arXiv subjects

Ee Hou Yong

Publications and source records attributed to Ee Hou Yong.

12 recordsLinked to original sources

arXiv2026

Helical stability of double-stranded semiflexible chains with interstrand interactions

The mechanical and structural properties of dsDNA have been successfully described by models with varying levels of complexity and coarse-graining schemes. Prior work has characterized local stacking/twist effects and force-torque phase diagrams under external constraints. However, the role of base-pairing and torsional elasticity in global morphological transitions remain poorly characterized in the absence of external constraints. Here we investigate the delicate balance required for the strength of base-pairing interactions and the twisting energy to preserve the double-helix structure in a model made up of two semiflexible chains. We found that the model exhibits several distinct morphological phases: flat, random coil, double-helix, and the unwound double-helix. We calculate the Gauss linking number to characterize transitions between these phases.

cond-mat.soft↗

arXiv2026

Emergence of Hexanematic Order in a Growing Confluent Cell Monolayer

Collective migration of epithelial layers underlies processes ranging from wound healing to cancer invasion. A defining yet challenging feature is the emergence of distinct cell morphologies within a single migrating confluent sheet, with larger, elongated cells at the active boundary and smaller, hexatically ordered cells in the bulk. Here, we develop a stochastic particle-Voronoi framework that captures this hexanematic organization without prescribing target geometries and distinct cell types. We show that boundary-driven collective motion generates an outward velocity gradient. This gradient, coupled to a density and velocity-dependent division rule, produces peripheral cells that are larger, more elongated, and more defect-prone, while bulk cells remain smaller, isotropic, and hexagonally packed. These results show how minimal, non-equilibrium mechanical interactions give rise to emergent, self-organized tissue-scale patterning during collective migration.

cond-mat.soft↗

arXiv2025

Lyapunov-Schmidt bifurcation analysis of a supported compressible elastic beam

The archetypal instability of a structure is associated with the eponymous Euler beam, modeled as an inextensible curve which exhibits a supercritical bifurcation at a critical compressive load. In contrast, a soft compressible beam is capable of a subcritical instability, a problem that is far less studied, even though it is increasingly relevant in the context of soft materials and structures. Here, we study the stability of a soft extensible elastic beam on an elastic foundation under the action of a compressive axial force, using the Lyapunov-Schmidt reduction method which we corroborate with numerical calculations. Our calculated bifurcation diagram differs from those associated with the classical Euler-Bernoulli beam, and shows two critical loads, $p^\pm_{\text{cr}}(n)$, for each buckling mode $n$. The beam undergoes a supercritical pitchfork bifurcation at $p^+_{\text{cr}}(n)$ for all $n$ and slenderness. Due to the elastic foundation, the lower order modes at $p^-_{\text{cr}}(n)$ exhibit subcritical pitchfork bifurcations, and perhaps surprisingly, the first supercritical pitchfork bifurcation point occurs at a higher critical load. The presence of the foundation makes it harder to buckle the elastic beam, but when it does so, it tends to buckle into a more undulated shape. Overall, we find that an elastic support can lead to a myraid of buckled shapes for the classical elastica and one can tune the substrate stiffness to control desired buckled modes -- an experimentally testable prediction.

physics.class-ph↗

arXiv2022

How zealots affect the energy cost for controlling complex social networks

The controllability of complex networks may be applicable for understanding how to control a complex social network, where members share their opinions and influence one another. Previous works in this area have focused on controllability, energy cost, or optimization under the assumption that all nodes are compliant, passing on information neutrally without any preferences. However, the assumption on nodal neutrality should be reassessed, given that in networked social systems, some people may hold fast to their personal beliefs. By introducing some stubborn agents, or zealots, who hold steadfast to their beliefs and seek to influence others, the control energy is computed and compared against those without zealots. It was found that the presence of zealots alters the energy cost at a quadratic rate with respect to their own fixed beliefs. However, whether or not the zealots' presence increases or decreases the energy cost is affected by the interplay between different parameters such as the zealots' beliefs, number of drivers, final control time regimes, network effects, network dynamics, and number and configurations of neutral nodes influenced by the zealots. For example, when a network dynamics is linear but does not have conformity behavior, it could be possible for a contrarian zealot to assist in reducing control energy. With conformity behavior, a contrarian zealot always negatively affects network control by increasing energy cost. The results of this paper suggest caution when modeling real networked social systems with the controllability of networked linear dynamics since the system dynamical behavior is sensitive to parameter change.

physics.soc-ph↗

arXiv2021

Statistics and Topology of Fluctuating Ribbons

Ribbons are a class of slender structures whose length, width, and thickness are widely separated from each other. This scale separation gives a ribbon unusual mechanical properties in athermal macroscopic settings, e.g. it can bend without twisting, but cannot twist without bending. Given the ubiquity of ribbon-like biopolymers in biology and chemistry, here we study the statistical mechanics of microscopic inextensible, fluctuating ribbons loaded by forces and torques. We show that these ribbons exhibit a range of topologically and geometrically complex morphologies exemplified by three phases - a twist-dominated helical phase (HT), a writhe-dominated helical phase (HW), and an entangled phase - that arise as the applied torque and force is varied. Furthermore, the transition from HW to HT phases is characterized by the spontaneous breaking of parity symmetry and the disappearance of perversions that characterize chirality reversals. This leads to a universal response curve of a topological quantity, the link, as a function of the applied torque that is similar to magnetization curves in second-order phase transitions.

cond-mat.stat-mech↗

arXiv2021

Enhanced diffusion in soft-walled channels with a periodically varying curvature

In one-dimension, the diffusion of particles along a line is slowed by the addition of energy barriers. The same is true in two-dimensions, provided that the confining channel in which the particles move doesn't change shape. However, if the shape changes then this is no longer necessarily true; adding energy barriers can enhance the rate of diffusion, and even restore free diffusion. We explore these effects for a channel with a sinusoidally varying curvature.

cond-mat.stat-mech↗

arXiv2021

Energy cost study for controlling complex social networks with conformity behavior

In order to understand controlling a complex system, an estimation of the required effort needed to achieve control is vital. Previous works have addressed this issue by studying the scaling laws of energy cost in a general way with continuous-time linear dynamics. However, continuous-time linear dynamics is unable to capture conformity behavior, which is common in many complex social systems. Therefore, to understand controlling social systems with conformity, discrete-time modelling is used and the energy cost scaling laws are derived. The results are validated numerically with model and real networks. In addition, the energy costs needed for controlling systems with and without conformity are compared, and it was found that controlling networked systems with conformity features always requires less control energy. Finally, it is shown through simulations that heterogeneous scale-free networks are less controllable, requiring a higher number of minimum drivers. Since the conformity-based model relates to various complex systems, such as flocking, or evolutionary games, the results of this paper represent a step forward towards developing realistic control of complex social systems.

physics.soc-ph↗

arXiv2021

Optimizing target nodes selection for the control energy of directed complex networks

The energy needed in controlling a complex network is a problem of practical importance. Recent works have focused on the reduction of control energy either via strategic placement of driver nodes, or by decreasing the cardinality of nodes to be controlled. However, optimizing control energy with respect to target nodes selection has yet been considered. In this work, we propose an iterative method based on Stiefel manifold optimization of selectable target node matrix to reduce control energy. We derive the matrix derivative gradient needed for the search algorithm in a general way, and search for target nodes which result in reduced control energy, assuming that driver nodes placement is fixed. Our findings reveal that the control energy is optimal when the path distances from driver nodes to target nodes are minimized. We corroborate our algorithm with extensive simulations on elementary network topologies, random and scale-free networks, as well as various real networks. The simulation results show that the control energy found using our algorithm outperforms heuristic selection strategies for choosing target nodes by a few orders of magnitude. Our work may be applicable to opinion networks, where one is interested in identifying the optimal group of individuals that the driver nodes can influence.

physics.soc-ph↗

arXiv2020

Contours information and the perception of various visual illusions

The simplicity principle states that the human visual system prefers the simplest interpretation. However, conventional coding models could not resolve the incompatibility between predictions from the global minimum principle and the local minimum principle. By quantitatively evaluating the total information content of all possible visual interpretations, we show that the perceived pattern is always the one with the simplest local completion as well as the least total surprisal globally, thus solving this apparent conundrum. Our proposed framework consist of (1) the information content of visual contours, (2) direction of visual contour, and (3) the von Mises distribution governing human visual expectation. We used it to explain the perception of prominent visual illusions such as Kanizsa triangle, Ehrenstein cross, and Rubin's vase. This provides new insight into the celebrated simplicity principle and could serve as a fundamental explanation of the perception of illusory boundaries and the bi-stability of perceptual grouping.

q-bio.NC↗

arXiv2013

Statistical Mechanics of Multistability in Microscopic Shells

Unlike macroscopic multistable mechanical systems such as snap bracelets or elastic shells that must be physically manipulated into various conformations, microscopic systems can undergo spontaneous conformation switching between multistable states due to thermal fluctuations. Here we investigate the statistical mechanics of shape transitions in small elastic elliptical plates and shells driven by noise. By assuming that the effects of edges are small, which we justify exactly for plates and shells with a lenticular section, we decompose the shapes into a few geometric modes whose dynamics are easy to follow. We use Monte Carlo simulations to characterize the shape transitions between conformation minima as a function of noise strength, and corroborate our results using a Fokker-Planck formalism to study the stationary distribution and the mean first passage time problem. Our results are applicable to objects such as such as graphene flakes or protein β-sheets, where fluctuations, geometry and finite size effects are important.

cond-mat.stat-mech↗

arXiv2013

Elastic Platonic Shells

On microscopic scales, the crystallinity of flexible tethered or cross linked membranes determines their mechanical response. We show that by controlling the type, number and distribution of defects on a spherical elastic shell, it is possible to direct the morphology of these structures. Our numerical simulations show that by deflating a crystalline shell with defects, we can create elastic shell analogs of the classical Platonic solids. These morphologies arise via a sharp buckling transition from the sphere which is strongly hysteretic in loading-unloading. We construct a minimal Landau theory for the transition using quadratic and cubic invariants of the spherical harmonic modes. Our approach suggests methods to engineer shape into soft spherical shells using a frozen defect topology.

cond-mat.soft↗

arXiv2011

Probability and dynamics in the toss of a non-bouncing thick coin

When a thick cylindrical coin is tossed in the air and lands without bouncing on an inelastic substrate, it ends up on its face or its side. We account for the rigid body dynamics of spin and precession and calculate the probability distribution of heads, tails, and sides for a thick coin as a function of its dimensions and the distribution of its initial conditions. Our theory yields a simple expression for the aspect ratio of homogeneous coins with a prescribed frequency of heads/tails compared to sides, which we validate by tossing experiments using coins of different aspect ratios.

physics.class-ph↗