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A coarse-grained computational procedure based on the Finite Element Method is proposed to calculate the normal modes and mechanical response of proteins and their supramolecular assemblies. Motivated by the elastic network model, proteins…

Biomolecules · Quantitative Biology 2007-05-23 Mark Bathe

This report proposes a novel framework for a rigorous robustness analysis of stochastic biochemical systems. The technique is based on probabilistic model checking. We adapt the general definition of robustness introduced by Kitano to the…

Numerical Analysis · Computer Science 2013-10-18 Lubos Brim , Milan Ceska , Sven Drazan , David Safranek

A precise domain triangulation is recognized as indispensable for the accurate numerical approximation of differential operators within collocation methods, leading to a substantial reduction in discretization errors. An efficient finite…

Numerical Analysis · Mathematics 2025-07-15 G. Shylaja , V. Kesavulu Naidu , B. Venkatesh , S. M. Mallikarjunaiah

The paper introduces a new numerical characteristic of one dimensional stochastic systems. This quantity is a measure of minimal periodicity, can be detected in the process deep differential structure. The claim is that this new measure of…

Dynamical Systems · Mathematics 2016-09-07 A. Yu. Shahverdian , A. V. Apkarian

This paper presents an algorithmic framework for solving unconstrained stochastic optimization problems using only stochastic function evaluations. We employ central finite-difference based gradient estimation methods to approximate the…

Optimization and Control · Mathematics 2025-01-14 Raghu Bollapragada , Cem Karamanli

In this work we study the topic of high-resolution adaptive sampling of a given deterministic signal and establish a connection with classic approaches to high-rate quantization. Specifically, we formulate solutions for the task of optimal…

Information Theory · Computer Science 2018-04-20 Yehuda Dar , Alfred M. Bruckstein

Our goal is to develop a partial ordering method for comparing stochastic choice functions on the basis of their individual rationality. To this end, we assign to any stochastic choice function a one-parameter class of deterministic choice…

Theoretical Economics · Economics 2023-12-13 Efe A. Ok , Gerelt Tserenjigmid

An algorithm is proposed, analyzed, and tested experimentally for solving stochastic optimization problems in which the decision variables are constrained to satisfy equations defined by deterministic, smooth, and nonlinear functions. It is…

Optimization and Control · Mathematics 2021-07-09 Frank E. Curtis , Daniel P. Robinson , Baoyu Zhou

Efficient structural reanalysis for high-rank modification plays an important role in engineering computations which require repeated evaluations of structural responses, such as structural optimization and probabilistic analysis. To…

Computational Engineering, Finance, and Science · Computer Science 2025-05-20 Wenxiong Li , Suiyin Chen , Huan Huang

The construction of stochastic solutions is a powerful method to obtain localized solutions in configuration or Fourier space and for parallel computation with domain decomposition. Here a stochastic solution is obtained for the…

Plasma Physics · Physics 2015-06-03 E. Floriani , R. Vilela Mendes

The intrusive (sample-free) spectral stochastic finite element method (SSFEM) is a powerful numerical tool for solving stochastic partial differential equations (PDEs). However, it is not widely adopted in academic and industrial…

Numerical Analysis · Mathematics 2022-09-20 Ajit Desai

Stochasticity plays a key role in many biological systems, necessitating the calibration of stochastic mathematical models to interpret associated data. For model parameters to be estimated reliably, it is typically the case that they must…

Modeling stochastic differential equations (SDEs) is crucial for understanding complex dynamical systems in various scientific fields. Recent methods often employ neural network-based models, which typically represent SDEs through a…

Machine Learning · Computer Science 2025-06-25 Senwei Liang , Chunmei Wang , Xingjian Xu

In variational phase-field modeling of brittle fracture, the functional to be minimized is not convex, so that the necessary stationarity conditions of the functional may admit multiple solutions. The solution obtained in an actual…

Computational Engineering, Finance, and Science · Computer Science 2023-07-19 Tymofiy Gerasimov , Ulrich Römer , Jaroslav Vondřejc , Hermann G. Matthies , Laura De Lorenzis

This paper interprets the stabilized finite element method via residual minimization as a variational multiscale method. We approximate the solution to the partial differential equations using two discrete spaces that we build on a…

Computational Engineering, Finance, and Science · Computer Science 2023-05-23 Juan F. Giraldo , Victor M. Calo

Structural equation models comprise a large class of popular statistical models, including factor analysis models, certain mixed models, and extensions thereof. Model estimation is complicated by the fact that we typically have multiple…

Computation · Statistics 2022-03-18 Edgar C. Merkle , Ellen Fitzsimmons , James Uanhoro , Ben Goodrich

Stochastic discriminative EM (sdEM) is an online-EM-type algorithm for discriminative training of probabilistic generative models belonging to the exponential family. In this work, we introduce and justify this algorithm as a stochastic…

Machine Learning · Computer Science 2017-04-05 Andres R. Masegosa

Structural equation models (SEMs) are commonly used to study the structural relationship between observed variables and latent constructs. Recently, Bayesian fitting procedures for SEMs have received more attention thanks to their potential…

Methodology · Statistics 2024-07-12 Khue-Dung Dang , Luca Maestrini , Francis K. C. Hui

Random forests have become an established tool for classification and regression, in particular in high-dimensional settings and in the presence of complex predictor-response relationships. For bounded outcome variables restricted to the…

Methodology · Statistics 2019-01-21 Leonie Weinhold , Matthias Schmid , Marvin N. Wright , Moritz Berger

In this work, we develop an adaptive nonconforming finite element algorithm for the numerical approximation of phase-field parameterized topology optimization governed by the Stokes system. We employ the conforming linear finite element…

Numerical Analysis · Mathematics 2026-04-20 Bangti Jin , Jing Li , Yifeng Xu , Shengfeng Zhu
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