BITS Faculty Publications
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Item Pattern formation of anisotropic molecules on surfaces under non-equilibrium conditions as described by a minimum model(AIP, 2013-06) Jana, Pritam KumarThe self-organization of lipophilic chain molecules on surfaces in vacuum deposition experiments has been recently studied by Monte Carlo simulations of a coarse grained microscopic model system. Surprisingly, the final potential energy depends in a non-monotonous way on the chosen flux and the surface temperature. Here we introduce a schematic model which contains the relevant physical ingredients of the microscopic model and which elucidates the origin of this anomalous non-equilibrium effect. Intra-cluster effects, reflecting the chain arrangement within one cluster, and inter-cluster effects, based on the distribution of chains among the different formed clusters, are taken into account. This schematic model is solved numerically as well as via analytical means. From the analytical solutions, it is possible to understand quantitatively for which interaction parameters the observed anomalies can indeed be observed. The generality of the observed phenomena is stressed. It is related to the concept of kinetic trapping, which often occurs during self-assembly.Item Deposition of model chains on surfaces: Anomalous relation between flux and stability(AIP, 2013-03) Jana, Pritam KumarModel chains are studied via Monte Carlo simulations which are deposited with a fixed flux on a substrate. They may represent, e.g., stiff lipophilic chains with an head group and tail groups mimicking the alkyl chain. After some subsequent fixed simulation time we determine the final energy as a function of flux and temperature. Surprisingly, in some range of temperature and flux the final energy increases with decreasing flux. The physical origin of this counterintuitive observation is elucidated. In contrast, when performing equivalent cooling experiments no such anomaly is observed. Furthermore, it is elaborated whether flux experiments give rise to configurations with lower energies as compared to cooling experiments. These results are related to recent experiments by the Ediger group where very stable configurations of glass-forming systems have been generated via flux experiments.Item Controlling two-phase self-assembly of an adenine derivative on HOPG via kinetic effects(RSC, 2014) Jana, Pritam KumarLarge-area self-assembled structures of a nucleobase adenine derivative were successfully realized through vacuum deposition. STM images reveal two types of structures, which could be regulated by substrate temperature and the evaporation rate, indicating the relevance of kinetic effects. The results are supported by computer simulations.Item Anomalous approach to thermodynamic equilibrium: Structure formation of molecules after vapor deposition(APS, 2015-11) Jana, Pritam KumarWe describe experiments and computer simulations of molecular deposition on a substrate in which the molecules (substituted adenine derivatives) self-assemble into ordered structures. The resulting structures depend strongly on the deposition rate (flux). In particular, there are two competing surface morphologies (α and β), which differ by their topology (interdigitated vs lamellar structure). Experimentally, the α phase dominates at both low and high flux, with the β phase being most important in the intermediate regime. A similar nonmonotonic behavior is observed on varying the substrate temperature. To understand these effects from a theoretical perspective, a lattice model is devised which reproduces qualitatively the topological features of both phases. Via extensive Monte Carlo studies we can, on the one hand, reproduce the experimental results and, on the other hand, obtain a microscopic understanding of the mechanisms behind this anomalous behavior. The results are discussed in terms of an interplay between kinetic trapping and temporal exploration of configuration space.Item Reversible-to-irreversible transition of colloidal polycrystals under cyclic athermal quasistatic deformation(APS, 2023-12) Jana, Pritam KumarCyclic loading on granular packings and amorphous media exhibits a transition from reversible elastic behavior to irreversible plasticity. The present study compares the irreversibility transition and microscopic details of colloidal polycrystals under oscillatory tensile-compressive and shear strain. Under both modes, the systems exhibit a reversible to irreversible transition. However, the strain amplitude at which the transition is observed is larger in the shear strain than in the tensile-compressive mode. The threshold strain amplitude is confirmed by analyzing the dynamical properties, such as mobility and atomic strain (von Mises shear strain and the volumetric strain). The structural changes are quantified using a hexatic order parameter. Under both modes of deformation, dislocations and grain boundaries in polycrystals disappear, and monocrystals are formed. We also recognize the dislocation motion through grains. The key difference is that strain accumulates diagonally in oscillatory tensile-compressive deformation, whereas in shear deformation, strain accumulation is along the x or y axis.Item Steric interactions between mobile ligands facilitate complete wrapping in passive endocytosis(APS, 2018-09) Jana, Pritam KumarReceptor-mediated endocytosis is an ubiquitous process through which cells internalize biological or synthetic nanoscale objects, including viruses, unicellular parasites, and nanomedical vectors for drug or gene delivery. In passive endocytosis the cell plasma membrane wraps around the “invader” particle driven by ligand-receptor complexation. By means of theory and numerical simulations, here we demonstrate how particles decorated by freely diffusing and nonmutually interacting (ideal) ligands are significantly more difficult to wrap than those where ligands are either immobile or interact sterically with each other. Our model rationalizes the relationship between uptake mechanism and structural details of the invader, such as ligand size, mobility, and ligand-receptor affinity, providing a comprehensive picture of pathogen endocytosis and helping the rational design of efficient drug delivery vectors.Item Irreversible transition of amorphous and polycrystalline colloidal solids under cyclic deformation(APS, 2018-12) Jana, Pritam KumarCyclic loading on granular packings and amorphous media leads to a transition from reversible elastic behavior to an irreversible plasticity. In the present study, we investigate the effect of oscillatory shear on polycrystalline and amorphous colloidal solids by performing molecular dynamics simulations. Our results show that close to the transition, both systems exhibit enhanced particle mobility, hysteresis, and rheological loss of rigidity. However, the rheological response shows a sharper transition in the case of the polycrystalline sample as compared to the amorphous solid. In the polycrystalline system, we see the disappearance of disclinations, which leads to the formation of a monocrystalline system, whereas the amorphous system hardly shows any ordering. After the threshold strain amplitude, as we increase the strain amplitude both systems get fluid. In addition to that, particle displacements are more homogeneous in the case of polycrystalline systems as compared to the amorphous solid, mainly when the strain amplitude is larger than the threshold value. We do not see any effect of oscillation frequency on the reversible-irreversible transition.Item Nanoscale liquid crystal lubrication controlled by surface structure and film composition(RSC, 2018-06) Jana, Pritam KumarLiquid crystals have emerged as potential candidates for next-generation lubricants due to their tendency to exhibit long-range ordering. Here, we construct a full atomistic model of 4-cyano-4-hexylbiphenyl (6CB) nematic liquid crystal lubricants mixed with hexane and confined by mica surfaces. We explore the effect of the surface structure of mica, as well as lubricant composition and thickness, on the nanoscale friction in the system. Our results demonstrate the key role of the structure of the mica surfaces, specifically the positions of potassium (K+) ions, in determining the nature of sliding friction with monolayer lubricants, including the presence or absence of stick-slip dynamics. With the commensurate setup of confining surfaces, when the grooves created between the periodic K+ ions are parallel to the sliding direction we observe a lower friction force as compared to the perpendicular situation. Random positions of ions exhibit even smaller friction forces with respect to the previous two cases. For thicker lubrication layers the surface structure becomes less important and we observe a good agreement with the experimental data on bulk viscosity of 6CB and the additive hexane. In case of thicker lubrication layers, friction may still be controlled by tuning the relative concentrations of 6CB and hexane in the mixture.Item Viscoelastic Properties of Polyelectrolyte Multilayers Swollen with Ionic Liquid Solutions(MDPI, 2019-08) Jana, Pritam KumarPolyelectrolyte multilayers (PEM) obtained by layer-by-layer assembly can be doped with ionic liquid (IL) via the swelling of the films with IL solutions. In order to examine the mechanical properties of IL-containing PEM, we implement a Kelvin-Voigt model to obtain thickness, viscosity and elastic modulus from the frequency and dissipation shifts determined by a dissipative quartz crystal microbalance (QCM-D). We analyze the changes in the modeled thickness and viscoelasticity of PEI(PSS/PADMAC)4PSS and PEI(PSS/PAH)4PSS multilayers upon swelling by increasing the concentration of either 1-Ethyl-3-methylimidazolium chloride or 1-Hexyl-3-methylimidazolium chloride, which are water soluble ILs. The results show that the thickness of the multilayers changes monotonically up to a certain IL concentration, whereas the viscosity and elasticity change in a non-monotonic fashion with an increasing IL concentration. The changes in the modeled parameters can be divided into three concentration regimes of IL, a behavior specific to ILs (organic salts), which does not occur with swelling by simple inorganic salts such as NaCl. The existence of the regimes is attributed to a competition of the hydrophobic interactions of large hydrophobic ions, which enhance the layer stability at a low salt content, with the electrostatic screening, which dominates at a higher salt content and causes a film softening.Item Kinetics of Nanoparticle–Membrane Adhesion Mediated by Multivalent Interactions(ACS, 2019-01) Jana, Pritam KumarMultivalent adhesive interactions mediated by a large number of ligands and receptors underpin many biological processes, including cell adhesion and the uptake of particles, viruses, parasites, and nanomedical vectors. In materials science, multivalent interactions between colloidal particles have enabled unprecedented control over the phase behavior of self-assembled materials. Theoretical and experimental studies have pinpointed the relationship between equilibrium states and microscopic system parameters such as the ligand–receptor binding strength and their density. In regimes of strong interactions, however, kinetic factors are expected to slow down equilibration and lead to the emergence of long-lived out-of-equilibrium states that may significantly influence the outcome of self-assembly experiments and the adhesion of particles to biological membranes. Here we experimentally investigate the kinetics of adhesion of nanoparticles to biomimetic lipid membranes. Multivalent interactions are reproduced by strongly interacting DNA constructs, playing the role of both ligands and receptors. The rate of nanoparticle adhesion is investigated as a function of the surface density of membrane-anchored receptors and the bulk concentration of nanoparticles and is observed to decrease substantially in regimes where the number of available receptors is limited compared to the overall number of ligands. We attribute such peculiar behavior to the rapid sequestration of available receptors after initial nanoparticle adsorption. The experimental trends and the proposed interpretation are supported by numerical simulations.