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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]
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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, 17: 2326-2353, 2022.
[Web Server]
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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, 50(W1): W235-W245, 2022.
[Web Server]
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Ziying Zhang, Yaxian Cai, Biao Zhang, Wei Zheng, Lydia Freddolino, Guijun Zhang, Xiaogen Zhou.
DEMO-EM2: Assembling protein complex structures from cryo-EM maps through intertwined chain and domain fitting.
Briefings in Bioinformatics, 25(2): bbae113, 2024.
[Web Server]
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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]
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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.
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Xiaogen Zhou and Guijun Zhang.
Differential Evolution With Underestimation-Based Multimutation Strategy .
IEEE Transactions on Cybernetics, 2019, 49(4): 1353-1364.
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Xiaogen Zhou and Guijun Zhang.
Abstract convex underestimation assisted multistage differential evolution .
IEEE Transactions on Cybernetics, 2017, 47(9): 2730-2741.
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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.
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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.
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Xiaogen Zhou, Guijun Zhang, and Xiaohu Hao.
Differential evolution algorithm with local abstract convex region rartition .
Acta Automatica Sinica , 2015, 41(07): 1315-1327.
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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.
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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.
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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.
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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.
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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.
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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.
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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.
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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.
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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.
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Guijun Zhang and Xiaogen Zhou.
Population-based global optimization algorithm using abstract convex underestimate .
Control and Decision, 2015, 30(06): 1116-1120.
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Liujing Wang, Guijun Zhang, and Xiaogen zhou. Adaptive multi-strategy differential evolution algorithm based on state estimation feedback,
Acta Automatica Sinica, in press.
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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.
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Guijun Zhang, Liujing Wang, Xiaogen Zhou, and Qing Ding.
Differential evolution algorithm with conjugate enhancement strategy,
Control and Decision, 2017, 32(07): 1313-1318.
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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.
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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.
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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.
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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.
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Guijun Zhang, Xiaogen Zhou, Liujing Wang, and Xiaohu Hao.
A population-based Lipschitz underestimation method for the protein structure prediction, CN, ZL201610219089.X.
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Guijun Zhang, Xiaogen Zhou, Xufeng Yu, and Xiaohu Hao.
A centroid mutation differential evolution algorithm for protein structure prediction, CN, ZL201610390675.0.
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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.
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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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