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At least 289 records · Page 16

Pattern formation in a coupled membrane-bulk reaction-diffusion model for intracellular polarization and oscillations

Reaction-diffusion systems have been widely used to study spatio-temporal phenomena in cell biology, such as cell polarization. Coupled bulk-surface models naturally include compartmentalization of cytosolic and membrane-bound polarity molecules. Here we study the distribution of the polarity protein Cdc42 in a mass-conserved membrane-bulk model, and explore the effects of diffusion and spatial dimensionality on spatio-temporal pattern formation. We first analyze a one-dimensional (1-D) model for Cdc42 oscillations in fission yeast, consisting of two diffusion equations in the bulk domain coupled to nonlinear ODEs for binding kinetics at each end of the cell. In 1-D, our analysis reveals the existence of symmetric and asymmetric steady states, as well as anti-phase relaxation oscillations typical of slow-fast systems. We then extend our analysis to a two-dimensional (2-D) model with circular bulk geometry, for which species can either diffuse inside the cell or become bound to the membrane and undergo a nonlinear reaction-diffusion process. We also consider a nonlocal system of PDEs approximating the dynamics of the 2-D membrane-bulk model in the limit of fast bulk diffusion. In all three model variants we find that mass conservation selects perturbations of spatial modes that simply redistribute mass. In 1-D, only anti-phase oscillations between the two ends of the cell can occur, and in-phase oscillations are excluded. In higher dimensions, no radially symmetric oscillations are observed. Instead, the only instabilities are symmetry-breaking, either corresponding to stationary Turing instabilities, leading to the formation of stationary patterns, or to oscillatory Turing instabilities, leading to traveling and standing waves. Codimension-two Bogdanov—Takens bifurcations occur when the two distinct instabilities coincide, causing traveling waves to slow down and to eventually become stationary patterns. Our work clarifies the effect of geometry and dimensionality on behaviors observed in ma.ss-conserved cell polarity models.

97 MATHEMATICS AND COMPUTING↗

A long short-term memory embedding for hybrid uplifted reduced order models

In this paper, we introduce an uplifted reduced order modeling (UROM) approach through the integration of standard projection based methods with long short-term memory (LSTM) embedding. Our approach has three modeling layers or components. In the first layer, we utilize an intrusive projection approach to model dynamics represented by the largest modes. The second layer consists of an LSTM model to account for residuals beyond this truncation. This closure layer refers to the process of including the residual effect of the discarded modes into the dynamics of the largest scales. However, the feasibility of generating a low rank approximation tails off for higher Kolmogorov n -width systems due to the underlying nonlinear processes. The third uplifting layer, called super-resolution, addresses this limited representation issue by expanding the span into a larger number of modes utilizing the versatility of LSTM. Therefore, our model integrates a physics-based projection model with a memory embedded LSTM closure and an LSTM based super-resolution model. In several applications, we exploit the use of Grassmann manifold to construct UROM for unseen conditions. We performed numerical experiments by using the Burgers and Navier-Stokes equations with quadratic nonlinearity. Finally, our results show robustness of the proposed approach in building reduced order models for parameterized systems and confirm the improved trade-off between accuracy and efficiency.

42 ENGINEERING↗

Characterizing magnetized plasmas with dynamic mode decomposition

Accurate and efficient plasma models are essential to understand and control experimental devices. Existing magnetohydrodynamic or kinetic models are nonlinear and computationally intensive and can be difficult to interpret, while often only approximating the true dynamics. In this work, data-driven techniques recently developed in the field of fluid dynamics are leveraged to develop interpretable reduced-order models of plasmas that strike a balance between accuracy and efficiency. In particular, dynamic mode decomposition (DMD) is used to extract spatio-temporal magnetic coherent structures from the experimental and simulation datasets of the helicity injected torus with steady inductive (HIT-SI) experiment. Three-dimensional magnetic surface probes from the HIT-SI experiment are analyzed, along with companion simulations with synthetic internal magnetic probes. A number of leading variants of the DMD algorithm are compared, including the sparsity-promoting and optimized DMD. Optimized DMD results in the highest overall prediction accuracy, while sparsity-promoting DMD yields physically interpretable models that avoid overfitting. These DMD algorithms uncover several coherent magnetic modes that provide new physical insights into the inner plasma structure. These modes were subsequently used to discover a previously unobserved three-dimensional structure in the simulation, rotating at the second injector harmonic. Finally, using data from probes at experimentally accessible locations, DMD identifies a resistive kink mode, a ubiquitous instability seen in magnetized plasmas.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

Influence of doping and thickness on domain avalanches in lead zirconate titanate thin films

In undoped lead zirconate titanate films of 1–2 μm thick, domain walls move in clusters with a correlation length of approximately 0.5–2 μm. Band excitation piezoresponse force microscopy mapping of the piezoelectric nonlinearity revealed that niobium (Nb) doping increases the average concentration or mobility of domain walls without changing the cluster area of correlated domain wall motion. In comparison, manganese (Mn) doping reduces the contribution of mobile domain walls to the dielectric and piezoelectric responses without changing the cluster area for correlated motion. In both Nb and Mn doped films, the cluster area increases and the cluster density drops as the film thickness increases from 250 to 1250 nm. This is evident in spatial maps generated from the analysis of irreversible to reversible ratios of the Rayleigh coefficients.

36 MATERIALS SCIENCE↗

A Data-Driven Approach for High-Impedance Fault Localization in Distribution Systems

Accurate and quick identification of high-impedance faults (HIFs) is critical for the reliable operation of distribution systems. Unlike other faults in power grids, HIFs are very difficult to detect by conventional overcurrent relays due to the low fault current. Although HIFs can be affected by various factors, the voltage-current characteristics can substantially imply how the system responds to the disturbance and thus provides opportunities to effectively localize HIFs. In this work, we propose a data-driven approach for the identification of HIF events. To tackle the nonlinearity of the voltage-current trajectory, first, we formulate optimization problems to approximate the trajectory with piecewise functions. Then we collect the function features of all segments as inputs and use the support vector machine approach to efficiently identify HIFs at different locations. Numerical studies on the IEEE 123-node test feeder demonstrate the validity and accuracy of the proposed approach for real-time HIF identification.

explainable artificial intelligence↗

Improved Frequency-Domain Steady-State Modeling of the Dual-Active-Bridge Converter Considering Finite ZVS Transition Time Effects

This article presents an improved analytical modeling (IAM) approach for the dual-active-bridge (DAB) converter in the frequency-domain. Specifically, finite transition times are incorporated into the improved modeling that are significant in DAB converters operated at high frequency. The IAM approach is first motivated by comparing traditional frequency-domain modeling against realistic simulation results in LTspice. Next, the IAM approach is mathematically developed in an iterative fashion, where the conventional frequency-domain approach is used as the initialization of the operational behavior of the converter. Subsequent iterations of the IAM algorithm incorporate finite rise- and falltimes of device output capacitances based on detailed switching behavior analyses, which may considerably perturb the desired modulation parameters (i.e., phase shift and zero states). While the initially proposed IAM approach demonstrates advantages over ideal modeling, it is still shown to exhibit errors when applied to device transitions with significant nonlinearity in parasitic output capacitance. To account for this, a three-slope approximation to the switching transition is then motivated and developed, which enables significantly improved steady-state prediction accuracy. Simulation and experimental results confirm unacceptable inaccuracies associated with the conventional frequency-domain modeling across a wide range of operating conditions, alongside enhanced accuracy provided by the proposed modeling approach.

14 SOLAR ENERGY↗

Accelerated Deterministic Phonon Transport With Consistent Material Temperature and Intensities

Abstract We present a method for deterministically solving the frequency and temperature dependent phonon radiative transport (PRT) equation in the single-mode relaxation time (SMRT) approximation in the self-adjoint angular flux (SAAF) form. To handle the nonlinear coupling between the phonon intensities and the material temperature, we apply a linearization approach that is similar to one in thermal radiative transport. This procedure leads to the PRT equation with pseudo-scattering. The method presented includes acceleration of both the inner pseudo-scattering source iterations and outer temperature iteration with a gray diffusion synthetic acceleration (DSA) and Anderson acceleration, respectively. We use the finite-element method to discretize the PRT equation in space and the method of discrete ordinates (SN) for angular discretization. The proposed method is verified by a gray method of manufactured solutions problem and demonstrated on a problem using temperature and direction dependent multigroup data from lithium aluminate (LiAlO2). The iterative performance of the acceleration method in each test is then compared to the unaccelerated method.

Engineering↗

Bayesian Monte Carlo Evaluation Framework for Cross Sections Nuclear Data and Integral Benchmark Experiments

The new Bayesian Monte Carlo (MC) evaluation framework described in this abstract has been conceived as an attempt to improve nuclear data evaluations of differential crosssection data by removing the following two approximations conventionally employed for nuclear data evaluations: all probability density functions (PDFs) of all data and model parameters, both prior and posterior, are assumed to be normal (i.e., Gaussian) PDFs, and all uncertainties and covariances are propagated using a linear approximation. With these approximations removed, the Bayesian MC (BMC) framework could be used to account for nonlinear effects and would enable improved evaluations of differential cross sections and IBE data that are presently performed based on the assumptions itemized above. The BMC would also improve upon the uniform sampling of IBE parameters from within ranges defined by their evaluated uncertainties.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

A robust and efficient generalized real cascade model

This paper describes a new separation cascade model that allows for arbitrary cascade connectivity and includes the effects of mixing, material losses and generalized separation element performance. The model also accommodates mixtures with an arbitrary number of component species. The mathematical and numerical framework of this model includes both time-dependent and steady state cascade simulation. Robust numerical approximations of the continuous mathematical model are accomplished using the Sundials suite of nonlinear algebraic and differential-algebraic equation solvers. Verification of the model is accomplished using manufactured solutions while validation is demonstrated by comparison to published experimental results and benchmarks.

36 MATERIALS SCIENCE↗

A Data-Driven Approach for High-Impedance Fault Localization in Distribution Systems: Preprint

Accurate and quick identification of high-impedance faults (HIFs) is critical for the reliable operation of distribution systems. Unlike other faults in power grids, HIFs are very difficult to detect by conventional overcurrent relays due to the low fault current. Although HIFs can be affected by various factors, the voltage-current characteristics can substantially imply how the system responds to the disturbance and thus provides opportunities to effectively localize HIFs. In this work, we propose a data-driven approach for the identification of HIF events. To tackle the nonlinearity of the voltage-current trajectory, first, we formulate optimization problems to approximate the trajectory with piecewise functions. Then we collect the function features of all segments as inputs and use the support vector machine approach to efficiently identify HIFs at different locations. Numerical studies on the IEEE 123-node test feeder demonstrate the validity and accuracy of the proposed approach for real-time HIF identification.

explainable artificial intelligence↗

A memory-distributed quasi-Newton solver for nonlinear programming problems with a small number of general constraints

We approach the problem of parallelizing state-of-the-art nonlinear programming optimization algorithms.Specifically, we focus on parallelizing quasi-Newton interior-point methods that use limited-memory secant Hessian approximations. Such interior-point methods are known to have better convergence properties and to be more effective on large-scale problems than gradient-based and derivative-free optimization algorithms. We target nonlinear and potentially nonconvex optimization problems with an arbitrary number of bound constraints and a small number of general equality and inequality constraints on the optimization variables. These problems occur for example in the form of optimal control, optimal design, and inverse problems governed by ordinary or partial differential equations, whenever they are expressed in a “reduced-space” optimization approach. We introduce and analyze the time and space complexity of a decomposition method for solving the quasi-Newton linear systems that leverages the fact that the quasi-Newton Hessian matrix has a small number of dense blocks that border a low-rank update of a diagonal matrix. This enables an efficient parallelization on memory-distributed computers of the iterations of the optimization algorithm, a state-of-the-art filter line-search interior-point algorithm by Wächter et. al. We illustrate the efficiency of the proposed method by solving structural topology optimization problems on up to 4608 cores on a parallel machine.

97 MATHEMATICS AND COMPUTING↗

Aeroelastic oscillations of a cantilever with structural nonlinearities: theory and numerical simulation.

Our study details the derivation of the nonlinear equations of motion for the axial, biaxial bending and torsional vibrations of an aeroelastic cantilever undergoing rigid body (pitch) rotation at the base. The primary attenstion is focussed on the geometric nonlinearities of the system, whereby the aeroelastic load is modeled by the theory of linear quasisteady aerodynamics. This modelling effort is intended to mimic the wind-tunnel experimental setup at the Royal Military College of Canada. While the derivation closely follows the work of Hodges and Dowell [1] for rotor blades, this aeroelastic system contains new inertial terms which stem from the fundamentally different kinematics than those exhibited by helicopter or wind turbine blades. Using the Hamilton’s principle, a set of coupled nonlinear partial differential equations (PDEs) and an ordinary differential equation (ODE) are derived which describes the coupled axial-bending-bending-torsion-pitch motion of the aeroelastic cantilever with the pitch rotation. The finite dimensional approximation of the coupled system of PDEs are obtained using the Galerkin projection, leading to a coupled system of ODEs. Subsequently, these nonlinear ODEs are solved numerically using the built-in MATLAB implicit ODE solver and the associated numerical results are compared with those obtained using Houbolt’s method. It is demonstrated that the system undergoes coalescence flutter, leading to a limit cycle oscillation (LCO) due to coupling between the rigid body pitching mode and teh flexible mode arising from the flapwise bending motion.

42 ENGINEERING↗

Three-dimensional modeling and numerical predictions of multimodal nonlinear behavior in damaged concrete blocks

In this work, the multimodal nonlinear elastic behavior of concrete, which is representative of a consolidated granular material, is modeled numerically. Starting from a local three-dimensional softening law, the initial stiffness properties are re-estimated according to the local strain field. The experiments deal with samples of thermally damaged concrete blocks successively excited around their first three modes of vibration. The geometry of these samples cannot be described by a one-dimensional approximation in these experiments where compressional and shear motions are strongly coupled. Despite this added complexity, the nonlinear behavior for the three modes of vibration of the samples is well captured by the simulations using a single scalar nonlinear parameter appropriately integrated into the elasticity equations. Finally, it is shown that without sufficient attention paid to the latter, the conclusions would have brought erroneous statements such as nonlinearity dispersion or strain type dependence.

58 GEOSCIENCES↗

Temperature dependence of the Goos–Hänchen shift in the nonlinear metal-dielectric nanocomposites

In this paper the temperature-dependent Goos–Hänchen (GH) shift of the nonlinear nanocomposites made of the ellipsoidal nonlinear metal nanoparticles and ellipsoidal dielectric nanoparticles is investigated theoretically in the range of the visible wavelengths. We used the effective medium approximation in the quasi-static regime to calculate the effective permittivity of a composite (ε{sub eff}) and the stationary phase method is utilized to investigate the GH shifts. Spectral representation theory has been used to obtain the local electric field in the nonlinear metal nanoparticles. The temperature impact on the GH shift is explained by the temperature-dependent permittivity of nonlinear metal nanoparticles in the range of 300–1200 K. Our numerical analysis revealed that in addition to the magnitude of the GH shift, the lower and upper threshold of the GH bistability as a nonlinear response will be affected by a temperature increment. So that, the width of the bistability, i.e., the difference between the low and high threshold of bistability, can be tuned by temperature. It is important to note that the GH shift can be switched from positive to negative values in high temperatures for a given physical parameters. This effect can open the interesting possibility of optical switching in the considered structures. Moreover, the occurrence of optical bistability as a function of the volume fraction of nanoparticles and depolarization factor (indicating the shape of nanoparticles) are discussed. Finally, the influence of the wavelength and intensity of the incident light on the nonlinear GH shift is presented. Optimizing the results of the present work may be practically utilized in the designing of optical switching-based devices including metal-dielectric nanocomposites.

77 NANOSCIENCE AND NANOTECHNOLOGY↗

On differential singular perturbation problems: a simple variational approach

An alternative approach for the analysis and the numerical approximation of singular perturbation problems, using a variational framework, is presented. It is based on the natural idea of minimizing the residual of the differential equation measured in the L{sup 2} norm. By this strategy, the approximation is based in the solution of a set of linear problems giving the descent step directions of the problem. This is the main advantage of our approach, since we can use stable and convergent methods for linear problems (without assuming the knowledge of good initial guesses used in the approximation of the associated non-linear systems necessary in Newton-type methods). Remember that for this type of problems, we should use implicit methods. We prove that our procedure can never get stuck in local minima, and the error decreases until getting to the original solution independent of the perturbation parameter. Finally, we include some numerical examples.

97 MATHEMATICS AND COMPUTING↗

Indexing habitat opportunity for juvenile anadromous fishes in tidal-fluvial wetland systems

In intertidal wetlands, annual habitat use by migrating juvenile salmon is limited by both physical and biological constraints. Physical limits are set by inundation patterns and water quality parameters, while biological bounds are determined by species specific migration timing and seasonal residency behaviors. We developed a new metric called the fish habitat opportunity index (FHOI) to quantify the total time per calendar year that salmon could access intertidal sites, based on periods of inundation and juvenile salmon seasonal migration. The index was applied using data collected at a recently reconnected tidal freshwater wetland area during 2006-2009. We found the wetland to be accessible to different salmon species for different lengths of time and periods of the year. On average, chum salmon (Oncorhynchus keta) had remarkably consistent opportunities to use marsh habitat over the 4 years sampled, while opportunities were more variable for Chinook (O. tshawytscha), and coho salmon (O. kisutch). Inundation varied nonlinearly with tidal height, and fish had access to the productive marsh edge for approximately 40-50% of the time during periods of access. The FHOI is widely applicable to wetland systems throughout the tidal fluvial continuum, and provides a metric for assessing fish habitat opportunity that is more realistic than simple wetted area calculations. Finally, the FHOI affords a method of a priori comparison among potential restoration sites to help resource managers predict the likely relative benefit to juvenile salmon.

wetland restoration, estuary, habitat opportunity,↗

Bootstrap-based confidence interval estimation for thermal security region of bulk power grid

Thermal security region (TSR) is a powerful tool for monitoring and controlling the thermal security of bulk power grid with high penetration of renewable energy. One of the major challenges of TSR in practical application is to obtain the exact analytical expression of the TSR boundary (TSRB) because TSRB is a nonlinear hypersurface described by an implicit function. For this reason, the TSRB is usually approximated by hyperplane instead of getting the exact analytical expression. Traditionally, the coefficients of the hyperplane are estimated with a set of original TSRB points using least square estimation (LSE). However, LSE is a point estimation method, which is incapable of evaluating the quality of the estimation. In addition, the accuracy and computational efficiency of the hyperplane approximation are influenced by the number of TSRB points significantly. Here, a bootstrap based confidence interval estimation is proposed to estimate not only the coefficients of TSRB approximation hyperplane, but also the standard deviations and confidence intervals of the coefficients for evaluating the quality and reliability of the approximation results. First, empirical distribution functions (EDFs) of the coefficients of TSRB approximation hyperplane are approximated from a set of original TSRB points by using residual resampling bootstrap method. Then, the EDFs of the coefficients are employed to estimate the coefficients of the approximation hyperplane. Meanwhile, the standard deviations and confidence intervals of the estimated coefficients of the hyperplanes are also calculated for evaluating the quality and reliability of the approximation. The proposed approach is tested on the China Southern Power Grid (CSG). Results of simulations validate the accuracy and efficiency of the proposed approach in approximating the TSRB.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗

Joint Optimization of Multimodal Transit Frequency and Shared Autonomous Vehicle Fleet Size with Hybrid Metaheuristic and Nonlinear Programming

Shared autonomous vehicles (SAVs) bring competition to traditional transit services but redesigning multimodal transit network can utilize SAVs as feeders to enhance service efficiency and coverage. This paper presents an optimization framework for the joint multimodal transit frequency and SAV fleet size problem, a variant of the transit network frequency setting problem. The objective is to maximize total transit ridership (including SAV-fed trips and subtracting boarding rejections) across multiple time periods under budget constraints, considering endogenous mode choice (transit, point-to-point SAVs, driving) and route selection, while allowing for strategic route removal by setting frequencies to zero. Due to the problem’s non-linear, non-convex nature and the computational challenges of large-scale networks, we develop a hybrid solution approach that combines a metaheuristic approach (particle swarm optimization) with nonlinear programming for local solution refinement. To ensure computational tractability, the framework integrates analytical approximation models for SAV waiting times based on fleet utilization, multimodal network assignment for route choice, and multinomial logit mode choice behavior, bypassing the need for computationally intensive simulations within the main optimization loop. Applied to the Chicago metropolitan area’s multimodal network, our method illustrates a 33.3% increase in transit ridership through optimized transit route frequencies and SAV integration, particularly enhancing off-peak service accessibility and strategically reallocating resources.

Ng, Max↗