arXiv subjects

Arunkumar Bupathy

Publications and source records attributed to Arunkumar Bupathy.

4 recordsLinked to original sources

arXiv2025

From Knots to Crystals: Machine-Learned Potentials for Self-Assembling Topological Solitons in Liquid Crystals

Knotted fields in classical and quantum systems have long been recognized for their non-trivial topologies and particle-like behavior, but practical applications have been limited by the difficulty of stabilizing them. Recently, stable knotted solitonic textures--heliknotons--were discovered in chiral liquid crystals, forming adaptive crystal assemblies via elastic distortion-mediated interactions. We use machine learning to develop single-site coarse-grained potentials that accurately capture these chiral anisotropic effective interactions. The resulting potentials accurately reproduce experimentally observed heliknoton assemblies and enable simulations at length and time scales far beyond the range of fine-grained continuum models. This general framework is readily transferable to other topological solitons, providing a powerful route to understand, predict, and ultimately control their collective behavior and dynamics.

cond-mat.soft↗

arXiv2024

Two-stage assembly of patchy ellipses: From bent-core particlesto liquid crystal analogs

We investigate the two-dimensional behavior of colloidal patchy ellipsoids specifically designed to follow a two-step assembly process from the monomer state to mesoscopic liquid-crystal phases, via the formation of so-called bent-core units at the intermediate stage. Our model comprises a binary mixture of ellipses interacting via the Gay-Berne potential and decorated by surface patches, with the binary components being mirror-image variants of each other - referred to as left-handed and right-handed ellipses according to the position of their patches. The surface patches are designed so as in the first stage of the assembly the monomers form bent-cores units, i.e. V-shaped dimers with a specific bent angle. The Gay-Berne interactions, which act between the ellipses, drive the dimers to subsequently form the characteristic phase observed in bent-core liquid crystals. We numerically investigate -- by means of both Molecular Dynamics and Monte Carlo simulations -- the described two-step process: we first optimize a target bent-core unit and we then fully characterize its state diagram in temperature and density, defining the regions where the different liquid crystalline phases dominate.

cond-mat.soft↗

arXiv2021

Temperature Protocols to Guide Selective Self-Assembly of Competing Structures

Multi-component self-assembly mixtures offer the possibility of encoding multiple target structures with the same set of interacting components. Selective retrieval of one of the stored structures has been attempted by preparing an initial state that favours the assembly of the required target, through seeding, concentration patterning or specific choices of interaction strengths. This may not be possible in an experiment where on-the-fly reconfiguration of the building blocks to switch functionality may be required. In this paper, we explore principles of inverse design of a multi-component self-assembly mixture capable of encoding two competing structures that can be selected through simple temperature protocols. We design the target structures to realise the generic situation in which one of targets has the lower nucleation barrier while the other is globally more stable. We observe that to avoid the formation of spurious or chimeric aggregates, the number of neighbouring component pairs that occur in both structures should be minimal. Our design also requires the inclusion of components that are part only of one of the target structures, but we observe that to maximize the selectivity of retrieval, the component library itself should be maximally shared by the two targets. We demonstrate that temperature protocols can be designed which lead to the formation of either one of the target structures with high selectivity. We discuss the important role played by secondary aggregation products, which we term vestigial aggregates.

cond-mat.soft↗

arXiv2019

Information density, structure and entropy in equilibrium and non-equilibrium systems

During a spontaneous change, a macroscopic physical system will evolve towards a macro-state with more realizations. This observation is at the basis of the Statistical Mechanical version of the Second Law of Thermodynamics, and it provides an interpretation of entropy in terms of probabilities. However, we cannot rely on the statistical-mechanical expressions for entropy in systems that are far from equilibrium. In this paper, we compare various extensions of the definition of entropy, which have been proposed for non-equilibrium systems. It has recently been proposed that measures of information density may serve to quantify entropy in both equilibrium and nonequilibrium systems. We propose a new "bit-wise" method to measure the information density for off lattice systems. This method does not rely on coarse-graining of the particle coordinates. We then compare different estimates of the system entropy, based on information density and on the structural properties of the system, and check if the various entropies are mutually consistent and, importantly, whether they can detect non-trivial ordering phenomena. We find that, except for simple (one-dimensional) cases, the different methods yield answers that are at best qualitatively similar, and often not even that, although in several cases, different entropy estimates do detect ordering phenomena qualitatively. Our entropy estimates based on bit-wise data compression contain no adjustable scaling factor, and show large quantitative differences with the thermodynamic entropy obtained from equilibrium simulations. Hence, our results suggest that, at present, there is not yet a single, structure-based entropy definition that has general validity for equilibrium and non equilibrium systems.

cond-mat.stat-mech↗