arXiv subjects

David R. Nelson

Publications and source records attributed to David R. Nelson.

At least 37 records · Page 2Linked to original sources

arXiv2022

Anomalous thermal expansion in Ising-like puckered sheets

Motivated by efforts to create thin nanoscale metamaterials and understand atomically thin binary monolayers, we study the finite temperature statistical mechanics of arrays of bistable buckled dilations embedded in free-standing two-dimensional crystalline membranes that are allowed to fluctuate in three dimensions. The buckled nodes behave like discrete, but highly compressible, Ising spins, leading to a phase transition at $T_c$ with singularities in the staggered "magnetization," susceptibility, and specific heat, studied via molecular dynamics simulations. Unlike conventional Ising models, we observe a striking divergence and sign change of the coefficient of thermal expansion near $T_c$ caused by the coupling of flexural phonons to the buckled spin texture. We argue that a phenomenological model coupling Ising degrees of freedom to the flexural phonons in a thin elastic sheet can explain this unusual response.

cond-mat.mtrl-sci↗

arXiv2022

Fractional defect charges in $p$-atic liquid crystals on cones

Conical surfaces, with a delta function of Gaussian curvature at the apex, are perhaps the simplest example of geometric frustration. We study two-dimensional liquid crystals with $p$-fold rotational symmetry ($p$-atics) on the surfaces of cones. For free boundary conditions at the base, we find both the ground state(s) and a discrete ladder of metastable states as a function of both the cone angle and the liquid crystal symmetry $p$. We find that these states are characterized by a set of fractional defect charges at the apex and that the ground states are in general frustrated due to effects of parallel transport along the azimuthal direction of the cone. We check our predictions for the ground state energies numerically for a set of commensurate cone angles (corresponding to a set of commensurate Gaussian curvatures concentrated at the cone apex), whose surfaces can be polygonized as a perfect triangular or square mesh, and find excellent agreement with our theoretical predictions.

cond-mat.soft↗

arXiv2021

The collective effect of finite-sized inhomogeneities on the spatial spread of populations in two dimensions

The dynamics of a population expanding into unoccupied habitat has been primarily studied for situations in which growth and dispersal parameters are uniform in space or vary in one dimension. Here we study the influence of finite-sized individual inhomogeneities and their collective effect on front speed if randomly placed in a two-dimensional habitat. We use an individual-based model to investigate the front dynamics for a region in which dispersal or growth of individuals is reduced to zero (obstacles) or increased above the background (hotspots), respectively. In a regime where front dynamics is determined by a local front speed only, a principle of least time can be employed to predict front speed and shape. The resulting analytical solutions motivate an event-based algorithm illustrating the effects of several obstacles or hotspots. We finally apply the principle of least time to large heterogeneous environments by solving the Eikonal equation numerically. Obstacles lead to a slow-down that is dominated by the number density and width of obstacles, but not by their precise shape. Hotspots result in a speedup, which we characterise as function of hotspot strength and density. Our findings emphasise the importance of taking the dimensionality of the environment into account.

q-bio.PE↗

arXiv2021

Phonon eigenfunctions of inhomogeneous lattices: Can you hear the shape of a cone?

We study the phonon modes of interacting particles on the surface of a truncated cone resting on a plane subject to gravity, inspired by recent colloidal experiments. We derive the ground state configuration of the particles under gravitational pressure in the small cone angle limit, and find an inhomogeneous triangular lattice with spatially varying density but robust local order. The inhomogeneity has striking effects on the normal modes such that an important feature of the cone geometry, namely its apex angle, can be extracted from the lattice excitations. The shape of the cone leads to energy crossings at long wavelengths and frequency-dependent quasi-localization at short wavelengths. We analytically derive the localization domain boundaries of the phonons in the limit of small cone angle and check our results with numerical results for eigenfunctions.

cond-mat.soft↗

arXiv2021

Thermalized buckling of isotropically compressed thin sheets

The buckling of thin elastic sheets is a classic mechanical instability that occurs over a wide range of scales. In the extreme limit of atomically thin membranes like graphene, thermal fluctuations can dramatically modify such mechanical instabilities. We investigate here the delicate interplay of boundary conditions, nonlinear mechanics and thermal fluctuations in controlling buckling of confined thin sheets under isotropic compression. We identify two inequivalent mechanical ensembles based on the boundaries at constant strain (isometric) or at constant stress (isotensional) conditions.Remarkably, in the isometric ensemble, boundary conditions induce a novel long-ranged nonlinear interaction between the local tilt of the surface at distant points. This interaction combined with a spontaneously generated thermal tension leads to a renormalization group description of two distinct universality classes for thermalized buckling, realizing a mechanical variant of Fisher-renormalized critical exponents. We formulate a complete scaling theory of buckling as an unusual phase transition with a size dependent critical point, and discuss experimental ramifications for the mechanical manipulation of ultrathin nanomaterials.

cond-mat.stat-mech↗

arXiv2020

Thermal buckling and symmetry breaking in thin ribbons under compression

Understanding thin sheets, ranging from the macro to the nanoscale, can allow control of mechanical properties such as deformability. Out-of-plane buckling due to in-plane compression can be a key feature in designing new materials. While thin-plate theory can predict critical buckling thresholds for thin frames and nanoribbons at very low temperatures, a unifying framework to describe the effects of thermal fluctuations on buckling at more elevated temperatures presents subtle difficulties. We develop and test a theoretical approach that includes both an in-plane compression and an out-of-plane perturbing field to describe the mechanics of thermalised ribbons above and below the buckling transition. We show that, once the elastic constants are renormalised to take into account the ribbon's width (in units of the thermal length scale), we can map the physics onto a mean-field treatment of buckling, provided the length is short compared to a ribbon persistence length. Our theoretical predictions are checked by extensive molecular dynamics simulations of thin thermalised ribbons under axial compression.

cond-mat.stat-mech↗

arXiv2020

Statistical Mechanics of Low Angle Grain Boundaries in Two Dimensions

We explore order in low angle grain boundaries (LAGBs) embedded in a two-dimensional crystal at thermal equilibrium. Symmetric LAGBs subject to a periodic Peierls potential undergo, with increasing temperatures, a thermal depinning transition, above which the potential is irrelevant at long wavelengths and the LAGB exhibits transverse fluctuations that grow logarithmically with inter-dislocation distance. Longitudinal fluctuations lead to a series of melting transitions marked by the sequential disappearance of diverging algebraic Bragg peaks with universal critical exponents. Aspects of our theory are checked by a mapping onto random matrix theory.

cond-mat.stat-mech↗

arXiv2020

Statistical Mechanics of Dislocation Pileups in Two Dimensions

Dislocation pileups directly impact the material properties of crystalline solids through the arrangement and collective motion of interacting dislocations. We study the statistical mechanics of these ordered defect structures embedded in two dimensional crystals, where the dislocations themselves form one-dimensional lattices. In particular, pileups exemplify a new class of inhomogeneous crystals characterized by spatially varying lattice spacings. By analytically formulating key statistical quantities and comparing our theory to numerical experiments using an intriguing mapping of dislocation positions onto the eigenvalues of recently studied random matrix ensembles, we uncover two types of one-dimensional phase transitions in dislocation pileups: a thermal depinning transition out of long-range translational order from the pinned-defect phase, due to a periodic Peierls potential, to a floating-defect state, and finally the melting out of a quasi-long range ordered floating defect-solid phase to a defect-liquid. We also find the set of transition temperatures at which these transitions can be directly observed through the one-dimensional structure factor, where the delta function Bragg peaks, at the pinned-defect to floating-defect transition, broaden into algebraically diverging Bragg peaks, which then sequentially disappear as one approaches the two-dimensional melting transition of the host crystal. We calculate a set of temperature-dependent critical exponents for the structure factor and radial distribution function, and obtain their exact forms for both uniform and inhomogeneous pileups using random matrix theory.

cond-mat.stat-mech↗

arXiv2020

Buckling and metastability in membranes with dilation arrays

We study periodic arrays of impurities that create localized regions of expansion, embedded in two-dimensional crystalline membranes. These arrays provide a simple elastic model of shape memory. As the size of each dilational impurity increases (or the relative cost of bending to stretching decreases), it becomes energetically favorable for each of the $M$ impurities to buckle up or down into the third dimension, thus allowing for of order $2^M$ metastable surface configurations corresponding to different impurity "spin" configurations. With both discrete simulations and the nonlinear continuum theory of elastic plates, we explore the buckling of both isolated dilations and dilation arrays at zero temperature, guided by analogies with Ising antiferromagnets. We conjecture ground states for systems with triangular and square impurity superlattices, and comment briefly on the possible behaviors at finite temperatures.

cond-mat.soft↗

arXiv2019

Eigenvalue Repulsion and Eigenfunction Localization in Sparse Non-Hermitian Random Matrices

Complex networks with directed, local interactions are ubiquitous in nature, and often occur with probabilistic connections due to both intrinsic stochasticity and disordered environments. Sparse non-Hermitian random matrices arise naturally in this context, and are key to describing statistical properties of the non-equilibrium dynamics that emerges from interactions within the network structure. Here, we study one-dimensional (1d) spatial structures and focus on sparse non-Hermitian random matrices in the spirit of tight-binding models in solid state physics. We first investigate two-point eigenvalue correlations in the complex plane for sparse non-Hermitian random matrices using methods developed for the statistical mechanics of inhomogeneous 2d interacting particles. We find that eigenvalue repulsion in the complex plane directly correlates with eigenvector delocalization. In addition, for 1d chains and rings with both disordered nearest neighbor connections and self-interactions, the self-interaction disorder tends to de-correlate eigenvalues and localize eigenvectors more than simple hopping disorder. However, remarkable resistance to eigenvector localization by disorder is provided by large cycles, such as those embodied in 1d periodic boundary conditions under strong directional bias. The directional bias also spatially separates the left and right eigenvectors, leading to interesting dynamics in excitation and response. These phenomena have important implications for asymmetric random networks and highlight a need for mathematical tools to describe and understand them analytically.

cond-mat.dis-nn↗

arXiv2019

Nucleation of antagonistic organisms and cellular competitions on curved, inflating substrates

We consider the dynamics of spatially-distributed, diffusing populations of organisms with antagonistic interactions. These interactions are found on many length scales, ranging from kilometer-scale animal range dynamics with selection against hybrids to micron-scale interactions between poison-secreting microbial populations. We find that the dynamical line tension at the interface between antagonistic organisms suppresses survival probabilities of small clonal clusters: the line tension introduces a critical cluster size that an organism with a selective advantage must achieve before deterministically spreading through the population. We calculate the survival probability as a function of selective advantage $δ$ and antagonistic interaction strength $σ$. Unlike a simple Darwinian selective advantage, the survival probability depends strongly on the spatial diffusion constant $D_s$ of the strains when $σ>0$, with suppressed survival when both species are more motile. Finally, we study the survival probability of a single mutant cell at the frontier of a growing spherical cluster of cells, such as the surface of an avascular spherical tumor. Both the inflation and curvature of the frontier significantly enhance the survival probability by changing the critical size of the nucleating cell cluster.

q-bio.PE↗

arXiv2019

Fixation Probabilities in Weakly Compressible Fluid Flows

Competition between biological species in marine environments is affected by the motion of the surrounding fluid. An effective 2D compressibility can arise, for example, from the convergence and divergence of water masses at the depth at which passively traveling photosynthetic organisms are restricted to live. In this report, we seek to quantitatively study genetics under flow. To this end, we couple an off-lattice agent-based simulation of two populations in 1D to a weakly compressible velocity field--first a sine wave and then a shell model of turbulence. We find for both cases that even in a regime where the overall population structure is approximately unaltered, the flow can significantly diminish the effect of a selective advantage on fixation probabilities. We understand this effect in terms of the enhanced survival of organisms born at sources in the flow and the influence of Fisher genetic waves.

q-bio.PE↗

arXiv2018

Microbial range expansions on liquid substrates

Despite the importance that fluid flow plays in transporting and organizing populations, few laboratory systems exist to systematically investigate the impact of advection on their spatial evolutionary dynamics. To address this problem, we study the morphology and genetic spatial structure of microbial colonies growing on the surface of a nutrient-laden fluid $10^4$ to $10^5$ times more viscous than water in Petri dishes, the extreme but finite viscosity inhibits undesired thermal convection and allows populations to effectively live at the air-liquid interface due to capillary forces. We discover that S. cerevisiae (baker's yeast) growing on a viscous liquid behave like "active matter": they metabolically generate fluid flows many times larger than their unperturbed colony expansion speed, and that flow, in return, can dramatically impact their colony morphology and spatial population genetics. We show that yeast cells generate fluid flows by consuming surrounding nutrients and decreasing the local substrate density, leading to misaligned fluid pressure and density contours, which ultimately generates vorticity via a thresholdless baroclinic instability. Numerical simulations demonstrate that an intense vortex ring is produced below the colony's edge and quantitatively predict the observed flow. As the viscosity of the substrate is lowered and the self-induced flow intensifies, we observe three distinct morphologies: at the highest viscosity,compact circular colonies similar to those grown on hard agar plates except with a stretched regime of exponential expansion, intermediate viscosities give rise to compact colonies with "fingers" that are ripped away to break into smaller cell clusters, and at the lowest viscosity, the expanding colony breaks up into many genetically-diverse, mutually repelling, island-like fragments of yeast colonies.

cond-mat.soft↗

arXiv2018

Evolution in range expansions with competition at rough boundaries

When a biological population expands into new territory, genetic drift develops an enormous influence on evolution at the propagating front. In such range expansion processes, fluctuations in allele frequencies occur through stochastic \textit{spatial} wandering of both genetic lineages and the boundaries between genetically segregated sectors. Laboratory experiments on microbial range expansions have shown that this stochastic wandering, transverse to the front, is superdiffusive due to the front's growing roughness, implying much faster loss of genetic diversity than predicted by simple flat front diffusive models. We study the evolutionary consequences of this superdiffusive wandering using two complementary numerical models of range expansions: the stepping stone model, and a new interpretation of the model of directed paths in random media, in the context of a roughening population front. Through these approaches we compute statistics for the times since common ancestry for pairs of individuals with a given spatial separation at the front, and we explore how environmental heterogeneities can locally suppress these superdiffusive fluctuations.

physics.bio-ph↗

arXiv2018

Non-Hermitian Quasi-Localization and Ring Attractor Neural Networks

Eigenmodes of a broad class of "sparse" random matrices, with interactions concentrated near the diagonal, exponentially localize in space, as initially discovered in 1957 by Anderson for quantum systems. Anderson localization plays ubiquitous roles in varieties of problems from electrons in solids to mechanical and optical systems. However, its implications in neuroscience (where the connections can be strongly asymmetric) have been largely unexplored, mainly because synaptic connectivity matrices of neural systems are often "dense", which makes the eigenmodes spatially extended. Here, we explore roles that Anderson localization could be playing in neural networks by focusing on "spatially structured" disorder in synaptic connectivity matrices. Recently, neuroscientists have experimentally confirmed that the local excitation and global inhibition (LEGI) ring attractor model can functionally represent head direction cells in Drosophila melanogaster central brain. We first study a non-Hermitian (i.e. asymmetric) tight-binding model with disorder and then establish a connection to the LEGI ring attractor model. We discover that (i) Principal eigenvectors of the LEGI ring attractor networks with structured nearest neighbor disorder are "quasi-localized", even with fully dense inhibitory connections. (ii) The quasi-localized eigenvectors play dominant roles in the early time neural dynamics, and the location of the principal quasi-localized eigenvectors predict an initial location of the "bump of activity" representing, say, a head direction of an insect. Our investigations open up a new venue for explorations at the intersection between the theory of Anderson localization and neural networks with spatially structured disorder.

cond-mat.dis-nn↗

arXiv2018

Statistical mechanics of specular reflections from fluctuating membranes and interfaces

We study the density of specular reflection points in the geometrical optics limit when light scatters off fluctuating interfaces and membranes in thermodynamic equilibrium. We focus on the statistical mechanics of both capillary-gravity interfaces (characterized by a surface tension) and fluid membranes (controlled by a bending rigidity) in thermodynamic equilibrium in two dimensions. Building on work by Berry, Nye, Longuet-Higgins and others, we show that the statistics of specular points is fully characterized by three fundamental length scales, namely, a correlation length $ξ$, a microscopic length scale $\ell$ and the overall size $L$ of the interface or membrane. By combining a scaling analysis with numerical simulations, we confirm the existence of a scaling law for the density of specular reflection points, $n_{spec}$, in two dimensions, given by $n_{spec}\propto\ell^{-1}$ in the limit of thin fluctuating interfaces with the interfacial thickness $\ell\llξ_I$. The density of specular reflections thus diverges for fluctuating interfaces in the limit of vanishing thickness and shows no dependance on the interfacial capillary-gravity correlation length $ξ_I$. Although fluid membranes under tension also exhibit a divergence in $n_{spec}\propto\left(ξ_M\ell\right)^{-1/2}$, the number of specular reflections in this case can grow by decreasing the membrane correlation length $ξ_{M}$.

cond-mat.soft↗

arXiv2018

Nonlinear mechanics of thin frames

The dramatic effect kirigami, such as hole cutting, has on the elastic properties of thin sheets invites a study of the mechanics of thin elastic frames under an external load. Such frames can be thought of as modular elements needed to build any kirigami pattern. Here we develop the technique of elastic charges to address a variety of elastic problems involving thin sheets with perforations, focusing on frames with sharp corners. We find that holes generate elastic defects (partial disclinations) which act as sources of geometric incompatibility. Numerical and analytic studies are made of three different aspects of loaded frames - the deformed configuration itself, the effective mechanical properties in the form of force-extension curves and the buckling transition triggered by defects. This allows us to understand generic kirigami mechanics in terms of a set of force-dependent elastic charges with long-range interactions.

cond-mat.soft↗

arXiv2018

Kirigami mechanics as stress relief by elastic charges

We develop a geometric approach to understand the mechanics of perforated thin elastic sheets, using the method of strain-dependent image elastic charges. This technique recognizes the buckling response of a hole under external load as a geometrically tuned mechanism of stress relief. We use a diagonally pulled square paper frame as a model system to quantitatively test and validate our approach. Specifically, we compare nonlinear force-extension curves and global displacement fields in theory and experiment. We find a strong softening of the force response accompanied by curvature localization at the inner corners of the buckled frame. Counterintuitively, though in complete agreement with our theory, for a range of intermediate hole sizes, wider frames are found to buckle more easily than narrower ones. Upon extending these ideas to many holes, we demonstrate that interacting elastic image charges can provide a useful kirigami design principle to selectively relax stresses in elastic materials.

cond-mat.soft↗