Trung Dac Nguyen

Self-assembly of self-limiting monodisperse supraparticles from polydisperse nanoparticles

Nanoparticles are known to self-assemble into larger structures through growth processes that typically occur continuously and depend on the uniformity of the individual nanoparticles. Here, we show that inorganic nanoparticles with non-uniform size distributions can spontaneously assemble into uniformly sized supraparticles with core-shell morphologies. This self-limiting growth process is governed by a balance between electrostatic repulsion and van der Waals attraction, which is aided by the broad polydispersity of the nanoparticles. The generic nature of the interactions creates flexibility in the composition, size and shape of the constituent nanoparticles, and leads to a large family of self-assembled structures, including hierarchically organized colloidal crystals.

Rigid body constraints realized in massively-parallel molecular dynamics on graphics processing units

Abstract Molecular dynamics (MD) methods compute the trajectory of a system of point particles in response to a potential function by numerically integrating Newtonʼs equations of motion. Extending these basic methods with rigid body constraints enables composite particles with complex shapes such as anisotropic nanoparticles, grains, molecules, and rigid proteins to be modeled. Rigid body constraints are added to the GPU-accelerated MD package, HOOMD-blue, version 0.10.0. The software can now simulate systems of particles, rigid bodies, or mixed systems in microcanonical (NVE), canonical (NVT), and isothermal-isobaric (NPT) ensembles. It can also apply the FIRE energy minimization technique to these systems. In this paper, we detail the massively parallel scheme that implements these algorithms and discuss how our design is tuned for the maximum possible performance. Two different case studies are included to demonstrate the performance attained, patchy spheres and tethered nanorods. In typical cases, HOOMD-blue on a single GTX 480 executes 2.5–3.6 times faster than LAMMPS executing the same simulation on any number of CPU cores in parallel. Simulations with rigid bodies may now be run with larger systems and for longer time scales on a single workstation than was previously even possible on large clusters.

Dynamic defrosting on nanostructured superhydrophobic surfaces.

Water suspended on chilled superhydrophobic surfaces exhibits delayed freezing; however, the interdrop growth of frost through subcooled condensate forming on the surface seems unavoidable in humid environments. It is therefore of great practical importance to determine whether facile defrosting is possible on superhydrophobic surfaces. Here, we report that nanostructured superhydrophobic surfaces promote the growth of frost in a suspended Cassie state, enabling its dynamic removal upon partial melting at low tilt angles (<15°). The dynamic removal of the melting frost occurred in two stages: spontaneous dewetting followed by gravitational mobilization. This dynamic defrosting phenomenon is driven by the low contact angle hysteresis of the defrosted meltwater relative to frost on microstructured superhydrophobic surfaces, which forms in the impaled Wenzel state. Dynamic defrosting on nanostructured superhydrophobic surfaces minimizes the time, heat, and gravitational energy required to remove frost from the surface, and is of interest for a variety of systems in cold and humid environments.

Solid‐State Scrolls from Hierarchical Self‐Assembly of T‐Shaped Rod–Coil Molecules

On a roll: Attachment of flexible coils to the middle of a rigid rod generates T-shaped rod-coil molecules that self-assemble into layers that roll up to form filled cylindrical and hollow tubular scrolls, depending on the coil length, in the solid state (see picture); the rods are arranged parallel to the layer plane.

Self-assembly and reconfigurability of shape-shifting particles.

Reconfigurability of two-dimensional colloidal crystal structures assembled by anisometric particles capable of changing their shape were studied by molecular dynamics computer simulation. We show that when particles change shape on cue, the assembled structures reconfigure into different ordered structures, structures with improved order, or more densely packed disordered structures, on faster time scales than can be achieved via self-assembly from an initially disordered arrangement. These results suggest that reconfigurable building blocks can be used to assemble reconfigurable materials, as well as to assemble structures not possible otherwise, and that shape shifting could be a promising mechanism to engineer assembly pathways to ordered and disordered structures.

Terminal supraparticle assemblies from similarly charged protein molecules and nanoparticles

Self-assembly of proteins and inorganic nanoparticles into terminal assemblies makes possible a large family of uniformly sized hybrid colloids. These particles can be compared in terms of utility, versatility and multifunctionality to other known types of terminal assemblies. They are simple to make and offer theoretical tools for designing their structure and function. To demonstrate such assemblies, we combine cadmium telluride nanoparticles with cytochrome C protein and observe spontaneous formation of spherical supraparticles with a narrow size distribution. Such self-limiting behaviour originates from the competition between electrostatic repulsion and non-covalent attractive interactions. Experimental variation of supraparticle diameters for several assembly conditions matches predictions obtained in simulations. Similar to micelles, supraparticles can incorporate other biological components as exemplified by incorporation of nitrate reductase. Tight packing of nanoscale components enables effective charge and exciton transport in supraparticles and bionic combination of properties as demonstrated by enzymatic nitrate reduction initiated by light absorption in the nanoparticle.

Reconfigurable assemblies of shape-changing nanorods.

Reconfigurable nanostructures represent an exciting new direction for materials. Applications of reversible transformations between nanostructures induced by molecular conformations under external fields can be found in a broad range of advanced technologies including smart materials, electromagnetic sensors, and drug delivery. With recent breakthroughs in synthesis and fabrication techniques, shape-changing nanoparticles are now possible. Such novel building blocks provide a conceptually new and exciting approach to self-assembly and phase transformations by providing tunable parameters fundamentally different from the usual thermodynamic parameters. Here we investigate via molecular simulation a transformation between two thermodynamically stable structures self-assembled by laterally tethered nanorods whose rod length is switched between two values. Building blocks with longer rods assemble into a square grid structure, while those with short rods form bilayer sheets with internal smectic A ordering at the same thermodynamic conditions. By shortening or lengthening the rods over a short time scale relative to the system equilibration time, we observe a transformation from the square grid structure into bilayer sheets, and vice versa. We also observe honeycomb grid and pentagonal grid structures for intermediate rod lengths. The reconfiguration between morphologically distinct nanostructures induced by dynamically switching the building block shape serves to motivate the fabrication of shape-changing nanoscale building blocks as a new approach to the self-assembly of reconfigurable materials.

Switchable Helical Structures Formed by the Hierarchical Self‐Assembly of Laterally Tethered Nanorods

The formation of helical scrolls formed by self-assembly of tethered nanorod amphiphiles and their molecular analogs are investigated. A model bilayer sheet assembled by laterally tethered nanorods is simulated and shown that it can fold into distinct helical morphologies under different solvent conditions. The helices can reversibly transform from one morphology to another by dynamically changing the solvent condition. This model serves both to inspire the fabrication of laterally tethered nanorods for assembling helices at nanometer scales and as a proof-of-concept for engineering switchable nanomaterials via hierarchical self-assembly.

Molecular simulation study of self-assembly of tethered V-shaped nanoparticles.

We use Brownian dynamics to investigate the self-assembly of single end tethered, laterally tethered, and double end tethered V-shaped nanoparticles. The simulation results are compared with model bent-core molecules without tethers and polymer tethered nanorods to elucidate the combined effects of V-shaped geometry and the immiscibility between the V-shaped nanoparticles and the tethers on the self-assembled structures. We show that the V-shaped geometry significantly alters the phase diagram of tethered nanoparticles and further that the immiscibility between particles and tethers leads to structures not previously predicted for bent-core molecules. Examples of mesophases predicted include honeycomb, hexagonally packed cylinders, and perforated lamellar phases.

An Evaluation of Molecular Dynamics Performance on the Hybrid Cray XK6 Supercomputer

For many years, the drive towards computational physics studies that match the size and time-scales of experiment has been fueled by increases in processor and interconnect performance that could be exploited with relatively little modification to existing codes. Engineering and electrical power constraints have disrupted this trend, requiring more drastic changes to both hardware and software solutions. Here, we present details of the Cray XK6 architecture that achieves increased performance with the use of GPU accelerators. We review software development efforts in the LAMMPS molecular dynamics package that have been implemented in order to utilize hybrid high performance computers. We present benchmark results for solid-state, biological, and mesoscopic systems and discuss some challenges for utilizing hybrid systems. We present some early work in improving application performance on the XK6 and performance results for the simulation of liquid copper nanostructures with the embedded atom method.