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At least 145 records · Page 8

flowVS: channel-specific variance stabilization in flow cytometry

Abstract Background Comparing phenotypes of heterogeneous cell populations from multiple biological conditions is at the heart of scientific discovery based on flow cytometry (FC). When the biological signal is measured by the average expression of a biomarker, standard statistical methods require that variance be approximately stabilized in populations to be compared. Since the mean and variance of a cell population are often correlated in fluorescence-based FC measurements, a preprocessing step is needed to stabilize the within-population variances. Results We present a variance-stabilization algorithm, called flowVS, that removes the mean-variance correlations from cell populations identified in each fluorescence channel. flowVS transforms each channel from all samples of a data set by the inverse hyperbolic sine (asinh) transformation. For each channel, the parameters of the transformation are optimally selected by Bartlett’s likelihood-ratio test so that the populations attain homogeneous variances. The optimum parameters are then used to transform the corresponding channels in every sample. flowVS is therefore an explicit variance-stabilization method that stabilizes within-population variances in each channel by evaluating the homoskedasticity of clusters with a likelihood-ratio test. With two publicly available datasets, we show that flowVS removes the mean-variance dependence from raw FC data and makes the within-population variance relatively homogeneous. We demonstrate that alternative transformation techniques such as flowTrans, flowScape, logicle, and FCSTrans might not stabilize variance. Besides flow cytometry, flowVS can also be applied to stabilize variance in microarray data. With a publicly available data set we demonstrate that flowVS performs as well as the VSN software, a state-of-the-art approach developed for microarrays. Conclusions The homogeneity of variance in cell populations across FC samples is desirable when extracting features uniformly and comparing cell populations with different levels of marker expressions. The newly developed flowVS algorithm solves the variance-stabilization problem in FC and microarrays by optimally transforming data with the help of Bartlett’s likelihood-ratio test. On two publicly available FC datasets, flowVS stabilizes within-population variances more evenly than the available transformation and normalization techniques. flowVS-based variance stabilization can help in performing comparison and alignment of phenotypically identical cell populations across different samples. flowVS and the datasets used in this paper are publicly available in Bioconductor.

60 APPLIED LIFE SCIENCES↗

Entropy–viscosity method for the single material Euler equations in Lagrangian frame

In this work, a new finite element method for solving the Euler equations in Lagrangian coordinates is proposed. The method is stabilized by adding artificial diffusion terms compatible with positivity of mass and internal energy, a minimum principle on the specific entropy, and all generalized entropy inequalities. Two options of first-order artificial diffusion are considered. One is in the spirit of the Eulerian based method (Guermond et al., 2011 [23, 22]; Zingan et al., 2013) and the other is similar to existing viscosity stabilizations in Lagrangian frame, e.g., Dobrev et al. (2012). The method is verified to be high-order for smooth solutions even with active viscosity terms. This is achieved by using high-order finite element spaces and an entropy-based viscosity stabilization that degenerates the first-order viscous terms. This stabilization automatically distinguishes smooth and singular regions. The formal accuracy and convergence properties of the proposed methods are tested on a series of benchmark problems. This is the first result extending the entropy–viscosity methodology to the Lagrangian hydrodynamics.

97 MATHEMATICS AND COMPUTING↗

Physics-Informed Evolutionary Strategy Based Control for Mitigating Delayed Voltage Recovery

Here, in this work we propose a novel data-driven, real-time power system voltage stability control method based on the physics-informed guided meta evolutionary strategy (ES). The main objective is to quickly provide an adaptive control strategy to secure system voltage stability. The problem is challenging due to the high-dimensional feature of the power system model and the fast-changing and uncertain nature of power system operation scenarios. To this end, a model-free and derivative-free guided ES method is applied. The method is further combined with a meta-learning strategy to make the learnt control policy automatically adapted to unseen operation conditions and fault scenarios, which is highly desired for real-time emergency control. Last but not least, physical knowledge is embedded in the above method through a trainable action mask technique to rule out unnecessary load shedding actions for better learning and control performance. Case studies on the IEEE 300-bus system and comparisons with other state-of-the-art benchmark methods verify the superiority of the proposed physics-informed guided meta ES method in realizing fast and adaptive power system voltage stability control.

42 ENGINEERING↗

Stability of a modified Peaceman–Rachford method for the paraxial Helmholtz equation on adaptive grids

This study concerns the asymptotic stability of an eikonal, or ray, transformation based Peaceman–Rachford splitting method for solving the paraxial Helmholtz equation with high wave numbers. Arbitrary nonuniform grids are considered in transverse and beam propagation directions. The differential equation targeted has been used for modeling propagations of high intensity laser pulses over a long distance without diffractions. Self-focusing of high intensity beams may be balanced with the de-focusing effect of created ionized plasma channel in the situation, and applications of grid adaptations are frequently essential. It is shown rigorously that the fully discretized oscillation-free decomposition method on arbitrary adaptive grids is asymptotically stable with a stability index one. Simulation experiments are carried out to illustrate our concern and conclusions.

97 MATHEMATICS AND COMPUTING↗

The arbitrary‐order virtual element method for linear elastodynamics models: convergence, stability and dispersion‐dissipation analysis

Abstract We design the conforming virtual element method for the numerical approximation of the two‐dimensional elastodynamics problem. We prove stability and convergence of the semidiscrete approximation and derive optimal error estimates under h ‐ and p ‐refinement in both the energy and the L 2 norms. The performance of the proposed virtual element method is assessed on a set of different computational meshes, including nonconvex cells up to order four in the h ‐refinement setting. Exponential convergence is also experimentally observed under p ‐refinement. Finally, we present a dispersion‐dissipation analysis for both the semidiscrete and fully discrete schemes, showing that polygonal meshes behave as classical simplicial/quadrilateral grids in terms of dispersion‐dissipation properties.

Antonietti, Paola F.↗

Neural entropy-stable conservative flux form neural networks for learning hyperbolic conservation laws

We propose a neural entropy-stable conservative flux form neural network (NESCFN) for learning hyperbolic conservation laws and their associated entropy functions directly from solution trajectories, without requiring any predefined numerical discretization. While recent neural network architectures have successfully integrated classical numerical principles into learned models, most rely on prior knowledge of the governing equations or assume a fixed discretization. Our approach removes this dependency by embedding entropy-stable design principles into the learning process itself, enabling the discovery of physically consistent dynamics in a fully data-driven setting. By jointly learning both the flux function and a corresponding entropy, NESCFN promotes conservation and entropy dissipation, which is critical for long-term stability and fidelity in the system of hyperbolic conservation laws. Furthermore, numerical results demonstrate that the method achieves stability and conservation over extended time horizons and accurately captures shock propagation speeds, even without oracle access to future-time solution profiles in the training data.

Conservative flux form↗

The arbitrary-order virtual element method for linear elastodynamics models. Convergence, stability and dispersion-dissipation analysis.

We design the conforming virtual element method for the numerical approximation of the two dimensional elastodynamics problem. We prove stability and convergence of the semi-discrete approximation and derive optimal error estimates under $\textit{h}$-refinement in both the energy and the $L^2$ norms, and optimal error estimates under $\textit{p}$-refinement in the energy norm. The performance of the proposed virtual element method is assessed on a set of different computational meshes, including non-convex cells up to order four in the h-refinement setting. Exponential convergence is also experimentally observed under p-refinement. Finally, we present a dispersion-dissipation analysis for both the semi-discrete and fully-discrete schemes, showing that polygonal meshes behave as classical simplicial/quadrilateral grids in terms of dispersion-dissipation properties.

97 MATHEMATICS AND COMPUTING↗

Analysis of the Spectral Stability of the Generalized Runge–Kutta Methods Applied to Initial-Boundary-Value Problems for Equations of the Parabolic Type. II. Implicit Methods

We consider specific realizations of different implicit generalized Runge–Kutta methods as applied to the numerical integration with respect to time of initial-boundary-value problems for the second-order parabolic equations and investigate their spectral stability. It is shown that all implicit generalized Runge–Kutta methods are unconditionally spectrally stable but some of them have the conditional property of monotonicity of the numerical solution with respect to time. The functions of spectral stability of the implicit generalized Runge–Kutta methods are rational. We compare the analytic solution of the nonstationary one-dimensional problem of heat conduction with the numerical solutions of this problem obtained by different implicit generalized Runge–Kutta methods. It is shown that, in this case, the application of the one-stage Radau methods with subsequent discretization of the problem with respect to the space variable leads to the classical forward finite difference scheme (Laasonen scheme), whereas the use of the one-stage Gauss–Legendre method leads to a six-point symmetric scheme (Crank–Nicolson scheme). It is shown that diagonally implicit generalized Nørsett and Burrage methods are realized in almost the same way as the one-stage Radau and Gauss–Legendre methods but their accuracy in the time step is 10–1000 times higher. On the basis of comparison of the numerical and analytic solutions, we conclude that, in order to get practically suitable numerical solutions without any restrictions on the time step, it is reasonable to use one- and three-stage generalized Radau methods or two- and four-stage Lobatto IIIC methods. All other explicit and implicit generalized Runge–Kutta methods require certain restrictions imposed on the time step.

42 ENGINEERING↗

A Lyapunov and Sacker–Sell spectral stability theory for one-step methods

Approximation theory for Lyapunov and Sacker–Sell spectra based upon QR techniques is used to analyze the stability of a one-step method solving a time-dependent (nonautonomous) linear ordinary differential equation (ODE) initial value problem in terms of the local error. Integral separation is used to characterize the conditioning of stability spectra calculations. The stability of the numerical solution by a one-step method of a nonautonomous linear ODE using real-valued, scalar, nonautonomous linear test equations is justified. This analysis is used to approximate exponential growth/decay rates on finite and infinite time intervals and establish global error bounds for one-step methods approximating uniformly, exponentially stable trajectories of nonautonomous and nonlinear ODEs. A time-dependent stiffness indicator and a one-step method that switches between explicit and implicit Runge–Kutta methods based upon time-dependent stiffness are developed based upon the theoretical results.

97 MATHEMATICS AND COMPUTING↗

Stabilizing Ultrathin CsPbBr 3 Nanoplatelet Films for Deterministic Strong Light-Matter Coupling

While the excitons in perovskite nanomaterials possess interesting properties central to their use in optoelectronic technologies, their instability limits real world applicability. In this study, we describe a method to stabilize the structures of cesium lead bromide (CsPbBr 3 ) nanoplatelets (NPLs) in spin-casted films. We apply this method to design, fabricate, and characterize exciton cavity polaritons formed from these nanomaterials. These studies show that we can form exciton cavity polaritons from CsPbBr 3 in precisely designed Fabry−Perot microresonators and suggest that the structures of these materials can be stabilized toward their use in other solution-processed optoelectronic devices.

cavities↗

Stable yet hydrophilic graphene oxide nanomembranes by zwitterionic reduction for dye desalination

Holey graphene oxide (HGO) nanosheets have emerged as a promising membrane platform for dye desalination, and they must be reduced to enhance hydrophobicity and stability for long-term underwater operation, which usually decreases water and salt permeance. Herein, we develop a facile method to stabilize HGO nanosheets while retaining their hydrophilicity by reducing them with sulfobetaine amine (SBAm, a superhydrophilic zwitterion), achieving high water and salt permeance and a high salt/dye separation factor. Specifically, HGO nanosheets react with SBAm via an amine-epoxide reaction, rendering reduced HGO nanosheets containing superhydrophilic zwitterions. The effects of in-plane pores, zwitterion content, and layer thickness on the membrane chemistry, structure, and salt/dye separation properties of the SBAm-reduced HGOs (SHGOs) are thoroughly examined. The membrane achieves a Na 2 SO 4 /Direct red separation factor of up to 850, surpassing the state-of-the-art GO membranes. Moreover, hollow fiber membrane modules based on SHGOs are fabricated and exhibit stable performance in multi-cycle tests over 100 h of operation with mixed dye-salt solutions, demonstrating the scalability of our approach and its potential for practical applications.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Performance measurement of emerging 3- and 4-terminal tandem solar cells

Tandem solar cells are not limited to the conventional two-terminal (2-T) configuration. Multi-terminal designs like three-terminal (3-T) and four-terminal (4-T) devices have gained increasing attention in the PV community due to their relaxed current-matching requirement between subcells and their potential for enhanced energy yield. However, reliable and standardized methods for evaluating the performance of multi-terminal tandems remain underdeveloped. This work addresses this gap by providing comprehensive measurement guidelines tailored to these advanced configurations. We examine key coupling mechanisms between subcells, including the shared electrical load in 3-T devices and optical luminescent coupling in both 3-T and 4-T devices, to enable accurate and consistent performance evaluation. Furthermore, we propose two stabilized measurement methods for emerging 3-T tandem cells incorporating perovskite subcells: (1) a two-dimensional maximum-power-point tracking (MPPT) approach that continuously tracks both subcells' maximum power points (P MAX ) until convergence to stabilized outputs, and (2) a hybrid approach that combines MPPT for one subcell with stabilized current recording under fixed voltage biases near the P MAX of the other, allowing robust extraction of the overall stabilized P MAX (termed “MPPT + asymptotic P MA X scan” method). These methods directly address the dynamic current responses inherent to perovskite-containing tandems, providing a foundation for meaningful and reproducible performance comparisons.

14 SOLAR ENERGY↗

Method and apparatus for implementing ultra-high stability long-vertical travel stage

A method and apparatus for implementing an ultra-high stability long-vertical travel stage are provided. The ultra-high stability long-vertical travel stage includes a first wedge supporting a second wedge, each wedge formed of a selected stable material having predefined rigidity and low thermal expansion coefficient, and integrated air bearings. A linear guiding mechanism includes a plurality of flexures. The first wedge is driven in a plane providing vertical motion on the second wedge with the integrated air bearings lifted and the flexures allowing for movement.

42 ENGINEERING↗

Stabilizing potentials in bound state analytic continuation methods for electronic resonances in polyatomic molecules

The computation of Siegert energies by analytic continuation of bound state energies has recently been applied to shape resonances in polyatomic molecules by several authors. Here, we critically evaluate a recently proposed analytic continuation method based on low order (type III) Padé approximants as well as an analytic continuation method based on high order (type II) Padé approximants. We compare three classes of stabilizing potentials: Coulomb potentials, Gaussian potentials, and attenuated Coulomb potentials. These methods are applied to a model potential where the correct answer is known exactly and to the 2 Π g shape resonance of N 2 - which has been studied extensively by other methods. Both the choice of stabilizing potential and method of analytic continuation prove to be important to the accuracy of the results. We then conclude that an attenuated Coulomb potential is the most effective of the three for bound state analytic continuation methods. With the proper potential, such methods show promise for algorithmic determination of the positions and widths of molecular shape resonances.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Lignin dispersion composition and its use in stabilizing emulsions

A lignin dispersion composition comprising spherical lignin particles dispersed in an aqueous medium, wherein the spherical lignin particles have a size exclusively within a range of 100 nm to 5 microns. Also described herein is a method of producing the lignin dispersion, by: (i) dissolving lignin in an organic solvent substantially devoid of water yet miscible with water to result in a solution of the lignin in the organic solvent; and (ii) producing the lignin dispersion by dialyzing the solution of the lignin with water until substantially all of the organic solvent is replaced with water with simultaneous formation of spherical lignin particles dispersed in the water. Also described herein is a method for stabilizing an emulsion by intimately mixing the emulsion with the lignin dispersion. Also described herein is a hierarchical assembly of porous microparticles produced by mixing the lignin dispersion with an emulsion and an amphiphilic block copolymer.

Naskar, Amit K.↗

A semi-discrete scheme for solving fourth-order partial integro-differential equation with a weakly singular kernel using Legendre wavelets method

In this paper, a semi-discrete scheme is presented for solving fourth-order partial integro-differential equations with a weakly singular kernel. The second-order backward difference formula is used to discretize the temporal derivatives. After discretizing the temporal derivatives, the considered problems are converted into a set of ordinary differential equations which are solved by using Legendre wavelets collocation method. The stability and convergence properties related to the time discretization are discussed and theoretically proven. Several numerical examples are included to demonstrate the accuracy and efficiency of the proposed method.

97 MATHEMATICS AND COMPUTING↗

General, Rigorous Approach for the Treatment of Interfragment Covalent Bonds

Here, a generalized, projection-based transformation of the method-agnostic Fock operator in various ab initio fragment-based quantum chemistry methods has been developed for the treatment of interfragment covalent bonds. This transformation freezes the relevant localized molecular orbital associated with each interfragment bond, thereby restricting the variational subspace of the fragment wave functions, in order to maintain the proper physical characteristics of the involved covalent bonds. In addition, sets of orbitals that would lead to multiple occupancy of certain orbitals are explicitly removed from the variational space. The transformation is developed for the specific case of mutually orthonormal frozen and unfrozen orbitals within each fragment. The newly developed approach is then used to study model systems with two popular ab initio fragment-based methods, and the results of these calculations are compared to those obtained by existing methodologies. Analysis is focused on both quantitative and qualitative accuracy as well as computational scalability and stability. Other methods for which the developed formalisms are appropriate are outlined, and future extensions of the methods are discussed.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Fast explicit solutions for neutrino-electron scattering: Explicit asymptotic methods

Here, we present results of explicit asymptotic approximations applied to neutrino-electron scattering in a representative model of neutrino population evolution under conditions characteristic of core-collapse supernova explosions or binary neutron star mergers. It is shown that this approach provides stable solutions of these stiff systems of equations, with accuracy and time stepping comparable to that for standard implicit treatments such as backward Euler, fixed point iteration, and Anderson-accelerated fixed point iteration. Because each time step can be computed more rapidly with the explicit asymptotic approximation than with implicit methods, this suggests that algebraically stabilized explicit integration methods could be used to compute neutrino evolution coupled to hydrodynamics more efficiently in stellar explosions and mergers than the methods currently in use.

79 ASTRONOMY AND ASTROPHYSICS↗