Jun Hu Ph.D
Correspondence Suzhou Institute Of Systems Medicine, Suzhou, China, 215123
Email junh_cs@126.com or hujunum@zjut.edu.cn
OCRID https://orcid.org/0000-0001-9202-7515
ResearchGate https://www.researchgate.net/profile/Jun_Hu14
Brief Biography 

Mr. Jun Hu received his B.S. degree in computer science from AnHui Normal University in 2011. From 2011 to 2018, he acted as a Ph.D Student of School of Computer Science and Engineering in NanJing University of Science and Technology and a member of Pattern Recognition and Bioinformatics Group, led by professor Dong-Jun Yu. From 2016 to 2017, he acted as a visiting student at the University of Michigan (Ann Arbor) in U.S.A, led by professor Yang Zhang. He is currently an associate professor in the College of Information Engineering at Zhejiang University of Technology. His current interests include bioinformatics, pattern recognition, machine learning, and data mining. Homepage in ZJUT: http://www.homepage.zjut.edu.cn/jun_csbio

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Published Papers ( >>Google Scholar Citation Profile)(x+y)(>> Web Servers)


Journal Papers

  • Jun Hu*, Yuxuan Tang, Yu Zhou, Zhe Li, Bing Rao, Guijun Zhang*. Improving DNA 6mA site prediction via integrating bidirectional long short-term memory, convolutional neural network, and self-attention mechanism [J]. Journal of Chemical Information and Modeling, 2023, xx(xx): xx. [DOI:xxx] [Web Server] (WOS: XXXXX)

  • [2] Xue-Qiang Fan, Bing Lin, Jun Hu*, Zhong-Yi Guo. I-DNAN6mA: Accurate Identification of DNA N6-Methyladenine Sites Using the Base-Pairing Map and Deep Learning [J]. Journal of Chemical Information and Modeling, 2023, 63: 1076-1086. [DOI:10.1021/acs.jcim.2c01465] [code] (WOS: XXXXX)

  • Jun Hu*, Wen-Wu Zeng, Ning-Xin Jia, Muhammad Arif, Dong-Jun Yu*, Gui-Jun Zhang*. Improving DNA-Binding Protein Prediction Using Three-Part Sequence-Order Feature Extraction and a Deep Neural Network Algorithm [J]. Journal of Chemical Information and Modeling, 2023, xx(xx): xx. [DOI:10.1021/acs.jcim.2c00943] [Web Server] (WOS: XXXXX)

  • Jun Hu, Yan-Song Bai, Lin-Lin Zheng, Ning-Xin Jia, Dong-Jun Yu, Gui-Jun Zhang. Protein-DNA Binding Residue Prediction via Bagging Strategy and Sequence-based Cube-Format Feature [J]. IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2022, 19(6): 3635-3645. [DOI:10.1109/TCBB.2021.3123828] [Web Server] (WOS: XXXXX)

  • Liang Rao, Ning-Xin Jia, Jun Hu#, Dong-Jun Yu#, and Gui-Jun Zhang#. ATPdock: a template-based method for ATP-specific protein–ligand docking [J]. Bioinformatics, 2021, 631: 114358. [Download Citation with Endnote or BibTex Format] [DOI:10.1093/bioinformatics/btab667] [Web Server] (WOS: XXXXX)

  • Xue-Qiang Fan, Jun Hu#, Ning-Xin Jia, Dong-Jun Yu#, and Gui-Jun Zhang#. Improved protein relative solvent accessibility prediction using deep multi-view feature learning framework [J]. Analytical Biochemistry, 2021, 631: 114358. [Download Citation with Endnote or BibTex Format] [DOI:10.1016/j.ab.2021.114358] [Web Server] (WOS: XXXXX)

  • Jun Hu, Lin-Lin Zheng, Yan-Song Bai, Ke-Wen Zhang, Dong-Jun Yu, and Gui-Jun Zhang. Accurate prediction of protein-ATP binding residues using position-specific frequency matrix [J]. Analytical Biochemistry, 2021, 626: 114241. [Download Citation with Endnote or BibTex Format] [DOI:10.1016/j.ab.2021.114241] [Web Server] (WOS: 000663454300003)

  • Jun Hu, Liang Rao, Yi-Heng Zhu, Gui-Jun Zhang, and Dong-Jun Yu. TargetDBP+: Enhancing the Performance of Identifying DNA-Binding Proteins via Weighted Convolutional Features [J]. Journal of Chemical Information and Modeling, 2021, 61(1): 505-515. [Download Citation with Endnote or BibTex Format] [DOI:10.1021/acs.jcim.0c00735] [Web Server] (WOS: 000613719400044)

  • Fang Ge, Jun Hu, Yiheng Zhu, Arif M, and Dongjun Yu. TargetMM: accurate missense mutation prediction by utilizing local and global sequence information with classifier ensemble. Combinatorial Chemistry & High Throughput Screening. 2020 [Download Citation with Endnote or BibTex Format] [DOI:10.2174/1386207323666201204140438] (PMID:33280588)

  • Jun Hu, Liang Rao, Xueqiang Fan, and Guijun Zhang. Identification of ligand-binding residues using protein sequence profile alignment and query-specific support vector machine model. Analytical Biochemistry. 2020, 604:113799 [Download Citation with Endnote or BibTex Format] [DOI:10.1016/j.ab.2020.113799] [Standalone Program] (WOS:000556551500012)

  • Yiheng Zhu, Jun Hu, Fang Ge, Fuyi Li, Jiangning Song, Yang Zhang, and Dongjun Yu. Accurate Multi-Stage Prediction of Protein Crystallization Propensity Using Deep-Cascade Forest with Sequence-Based Features. Briefings in Bioinformatics. 2021, 22(3):bbaa076. [Download Citation with Endnote or BibTex Format] [DOI:10.1093/bib/bbaa076] [No Web Server]

  • Yan Zhang, Yaru Zhang, Jun Hu, Ji Zhang, Fangjie Guo, Meng Zhou, Guijun Zhang, Fulong Yu, and Jianzhong Su. scTPA: A web tool for single-cell transcriptome analysis of pathway activation signatures. Bioinformatics. 2020, 36(4): 4217-4219. [Download Citation with Endnote or BibTex Format] [DOI:10.1101/2020.01.15.907592] [No Web Server](WOS:000583886000021)

  • Yiheng Zhu, Jun Hu, Yong Qi, XiaoNing Song, and Dongjun Yu. Boosting Granular Support Vector Machines for the Accurate Prediction of Protein-Nucleotide Binding Sites. Combinatorial Chemistry & High Throughput Screening. 2019, 22, 455-469 [DOI:10.2174/1386207322666190925125524] [No Web Server]

  • Xiaogen Zhou, Jun Hu, Chengxin Zhang, Guijun Zhang, and Yang Zhang. Assembling multi-domain protein structures through analogous global structural alignments. Proceedings of the National Academy of Sciences of the United States of America. 2019, 116: 15930-15938 [Download Citation with Endnote or BibTex Format] [DOI:10.1073/pnas.1905068116] [Web Server](WOS:xxx)

  • Zhangwei Li, Ke Sun, Xiaohu Hao, Jun Hu, Laifa Ma, Xiaogen Zhou, Guijun Zhang. Loop enhanced conformational resampling method for protein structure prediction. IEEE Transactions on NanoBioscience. 2019, 18(4):567-577. [Download Citation with Endnote or BibTex Format] [DOI:10.1109/TNB.2019.2922101] [No Web Server](WOS:000498049700008)

  • Guijun Zhang, Tengyu Xie, Xiaogen Zhou, Liujing Wang, Jun Hu. Protein structure prediction using population-based algorithm guided by information entropy. IEEE/ACM Transactions on Computational Biology and Bioinformatics. 2021, 18(2):697-707. [Download Citation with Endnote or BibTex Format] [DOI:10.1109/TCBB.2019.2921958] [No Web Server](WOS:000638400100015)

  • Guijun Zhang, Xiaoqi Wang, Laifa Ma, Liujing Wang, Jun Hu, Xiaogen Zhou. Two-stage Distance Feature-based Optimization Algorithm for De novo Protein Structure Prediction. IEEE/ACM Transactions on Computational Biology and Bioinformatics. 2020, 17(6):2119-2130. [Download Citation with Endnote or BibTex Format] [DOI:10.1109/TCBB.2019.2917452] [No Web Server](WOS:000597841800026)

  • Yang Li, Jun Hu, Chengxin Zhang, Dong-Jun Yu, and Yang Zhang. ResPRE: high-accuracy protein contact prediction by coupling precision matrix with deep residual neural networks. Bioinformatics. 2019, 35(2):4647-4655. [Download Citation with Endnote or BibTex Format] [DOI:10.1093/bioinformatics/btz291] [Web Server](WOS:000501728500014)

  • Yi-Heng Zhu, Jun Hu, Xiao-Ning Song, Dong-Jun Yu. DNAPred: accurate identification of DNA-binding sites from protein sequence by ensembled hyperplane-distance-based support vector machines. Journal of Chemical Information and Modeling. 2019, 59(6):3057-3071. [Download Citation with Endnote or BibTex Format] [DOI:10.1021/acs.jcim.8b00749] [Web Server](WOS:000473116500050)

  • Jun Hu, Xiao-Gen Zhou, Yi-Heng Zhu, Dong-Jun Yu, Guijun Zhang. TargetDBP: Accurate DNA-Binding Protein Prediction via Sequence-based Multi-View Feature Learning. IEEE/ACM Transactions on Computational Biology and Bioinformatics. 2020, 17(4):1419-1429. [In Press] [Download Citation with Endnote or BibTex Format] [DOI:10.1109/TCBB.2019.2893634] [Web Server](WOS:000556777900029)

  • Jun Hu, Zi Liu, Dong-Jun Yu, and Yang Zhang. LS-align: an atom-level, flexible ligand structural alignment algorithm for high-throughput virtual screening [J]. Bioinformatics, 2018, 34(13): 2209-2218. [Download Citation with Endnote or BibTex Format] [DOI:10.1093/bioinformatics/bty081] [Web Server] (WOS:000438247800073) (PubMed ID: 29462237)

  • Jun Hu, Yang Li, Yang Zhang, and Dong-Jun Yu. ATPbind: accurate protein-ATP binding site prediction by combining sequence-profiling and structure-based comparisons [J]. Journal of Chemical Information and Modeling, 2018, 58(2): 501-510. [Download Citation with Endnote or BibTex Format] [DOI:10.1021/acs.jcim.7b00397] [Web Server] (WOS: 000426613800029)

  • Jun Hu, Yang Li, Ming Zhang, Xibei Yang, Hong-Bin Shen, and Dong-Jun Yu. Predicting Protein-DNA Binding Residues by Weightedly Combining Sequence-based Features and Boosting Multiple SVMs [J]. IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2017, 14(6): 1389-1398. [Download Citation with Endnote or BibTex Format] [DOI:10.1109/TCBB.2016.2616469] [Web Server] [Dataset] (WOS: 000418112400017)

  • Jun Hu, Ke Han, Yang Li, Jing-Yu Yang, Hong-Bin Shen, and Dong-Jun Yu. TargetCrys: protein crystallization prediction by fusing multi-view features with two-layered SVM [J]. Amino Acids, 2016, 48(11): 2533-2547. [Download Citation with Endnote or BibTex Format] [DOI] [Web Server] (WOS: 000386691700005)

  • Jun Hu, Yang Li, Wu-Xia Yan, Jing-Yu Yang, Hong-Bin Shen, and Dong-Jun Yu. KNN-based Dynamic Query-Driven Sample Rescaling Strategy for Class Imbalance Learning [J]. Neurocomputing, 2016, 191: 363-373. [Download Citation with Endnote or BibTex Format] [DOI] [Web Server] (WOS: 000375165900031)

  • Jun Hu, Yang Li, Jing-Yu Yang, Hong-Bin Shen, and Dong-Jun Yu. GPCR-drug Interactions Prediction Using Random Forest with Drug-Association-Matrix-Based Post-Processing Procedure [J]. Computational Biology and Chemistry, 2016, 60: 59-71. [Download Citation with Endnote or BibTex Format] [DOI] [Web Server] (WOS: 000369678300007)

  • Wuxia Yan, Sheng Wang, Jun Hu, and Chuancai Liu. Fronto-parallel building facades stitching. Electronics Letters, 2016, 52(18): 1524-1526. (WOS: 000383378500010)

  • Xue He, Ke Han, Jun Hu, Hui Yan, Jing-Yu Yang, Hong-Bin Shen, and Dong-Jun Yu. TargetFreeze: Identifying Antifreeze Proteins via a Combination of Weights using Sequence Evolutionary Information and Pseudo Amino Acid Composition. Journal of Membrane Biology, 2015, 248(6): 1005-1014. [Download Citation with Endnote or BibTex Format] [DOI] [Web Server] (WOS: 000363265100007)

  • Dong-Jun Yu, Jun Hu, Qian-Mu Li, Zhen-Min Tang, Jing-Yu Yang, and Hong-Bin Shen. Constructing Query-Driven Dynamic Machine Learning Model with Application to Protein-Ligand Binding Sites Prediction. IEEE Transactions on NanoBioscience, 2015, 14(1): 45-58. [Web Server] (WOS: 000350884300006)

  • Dong-Jun Yu, Yang Li, Jun Hu, Xibei Yang, Jing-Yu Yang, and Hong-Bin Shen. Disulfide Connectivity Prediction Based on Modelled Protein 3D Structural Information and Random Forest Regression. IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2015, 12(3): 611-621. [Web Server] (WOS: 000356608100013)

  • Dong-Jun Yu, Jun Hu, Hui Yan, Xi-Bei Yang, Jing-Yu Yang, and Hong-Bin Shen. Enhancing Protein-Vitamin Binding Residues Prediction by Multiple Heterogeneous Subspace SVMs Ensemble. BMC Bioinformatics, 2014, 15:297. [PDF] [Web Server] (WOS: 000344891200001)

  • Dong-Jun Yu, Jun Hu, Jing Yang, Hong-Bin Shen, Jinhui Tang, and Jing-Yu Yang. Designing template-free predictor for targeting protein-ligand binding sites with classifier ensemble and spatial clustering. IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2013, 10(4): 994-1008. [Web Server] (WOS: 000328640700016)

  • Dong-Jun Yu, Jun Hu, Xiaowei Wu, Hong-Bin Shen, Jun Chen, Zhenmin Tang, Jian Yang, and Jingyu Yang. Learning Protein Multi-View Features in Complex Space,  Amino Acids. 2013, 44(5): 1365-1379. [Web Server] (WOS: 000317682100012)

  • Dong-Jun Yu, Jun Hu, Yan Huang, Hong-Bin Shen, Yong Qi, Zhen-Min Tang and Jing-Yu Yang. TargetATPsite: A Template-free Method for ATP Binding Sites Prediction with Residue Evolution Image Sparse Representation and Classifier Ensemble. Journal of Computational Chemistry, 2013, 34(11): 974-985.  ( Inside Cover Story) [Web Server] (WOS: 000316627400009)

  • Dong-Jun Yu, Jun Hu, Zhen-Min Tang, Hong-Bin Shen, Jian Yang, and Jing-Yu Yang. Improving Protein-ATP Binding Residues Prediction by Boosting SVMs with Random Under-Sampling. Neurocomputing, 2013, 104: 180-190. [Web Server] (WOS: 000316163500017)

Conference Papers

  • Jun Hu, Zi Liu, and Dong-Jun Yu*. Enhancing Protein-ATP and Protein-ADP Binding Sites Prediction Using Supervised Instance-Transfer Learning. The 4th Asian Conference on Pattern Recognition (ACPR 2017). 2017: 759-763

  • Dong-Jun Yu, Jun Hu, Jian-Hua Xie, Yong Qi, and Zhen-Min Tang. Supervised Kernel Self-Organizing Map. 2012 Sino-foreign-interchange Workshop on Intelligence Science and Intelligent Data Engineering (IScIDE 2012). Springer, Nanjing, LNCS 7751, pp. 246--253. Springer, Heidelberg (2013). (Accession number: 13373489)

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