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Prediction of Long-Term Extreme Response of Fish Cage Using Environmental Contour Method

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China Ocean Engineering 2021年第3期35卷 332-343页

作者： BAI Xiao-dong guo wei-wei YANG Can LUO Han-bing State Key Laboratory of Hydraulic Engineering Simulation and Safety Tianjin UniversityTianjin 300072China Department of Naval Architecture and Ocean Engineering Tianjin UniversityTianjin 300072China China Water Resources Bei Fang Investigation Design and Research CO.LTDTianjin 300222China College of Shipbuilding Engineering Harbin Engineering UniversityHarbin 150001China

The fish cage design requires accurate predictions of long-term extreme loads and *** with the time-consuming full long-term analysis method integrating all the probability distribution of the short-term extremes,the environmental contour method gains much attention in predicting the long-term extreme values due to the less computational *** paper investigates the long-term extreme response of a fish cage using the environmental contour *** fish cage is numerically simulated based on the lumped-mass method and the curved beam *** on the one-dimensional(1D)and two-dimensional(2D)environmental contour,the extreme responses,including the surge and heave motions,mooring force,and vertical bending of the floater,are predicted for different return periods and compared with the full long-term analysis *** indicate that the 1D method greatly underestimates the extreme *** 2D environmental contour method with a higher percentile level,namely90%,provides reasonable estimations and seems to be suitable for the long-term value *** studies show that the mooring arrangement and the bending stiffness have great effects on the bending moment and the mooring force and the mooring line pre-tension has minor effects on the fish cage response.

关键词： fish cage long-term extreme value environmental contour method sensitivity analysis

Simulation of Inviscid Compressible Flows Using PDE Transform

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Communications in Computational Physics 2014年第10期16卷 1201-1238页

作者： Langhua Hu Siyang Yang guo-wei wei Department of Mathematics Michigan State UniversityMI 48824USA. Department of Electrical and Computer Engineering Michigan State UniversityMI 48824USA. Center for Mathematical Molecular Biosciences Michigan State UniversityMI 48824USA.

The solution of systems of hyperbolic conservation laws remains an interesting and challenging task due to the diversity of physical origins and complexity of the physical *** present work introduces the use of the partial differential equation(PDE)transform,paired with the Fourier pseudospectral method(FPM),as a new approach for hyperbolic conservation law *** PDE transform,based on the scheme of adaptive high order evolution PDEs,has recently been applied to decompose signals,images,surfaces and data to various target functional mode functions such as trend,edge,texture,feature,trait,noise,*** wavelet transform,the PDE transform has controllable time-frequency localization and perfect reconstruction.A fast PDE transform implemented by the fast Fourier Transform(FFT)is introduced to avoid stability constraint of integrating high order *** parameters of the PDE transform are adaptively computed to optimize the weighted total variation during the time integration of conservation law equations.A variety of standard benchmark problems of hyperbolic conservation laws is employed to systematically validate the performance of the present PDE transform based *** impact of two PDE transform parameters,i.e.,the highest order and the propagation time,is carefully studied to deliver the best effect of suppressing Gibbs’*** PDE orders of 2-6 are used for hyperbolic conservation laws of low oscillatory solutions,while the PDE orders of 8-12 are often required for problems involving highly oscillatory solutions,such as shock-entropy wave *** present results are compared with those in the *** is found that the present approach not only works well for problems that favor low order shock capturing schemes,but also exhibits superb behavior for problems that require the use of high order shock capturing methods.

关键词： Partial differential equation transform hyperbolic conservation laws Fourier pseudospectral method adaptive lowpass filters Gibbs’oscillations.

Quantum Dynamics in Continuum for Proton Transport I:Basic Formulation

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Communications in Computational Physics 2013年第1期13卷 285-324页

作者： Duan Chen guo-wei wei Department of Mathematics Michigan State UniversityEast LansingMI 48824USA Department of Electrical and Computer Engineering Michigan State UniversityEast LansingMI 48824USA

Proton transport is one of the most important and interesting phenomena in living *** present work proposes a multiscale/multiphysics model for the understanding of the molecular mechanism of proton transport in transmembrane *** describe proton dynamics quantum mechanically via a density functional approach while implicitly model other solvent ions as a dielectric continuum to reduce the number of degrees of *** densities of all other ions in the solvent are assumed to obey the Boltzmann *** impact of protein molecular structure and its charge polarization on the proton transport is considered explicitly at the atomic *** formulate a total free energy functional to put proton kinetic and potential energies as well as electrostatic energy of all ions on an equal *** variational principle is employed to derive nonlinear governing equations for the proton transport *** Poisson-Boltzmann equation and Kohn-Sham equation are obtained from the variational *** formulations for the proton density and proton conductance are constructed based on fundamental *** molecular surface of the channel protein is utilized to split the discrete protein domain and the continuum solvent domain,and facilitate the multiscale discrete/continuum/quantum descriptions.A number of mathematical algorithms,including the Dirichlet to Neumann mapping,matched interface and boundary method,Gummel iteration,and Krylov space techniques are utilized to implement the proposed model in a computationally efficient *** Gramicidin A(GA)channel is used to demonstrate the performance of the proposed proton transport model and validate the efficiency of proposed mathematical *** electrostatic characteristics of the GA channel is analyzed with a wide range of model *** proton conductances are studied over a number of applied voltages and reference concentrations.A comparison with experimental

关键词： Proton transport quantum dynamics in continuum multiscale model PoissonBoltzmann equation generalized Kohn-Sham equation variational principle

Topological representations of crystalline compounds for the machine-learning prediction of materials properties

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npj Computational Materials 2021年第1期7卷 240-247页

作者： Yi Jiang Dong Chen Xin Chen Tangyi Li guo-wei wei Feng Pan School of Advanced Materials Peking UniversityShenzhen Graduate SchoolShenzhenPR China Department of Mathematics Michigan State UniversityEast LansingMIUSA

Accurate theoretical predictions of desired properties of materials play an important role in materials research and *** learning(ML)can accelerate the materials design by building a model from input *** complex datasets,such as those of crystalline compounds,a vital issue is how to construct low-dimensional representations for input crystal structures with chemical *** this work,we introduce an algebraic topology-based method,called atom-specific persistent homology(ASPH),as a unique representation of crystal *** ASPH can capture both pairwise and many-body interactions and reveal the topology-property relationship of a group of atoms at various *** with composition-based attributes,ASPH-based ML model provides a highly accurate prediction of the formation energy calculated by density functional theory(DFT).After training with more than 30,000 different structure types and compositions,our model achieves a mean absolute error of 61 meV/atom in cross-validation,which outperforms previous work such as Voronoi tessellations and Coulomb matrix method using the same ML algorithm and *** results indicate that the proposed topology-based method provides a powerful computational tool for predicting materials properties compared to previous works.

关键词： crystalline topology crystal

APPLICATION OF LYAPUNOV EXPONENT SPECTRUM IN PRESSURE FLUCTUATION OF DRAFT TUBE

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Journal of Hydrodynamics 2009年第6期21卷 856-860页

作者： WANG Li-ying ZHAO wei-guo wei De-hua College of Water Conservancy and Hydroelectric Power Hebei University of Engineering Handan 056021 China

The Lyapunov exponent spectrum is firstly applied in the analysis of pressure fluctuation of draft tube and calculated based on the time series of vibration in experiments for different situations. Results shows that the Lyapunov exponent spectrum varies with the setting of guide vane, So the Lyapunov exponent spectrum can be used to judge the pressure fluctuation of draft tube so as to timely adjust the setting of the guide vanes to reduce the damage caused by the vibration.

关键词： Lyapunov exponent spectrum pressure fluctuation setting of guide vanes

Biomolecular Topology:Modelling and Analysis

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Acta Mathematica Sinica,English Series 2022年第10期38卷 1901-1938页

作者： Jian LIU Ke-Lin XIA Jie WU Stephen Shing-Toung YAU guo-wei wei School of Mathematical Sciences Hebei Normal UniversityShijiazhuang 050024P.R.China Yanqi Lake Beijing Institute of Mathematical Sciences and Applications Beijing 101408P.R.China School of Physical and Mathematical Sciences Nanyang Technological UniversitySingapore 639798 Department of Mathematical Sciences Tsinghua UniversityBeijing 100084P.R.China Department of Mathematics&Department of Biochemistry and Molecular Biology&Department of Electrical and Computer Engineering Michigan State UniversityWells Hall 619 Red Cedar Road East LansingMI 48824-1027US

With the great advancement of experimental tools,a tremendous amount of biomolecular data has been generated and accumulated in various *** high dimensionality,structural complexity,the nonlinearity,and entanglements of biomolecular data,ranging from DNA knots,RNA secondary structures,protein folding configurations,chromosomes,DNA origami,molecular assembly,to others at the macromolecular level,pose a severe challenge in their analysis and *** the past few decades,mathematical concepts,models,algorithms,and tools from algebraic topology,combinatorial topology,computational topology,and topological data analysis,have demonstrated great power and begun to play an essential role in tackling the biomolecular data *** this work,we introduce biomolecular topology,which concerns the topological problems and models originated from the biomolecular *** specifically,the biomolecular topology encompasses topological structures,properties and relations that are emerged from biomolecular structures,dynamics,interactions,and *** discuss the various types of biomolecular topology from structures(of proteins,DNAs,and RNAs),protein folding,and protein assembly.A brief discussion of databanks(and databases),theoretical models,and computational algorithms,is ***,we systematically review related topological models,including graphs,simplicial complexes,persistent homology,persistent Laplacians,de Rham-Hodge theory,Yau-Hausdorff distance,and the topology-based machine learning models.

关键词： Persistent homology topological data analysis biomolecular topology protein structure machine learning

The effect of Hath1 over-expression in of guinea pig cochlea at one month after noise damage

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Journal of Otology 2010年第1期5卷 30-33页

作者： guo wei-wei YANG Shi-ming Department of Otolaryngology Head&Neck SurgeryInstitute of OtolaryngologyChinese PLA General HospitalBeijing 100853China

Objective To study effects of Adenovirus -mediated Hath1 expression in guinea pig cochlea at one month after exposure to intensive noise. Methods Normal hearing guinea pigs, weighing 250-300g, received exposure to 200 rounds of impulse noise at 170 dB sound pressure level (SPL). The virus vector was inoculated into the left cochlea 1 month after noise exposure. Animals were tested using ABR and prepared for morphological examinations includeing immunocytochemistry and SEM 4 weeks after vector inoculation. Results The adenovirus mediated report gene expressed in the damaged area. There were no significant differences between treated and control animal in ABR threshold and morphologic changes. No new hair cells appeared in the Hath1 treated animals. Conclusion Forced hath1 over-expression in the cochlea 1 month after noise exposure does not lead to appearance of new hair cells.

关键词： hair cell damage Hath1 noise

Persistent Homology for the Quantitative Analysis of the Structure and Stability of Carboranes

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Chinese Journal of Structural Chemistry 2020年第6期39卷 999-1008页

作者： CHEN Dong ZHANG Ming-Zheng CHEN Hai-Biao XIE Zuo-wei wei guo-wei PAN Feng School of Advanced Materials Peking University Shenzhen Graduate School Shenzhen 518055China Department of Chemistry and State Key Laboratory of Synthetic Chemistry The Chinese University of HongKongShatinNew TerritoriesHong KongChina Department of Mathematics Michigan State UniversityMI 48824 USA Department of Electrical and Computer Engineering Michigan State UniversityMI 48824USA Department of Biochemistry and Molecular Biology Michigan State UniversityMl 48824USA

Persistent homology is a powerful and novel tool for quantifying the inherent topological features of structure. In this work, we used the persistent homology for the first time to study the closo-carboranes C2Bn-2Hn(n = 5~20) and their parent structures closo-boranes dianions BnHn2-(n = 5~20), where multiple elements are present. All these structures are first investigated with the standard Vitoris-Rips complex. We interpret all barcodes representation and associate them with structural details. By means of average bar length, a linear regression model was established to construct the relationship between persistent homology features and molecular stability, which was expressed by the relative energies. For closo-boranes dianions, we only use B atom set since B and H atoms are in pairs. The average lengths of β0, β1 and β2 bars are used as the features for linear regression, and excellent correlation coefficient(0.977) between the values predicted by persistent homology and those by quantum calculations was achieved. For closo-carboranes, C–B atom set(ignore the differences in the atoms), B atom set and C atom set were considered to get the persistent homology features(since there were only two C atoms in C2Bn-2Hn, only β0 bars were considered), and seven average bar lengths were calculated, respectively. Pearson coefficient of 0.937 was obtained. We found that the stability of carboranes showed a high linear correlation with the characteristics generated from topological bars in H0, H1 and H2. The results show that the topological information generated by persistent homology can be extended and applied to multi-element systems.

关键词： topology persistent homology carboranes filtration stability relative energy

Quantitative Relations between Outer Hair Cell Electromotility and Nonlinear Capacitance

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Journal of Otology 2012年第1期7卷 45-53页

作者： WANG Xiang guo wei-wei YANG Shi-Ming Department of Otolaryngology Head and Neck Surgery Institute of OtolaryngologyChinese PLA General HospitalBeijing 100853China

The electrically evoked somatic motility of outer hair cells （OHC）, briefly termed OHC electromotility, plays a crucial role in cochlear amplification that underlies the remarkably high sensitivity and frequency selectivity of the mammalian hearing. Accompanying OHC electromotility is a voltage-dependent gating charge movement within the cell lateral membrane, manifested as a measurable nonlinear capacitance （NLC） in OHCs. The electromotility and NLC of OHCs are highly correlated by sharing a common molecular substrate, the motor protein prestin. In this study, we systematically characterized the quantitative relationship between OHC electromotility and NLC in their voltage dependences for the purpose of further understanding the electromechanical transduction in OHCs. The results demonstrated that the two possess differing voltage dependences with the V^2 of electromotility consistently being -20 mV depolarized in comparison with that of NLC although their slope factors a are statistically identical. Further investigations showed that the initial state of OHCs influences the voltage dependence of electromotility but not that of NLC, indicating that some biophysical factors other than the motor protein per se are involved in the process of OHC length changes. We proposed that the cytoskeletal spectrin-actin framework underneath the OHC plasma membrane and the cell＇ s turgor are the two most probable factors that cause the voltage-dependence discrepancy between OHC electromotility and NLC.

关键词： Outer hair cell Electromotility Nonlinear Capacitance Prestin Cochlea