1.Junxin Li，Linbu Liao, Chao Zhang, Kaifang Huang, Pengfei Zhang, John Z.H. Zhang*, Xiaochun Wan*,Haiping Zhang*, Development and experimental validation of computational methods for human antibody affinity enhancement, 2024，Briefing in bioinformatics, 2024 Sep 23;25(6):bbae488. doi: 10.1093/bib/bbae488
2.Caiying Zhang=,Haiping Zhang=, Qiuyun Zhang, Hongjie Fa, Pengfei Yu, Wei Xia, John Z.H. Zhang, Xinmiao Liang*, Yang Chen*, Targeting ATP catalytic activity of chromodomain helicase CHD1L for the anticancer inhibitor discovery, 2024, International Journal of Biological Macromolecules
3.Haiping Zhang#*, Hongjie Fan#, Jixia Wang, Tao Hou, Konda Mani Saravanan, Wei Xia , Hei Wun Kan, Junxin Li, John Z.H. Zhang*, Xinmiao Liang*, Yang Chen*，Revolutionizing GPCR-Ligand Predictions: DeepGPCR with experimental Validation for High-Precision Drug Discovery，2024，Briefing in bioinformatics
4.Liujiang Dai, Pengfei Yu,Hongjie Fan,Wei Xia,Yaopeng Zhao,Pengfei Zhang,John Z. H. Zhang,Haiping Zhangand Yang Chen，Identification and Validation of New DNA-PKcs Inhibitors through High-Throughput Virtual Screening and Experimental Verification，IJMS Volume 25, Issue 14, 202
5.Xiaodie Chen, Zhen Lu, Jin Xiao, Wei Xia, Yi Pan, Houjun Xia, Youhai H Chen*,Haiping Zhang*,Small-Molecule Inhibitors of TIPE3 Protein Identified through Deep Learning Suppress Cancer Cell Growth In Vitro, Cells, 2024 Apr 30;13(9):771. doi: 10.3390/cells13090771.
6.Wei Xia#, Jin Xiao#, Hengwei Bian*, Jiajun Zhang, John Z.H., Zhang* andHaiping Zhang*，Deep Learning-Based Construction of a Drug-Like Compound Database and Its Application in Virtual Screening of HsDHODH Inhibitors，methods，2024, doi: 10.1016/j.ymeth.2024.03.008.
7.Konda Mani Saravanan=, Jiang-Fan Wan=, Liujiang Dai=, Jiajun Zhang, John Z.H. Zhang,Haiping Zhang*, A deep learning based multi-model approach for predicting drug-like chemical compound's toxicity，methods，2024, doi: 10.1016/j.ymeth.2024.04.020.
8.Haiping Zhang, Konda Mani Saravanan*, Advances in Deep Learning Assisted Drug Discovery Methods: A Self-review. Current Bioinformatics 2024; 19:1–17
9.Haiping Zhang*#, Konda Mani Saravanan#, John Z. H. Zhang*, DeepBindGCN: Integrating Molecular Vector Representation with Graph Convolutional Neural Networks for Protein–Ligand Interaction Prediction，Molecules 2023, 28(12), 4691; https://doi.org/10.3390/molecules28124691
10.Haiping Zhang*, Konda Mani Saravanan, Yanjie Wei, Yang Jiao, Yang Yang, Yi Pan, Xuli Wu, and John Z. H. Zhang*. Deep Learning-Based Bioactive Therapeutic Peptide Generation and Screening. J. Chem. Inf. Model. 2023, 63 (3), 835–845.https://doi.org/10.1021/acs.jcim.2c01485.
11.Haiping Zhang*, Konda Mani Saravanan, Yang Yang, Yanjie Wei, Pan Yi, John Z H Zhang *. (2022). Generating and screening de novo compounds against given targets using ultrafast deep learning models as core components. Briefing in Bioinformatics., bbac226. doi:10.1093/bib/bbac226.
12.Haiping Zhang1*†, Xiao Lin2†, Yanjie Wei1†, Huiling Zhang, Linbu Liao, Hao Wu, Xuli Wu* (2022a). Validation of Deep Learning-Based DFCNN in Extremely Large-Scale Virtual Screening and Application in Trypsin I Protease Inhibitor Discovery. Front. Mol. Biosci. 9. doi:10.3389/fmolb.2022.872086.
13.Haiping Zhang†*, Xiaohua Gong†, Yun Peng, Konda Mani Saravanan, Hengwei Bian, Zenghui Zhang, Yanjie Wei, Pan Yi, Yang Yang*, An efficient modern strategy to screen drug candidates targeting RdRp of SARS-CoV-2 with potentially high selectivity and specificity，Frontiers in Chemistry, section Medicinal and Pharmaceutical Chemistry (2022)
14.Haiping Zhang, Tingting Zhang, Konda Mani Saravanan, Linbu Liao, Hao Wu, Haishan Zhang, Huiling Zhang, Yi Pan, Xuli Wu*, Yanjie Wei*，DeepBindBC: a practical deep learning method for identifying native-like protein-ligand complexes in virtual screening, methods，2022
15.Haiping Zhang=, Yang Yang=, Junxin Li=, Min Wang, Konda Mani Saravanan, Jinli Wei, Justin Tze-Yang Ng, Md Tofazzal Hossain, Maoxuan Liu, Huiling Zhang, Xiaohu Ren, Yi Pan, Yin Peng, Yi Shi, Xiaochun Wan*, Yingxia Liu*, Yanjie Wei*. A novel virtual screening procedure identifies Pralatrexate as inhibitor of SARS-CoV-2 RdRp and it reduces viral replication in vitro, plos computational biology, 16(12):e1008489, 2020, (大量海外新闻报道）
16.Haiping Zhang=, Junxin Li=, Konda Mani Saravanan, Hao Wu, Zhichao Wang, Du Wu, Yanjie Wei, Zhen Lu, Youhai H. Chen*, Xiaochun Wan*, Yi Pan*, An integrated deep learning and molecular dynamics simulation-based screening pipeline identifies inhibitors of a new cancer drug target TIPE2, Frontiers in Pharmacology,2021, volume 12, page 3297
17.Haiping Zhang=，Linbu Liao=，Yunting Cai，Yuhui Hua，Hao Wang*，IVS2vec: A tool of Inverse Virtual Screening based on word2vec and deep learning techniques. Methods. 2019, Volume 166 , Pages 57-65.
18.Haiping Zhang=,Linbu Liao=, Konda Mani Saravanan, Peng Yin, Yanjie Wei*, DeepBindRG: A Deep Learning Based Method for Estimating Effective Protein-Ligand Affinity, PeerJ, 2019, 7:e7362
19.Haiping Zhang,Jianbo Pan, Xuli Wu, Ai-Ren Zuo, Yanjie Wei*, and Zhi-Liang Ji*, Large-Scale Target Identification of Herbal Medicine Using a Reverse Docking Approach, ACS Omega,2019, 9710-9719;
20.Haiping Zhang(#), Eric Lim Jit Kai, Lanyuan Lu(*)Investigating the stability of dengue virus envelope protein dimer using well-tempered metadynamics simulations, (2019) Proteins: Structure, Function, and Bioinformatics, Article DOI: 10.1002/prot.25844, SCI, Volume88, Issue5, Pages 643-653
21.Hai-Ping Zhang=, Jian-Bo Pan=, Chi Zhang, Nan Ji, Hao Wang & Zhi-Liang Ji*. (2013) Network Understanding of Herb Medicine via Rapid Identification of Ingredient-Target Interactions, Scientific Reports , 4, Article number: 3719
22.Haiping Zhang=, Konda Mani Saravanan=, Linbu Liao, Justin Tze-Yang Ng, Jiaxiu Zhou*, and Yanjie Wei*, DeepBindPoc: a deep learning method to rank ligand binding pockets using molecular vector representation, peerJ, 2020, 8: e8864.
23.Haiping Zhang, Konda Mani Saravanan, Yang Yang, Md. Tofazzal Hossain, Junxin Li, Xiaohu Ren,Yanjie Wei*，Deep learning based drug screening for novel coronavirus 2019-nCov,Interdisciplinary Sciences: Computational Life Sciences, 12, 368–376 (2020). (超150次引用)
24.Konda Mani Saravanan#,Haiping Zhang#, Huiling Zhang#, Wenhui Xi*, Yanjie Wei*, On the conformational dynamics ofβ-amyloid forming peptides: a computational perspective, Frontiers in Bioengineering and Biotechnology，8
25.Konda Mani Saravanan=,Haiping Zhang=,,Renganathan Senthil,,Kevin Kumar Vijayakumar,Vignesh Sounderrajan,Yanjie Wei* &Harshavardhan Shakila*, Structural basis for the inhibition of SARS-CoV2 main protease by Indian medicinal plant derived antiviral compounds，Journal of Biomolecular Structure & Dynamics，2020 : 1–9.
