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ORCIDWen Zhang 0008
Person information
- affiliation (since 2018): Huazhong Agricultural University, College of Informatics, Wuhan, China
- affiliation (2009-2018): Wuhan University, School of Computer Science, China
- affiliation (PhD 2009): Wuhan University, School of Computer Science, China
Other persons with the same name
- Wen Zhang — disambiguation page
- Wen Zhang 0001
![[0000-0002-6216-2262]](https://dblp1.uni-trier.de/img/orcid-mark.12x12.png "0000-0002-6216-2262")
— Beijing University of Chemical Technology, Research Center on Data Sciences, China (and 2 more) - Wen Zhang 0002 — Northwestern Polytechnical University, School of Marine Science and Technology, Xi'an, China (and 3 more)
- Wen Zhang 0003 — Chinese Center for Disease Control and Prevention, Beijing, China
- Wen Zhang 0004 — Tianjin University, State Key Laboratory of Precision Measurement Technology and Instrument, China
- Wen Zhang 0005 — Chinese Academy of Sciences, LAPC, Institute of Atmospheric Physics, Beijing, China
- Wen Zhang 0006 — Shandong University, Key Laboratory of Power System Intelligent Dispatch and Control, Jinan, China
- Wen Zhang 0007 — Wuhan University, School of Geodesy and Geomatics, China (and 1 more)
- Wen Zhang 0009 — Tencent Technology (Beijing) Co., Ltd., China (and 1 more)
- Wen Zhang 0010 — Arizona State University, Tempe, AZ, USA
- Wen Zhang 0011 — Wuhan University, School of Remote Sensing and Information Engineering, Wuhan, China (and 2 more)
- Wen Zhang 0012 — University of Waterloo, Waterloo, ON, Canada
- Wen Zhang 0013 — Hunan University of Technology and Business, Changsha, Hunan, China (and 1 more)
- Wen Zhang 0014 — University of Bristol, UK (and 3 more)
- Wen Zhang 0015 — Zhejiang University, College of Computer Science and Technology, Hangzhou, China
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2020 – today
- 2024
[j50]Zishan Xu, Linlin Song, Shichao Liu, Wen Zhang:
DeepCRBP: improved predicting function of circRNA-RBP binding sites with deep feature learning. Frontiers Comput. Sci. 18(2): 182907 (2024)- [j49]Yuhang Xia, Yongkang Wang, Zhiwei Wang, Wen Zhang:
A comprehensive review of molecular optimization in artificial intelligence-based drug discovery. Quant. Biol. 12(1): 15-29 (2024) - [j48]Xinyue Li, Zhankun Xiong, Wen Zhang, Shichao Liu:
Deep learning for drug-drug interaction prediction: A comprehensive review. Quant. Biol. 12(1): 30-52 (2024) - [c26]Yongkang Wang, Xuan Liu, Feng Huang, Zhankun Xiong, Wen Zhang:
A Multi-Modal Contrastive Diffusion Model for Therapeutic Peptide Generation. AAAI 2024: 3-11 - [i6]Zhengyi Li, Menglu Li, Lida Zhu, Wen Zhang:
Improving PTM Site Prediction by Coupling of Multi-Granularity Structure and Multi-Scale Sequence Representation. CoRR abs/2401.10211 (2024) - 2023
- [j47]Shen Han, Haitao Fu, Yuyang Wu, Ganglan Zhao, Zhenyu Song, Feng Huang, Zhongfei Zhang, Shichao Liu, Wen Zhang:
HimGNN: a novel hierarchical molecular graph representation learning framework for property prediction. Briefings Bioinform. 24(5) (2023) - [j46]Xuan Liu, Wen Zhang:
A subcomponent-guided deep learning method for interpretable cancer drug response prediction. PLoS Comput. Biol. 19(8) (2023) - [j45]Shichao Liu, Yang Zhang, Yuxin Cui, Yang Qiu, Yifan Deng, Zhongfei Zhang, Wen Zhang:
Enhancing Drug-Drug Interaction Prediction Using Deep Attention Neural Networks. IEEE ACM Trans. Comput. Biol. Bioinform. 20(2): 976-985 (2023) - [j44]Haitao Fu, Cecheng Zhao, Xiaohui Niu, Wen Zhang:
DRLM: A Robust Drug Representation Learning Method and its Applications. IEEE ACM Trans. Comput. Biol. Bioinform. 20(6): 3451-3460 (2023) - [c25]Zhankun Xiong, Shichao Liu, Feng Huang, Ziyan Wang, Xuan Liu, Zhongfei Zhang, Wen Zhang:
Multi-Relational Contrastive Learning Graph Neural Network for Drug-Drug Interaction Event Prediction. AAAI 2023: 5339-5347 - [c24]Luotao Liu, Feng Huang, Xuan Liu, Zhankun Xiong, Menglu Li, Congzhi Song, Wen Zhang:
Multi-view Contrastive Learning Hypergraph Neural Network for Drug-Microbe-Disease Association Prediction. IJCAI 2023: 4829-4837 - [i5]Yongkang Wang, Xuan Liu, Feng Huang, Zhankun Xiong, Wen Zhang:
A Multi-Modal Contrastive Diffusion Model for Therapeutic Peptide Generation. CoRR abs/2312.15665 (2023) - 2022
- [j43]Yifan Deng, Yang Qiu, Xinran Xu, Shichao Liu, Zhongfei Zhang, Shanfeng Zhu, Wen Zhang:
META-DDIE: predicting drug-drug interaction events with few-shot learning. Briefings Bioinform. 23(1) (2022) - [j42]Menglu Li, Wen Zhang:
PHIAF: prediction of phage-host interactions with GAN-based data augmentation and sequence-based feature fusion. Briefings Bioinform. 23(1) (2022) - [j41]Xuan Liu, Congzhi Song, Feng Huang, Haitao Fu, Wenjie Xiao, Wen Zhang:
GraphCDR: a graph neural network method with contrastive learning for cancer drug response prediction. Briefings Bioinform. 23(1) (2022) - [j40]Guangzhan Zhang, Menglu Li, Huan Deng, Xinran Xu, Xuan Liu, Wen Zhang:
SGNNMD: signed graph neural network for predicting deregulation types of miRNA-disease associations. Briefings Bioinform. 23(1) (2022) - [j39]Hongzhun Wang, Feng Huang, Zhankun Xiong, Wen Zhang:
A heterogeneous network-based method with attentive meta-path extraction for predicting drug-target interactions. Briefings Bioinform. 23(4) (2022) - [j38]Haitao Fu, Feng Huang, Xuan Liu, Yang Qiu, Wen Zhang:
MVGCN: data integration through multi-view graph convolutional network for predicting links in biomedical bipartite networks. Bioinform. 38(2): 426-434 (2022) - [j37]Xuan Liu, Congzhi Song, Shichao Liu, Menglu Li, Xionghui Zhou, Wen Zhang:
Multi-way relation-enhanced hypergraph representation learning for anti-cancer drug synergy prediction. Bioinform. 38(20): 4782-4789 (2022) - [j36]Zhaoyang Chu, Feng Huang, Haitao Fu, Yuan Quan, Xionghui Zhou, Shichao Liu, Wen Zhang:
Hierarchical graph representation learning for the prediction of drug-target binding affinity. Inf. Sci. 613: 507-523 (2022) - [j35]Xiangan Chen, Shuai Liu, Wen Zhang:
Predicting Coding Potential of RNA Sequences by Solving Local Data Imbalance. IEEE ACM Trans. Comput. Biol. Bioinform. 19(2): 1075-1083 (2022) - [j34]Yang Qiu, Yang Zhang, Yifan Deng, Shichao Liu, Wen Zhang:
A Comprehensive Review of Computational Methods For Drug-Drug Interaction Detection. IEEE ACM Trans. Comput. Biol. Bioinform. 19(4): 1968-1985 (2022) - [j33]Zhankun Xiong, Feng Huang, Ziyan Wang, Shichao Liu, Wen Zhang:
A Multimodal Framework for Improving in Silico Drug Repositioning With the Prior Knowledge From Knowledge Graphs. IEEE ACM Trans. Comput. Biol. Bioinform. 19(5): 2623-2631 (2022) - [j32]Shuai Liu, Xinran Xu, Zhihao Yang, Xiaohan Zhao, Shichao Liu, Wen Zhang:
EPIHC: Improving Enhancer-Promoter Interaction Prediction by Using Hybrid Features and Communicative Learning. IEEE ACM Trans. Comput. Biol. Bioinform. 19(6): 3435-3443 (2022) - [c23]Ziyan Wang, Chengzhi Hong, Xuan Liu, Zhankun Xiong, Feng Liu, Wen Zhang:
Predicting drug transcriptional response similarity using Signed Graph Convolutional Network. BIBM 2022: 340-345 - [c22]Yuzhuo Dai, Shilong Zhang, Yue Tang, Wolfgang Mayer, Jixiang Li, Hongyu Li, Zhonghao Zhang, Haiqin Li, Ying Wang, Wen Zhang, Qin Jiang, Hong-Yu Zhang, Bing Li, Zaiwen Feng:
GMFQP: An Ontology-mediated Gut Microbiota Federated Query Platform. BIBM 2022: 730-735 - [i4]Zhaoyang Chu, Shichao Liu, Wen Zhang:
Hierarchical Graph Representation Learning for the Prediction of Drug-Target Binding Affinity. CoRR abs/2203.11458 (2022) - 2021
- [j31]Feng Huang, Xiang Yue, Zhankun Xiong, Zhouxin Yu, Shichao Liu, Wen Zhang:
Tensor decomposition with relational constraints for predicting multiple types of microRNA-disease associations. Briefings Bioinform. 22(3) (2021) - [j30]Zhouxin Yu, Feng Huang, Xiaohan Zhao, Wenjie Xiao, Wen Zhang:
Predicting drug-disease associations through layer attention graph convolutional network. Briefings Bioinform. 22(4) (2021) - [j29]Xuan Liu, Wenbo Chen, Yu Fang, Siqi Yang, Liuping Chang, Xingyu Chen, Haidong Ye, Xinyu Tang, Shan Zhong, Wen Zhang, Zhiqiang Dong, Leng Han, Chunjiang He:
ADEIP: an integrated platform of age-dependent expression and immune profiles across human tissues. Briefings Bioinform. 22(6) (2021) - [j28]Hua Chen, Sheng Sheng, Chong-Yu Xu, Zhiyu Li, Wen Zhang, Shaowen Wang, Shenglian Guo:
A spatiotemporal estimation method for hourly rainfall based on F-SVD in the recommender system. Environ. Model. Softw. 144: 105148 (2021) - [j27]Wen Zhang, Zhishuai Li, Wenzheng Guo, Weitai Yang, Feng Huang:
A Fast Linear Neighborhood Similarity-Based Network Link Inference Method to Predict MicroRNA-Disease Associations. IEEE ACM Trans. Comput. Biol. Bioinform. 18(2): 405-415 (2021) - [c21]Shilong Zhang, Yue Tang, Jing Yan, Linye Li, Tong Li, Jixiang Li, Peilin Xie, Yuanshuai Gu, Jiakang Xu, Zaiwen Feng, Wen Zhang, Jingbo Xia, Wolfgang Mayer, Hong-Yu Zhang, Guang-Cun He, Keqing He:
A Graph-based Approach for Integrating Biological Heterogeneous Data Based on Connecting Ontology. BIBM 2021: 600-607 - [c20]Haorui Wang, Shahanavaj Khan, Shichao Liu, Fang Zheng, Wen Zhang:
Predicting Drug-miRNA Resistance with Layer Attention Graph Convolution Network and Multi Channel Feature Extraction. BIBM 2021: 1083-1089 - [c19]Chengshuai Zhao, Shuai Liu, Feng Huang, Shichao Liu, Wen Zhang:
CSGNN: Contrastive Self-Supervised Graph Neural Network for Molecular Interaction Prediction. IJCAI 2021: 3756-3763 - [i3]Hongzhun Wang, Feng Huang, Wen Zhang:
HampDTI: a heterogeneous graph automatic meta-path learning method for drug-target interaction prediction. CoRR abs/2112.08567 (2021) - 2020
- [j26]Guangyan Zhang, Ziru Liu, Jichen Dai, Zilan Yu, Shuai Liu, Wen Zhang:
ItLnc-BXE: A Bagging-XGBoost-Ensemble Method With Comprehensive Sequence Features for Identification of Plant lncRNAs. IEEE Access 8: 68811-68819 (2020) - [j25]Xiang Yue, Zhen Wang, Jingong Huang, Srinivasan Parthasarathy, Soheil Moosavinasab, Yungui Huang, Simon M. Lin, Wen Zhang, Ping Zhang, Huan Sun:
Graph embedding on biomedical networks: methods, applications and evaluations. Bioinform. 36(4): 1241-1251 (2020) - [j24]Yifan Deng, Xinran Xu, Yang Qiu, Jingbo Xia, Wen Zhang, Shichao Liu:
A multimodal deep learning framework for predicting drug-drug interaction events. Bioinform. 36(15): 4316-4322 (2020) - [j23]Haorui Wang, Xiaochan Wang, Zhouxin Yu, Wen Zhang:
Graph embedding and ensemble learning for predicting gene-disease associations. Int. J. Data Min. Bioinform. 23(4): 360-379 (2020) - [j22]Jiang Li, Yawen Xue, Muhammad Talal Amin, Yanbo Yang, Jiajun Yang, Wen Zhang, Wenqian Yang, Xiaohui Niu, Hong-Yu Zhang, Jing Gong:
ncRNA-eQTL: a database to systematically evaluate the effects of SNPs on non-coding RNA expression across cancer types. Nucleic Acids Res. 48(Database-Issue): D956-D963 (2020)
2010 – 2019
- 2019
- [j21]Wen Zhang, Chenglin Yu, Xiaochan Wang, Feng Liu:
Predicting CircRNA-Disease Associations Through Linear Neighborhood Label Propagation Method. IEEE Access 7: 83474-83483 (2019) - [j20]Yuchong Gong, Yanqing Niu, Wen Zhang, Xiaohong Li:
A network embedding-based multiple information integration method for the MiRNA-disease association prediction. BMC Bioinform. 20(1): 468:1-468:13 (2019) - [j19]Wen Zhang, Kanghong Jing, Feng Huang, Yanlin Chen, Bolin Li, Jinghao Li, Jing Gong:
SFLLN: A sparse feature learning ensemble method with linear neighborhood regularization for predicting drug-drug interactions. Inf. Sci. 497: 189-201 (2019) - [c18]Shichao Liu, Ziyang Huang, Yang Qiu, Yi-Ping Phoebe Chen, Wen Zhang:
Structural Network Embedding using Multi-modal Deep Auto-encoders for Predicting Drug-drug Interactions. BIBM 2019: 445-450 - [c17]Zeming Liu, Feng Liu, Chengzhi Hong, Meng Gao, Yi-Ping Phoebe Chen, Shichao Liu, Wen Zhang:
Detection of Cell Types from Single-cell RNA-seq Data using Similarity via Kernel Preserving Learning Embedding. BIBM 2019: 451-457 - [c16]Xiaochan Wang, Yuchong Gong, Jing Yi, Wen Zhang:
Predicting gene-disease associations from the heterogeneous network using graph embedding. BIBM 2019: 504-511 - [c15]Yanzhen Xu, Xiaohan Zhao, Shuai Liu, Shichao Liu, Yanqing Niu, Wen Zhang, Leyi Wei:
LncPred-IEL: A Long Non-coding RNA Prediction Method using Iterative Ensemble Learning. BIBM 2019: 555-562 - [c14]Shuang Zhou, Xiang Yue, Xinran Xu, Shichao Liu, Wen Zhang, Yanqing Niu:
LncRNA-miRNA interaction prediction from the heterogeneous network through graph embedding ensemble learning. BIBM 2019: 622-627 - [c13]Shichao Liu, Shuangfei Zhai, Lida Zhu, Fuxi Zhu, Zhongfei (Mark) Zhang, Wen Zhang:
Efficient Network Representations Learning: An Edge-Centric Perspective. KSEM (2) 2019: 373-388 - [i2]Xiang Yue, Zhen Wang, Jingong Huang, Srinivasan Parthasarathy, Soheil Moosavinasab, Yungui Huang, Simon M. Lin, Wen Zhang, Ping Zhang, Huan Sun:
Graph Embedding on Biomedical Networks: Methods, Applications, and Evaluations. CoRR abs/1906.05017 (2019) - [i1]Feng Huang, Zhankun Xiong, Guan Zhang, Zhouxin Yu, Xinran Xu, Wen Zhang:
Predicting microRNA-disease associations from knowledge graph using tensor decomposition with relational constraints. CoRR abs/1911.05584 (2019) - 2018
- [j18]Wen Zhang, Weitai Yang, Xiaoting Lu, Feng Huang, Fei Luo:
The Bi-Direction Similarity Integration Method for Predicting Microbe-Disease Associations. IEEE Access 6: 38052-38061 (2018) - [j17]Wen Zhang, Xiang Yue, Weiran Lin, Wenjian Wu, Ruoqi Liu, Feng Huang, Feng Liu:
Predicting drug-disease associations by using similarity constrained matrix factorization. BMC Bioinform. 19(1): 233:1-233:12 (2018) - [j16]Guifeng Tang, Jingwen Shi, Wenjian Wu, Xiang Yue, Wen Zhang:
Sequence-based bacterial small RNAs prediction using ensemble learning strategies. BMC Bioinform. 19-S(20): 13-23 (2018) - [j15]Wen Zhang, Qianlong Qu, Yunqiu Zhang, Wei Wang:
The linear neighborhood propagation method for predicting long non-coding RNA-protein interactions. Neurocomputing 273: 526-534 (2018) - [j14]Wen Zhang, Xinrui Liu, Yanlin Chen, Wenjian Wu, Wei Wang, Xiaohong Li:
Feature-derived graph regularized matrix factorization for predicting drug side effects. Neurocomputing 287: 154-162 (2018) - [j13]Wen Zhang, Yanlin Chen, Dingfang Li, Xiang Yue:
Manifold regularized matrix factorization for drug-drug interaction prediction. J. Biomed. Informatics 88: 90-97 (2018) - [j12]Wen Zhang, Xiang Yue, Guifeng Tang, Wenjian Wu, Feng Huang, Xining Zhang:
SFPEL-LPI: Sequence-based feature projection ensemble learning for predicting LncRNA-protein interactions. PLoS Comput. Biol. 14(12) (2018) - [c12]Wen Zhang, Guifeng Tang, Siman Wang, Yanlin Chen, Shuang Zhou, Xiaohong Li:
Sequence-derived linear neighborhood propagation method for predicting lncRNA-miRNA interactions. BIBM 2018: 50-55 - [c11]Wen Zhang, Feng Huang, Xiang Yue, Xiaoting Lu, Weitai Yang, Zhishuai Li, Feng Liu:
Prediction of Drug-Disease Associations and Their Effects by Signed Network-Based Nonnegative Matrix Factorization. BIBM 2018: 798-802 - [c10]Wen Zhang, Xiaoting Lu, Weitai Yang, Feng Huang, Binlu Wang, Alan Wang, Qi Zhao:
HNGRNMF: Heterogeneous Network-based Graph Regularized Nonnegative Matrix Factorization for predicting events of microbe-disease associations. BIBM 2018: 803-807 - 2017
- [j11]Wen Zhang, Yanlin Chen, Feng Liu, Fei Luo, Gang Tian, Xiaohong Li:
Predicting potential drug-drug interactions by integrating chemical, biological, phenotypic and network data. BMC Bioinform. 18(1): 18:1-18:12 (2017) - [j10]Wen Zhang, Xiaopeng Zhu, Yu Fu, Junko Tsuji, Zhiping Weng:
Predicting human splicing branchpoints by combining sequence-derived features and multi-label learning methods. BMC Bioinform. 18(S-13): 464:1-464:11 (2017) - [j9]Wen Zhang, Xiang Yue, Feng Liu, Yanlin Chen, Shikui Tu, Xining Zhang:
A unified frame of predicting side effects of drugs by using linear neighborhood similarity. BMC Syst. Biol. 11(6): 23-34 (2017) - [c9]Wen Zhang, Xiang Yue, Yanlin Chen, Weiran Lin, Bolin Li, Feng Liu, Xiaohong Li:
Predicting drug-disease associations based on the known association bipartite network. BIBM 2017: 503-509 - [c8]Wen Zhang, Jingwen Shi, Guifeng Tang, Wenjian Wu, Xiang Yue, Dingfang Li:
Predicting small RNAs in bacteria via sequence learning ensemble method. BIBM 2017: 643-647 - 2016
- [j8]Dingfang Li, Longqiang Luo, Wen Zhang, Feng Liu, Fei Luo:
A genetic algorithm-based weighted ensemble method for predicting transposon-derived piRNAs. BMC Bioinform. 17: 329 (2016) - [j7]Wen Zhang, Hua Zou, Longqiang Luo, Qianchao Liu, Weijian Wu, Wenyi Xiao:
Predicting potential side effects of drugs by recommender methods and ensemble learning. Neurocomputing 173: 979-987 (2016) - [c7]Wen Zhang, Xiaopeng Zhu, Yu Fu, Junko Tsuji, Zhiping Weng:
The prediction of human splicing branchpoints by multi-label learning. BIBM 2016: 254-259 - [c6]Wen Zhang, Yanlin Chen, Shikui Tu, Feng Liu, Qianlong Qu:
Drug side effect prediction through linear neighborhoods and multiple data source integration. BIBM 2016: 427-434 - [c5]Ruichu Cai, Zhenjie Zhang, Srinivasan Parthasarathy, Anthony K. H. Tung, Zhifeng Hao, Wen Zhang:
Multi-Domain Manifold Learning for Drug-Target Interaction Prediction. SDM 2016: 18-26 - 2015
- [j6]Wen Zhang, Feng Liu, Longqiang Luo, Jingxia Zhang:
Predicting drug side effects by multi-label learning and ensemble learning. BMC Bioinform. 16: 365:1-365:11 (2015) - 2013
- [c4]Wen Zhang, Juan Liu, Yi Xiong, Meng Ke, Ke Zhang:
Predicting immunogenic T-cell epitopes by combining various sequence-derived features. BIBM 2013: 4-9 - 2012
- [j5]Wen Zhang, Juan Liu, Meng Zhao, Qingjiao Li:
Predicting linear B-cell epitopes by using sequence-derived structural and physicochemical features. Int. J. Data Min. Bioinform. 6(5): 557-569 (2012) - 2011
- [j4]Wen Zhang, Yi Xiong, Meng Zhao, Hua Zou, Xinghuo Ye, Juan Liu:
Prediction of conformational B-cell epitopes from 3D structures by random forest with a distance-based feature. BMC Bioinform. 12: 341 (2011) - [c3]Yi Xiong, Wen Zhang, Tao Zeng, Juan Liu:
Prediction of Heme Binding Sites in Heme Proteins Using an Integrative Sequence Profile Coupling Evolutionary Information with Physicochemical Properties. BIBM 2011: 143-146 - 2010
- [j3]Wen Zhang, Juan Liu, Yanqing Niu:
Quantitative prediction of MHC-II binding affinity using particle swarm optimization. Artif. Intell. Medicine 50(2): 127-132 (2010)
2000 – 2009
- 2009
- [j2]Wen Zhang, Juan Liu, Yanqing Niu:
Quantitative prediction of MHC-II peptide binding affinity using relevance vector machine. Appl. Intell. 31(2): 180-187 (2009) - 2008
- [j1]Wen Zhang, Juan Liu, Yanqing Niu, Lian Wang, Xihao Hu:
A Bayesian regression approach to the prediction of MHC-II binding affinity. Comput. Methods Programs Biomed. 92(1): 1-7 (2008) - [c2]Wen Zhang, Juan Liu, Yanqing Niu, Lian Wang, Zhi Zhang:
Quantitative Prediction of MHC-II Peptide Binding Affinity Using Global Description of Peptide Sequences. BMEI (1) 2008: 352-356 - 2006
- [c1]Dingfang Li, Wen Zhang:
Gene Selection Using Rough Set Theory. RSKT 2006: 778-785
Coauthor Index
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