Favoured Local Structures in Liquids and Solids: a 3D Lattice Model

We investigate the connection between the geometry of Favoured Local Structures (FLS) in liquids and the associated liquid and solid properties. We introduce a lattice spin model - the FLS model on a face-centered cubic lattice - where this geometry can be arbitrarily chosen among a discrete set of 115 possible FLS. We find crystalline groundstates for all choices of a single FLS. Sampling all possible FLS's, we identify the following trends: i) low symmetry FLS's produce larger crystal unit cells but not necessarily higher energy groundstates, ii) chiral FLS's exhibit to peculiarly poor packing properties, iii) accumulation of FLS's in supercooled liquids is linked to large crystal unit cells, and iv) low symmetry FLS's tend to find metastable structures on cooling.Comment: 11 pages, 6 figure

From Liquid Structure to Configurational Entropy: Introducing Structural Covariance

We connect the configurational entropy of a liquid to the geometrical properties of its local energy landscape, using a high-temperature expansion. It is proposed that correlations between local structures arises from their overlap and, being geometrical in nature, can be usefully determined using the inherent structures of high temperature liquids. We show quantitatively how the high-temperature covariance of these local structural fluctuations arising from their geometrical overlap, combined with their energetic stability, control the decrease of entropy with decreasing energy. We apply this formalism to a family of Favoured Local Structure (FLS) lattice models with two low symmetry FLS's which are found to either crystallize or form a glass on cooling. The covariance, crystal energy and estimated freezing temperature are tested as possible predictors of glass-forming ability in the model system

Connecting local active forces to macroscopic stress in elastic media

In contrast with ordinary materials, living matter drives its own motion by generating active, out-of-equilibrium internal stresses. These stresses typically originate from localized active elements embedded in an elastic medium, such as molecular motors inside the cell or contractile cells in a tissue. While many large-scale phenomenological theories of such active media have been developed, a systematic understanding of the emergence of stress from the local force-generating elements is lacking. In this paper, we present a rigorous theoretical framework to study this relationship. We show that the medium's macroscopic active stress tensor is equal to the active elements' force dipole tensor per unit volume in both continuum and discrete linear homogeneous media of arbitrary geometries. This relationship is conserved on average in the presence of disorder, but can be violated in nonlinear elastic media. Such effects can lead to either a reinforcement or an attenuation of the active stresses, giving us a glimpse of the ways in which nature might harness microscopic forces to create active materials.Comment: 9 pages, 4 figure

Fiber networks amplify active stress

Large-scale force generation is essential for biological functions such as cell motility, embryonic development, and muscle contraction. In these processes, forces generated at the molecular level by motor proteins are transmitted by disordered fiber networks, resulting in large-scale active stresses. While these fiber networks are well characterized macroscopically, this stress generation by microscopic active units is not well understood. Here we theoretically study force transmission in these networks, and find that local active forces are rectified towards isotropic contraction and strongly amplified as fibers collectively buckle in the vicinity of the active units. This stress amplification is reinforced by the networks' disordered nature, but saturates for high densities of active units. Our predictions are quantitatively consistent with experiments on reconstituted tissues and actomyosin networks, and shed light on the role of the network microstructure in shaping active stresses in cells and tissue.Comment: 8 pages, 4 figures. Supporting information: 5 pages, 5 figure

Inferring the dynamics of underdamped stochastic systems

Many complex systems, ranging from migrating cells to animal groups, exhibit stochastic dynamics described by the underdamped Langevin equation. Inferring such an equation of motion from experimental data can provide profound insight into the physical laws governing the system. Here, we derive a principled framework to infer the dynamics of underdamped stochastic systems from realistic experimental trajectories, sampled at discrete times and subject to measurement errors. This framework yields an operational method, Underdamped Langevin Inference (ULI), which performs well on experimental trajectories of single migrating cells and in complex high-dimensional systems, including flocks with Viscek-like alignment interactions. Our method is robust to experimental measurement errors, and includes a self-consistent estimate of the inference error

Structural Covariance in the Hard Sphere Fluid

We study the joint variability of structural information in a hard sphere fluid biased to avoid crystallisation and form fivefold symmetric geometric motifs. We show that the structural covariance matrix approach, originally proposed for on-lattice liquids [Ronceray and Harrowell, JCP 2016], can be meaningfully employed to understand structural relationships between different motifs and can predict, within the linear-response regime, structural changes related to motifs distinct from that used to bias the system