioinform. Xiaoli Qiang, Chen Zhou, Xiucai Ye, Pufeng Du, Ran Su, Leyi Wei
2020	J	`jnl`	Comparative analysis and prediction of quorum-sensing peptides using feature representation learning and machine learning algorithms. Briefings Bioinform. Leyi Wei, Jie Hu, Fuyi Li, Jiangning Song, Ran Su, Quan Zou
2020	J	`jnl`	Empirical comparison and analysis of web-based cell-penetrating peptide prediction tools. Briefings Bioinform. Ran Su, Jie Hu, Quan Zou, Balachandran Manavalan, Leyi Wei
2020	J	`jnl`	Fusing convolutional neural network features with hand-crafted features for osteoporosis diagnoses. Neurocomputing Ran Su, Tianling Liu, Changming Sun, Qiangguo Jin, Rachid Jennane, Leyi Wei
2020	J	`jnl`	Identification of expression signatures for non-small-cell lung carcinoma subtype classification. Bioinform. Ran Su, Jiahang Zhang, Xiaofeng Liu, Leyi Wei
2020	J	`jnl`	Identifying enhancer-promoter interactions with neural network based on pre-trained DNA vectors and attention mechanism. Bioinform. Zengyan Hong, Xiangxiang Zeng, Leyi Wei, Xiangrong Liu
2020	J	`jnl`	Meta-GDBP: a high-level stacked regression model to improve anticancer drug response prediction. Briefings Bioinform. Ran Su, Xinyi Liu, Guobao Xiao, Leyi Wei
2020	J	`jnl`	MinE-RFE: determine the optimal subset from RFE by minimizing the subset-accuracy-defined energy. Briefings Bioinform. Ran Su, Xinyi Liu, Leyi Wei
2020	J	`jnl`	PRISMOID: a comprehensive 3D structure database for post-translational modifications and mutations with functional impact. Briefings Bioinform. Fuyi Li, Cunshuo Fan, Tatiana T. Marquez-Lago, André Leier, Jerico Nico De Leon Revote, Cangzhi Jia, Yan Zhu, Alexander Ian Smith, Geoffrey I. Webb, Quanzhong Liu, Leyi Wei, Jian Li, Jiangning Song
2019	J	`jnl`	DUNet: A deformable network for retinal vessel segmentation. Knowl. Based Syst. Qiangguo Jin, Zhaopeng Meng, Tuan D. Pham, Qi Chen, Leyi Wei, Ran Su
2019	J	`jnl`	Developing a Multi-Dose Computational Model for Drug-Induced Hepatotoxicity Prediction Based on Toxicogenomics Data. IEEE ACM Trans. Comput. Biol. Bioinform. Ran Su, Huichen Wu, Bo Xu, Xiaofeng Liu, Leyi Wei
2019	J	`jnl`	Discriminant Affinity Matrix for Deterministic Motion Trajectory Segmentation. IEEE Access Guobao Xiao, Kun Zeng, Leyi Wei, Tao Wang, Taotao Lai
2019	J	`jnl`	Exploring sequence-based features for the improved prediction of DNA N4-methylcytosine sites in multiple species. Bioinform. Leyi Wei, Shasha Luan, Luis Augusto Eijy Nagai, Ran Su, Quan Zou
2019	J	`jnl`	Fast Prediction of Protein Methylation Sites Using a Sequence-Based Feature Selection Technique. IEEE ACM Trans. Comput. Biol. Bioinform. Leyi Wei, Pengwei Xing, Gaotao Shi, Zhiliang Ji, Quan Zou
2019	—	`conf`	Identification and Prediction of Key Nucleotide Sites Using Machine Learning in Bioinformatics: A Brief Overview. ISPA/BDCloud/SocialCom/SustainCom Jianhua Cai, Leyi Wei, Kun Zeng, Guobao Xiao
2019	J	`jnl`	Integration of deep feature representations and handcrafted features to improve the prediction of N Neurocomputing Leyi Wei, Ran Su, Bing Wang, Xiuting Li, Quan Zou, Xing Gao
2019	J	`jnl`	Iterative feature representations improve N4-methylcytosine site prediction. Bioinform. Leyi Wei, Ran Su, Shasha Luan, Zhijun Liao, Balachandran Manavalan, Quan Zou, Xiaolong Shi
2019	—	`conf`	LncPred-IEL: A Long Non-coding RNA Prediction Method using Iterative Ensemble Learning. BIBM Yanzhen Xu, Xiaohan Zhao, Shuai Liu, Shichao Liu, Yanqing Niu, Wen Zhang, Leyi Wei
2019	J	`jnl`	PEPred-Suite: improved and robust prediction of therapeutic peptides using adaptive feature representation learning. Bioinform. Leyi Wei, Chen Zhou, Ran Su, Quan Zou
2019	J	`jnl`	mAHTPred: a sequence-based meta-predictor for improving the prediction of anti-hypertensive peptides using effective feature representation. Bioinform. Balachandran Manavalan, Shaherin Basith, Tae Hwan Shin, Leyi Wei, Gwang Lee
2018	J	`jnl`	ACPred-FL: a sequence-based predictor using effective feature representation to improve the prediction of anti-cancer peptides. Bioinform. Leyi Wei, Chen Zhou, Huangrong Chen, Jiangning Song, Ran Su
2018	J	`jnl`	DUNet: A deformable network for retinal vessel segmentation. CoRR Qiangguo Jin, Zhao-Peng Meng, Tuan D. Pham, Qi Chen, Leyi Wei, Ran Su
2018	B	`conf`	Encoded Texture Features to Characterize Bone Radiograph Images. ICPR Ran Su, Weijun Chen, Leyi Wei, Xiuting Li, Qiangguo Jin, Wenyuan Tao
2018	J	`jnl`	Prediction of human protein subcellular localization using deep learning. J. Parallel Distributed Comput. Leyi Wei, Yijie Ding, Ran Su, Jijun Tang, Quan Zou
2018	J	`jnl`	RA-UNet: A hybrid deep attention-aware network to extract liver and tumor in CT scans. CoRR Qiangguo Jin, Zhao-Peng Meng, Changming Sun, Leyi Wei, Ran Su
2017	J	`jnl`	A novel hierarchical selective ensemble classifier with bioinformatics application. Artif. Intell. Medicine Leyi Wei, Shixiang Wan, Jiasheng Guo, Kelvin Kian Loong Wong
2017	J	`jnl`	Improved prediction of protein-protein interactions using novel negative samples, features, and an ensemble classifier. Artif. Intell. Medicine Leyi Wei, Pengwei Xing, Jian-Cang Zeng, Jin-Xiu Chen, Ran Su, Fei Guo
2017	J	`jnl`	Local-DPP: An improved DNA-binding protein prediction method by exploring local evolutionary information. Inf. Sci. Leyi Wei, Jijun Tang, Quan Zou
2016	J	`jnl`	Exploring local discriminative information from evolutionary profiles for cytokine-receptor interaction prediction. Neurocomputing Leyi Wei, Bowen Zhang, Zhiyong Chen, Xing Gao, Minghong Liao
2016	J	`jnl`	mGOF-loc: A novel ensemble learning method for human protein subcellular localization prediction. Neurocomputing Leyi Wei, Minghong Liao, Xing Gao, Jingjing Wang, Weiqi Lin
2014	J	`jnl`	Improved and Promising Identificationof Human MicroRNAs by Incorporatinga High-Quality Negative Set. IEEE ACM Trans. Comput. Biol. Bioinform. Leyi Wei, Minghong Liao, Yue Gao, Rongrong Ji, Zengyou He, Quan Zou