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Previous work in Boolean dynamical networks has suggested that the number of components that must be controlled to select an existing attractor is typically set by the number of attractors admitted by the dynamics, with no dependence on the…

Molecular Networks · Quantitative Biology 2024-10-11 Bryan C. Daniels , Enrico Borriello

As a surrogate for computationally intensive meso-scale simulation of woven composites, this article presents Recurrent Neural Network (RNN) models. Leveraging the power of transfer learning, the initialization challenges and sparse data…

Materials Science · Physics 2024-07-08 Ehsan Ghane , Martin Fagerström , Mohsen Mirkhalaf

Reinforced elastic sheets surround us in daily life, from concrete shell buildings to biological structures such as the arthropod exoskeleton or the venation network of dicotyledonous plant leaves. Natural structures are often highly…

Biological Physics · Physics 2021-01-27 Henrik Ronellenfitsch

Filamentous bio-materials such as fibrin or collagen networks exhibit an enormous stiffening of their elastic moduli upon large deformations. This pronounced nonlinear behavior stems from a significant separation between the stiffnesses…

Soft Condensed Matter · Physics 2019-05-21 Robbie Rens , Carlos Villarroel , Gustavo Düring , Edan Lerner

Time-resolved single-molecule biophysical experiments yield data that contain a wealth of dynamic information, in addition to the equilibrium distributions derived from histograms of the time series. In typical force spectroscopic setups…

Biomolecules · Quantitative Biology 2011-07-14 Michael Hinczewski , Yann von Hansen , Roland R. Netz

Two different types of directed networks are investigated, transcriptional regulation networks and neural networks. The directed network structure are studied and also shown to reflect the different processes taking place on the networks.…

Disordered Systems and Neural Networks · Physics 2016-08-16 Andreas Grönlund

General results from statistical learning theory suggest to understand not only brain computations, but also brain plasticity as probabilistic inference. But a model for that has been missing. We propose that inherently stochastic features…

Neural and Evolutionary Computing · Computer Science 2016-02-17 David Kappel , Stefan Habenschuss , Robert Legenstein , Wolfgang Maass

Each element in tensioned structural networks -- such as tensegrity, architectural fabrics, or medical braces/meshes -- requires a specific tension level to achieve and maintain the desired shape, stability, and compliance. These structures…

Graphics · Computer Science 2025-09-09 Thijs Masmeijer , Caleb Swain , Jeff Hill , Ed Habtour

The elastic net was introduced as a heuristic algorithm for combinatorial optimisation and has been applied, among other problems, to biological modelling. It has an energy function which trades off a fitness term against a tension term. In…

Neurons and Cognition · Quantitative Biology 2011-08-16 Miguel Á. Carreira-Perpiñán , Geoffrey J. Goodhill

Real-life statistical samples are often plagued by selection bias, which complicates drawing conclusions about the general population. When learning causal relationships between the variables is of interest, the sample may be assumed to be…

Statistics Theory · Mathematics 2018-11-15 Angelos P. Armen , Robin J. Evans

Preferential attachment is one possible way to obtain a scale-free network. We develop a self-consistent method to determine whether preferential attachment occurs during the growth of a network, and to extract the preferential attachment…

Statistical Mechanics · Physics 2007-05-23 Claire P. Massen , Jonathan P. K. Doye

Failure, damage spread and recovery crucially underlie many spatially embedded networked systems ranging from transportation structures to the human body. Here we study the interplay between spontaneous damage, induced failure and recovery…

Physics and Society · Physics 2017-10-23 Lucas Böttcher , Mirko Lukovic , Jan Nagler , Shlomo Havlin , Hans J. Herrmann

This study presents a Eulerian theory to elucidate the molecular kinematics in polymer networks and their connection to continuum deformation, grounded in fundamental statistical physics and thermodynamics. Three key innovations are…

Soft Condensed Matter · Physics 2025-07-16 Siyu Wang , Heng Xiao , Lin Zhan

We present a minimalistic approach to simulations of force transmission through granular systems. We start from a configuration containing cohesive (tensile) contact forces and use an adaptive procedure to find the stable configuration with…

Soft Condensed Matter · Physics 2009-10-31 Alexei V. Tkachenko , Thomas A. Witten

Genetic regulatory networks (GRNs) have been widely studied, yet there is a lack of understanding with regards to the final size and properties of these networks, mainly due to no network currently being complete. In this study, we analyzed…

Molecular Networks · Quantitative Biology 2019-03-13 Adrian I. Campos-González , Julio A. Freyre-González

Predicting the macroscopic mechanical behavior of polymeric materials from the micro-structural features has remained a challenge for decades. Existing theoretical models often fail to accurately capture the experimental data, due to…

Soft Condensed Matter · Physics 2025-07-04 Lin Zhan , Siyu Wang , Rui Xiao , Shaoxing Qu , Paul Steinmann

Various mechanical phenomena depend on the length scale, and these have inspired a variety of nonlocal and higher gradient continuum theories. Mechanistically, it is believed that the length scale dependence arises due to an interplay…

Materials Science · Physics 2025-12-23 Harkirat Singh , Mayank Raj , Kaushik Bhattacharya

In the present work, the overall nonlinear elastic behavior of a 1D multi-modular structure incorporating possible imperfections at the discrete (micro-scale) level, is derived with respect to both tensile and compressive applied loads. The…

Soft Condensed Matter · Physics 2019-04-10 S. Palumbo , L. Deseri , D. R. Owen , M. Fraldi

Effectively scaling up deep reinforcement learning models has proven notoriously difficult due to network pathologies during training, motivating various targeted interventions such as periodic reset and architectural advances such as layer…

Machine Learning · Computer Science 2025-06-23 Guozheng Ma , Lu Li , Zilin Wang , Li Shen , Pierre-Luc Bacon , Dacheng Tao

Experiments have shown that elasticity of disordered filamentous networks with compliant crosslinks is very different from networks with rigid crosslinks. Here, we model and analyze filamentous networks as a collection of randomly oriented…

Biological Physics · Physics 2015-06-17 A. Sharma , M. Sheinman , K. M. Heidemann , F. C. MacKintosh