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1,596 results on '"Zheng, Xiaoming"'

6. The pan-tandem repeat map highlights multiallelic variants underlying gene expression and agronomic traits in rice

Author

He, Huiying, Leng, Yue, Cao, Xinglan, Zhu, Yiwang, Li, Xiaoxia, Yuan, Qiaoling, Zhang, Bin, He, Wenchuang, Wei, Hua, Liu, Xiangpei, Xu, Qiang, Guo, Mingliang, Zhang, Hong, Yang, Longbo, Lv, Yang, Wang, Xianmeng, Shi, Chuanlin, Zhang, Zhipeng, Chen, Wu, Zhang, Bintao, Wang, Tianyi, Yu, Xiaoman, Qian, Hongge, Zhang, Qianqian, Dai, Xiaofan, Liu, Congcong, Cui, Yan, Wang, Yuexing, Zheng, Xiaoming, Xiong, Guosheng, Zhou, Yongfeng, Qian, Qian, and Shang, Lianguang

Published
2024
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7. Haplotype-resolved gapless genome and chromosome segment substitution lines facilitate gene identification in wild rice

Author

Huang, Jingfen, Zhang, Yilin, Li, Yapeng, Xing, Meng, Lei, Cailin, Wang, Shizhuang, Nie, Yamin, Wang, Yanyan, Zhao, Mingchao, Han, Zhenyun, Sun, Xianjun, Zhou, Han, Wang, Yan, Zheng, Xiaoming, Xiao, Xiaorong, Fan, Weiya, Liu, Ziran, Guo, Wenlong, Zhang, Lifang, Cheng, Yunlian, Qian, Qian, He, Hang, Yang, Qingwen, and Qiao, Weihua

Published
2024
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9. Numerical algorithms and simulations of boundary dynamic control for optimal mixing in unsteady Stokes flows

Author

Zheng, Xiaoming, Hu, Weiwei, and Wu, Jiahong

Subjects
Physics - Fluid Dynamics, Mathematics - Optimization and Control, 49M41, 65K10, 76D55
Abstract

This work develops an efficient and accurate optimization algorithm to study the optimal mixing problem driven by boundary control of unsteady Stokes flows, based on the theoretical foundation laid by Hu and Wu in a series of work. The scalar being mixed is purely advected by the flow and the control is a force exerted tangentially on the domain boundary through the Navier slip conditions. The control design has potential applications in many industrial processes such as rotating wall driven mixing, micromixers with acoustic waves, and artificial cilia mixing. The numerical algorithms have high complexity, high accuracy demand, and high computing expense, due to the multiscale nature of the mixing problem and the optimization requirements. A crucial problem is the computation of the G$\^a$teaux derivative of the cost functional. To this end, a hybrid approach based on variational formula and finite difference is built with high accuracy and efficiency to treat various types of control input functions. We have experimented with various optimization schemes including the steepest descent algorithm, the conjugate gradient method and two line search options (backtracking and exact line search). We are able to identify and implement the best combinations. The numerical simulations show that the mixing efficacy is limited when only one single type of control is applied, but can be enhanced when more diverse control types and more time segmentation are utilized. The mix-norm in the optimal mixings decays exponentially. The numerical study in this work demonstrates that boundary control alone could be an effective strategy for mixing in incompressible flows., Comment: 36 pages

Published
2023

10. Iterative projection method for unsteady Navier-Stokes equations with high Reynolds numbers

Author

Zheng, Xiaoming, Zhao, Kun, Wu, Jiahong, Hu, Weiwei, and Du, Dapeng

Subjects
Mathematics - Numerical Analysis
Abstract

A new approach, iteration projection method, is proposed to solve the saddle point problem obtained after the full discretization of the unsteady Navier-Stokes equations. The proposed method iterates projections in each time step with a proper convection form. We prove that the projection iterations converge with a certain parameter regime. Optimal iteration convergence can be achieved with the modulation of parameter values. This new method has several significant improvements over the Uzawa method and the projection method both theoretically and practically. First, when the iterative projections are fully convergent in each time step, the numerical velocity is weakly divergence free (pointwise divergence free in divergence free finite element methods), and the stability and error estimate are rigorously proven. With proper parameters, this method converges much faster than the Uzawa method. Second, numerical simulations show that with rather relaxed stopping criteria which require only a few iterations each time step, the numerical solution preserves stability and accuracy for high Reynolds numbers, where the convectional projection method would fail. Furthermore, this method retains the efficiency of the traditional projection method by decoupling the velocity and pressure fields, which splits the saddle point system into small elliptic problems. Three dimensional simulations with Taylor-Hood P2/P1 finite elements are presented to demonstrate the performance and efficiency of this method. More importantly, this method is a generic approach and thus there are many potential improvements and extensions of the iterative projection method, including utilization of various convection forms, association with stabilization techniques for high Reynolds numbers, applications to other saddle point problems.

Published
2023

15. Boundary control for optimal mixing via Stokes flows and numerical implementation

Author

Hu, Weiwei and Zheng, Xiaoming

Subjects
Mathematics - Optimization and Control, Fluid Dynamics (physics.flu-dyn)
Abstract

This work develops scientific computing techniques to further the exploration of using boundary control alone to optimize mixing in Stokes flows. The theoretical foundation including mathematical model and the optimality conditions for solving the optimal control has been established by Hu and Wu in a series of work. The scalar being mixed is purely advected by the flow and the control is exerted tangentially on the domain boundary through the Navier slip conditions. The control design is motivated by the physical observations that the moving or rotating walls accelerate mixing. A gradient descent-based optimization algorithm is designed. A critical problem is the computation of the Gateaux derivative or the gradient of the cost functional. Two methods are proposed: one is based on the Variational Formula (VF) and one utilizes Algorithmic Differentiation (AD). The convergence of the algorithm is studied and various designs of boundary control using cosine and sine functions with time segmentation are computed. The algorithm has a first order convergence rate and the VF method is more efficient by taking only one third of the time as the AD method when the dimension of control basis is large. The numerical implementations show that the boundary control produces similar mixing results as internal mixings in the existing literature. The mixing effect becomes better when more diverse basis control functions and more time segmentation are utilized. It is shown that the mixing decay rate in time follows power rules, approximately. The numerical study in this work suggests that boundary control alone could be an effective strategy for mixing in incompressible fluid flows., Comment: This article was significantly upgraded, and the new version is available in arXiv:2306.10690

Published
2021

20. A de novo evolved gene contributes to rice grain shape difference between indica and japonica

Author

Chen, Rujia, Xiao, Ning, Lu, Yue, Tao, Tianyun, Huang, Qianfeng, Wang, Shuting, Wang, Zhichao, Chuan, Mingli, Bu, Qing, Lu, Zhou, Wang, Hanyao, Su, Yanze, Ji, Yi, Ding, Jianheng, Gharib, Ahmed, Liu, Huixin, Zhou, Yong, Tang, Shuzhu, Liang, Guohua, Zhang, Honggen, Yi, Chuandeng, Zheng, Xiaoming, Cheng, Zhukuan, Xu, Yang, Li, Pengcheng, Xu, Chenwu, Huang, Jinling, Li, Aihong, and Yang, Zefeng

Published
2023
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25. A natural gene drive system confers reproductive isolation in rice

Author

Wang, Chaolong, Wang, Jian, Lu, Jiayu, Xiong, Yehui, Zhao, Zhigang, Yu, Xiaowen, Zheng, Xiaoming, Li, Jing, Lin, Qibing, Ren, Yulong, Hu, Yang, He, Xiaodong, Li, Chao, Zeng, Yonglun, Miao, Rong, Guo, Mali, Zhang, Bosen, Zhu, Ying, Zhang, Yunhui, Tang, Weijie, Wang, Yunlong, Hao, Benyuan, Wang, Qiming, Cheng, Siqi, He, Xiaojuan, Yao, Bowen, Gao, Junwen, Zhu, Xufei, Yu, Hao, Wang, Yong, Sun, Yan, Zhou, Chunlei, Dong, Hui, Ma, Xiaoding, Guo, Xiuping, Liu, Xi, Tian, Yunlu, Liu, Shijia, Wang, Chunming, Cheng, Zhijun, Jiang, Ling, Zhou, Jiawu, Guo, Huishan, Jiang, Liwen, Tao, Dayun, Chai, Jijie, Zhang, Wei, Wang, Haiyang, Wu, Chuanyin, and Wan, Jianmin

Published
2023
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28. A complete assembly of the rice Nipponbare reference genome

Author

Shang, Lianguang, He, Wenchuang, Wang, Tianyi, Yang, Yingxue, Xu, Qiang, Zhao, Xianjia, Yang, Longbo, Zhang, Hong, Li, Xiaoxia, Lv, Yang, Chen, Wu, Cao, Shuo, Wang, Xianmeng, Zhang, Bin, Liu, Xiangpei, Yu, Xiaoman, He, Huiying, Wei, Hua, Leng, Yue, Shi, Chuanlin, Guo, Mingliang, Zhang, Zhipeng, Zhang, Bintao, Yuan, Qiaoling, Qian, Hongge, Cao, Xinglan, Cui, Yan, Zhang, Qianqian, Dai, Xiaofan, Liu, Congcong, Guo, Longbiao, Zhou, Yongfeng, Zheng, Xiaoming, Ruan, Jue, Cheng, Zhukuan, Pan, Weihua, and Qian, Qian

Published
2023
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32. Controlled Layer-by-Layer Oxidation of MoTe2 via O3 Exposure

Author

Zheng, Xiaoming, Wei, Yuehua, Deng, Chuyun, Huang, Han, Yu, Yayun, Wang, Guang, Peng, Gang, Zhu, Zhihong, Zhang, Yi, Jiang, Tian, Qin, Shiqiao, Zhang, Renyan, and Zhang, Xueao

Subjects
Condensed Matter - Materials Science
Abstract

Growing uniform oxides with various thickness on TMDs is one of the biggest challenges to integrate TMDs into complementary metal oxide semiconductor (CMOS) logic circuits. Here, we report a layer-by-layer oxidation of atomically thin MoTe2 flakes via ozone (O3) exposure. The thickness of MoOx oxide film could be tuning with atomic-level accuracy simply by varying O3 exposure time. Additionally, MoOx-covered MoTe2 shows a hole-dominated transport behavior. Our findings point to a simple and effective strategy for growing homogenous surface oxide film on MoTe2, which is promising for several purposes in metal-oxide-semiconductor transistor, ranging from surface passivation to dielectric layers.

Published
2018
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40. Wild rice: unlocking the future of rice breeding.

Author

Zheng, Xiaoming, Peng, Youlin, Qiao, Jiyue, Henry, Robert, and Qian, Qian

Subjects
*CYTOPLASMIC male sterility, *RICE breeding, *WILD rice, *GERMPLASM, *GENETIC variation, *HYBRID rice, *RICE
Abstract

Summary: Germplasm resources serve as the foundations of advancements in breeding and are crucial for maintaining food security. Wild rice species of the genus Oryza include rich sources of genetic diversity and high adaptability, making them a substantial resource for rice breeding. The discovery of wild‐type cytoplasmic male sterility resources enabled the achievement of the 'three lines' goal in hybrid rice, significantly increasing rice yields. The application of resistance alleles from wild rice enables rice production to withstand losses caused by stress. Reduced genetic diversity due to rice breeding poses a significant limitation to further advances and can be alleviated through a systematic use of wild genetic resources that integrate geographic, climatic and environmental data of the original habitat, along with extensive germplasm collection and identification using advanced methods. Leveraging technological advancements in plant genomics, the understanding of genetic mechanisms and the application of artificial intelligence and gene editing can further enhance the efficiency and accuracy of this process. These advancements facilitate rapid isolation and functional studies of genes, and precise genome manipulation. This review systematically summarizes the utilization of superior genes and germplasm resources derived from wild rice sources, while also exploring the collection, conservation, identification and utilization of further wild rice germplasm resources. A focus on genome sequencing and biotechnology developments is leading to new breeding and biotechnology opportunities. These new opportunities will not only promote the development of rice varieties that exhibit high yields, superior stress resistance and high quality but also expand the genetic diversity among rice cultivars. [ABSTRACT FROM AUTHOR]

Published
2024
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41. Highly Efficient Hydrogenation of Guaiacol over Ru/Al 2 O 3 -TiO 2 Catalyst at Low Temperatures.

Author

Song, Yumeng, Chen, Ping, Lou, Hui, Zheng, Xiaoming, and Song, Xiangen

Abstract

In this work, the highly efficient hydrogenation of guaiacol catalyzed by ruthenium supported on Al2O3-TiO2 (Ru/Al2Ti1) at very mild conditions was carried out. At temperatures as low as 25 °C and 2 MPa H2, about 60% of guaiacol could be converted to 2-methoxycyclohexanol (MCH) with a selectivity as high as 94% on the Ru/Al2Ti1 catalyst with an appropriate hydrogen pressure. At temperatures above 50 °C, almost all of the guaiacol could be converted with the catalyst of Ru/Al2Ti1, mainly into hydrogenated products such as MCH. The surprisingly efficient hydrogenation of guaiacol at low temperatures was most likely due to the ability of Ru particles loaded on the specific complex metal oxide carriers, particularly the reduction of the edge effect of Ru, to activate phenyl and hydrogen and reduce the competition of the dimethoxy process. These findings about the high activity of the Ru/Al2Ti1 catalyst at nearly room temperature may be helpful to upgrading the industrial process of the pyrolysis bio-oils. [ABSTRACT FROM AUTHOR]

Published
2024
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42. Detection of Alzheimer's Disease Using Hybrid Meta-ROI of MRI Structural Images.

Author

Zheng, Xiaoming

Subjects
*ARTIFICIAL neural networks, *SIGNAL detection, *ALZHEIMER'S disease, *MAGNETIC resonance imaging, *BRAIN imaging
Abstract

Background: The averaged cortical thickness of meta-ROI is currently being used for the diagnosis and prognosis of Alzheimer's disease (AD) using structural MRI brain images. The purpose of this work is to present a hybrid meta-ROI for the detection of AD. Methods: The AD detectability of selected cortical and volumetric regions of the brain was examined using signal detection theory. The top performing cortical and volumetric ROIs were taken as input nodes to the artificial neural network (ANN) for AD classification. Results: An AD diagnostic accuracy of 91.9% was achieved by using a hybrid meta-ROI consisting of thicknesses of entorhinal and middle temporal cortices, and the volumes of the hippocampus and inferior lateral ventricles. Pairing inferior lateral ventricle dilation with hippocampal volume reduction improves AD detectability by 5.1%. Conclusions: Hybrid meta-ROI, including the dilation of inferior lateral ventricles, outperformed both cortical thickness- and volumetric-based meta-ROIs in the detection of Alzheimer's disease. [ABSTRACT FROM AUTHOR]

Published
2024
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48. Global wild rice germplasm resources conservation alliance: World Wild-Rice Wiring

Author

Zheng, Xiaoming, primary, Ratnasekera, Disna, additional, Fan, Jiayu, additional, Henry, Robert J., additional, Song, Beng-Kah, additional, Olsen, Kenneth M., additional, Joshi, Bal Krishna, additional, Banaticla-Hilario, Maria Celeste N., additional, Pusadee, Tonapha, additional, Melaku, Adane Getachew, additional, Estelle Loko, Yêyinou Laura, additional, Vilayheuang, Koukham, additional, Oppong, Gavers K., additional, Poku, Samuel Aduse, additional, Wambugu, Peterson W., additional, Ge, Song, additional, Junior, Aldo Merotto, additional, Aung, Ohn Mar, additional, Venuprasad, Ramaiah, additional, Kohli, Ajay, additional, Zhou, Wenbin, additional, and Qian, Qian, additional

Published
2024
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