Condensed Matter Theory

Abstract:

Using computational modeling, we investigate the shear response of a droplet that encases a dilute concentration of polymers and nanoparticles. We show that the viscoelastic effects of the encapsulated polymers reduce the shear-induced deformation of the droplet at intermediate capillary numbers, but can induce the breakup of the droplet at high capillary numbers. © 2009 The Royal Society of Chemistry.

Abstract:

We study the evolution of density in an expanding Bose-Einstein condensate that initially has a spatially varying phase, concentrating on behaviour when these phase variations are large. In this regime large density fluctuations develop during expansion. Maxima have a characteristic density that diverges with the amplitude of phase variations and their formation is analogous to that of caustics in geometrical optics. We analyse in detail caustic formation in a quasi-one dimensional condensate, which before expansion is subject to a periodic or random optical potential, and we discuss the equivalent problem for a quasi-two dimensional system. We also examine the influence of many-body correlations in the initial state on caustic formation for a Bose gas expanding from a strictly one-dimensional trap. In addition, we study a similar arrangement for non-interacting fermions, showing that Fermi surface discontinuities in the momentum distribution give rise in that case to sharp peaks in the spatial derivative of the density. We discuss recent experiments and argue that fringes reported in time of flight images by Chen and co-workers [Phys. Rev. A 77, 033632 (2008)] are an example of caustic formation.

Abstract:

In this paper, we explore the feasibility of using coarse-grained models to simulate the self-assembly of DNA nanostructures. We introduce a simple model of DNA where each nucleotide is represented by two interaction sites corresponding to the sugar-phosphate backbone and the base. Using this model, we are able to simulate the self-assembly of both DNA duplexes and Holliday junctions from single-stranded DNA. We find that assembly is most successful in the temperature window below the melting temperatures of the target structure and above the melting temperature of misbonded aggregates. Furthermore, in the case of the Holliday junction, we show how a hierarchical assembly mechanism reduces the possibility of becoming trapped in misbonded configurations. The model is also able to reproduce the relative melting temperatures of different structures accurately and allows strand displacement to occur.