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Welcome to Xiaogen Zhou's Homepage!

  Xiaogen Zhou Ph.D
  Correspondence Department of Computational Medicine and Bioinformatics, University of Michigan, Medical School
100 Washtenaw Avenue, Ann Arbor, MI 48109-2218
  Email xiaogenz@umich.edu
  OCRID https://orcid.org/0000-0001-6839-1923
  ResearchGate https://www.researchgate.net/profile/Xiaogen_Zhou
Brief Biography 

Dr. Xiaogen Zhou received his Ph.D degree from Guijun Zhang's Lab at College of Information Engineering in Zhejiang University of Technology in 2018. From 2016.12-2018.2, he acted as a jointly trained PhD student of China Scholar Council in Yang Zhang Lab at the University of Michigan (Ann Arbor) in USA. He is currently a Post-Doctoral Fellow of Yang Zhang Lab at Department of Computational Medicine and Bioinformatics in University of Michigan (Ann Arbor). His research interests include multi-doamin protein structure prediction, experimental data assisted multi-doamin structure assembly, and evolutionary algorithm research.

Publications (>> Google Scholar Citation Profile)
Journal Papers
  • Xiaogen Zhou, Yang Li, Chengxin Zhang, Wei Zheng, Guijun Zhang, Yang Zhang. Progressive assembly of multi-domain protein structures from cryo-EM density maps. Nature Computational Science, 2: 265-275, 2022. [Web Server]

  • Xiaogen Zhou, Wei Zheng, Yang Li, Robin Pearce, Chengxin Zhang, Eric W. Bell, Guijun Zhang, Yang Zhang. I-TASSER-MTD: A deep-learning based platform for multi-domain protein structure and function prediction. Nature Protocols, in press, 2022. [Web Server]

  • Xiaogen Zhou, Chunxiang Peng, Wei Zheng, Yang Li, Guijun Zhang, Yang Zhang. DEMO2: Assemble multi-domain protein structures by coupling analogous template alignments with deep-learning inter-domain restraint prediction. Nucleic Acids Research, in press, 2022. [Web Server]

  • Xiaogen Zhou, Jun Hu, Chengxin Zhang, Guijun Zhang, and Yang Zhang. Assembling multidomain protein structures through analogous global structural alignments . Proceedings of the National Academy of Sciences, 2019, 116(32): 15930-15938. [Web Server]

  • Xiaogen Zhou, Chunxiang Peng, Jun Liu, Yang Zhang, and Guijun Zhang. Underestimation-assisted global-local cooperative differential evolution and the application to protein structure prediction . IEEE Transactions on Evolutionary Computation, 2020, 24(3): 536-550.

  • Xiaogen Zhou and Guijun Zhang. Differential Evolution With Underestimation-Based Multimutation Strategy . IEEE Transactions on Cybernetics, 2019, 49(4): 1353-1364.

  • Xiaogen Zhou and Guijun Zhang. Abstract convex underestimation assisted multistage differential evolution . IEEE Transactions on Cybernetics, 2017, 47(9): 2730-2741.

  • Xiaogen Zhou, Guijun Zhang, Xiaohu Hao, and Li Yu. A novel differential evolution algorithm using local abstract convex underestimate strategy for global optimization . Computers & Operations Reasearch, 2016, 75(11): 132-129.

  • Xiaogen Zhou, Guijun Zhang, Xiaohu Hao, Li Yu, and Dongwei Xu. Enhanced differential evolution using local Lipschitz underestimate strategy for computationally expensive optimization problems . Applied Soft Computing, 2016, 48(11): 169-181.

  • Xiaogen Zhou, Guijun Zhang, and Xiaohu Hao. Differential evolution algorithm with local abstract convex region rartition . Acta Automatica Sinica , 2015, 41(07): 1315-1327.

  • Xiaogen Zhou, Guijun Zhang, Xiaohu Hao, and Li Yu. Differential evolution algorithm based on local Lipschitz underestimate supporting hyperplanes . Chinese Journal of Computers, 2016, 39(12): 2631-2651.

  • Xiaogen Zhou, Guijun Zhang, Shan Mei, and Jie Ming. Differential evolution algorithm based on abstract convex underestimate selection strategy . Control Theory & Applications, 2015, 32(03): 388-397.

  • Guijun Zhang, Xiaogen Zhou, Xufeng Yu, and Xiaohu Hao. Enhancing protein conformational space sampling using distance profile-guided differential evolution . IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2017, 14(6): 1288-1301.

  • Zhangwei Li, Ke Sun, Xiaohu Hao, Jun Hu, Laifa Ma, Xiaogen Zhou, and Guijun Zhang. Loop enhanced conformational resampling method for protein structure prediction. IEEE Transactions on NanoBioscience. DOI:10.1109/TNB.2019.2922101, 2019.

  • Guijun Zhang, Tengyu Xie, Xiaogen Zhou, Liujing Wang, and Jun Hu. Protein structure prediction using population-based algorithm guided by information entropy. IEEE/ACM Transactions on Computational Biology and Bioinformatics. DOI:10.1109/TCBB.2019.2921958, 2019.

  • Guijun Zhang, Xiaoqi Wang, Laifa Ma, Liujing Wang, Jun Hu, and Xiaogen Zhou. Two-stage Distance Feature-based Optimization Algorithm for De novo Protein Structure Prediction. IEEE/ACM Transactions on Computational Biology and Bioinformatics. DOI:10.1109/TCBB.2019.2917452, 2019.

  • Xiaohu Hao, Guijun Zhang, and Xiaogen Zhou. Conformational space sampling method using multi-subpopulation differential evolution for De novo protein structure prediction . IEEE Transactions on NanoBioscience, 2017, 16(7): 618-633.

  • Xiaohu Hao, Guijun Zhang, Xiaogen Zhou, and Xufeng Yu. A Novel Method Using Abstract Convex Underestimation in Ab-initio Protein Structure Prediction for Guiding Search in Conformational Feature Space . IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2016, 13(5): 887-900.

  • Xiaohu Hao, Guijun Zhang, and Xiaogen Zhou. Guiding exploration in conformational feature space with Lipschitz underestimation for ab-initio protein structure prediction . Computational biology and chemistry, 2018, 73(4):105-119.

  • Guijun Zhang and Xiaogen Zhou. Population-based global optimization algorithm using abstract convex underestimate . Control and Decision, 2015, 30(06): 1116-1120.

  • Liujing Wang, Guijun Zhang, and Xiaogen zhou. Adaptive multi-strategy differential evolution algorithm based on state estimation feedback, Acta Automatica Sinica, in press.

  • Guijun Zhang, Ming Chen, and Xiaogen Zhou. Two-stage differential evolution algorithm using dynamic niche radius for multimodal optimization, Control and Decision, 2016, 31(07): 1185-1191.

  • Guijun Zhang, Liujing Wang, Xiaogen Zhou, and Qing Ding. Differential evolution algorithm with conjugate enhancement strategy, Control and Decision, 2017, 32(07): 1313-1318.

  • Guijun Zhang, Xiaohu Hao, Xiaogen Zhou, and Chuanqing Qin. Ab-initio dynamic-step-size searching of protein conformational space, Journal of Jilin University, 2016, 46(2): 585-594.

  • Xiaohu Hao, Guijun Zhang, Xiaogen Zhou, and Chuanqing Qian. Protein conformational space optimization algorithm based on fragment-assembly, Computer Science, 2015, 42(03): 237-240.

  • Guijun Zhang, Hudong Xia, Xiaogen Zhou, and Beijin Zhang. Hybrid differential evolution based on tabu search algorithm for distribution network line planning, Computer Science, 2016, 43(10): 248-255.

Conference Papers
  • Xiaogen Zhou, Guijun Zhang, Xiaohu Hao, Li Yu, and Dongwei Xu. Differential Evolution with multi-stage strategies for global optimization . IEEE Congress on Evolutionary Computation, 2016, 2550-2557, Canada.

  • Guijun Zhang, Dongwei Li, Xiaogen Zhou, and Dongwei Xu. Differential evolution with dynamic niche radius strategy for multimodal optimization . The 27th Chinese Control and Decision Conference, 2015, 3059-3064, Qingdao.

  • Guijun Zhang, Xufeng Yu, Xiaogen Zhou, and Xiaohu Hao. A population-based conformational optimal algorithm using replica-exchange in ab-initio protein structure prediction . The 28th Chinese Control and Decision Conference, 2016, 701-706, Yinchuan.

Patents

  • Guijun Zhang, Xiaogen Zhou, Xufeng Xu, Xiaohu Hao, and Liujing Wang. A conformational space sampling method based on the population-based multi-stage strategy, CN, ZL201610121504.8.

  • Guijun Zhang, Xiaogen Zhou, Liujing Wang, and Xiaohu Hao. A population-based Lipschitz underestimation method for the protein structure prediction, CN, ZL201610219089.X.

  • Guijun Zhang, Xiaogen Zhou, Xufeng Yu, and Xiaohu Hao. A centroid mutation differential evolution algorithm for protein structure prediction, CN, ZL201610390675.0.

  • Guijun Zhang, Xiaogen Zhou, Liujing Wang, and Xiaohu Hao. A multi-strategy population-based algorithm using local abstract convex supporting hyperplanes for protein structure prediction, CN, ZL201610884824.9.

  • Guijun Zhang, Xiaogen Zhou, Xufeng Yu, and Xiaohu Hao. A double-layer differential evolution with local Lipschitz hyperplanes for the protein structure prediction, CN, ZL201610265960.X.

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