Condensed Matter Theory

Abstract:

Quantum Hall bilayer systems at filling fractions near ν= 1 2 + 1 2 undergo a transition from a compressible phase with strong intralayer correlation to an incompressible phase with strong interlayer correlations as the layer separation d is reduced below some critical value. Deep in the intralayer phase (large separation) the system can be interpreted as a fluid of composite fermions (CFs), whereas deep in the interlayer phase (small separation) the system can be interpreted as a fluid of composite bosons (CBs). The focus of this paper is to understand the states that occur for intermediate layer separation by using trial variational wave functions. We consider two main classes of wave functions. In the first class, previously introduced in Möller [Phys. Rev. Lett. 101, 176803 (2008)], we consider interlayer BCS pairing of two independent CF liquids. We find that these wave functions are exceedingly good for d 0 with 0 as the magnetic length. The second class of wave functions naturally follows the reasoning of Simon [Phys. Rev. Lett. 91, 046803 (2003)] and generalizes the idea of pairing wave functions by allowing the CFs also to be replaced continuously by CBs. This generalization allows us to construct exceedingly good wave functions for interlayer spacings of d 0 as well. The accuracy of the wave functions discussed in this work, compared with exact diagonalization, approaches that of the celebrated Laughlin wave function. © 2009 The American Physical Society.

Abstract:

We present a numerical study of the effect of knotting on the ejection of flexible and semiflexible polymers from a spherical, viruslike capsid. The polymer ejection rate is primarily controlled by the knot, which moves to the hole in the capsid and then acts as a ratchet. Polymers with more complex knots eject more slowly and, for large knots, the knot type, and not the flexibility of the polymer, determines the rate of ejection. We discuss the relation of our results to the ejection of DNA from viral capsids and conjecture that this process has the biological advantage of unknotting the DNA before it enters a cell.

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.