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Reducing the complexity of large systems described as complex networks is key to understand them and a crucial issue is to know which properties of the initial system are preserved in the reduced one. Here we use random walks to design a…

Disordered Systems and Neural Networks · Physics 2009-11-13 David Gfeller , Paolo De los Rios

Can complex engineered and biological networks be coarse-grained into smaller and more understandable versions in which each node represents an entire pattern in the original network? To address this, we define coarse-graining units (CGU)…

Molecular Networks · Quantitative Biology 2009-11-10 Shalev Itzkovitz , Reuven Levitt , Nadav Kashtan , Ron Milo , Michael Itzkovitz , Uri Alon

Coarse graining techniques offer a promising alternative to large-scale simulations of complex dynamical systems, as long as the coarse-grained system is truly representative of the initial one. Here, we investigate how the dynamical…

Disordered Systems and Neural Networks · Physics 2009-11-13 David Gfeller , Paolo De Los Rios

Complex networks can model a range of different systems, from the human brain to social connections. Some of those networks have a large number of nodes and links, making it impractical to analyze them directly. One strategy to simplify…

Disordered Systems and Neural Networks · Physics 2023-04-06 Matheus de C. Loures , Alan Albert Piovesana , José Antônio Brum

The existing convolutional neural network pruning algorithms can be divided into two categories: coarse-grained clipping and fine-grained clipping. This paper proposes a coarse and fine-grained automatic pruning algorithm, which can achieve…

Computer Vision and Pattern Recognition · Computer Science 2020-10-15 Jingfei Chang

Multiscale molecular modeling is widely applied in scientific research of molecular properties over large time and length scales. Two specific challenges are commonly present in multiscale modeling, provided that information between the…

Computational Physics · Physics 2024-07-23 Jun Zhang , Xiaohan Lin , Weinan E , Yi Qin Gao

Coarse graining enables the investigation of molecular dynamics for larger systems and at longer timescales than is possible at atomic resolution. However, a coarse graining model must be formulated such that the conclusions we draw from it…

We propose a novel and systematic method for coarse-graining oscillator networks described by phase equations. Our coarse-graining method enables us to obtain the closed coarse-grained equations for a few effective eigenmodes, which is…

Adaptation and Self-Organizing Systems · Physics 2013-11-06 Yuki Izumida , Hiroshi Kori

Coarse-graining has become an area of tremendous importance within many different research fields. For molecular simulation, coarse-graining bears the promise of finding simplified models such that long-time simulations of large-scale…

Chemical Physics · Physics 2019-09-04 Feliks Nüske , Lorenzo Boninsegna , Cecilia Clementi

Coarse graining model is a promising way to analyze and visualize large-scale networks. The coarse-grained networks are required to preserve the same statistical properties as well as the dynamic behaviors as the initial networks. Some…

Physics and Society · Physics 2011-05-31 An Zeng , Linyuan Lu

Representation of large data sets became a key question of many scientific disciplines in the last decade. Several approaches for network visualization, data ordering and coarse-graining accomplished this goal. However, there was no…

Physics and Society · Physics 2015-09-23 István A. Kovács , Réka Mizsei , Peter Csermely

We explore a systematic approach to studying the dynamics of evolving networks at a coarse-grained, system level. We emphasize the importance of finding good observables (network properties) in terms of which coarse grained models can be…

In many systems we can describe emergent macroscopic behaviors, quantitatively, using models that are much simpler than the underlying microscopic interactions; we understand the success of this simplification through the renormalization…

Biological Physics · Physics 2019-01-01 Leenoy Meshulam , Jeffrey L. Gauthier , Carlos D. Brody , David W. Tank , William Bialek

Coarse-graining techniques play a central role in reducing the complexity of stochastic models, and are typically characterised by a mapping which projects the full state of the system onto a smaller set of variables which captures the…

Probability · Mathematics 2023-09-28 Bastian Hilder , Upanshu Sharma

Atomistic or ab-initio molecular dynamics simulations are widely used to predict thermodynamics and kinetics and relate them to molecular structure. A common approach to go beyond the time- and length-scales accessible with such…

Controlling complex networks is of paramount importance in science and engineering. Despite the recent development of structural-controllability theory, we continue to lack a framework to control undirected complex networks, especially…

Physics and Society · Physics 2013-10-23 Zhengzhong Yuan , Chen Zhao , Zengru Di , Wen-Xu Wang , Ying-Cheng Lai

Coarse-graining is a molecular modeling technique in which an atomistic system is represented in a simplified fashion that retains the most significant system features that contribute to a target output, while removing the degrees of…

We propose a degree-based coarse graining approach that not just accelerates the evaluation of dynamics on complex networks, but also satisfies the consistency conditions for both equilibrium statistical distributions and nonequilibrium…

Statistical Mechanics · Physics 2010-08-06 Hanshuang Chen , Zhonghuai Hou , Houwen Xin , YiJing Yan

Network science have constantly been in the focus of research for the last decade, with considerable advances in the controllability of their structural. However, much less effort has been devoted to study that how to improve the…

Systems and Control · Computer Science 2016-10-12 Jiuqiang Xu , Jinfa Wang , Hai Zhao , Siyuan Jia

Multilevel techniques are efficient approaches for solving the large linear systems that arise from discretized partial differential equations and other problems. While geometric multigrid requires detailed knowledge about the underlying…

Numerical Analysis · Mathematics 2023-01-23 Tareq. U. Zaman , Scott P. MacLachlan , Luke N. Olson , Matt West
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