Dr. Zhao Qi

Personal Information  

Date of Birth: July 30, 1982                   

E-mail: zhaoqi@lnu.edu.cn

Current Correspondence Address: 

School of Mathematics, Liaoning University, Shenyang, 110036, China

h-index

15

Google scholar citation

https://scholar.google.com/citations?view_op=list_works&hl=zh-CN&authuser=1&user=cd4ob

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ORCID

0000-0001-9713-1864

Education  

2009/04/20-2010/04/29  Visiting doctorate student, Department of Mathematics, Michigan State University, USA.

2007/07-2011/07   Ph.D. candidate, Wuhan Institute of Physics and Mathematics, Chinese Academy of Sciences, Wuhan, China. 

2006/09-2007/ 07   Study the course of Master, Graduate University of Chinese Academy of Sciences, Beijing, China.

2001/09-2005/07   B.S., School of Mathematics and Statistics, Wuhan University, Wuhan, China.

Positions and Employment 

2014/02/12-2014/08/05  Visiting scholar, System Biology Ireland, University College Dublin, Dublin, Ireland (Supervisor: Prof. Boris Kholodenko)

2013/12- Present  Associate professor, School of Mathematics, Liaoning University, 

Shenyang, China

2012/02/15-2012/03/26  Visiting scholar, School of Physics and Astronomy, Tel Aviv University, Tel Aviv, Israel (Supervisor: Prof. Eshel Ben-Jacob)

2011/07-2013/12  Lecturer, School of Mathematics, Liaoning University, Shenyang, China

Current Research Interests

bioinformatics, big data, machine learning, network analysis,ncRNA,prognostic markers

Publications (Corresponding author *)

(1) Junfeng Zhu^#, Ying Xu^#, Shanshan Liu, Li Qiao, Jianqiang Sun, Qi Zhao*, MicroRNAs associated with colon cancer: new potential prognostic markers and targets for therapy, Frontiers in Bioengineering and Biotechnolog, 2020, 8:176

(2) Xing Chen*, Hongsheng Liu, Qi Zhao*, Editorial: Bioinformatics in Microbiota, Frontiers in Microbiology, 2020, 11: 100

(3) Yingjuan Yang, Chunlong Fan, Qi Zhao*, Recent Advances on the Machine Learning Methods in Identifying Phage Virion Proteins, Current Bioinformatics, 2020, 10.2174/1574893614666191203155511

(4) Hongsheng Liu, Guofei Ren, Haoyu Chen, Qi Liu, Yingjuan Yang, Qi Zhao*, Predicting lncRNA-miRNA interactions based on logistic matrix factorization with neighborhood regularized, Knowledge-Based Systems, 2020, 191: 105261

(5) Hui Zhang, Zhong Ming, Chunlong Fan, Qi Zhao*, Hongsheng Liu*, A path-based computational model for long non-coding RNA-protein interaction prediction, Genomics, 2020, 112(2): 1754-1760

(6) Erxia Ge, Yingjuan Yang, Mingjun Gang, Chunlong Fan, Qi Zhao*, Predicting human disease-associated circRNAs based on locality-constrained linear coding, Genomics, 2020, 112(2): 1335-1342

(7) Zimo Yin, Haixin Ai, Li Zhang, Guofei Ren, Yuming Wang, Qi Zhao,  Hongsheng Liu, Predicting the cytotoxicity of chemicals using ensemble learning methods and molecular fingerprints, Journal of Applied Toxicology, 2019, 39, 1366-1377

(8) Qi Zhao*, Yingjuan Yang, Guofei Ren, Erxia Ge, Chunlong Fan, Integrating Bipartite Network Projection and KATZ Measure to Identify Novel CircRNA-Disease Associations, IEEE Transactions on NanoBioscience, 2019, 18(4): 578-584

(9) Qi Zhao*, Haifan Yu, Mingxuan Ji, Yan Zhao, Xing Chen*, Computational Model Development of Drug-Target Interaction Prediction: A Review, Current Protein and Peptide Science, 2019, 20: 492-494

(10) Xing Chen*, Di Xie, Qi Zhao, Zhuhong You, MicroRNAs and complex diseases: from experimental results to computational models, Briefings in Bioinformatics, 2019, 20(2): 515-539

(11) Xing Chen*, Qi Zhao*, Current Computational Models for Prediction of the Varied Interactions Related to Protein - PART 1, Protein & Peptide Letters, 2018, 25(9): 806

(12) Xing Chen*, Qi Zhao*, Developing Novel Computational Techniques for Medicine and Pharmacy, Current Topics in Medicinal Chemistry, 2018, 18(12): 947-948

(13) Qi Zhao, Haifan Yu, Zhong Ming, Huan Hu, Guofei Ren, Hongsheng Liu*, The Bipartite Network Projection Recommended Algorithm for predicting long noncoding RNA–protein interactions, Molecular Therapy-Nucleic Acids, 2018, 13: 464-471

(14) Bin-Sheng He, Jia Qu*, Qi Zhao*, Identifying and exploiting potential miRNA-disease associations with neighborhood regularized logistic matrix factorization, Frontiers in Genetics, 2018, 9: 303

(15) Qi Zhao, Yue Zhang, Huan Hu, Guofei Ren, Wen Zhang, Hongsheng Liu*, IRWNRLPI: integrating random walk and neighborhood regularized logistic matrix factorization for lncRNA-protein interaction prediction, Frontiers in Genetics, 2018, 9: 239

(16) Haixin Ai, Wen Chen, Li Zhang, Liangchao Huang, Zimo Yin, Huan Hu, Qi Zhao, Jian Zhao, Hongsheng Liu*, Predicting Drug-Induced Liver Injury Using Ensemble Learning Methods and Molecular Fingerprints, Toxicological Sciences, 2018, 165(1):100-107

(17) Xing Chen*, Di Xie, Lei Wang, Qi Zhao*, Zhuhong You, Hongsheng Liu, BNPMDA: Bipartite Network Projection for MiRNA-Disease Association prediction, Bioinformatics, 2018, 34(18): 3178-3186

(18) Qi Zhao, Dan Liang, Huan Hu, Guofei Ren, Hongsheng Liu*, RWLPAP: random walk for lncRNA-protein associations prediction, Protein & Peptide Letters, 2018, 25(9): 830-837

(19) Huan Hu^#, Li Zhang^#, Haixin Ai, Hui Zhang, Yetian Fan, Qi Zhao*, Hongsheng Liu*, HLPI-Ensemble: Prediction of human lncRNA-protein interactions based on ensemble strategy, RNA Biology, 2018, 15(6): 797-806

(20) Haixin Ai, Xuewei Wu, Mengyuan Qi, Li Zhang, Huan Hu, Qi Zhao, Jian Zhao, Hongsheng Liu*, Study on the Mechanisms of Active Compounds in Traditional Chinese Medicine for the Treatment of Influenza Virus by Virtual Screening, Interdisciplinary Sciences: Computational Life Sciences, 2018, 10(2):320-328

(21) Qi Zhao*, Di Xie, Hongsheng Liu, Fan Wang, Gui-Ying Yan, Xing Chen*, SSCMDA: Spy and Super Cluster strategy for MiRNA-Disease Association prediction, Oncotarget, 2018, 9(2): 1826-1842

(22) Xing Chen#*, Li Huang#, Di Xie, Qi Zhao, EGBMMDA: Extreme Gradient Boosting Machine for MiRNA-Disease Association prediction, Cell Death & Disease, 2018, 9(1): 3

(23) Yang Bai, Zhong-Xia Li, Yue-Tong Zhao, Mo Liu, Yun Wang, Guo-Chao Lian, Qi Zhao*, Huai-Liang Wang*, PCPA protects against monocrotaline-induced pulmonary arterial remodeling in rats: potential roles of connective tissue growth factor, Oncotarget, 2017, 8(67): 111642-111655

(24) Chunyu Zhu#, Fangliang Zheng#, Junfeng Zhu, Meichen Liu, Na Liu, Xue Li, Li Zhang, Zaidong Deng, Qi Zhao, Hongsheng Liu*, The interaction between NOLC1 and IAV NS1 protein promotes host cell apoptosis and reduces virus replication, Oncotarget, 2017, 8(55): 94519-94527

(25) Hongsheng Liu#, Guofei Ren#, Huan Hu, Li Zhang, Haixin Ai, Wen Zhang, Qi Zhao*, LPI-NRLMF: LncRNA-protein Interaction Prediction by Neighborhood Regularized Logistic Matrix Factorization, Oncotarget, 2017, 8(61): 103975-103984

(26) Li Zhang#, Haixin Ai#, Shimeng Li, Mengyuan Qi, Jian Zhao, Qi Zhao, Hongsheng Liu*, Virtual screening approach to identifying influenza virus neuraminidase inhibitors using molecular docking combined with machine-learning-based scoring function, Oncotarget, 2017, 8(47): 83142-83154

(27) Huan Hu#, Chunyu Zhu#, Haixin Ai, Li Zhang, Jian Zhao, Qi Zhao*, Hongsheng Liu*, LPI-ETSLP: LncRNA-protein interactions prediction using Eigenvalue Transformation-based Semi-supervised Link Prediction, Molecular BioSystems, 2017, 13(9): 1781-1787

(28) Li Zhang, Haixin Ai, Qi Zhao, Junfeng Zhu, Wen Chen, Xuewei Wu, Liangchao Huang, Zimo Yin, Jian Zhao, Hongsheng Liu*, Computational prediction of influenza neuraminidase inhibitors using machine learning algorithms and recursive feature elimination method, ISBRA 2017, 2017, LNBI 10330, 344–349

(29) Li Zhang#, Haixin Ai#, Wen Chen, Zimo Yin, Huan Hu, Junfeng Zhu, Jian Zhao, Qi Zhao, Hongsheng Liu*, CarcinoPred-EL: Novel models for predicting the carcinogenicity of chemicals using molecular fingerprints and ensemble learning methods, Scientific Reports, 2017, 7(1): 2118

(30) Xing Chen#*, Zhichao Jiang#, Di Xie, Deshuang Huang*, Qi Zhao, Guiying Yan, Zhuhong You, A novel computational model based on super-disease and miRNA for potential miRNA–disease association prediction, Molecular BioSystems, 2017, 13(6): 1202-1212

(31) Shuai Liu, Chenggui Yao, Xiaofang Wang, Qi Zhao*, Resonance in an ensemble of excitable reaction-diffusion systems under spatially periodic force, Physica A, 2017, 467: 184-191

(32) Qi Zhao*, Hongsheng Liu, Chenggui Yao, Jianwei Shuai, Xiaoqiang Sun*, Effect of dynamic interaction between microRNA and transcription factor on gene expression, BioMed Research International, 2016, 2016: 2676282

(33) Xiaoqiang Sun*, Jiajun Zhang, Qi Zhao, Xing Chen, Wenbo Zhu*, Guangmei Yan and Tianshou Zhou*, Stochastic modeling suggests that noise reduces differentiation efficiency by inducing a heterogeneous drug response in glioma differentiation therapy, BMC Systems Biology, 2016, 10(1): 73

(34) Qi Zhao*, Chenggui Yao, Jun Tang, Liwei Liu, Study of spatial signal transduction in bistable switches, Frontiers of Physics, 2016, 11(5): 1-6

(35) Chenggui Yao*, Qi Zhao, Wei Zou, Eliminating amplitude death by the asymmetry coupling and process delay in coupled oscillators, European Physical Journal B, 2016, 89(2): 1-6

(36) Liwei Liu*, Chao Li, Fenglan Bai, Qi Zhao, Ying Wang, An optimization approach and its application to compare DNA Sequences, Journal of Molecular Structure, 2015, 1082: 49-55

(37) Lan Nguyen*, Qi Zhao, Thawfeek Varusai, Boris Kholodenko*, Ubiquitin chain specific auto-ubiquitination triggers sustained oscillation, bistable switches and excitable firing, IET Systems Biology, 2014, 8(6): 282-292

(38) Chenggui Yao*, Qi Zhao, Weiqing Liu, Jun Yu, Collective dynamics induced by diversity taken from two-point distribution in globally coupled chaotic oscillators, Nonlinear Dynamics, 2014, 75(1-2): 17-26

(39) Tong-Bo Liu, Jun Ma, Qi Zhao, Jun Tang*, Force exerted on the spiral tip by the heterogeneity in an excitable medium, Europhysics Letters, 2013, 104(5): 298-304

(40) Chenggui Yao*, Qi Zhao, Jun Yu*, Complete synchronization induced by disorder in coupled chaotic lattices, Physics Letters A, 2013, 377(5): 370-377

(41) Chenggui Yao*, Wei Zou, Qi Zhao, The study of amplitude death in globally delay-coupled nonidentical systems based on order parameter expansion, Chaos, 2012, 22(2): 023149

(42) Qi Zhao, Ming Yi*, Yan Liu, Spatial distribution and dose-response relationship for different operation modes in a reaction-diffusion model of MAPK cascade, Physical Biology, 2011, 8(5): 055004

(43) Qi Zhao, Chenggui Yao, Ming Yi*, Spatiotemporal stochastic resonance in a bistable FitzHugh-Nagumo ring with phase-repulsive coupling, European Physical Journal B, 2011, 84(2): 299-305

(44) Ming Yi #*, Qi Zhao#, Jun Tang, Canjun Wang, A theoretical modeling for frequency modulation of Ca2+ signal on activation of MAPK cascade, Biophysical Chemistry, 2011, 157(1-3): 33-42

(45) Qi Zhao, Ming Yi, Kelin Xia, Meng Zhan*, Information propagation from IP3 to target protein: a combined model for encoding and decoding of Ca2+ signal, Physica A, 2009, 388(19): 4105-4114

(46) Wei Zou, Xingang Wang, Qi Zhao, Meng Zhan*, Oscillation death in coupled oscillators, Frontiers of Physics, 2009, 4(1): 97-110

Editorial Board

Associate Editor of Frontiers in Microbiology

Editorial Board Member of Scientific Reports

Editorial Board Member of PLOS ONE

Editorial Board Member of Current Protein & Peptide Science

PC member of BIBM 2019

PC member of ICIC 2019

PC member of ICIC 2018

Review Editor of the journal(s) Frontiers in Genetics, Plant Science and Bioengineering and Biotechnology

Guest editor of Frontiers in Microbiology

Guest editor of Current Medicinal Chemistry

Guest editor of Current Protein & Peptide Science

Guest editor of Current Topics in Medicinal Chemistry

Guest editor of Protein & Peptide Letters