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A critical task in systems biology is the identification of genes that interact to control cellular processes by transcriptional activation of a set of target genes. Many methods have been developed to use statistical correlations in…

Quantitative Methods · Quantitative Biology 2010-11-24 Adam A. Margolin , Kai Wang , Andrea Califano , Ilya Nemenman

To ensure that a robot is able to accomplish an extensive range of tasks, it is necessary to achieve a flexible combination of multiple behaviors. This is because the design of task motions suited to each situation would become increasingly…

Robotics · Computer Science 2023-10-04 Kanata Suzuki , Hiroki Mori , Tetsuya Ogata

Many scientific and combinatorial problems admit multiple correct solutions, not a single label. Standard supervised learning resolves this ambiguity by choosing one solution as the target, but this hidden selector can be arbitrary,…

Machine Learning · Computer Science 2026-05-11 Caleb Jore , Jialin Liu

Hypergraph can capture complex and higher-order dependencies among learners and learning resources in personalized educational recommender systems. Many existing hypergraph-based recommendation approaches underexplored the dynamic…

Information Retrieval · Computer Science 2026-03-17 Tao Xie , Yan Li , Yongpan Sheng , Jian Liao

Langevin dynamics is used to study equilibrium properties of the suspension of magnetic filaments (chains of nanoparticles permanently crosslinked with polymers). It is shown that the filament suspension generally has a larger magnetic…

Soft Condensed Matter · Physics 2018-11-20 Andrey A. Kuznetsov

Multi-body interactions can reveal higher-order dynamical effects that are not captured by traditional two-body network models. In this work, we derive and analyse models for consensus dynamics on hypergraphs, where nodes interact in groups…

Physics and Society · Physics 2020-04-08 Leonie Neuhäuser , Andrew Mellor , Renaud Lambiotte

Biofilms are complex structures which are inhabited by numerous amount of different species of microorganisms. Due to their ubiquity, they influence human life on an everyday basis. It is therefore important to understand the interactions…

Computational Engineering, Finance, and Science · Computer Science 2025-09-03 Felix Klempt , Hendrik Geisler , Meisam Soleimani , Philipp Junker

We consider a continuum model of active viscoelastic matter, whereby an active nematic liquid-crystal is coupled to a minimal model of polymer dynamics with a viscoelastic relaxation time $\tau_C$. To explore the resulting interplay between…

Soft Condensed Matter · Physics 2016-03-30 E. J. Hemingway , M. E. Cates , S. M. Fielding

We introduce and discuss kinetic models describing the influence of the competence in the evolution of decisions in a multi-agent system. The original exchange mechanism, which is based on the human tendency to compromise and change opinion…

Physics and Society · Physics 2016-11-23 Lorenzo Pareschi , Pierluigi Vellucci , Mattia Zanella

Lifetimes of bound states of protein complexes or biomolecule folded states typically decrease when subject to mechanical force. However, a plethora of biological systems exhibit the counter-intuitive phenomenon of catch bonding, where…

Biomolecules · Quantitative Biology 2016-01-12 Shaon Chakrabarti , Michael Hinczewski , D. Thirumalai

The dynamics of motor protein molecules that have two subunits is investigated using simple discrete stochastic models. Exact steady-state analytical expressions are obtained for velocities and dispersions for any number of intermediate…

Soft Condensed Matter · Physics 2015-06-25 Anatoly B. Kolomeisky , Hubert Phillips

We study long-range interacting systems driven by external stochastic forces that act collectively on all the particles constituting the system. Such a scenario is frequently encountered in the context of plasmas, self-gravitating systems,…

Statistical Mechanics · Physics 2013-12-03 Cesare Nardini , Shamik Gupta , Stefano Ruffo , Thierry Dauxois , Freddy Bouchet

Polymer composites are ideal candidates for next generation biomimetic soft materials because of their exquisite bottom-up designability. However, the richness of behaviours comes at a price: the need for precise and extensive…

Soft Condensed Matter · Physics 2019-07-30 Davide Michieletto , Robert Fitzpatrick , Rae M Robertson-Anderson

Human joint dynamic stiffness plays an important role in the stability of performance augmentation exoskeletons. In this paper, we consider a new frequency domain model of the human joint dynamics which features a complex value stiffness.…

Robotics · Computer Science 2020-05-04 Binghan He , Huang Huang , Gray C. Thomas , Luis Sentis

The non-Newtonian behaviors of dense suspensions are central to their use in technological and industrial applications and arise from a network of particle-particle contacts that dynamically adapts to imposed shear. Reported herein are…

Heterogeneous materials, such as rocks and concrete, have a complex dynamics including hysteresis, nonlinear elasticity and viscoelasticity. It is very sensitive to microstructural changes and damage. The goal of this paper is to propose a…

Classical Physics · Physics 2014-12-10 Nicolas Favrie , Bruno Lombard , Cédric Payan

In order to understand the long known anomalies in the composition dependence of diffusion and viscosity of binary mixtures, we introduce here two new models and carry out extensive molecular dynamic simulations. In these models, the two…

Statistical Mechanics · Physics 2009-10-31 Arnab Mukherjee , Goundla Srinivas , Biman Bagchi

Reactive chemistry of molecular hydrogen at surfaces, notably dissociative sticking and hydrogen evolution, plays a crucial role in energy storage and fuel cells. Theoretical studies can help to decipher underlying mechanisms and reaction…

Metastable polymorphs often result from the interplay between thermodynamics and kinetics. Despite advances in predictive synthesis for solution-based techniques, there remains a lack of methods to design solid-state reactions targeting…

Selectivity of particles in a region of space can be achieved by applying external potentials to influence the particles in that region. We investigate static and dynamical properties of size selectivity in binary fluid mixtures of two…

Soft Condensed Matter · Physics 2010-01-18 Roland Roth , Markus Rauscher , Andrew J. Archer