Cross-Dimensional relaxation in Bose-Fermi mixtures

We consider the equilibration rate for fermions in Bose-Fermi mixtures undergoing cross-dimensional rethermalization. Classical Monte Carlo simulations of the relaxation process are performed over a wide range of parameters, focusing on the effects of the mass difference between species and the degree of initial departure from equilibrium. A simple analysis based on Enskog's equation is developed and shown to be accurate over a variety of different parameter regimes. This allows predictions for mixtures of commonly used alkali atoms.Comment: 7 pages, 4 figures, uses Revtex 4. This is a companion paper to [PRA 70, 021601(R) (2004)] (cond-mat/0405419

Self-replication and evolution of DNA crystals

Is it possible to create a simple physical system that is capable of replicating itself? Can such a system evolve interesting behaviors, thus allowing it to adapt to a wide range of environments? This paper presents a design for such a replicator constructed exclusively from synthetic DNA. The basis for the replicator is crystal growth: information is stored in the spatial arrangement of monomers and copied from layer to layer by templating. Replication is achieved by fragmentation of crystals, which produces new crystals that carry the same information. Crystal replication avoids intrinsic problems associated with template-directed mechanisms for replication of one-dimensional polymers. A key innovation of our work is that by using programmable DNA tiles as the crystal monomers, we can design crystal growth processes that apply interesting selective pressures to the evolving sequences. While evolution requires that copying occur with high accuracy, we show how to adapt error-correction techniques from algorithmic self-assembly to lower the replication error rate as much as is required

Profiling Chemicals Based on Chronic Toxicity Results from the U.S. EPA ToxRef Database

Attribute filters allow enhancement and extraction of features without distorting their borders, and never introduce new image features. These are highly desirable properties in biomedical imaging, where accurate shape analysis is paramount. However, setting the attribute-threshold parameters has to date only been done manually. This paper explores simple, fast and automated methods of computing attribute threshold parameters based on image segmentation, thresholding and data clustering techniques. Though several techniques perform well on blood-vessel filtering, the choice of technique appears to depend on the imaging mode.

Continuous Time Monte Carlo and Spatial Ordering in Driven Lattice Gases: Application to Driven Vortices in Periodic Superconducting Networks

We consider the two dimensional (2D) classical lattice Coulomb gas as a model for magnetic field induced vortices in 2D superconducting networks. Two different dynamical rules are introduced to investigate driven diffusive steady states far from equilibrium as a function of temperature and driving force. The resulting steady states differ dramatically depending on which dynamical rule is used. We show that the commonly used driven diffusive Metropolis Monte Carlo dynamics contains unphysical intrinsic randomness that destroys the spatial ordering present in equilibrium (the vortex lattice) over most of the driven phase diagram. A continuous time Monte Carlo (CTMC) is then developed, which results in spatially ordered driven states at low temperature in finite sized systems. We show that CTMC is the natural discretization of continuum Langevin dynamics, and argue that it gives the correct physical behavior when the discrete grid represents the minima of a periodic potential. We use detailed finite size scaling methods to analyze the spatial structure of the steady states. We find that finite size effects can be subtle and that very long simulation times can be needed to arrive at the correct steady state. For particles moving on a triangular grid, we find that the ordered moving state is a transversely pinned smectic that becomes unstable to an anisotropic liquid on sufficiently large length scales. For particles moving on a square grid, the moving state is a similar smectic at large drives, but we find evidence for a possible moving solid at lower drives. We find that the driven liquid on the square grid has long range hexatic order, and we explain this as a specifically non-equilibrium effect. We show that, in the liquid, fluctuations are diffusive in both the transverse and longitudinal directions.Comment: 29 pages, 35 figure

Adiabatic Domain Wall Motion and Landau-Lifshitz Damping

Recent theory and measurements of the velocity of current-driven domain walls in magnetic nanowires have re-opened the unresolved question of whether Landau-Lifshitz damping or Gilbert damping provides the more natural description of dissipative magnetization dynamics. In this paper, we argue that (as in the past) experiment cannot distinguish the two, but that Landau-Lifshitz damping nevertheless provides the most physically sensible interpretation of the equation of motion. From this perspective, (i) adiabatic spin-transfer torque dominates the dynamics with small corrections from non-adiabatic effects; (ii) the damping always decreases the magnetic free energy, and (iii) microscopic calculations of damping become consistent with general statistical and thermodynamic considerations

Monte Carlo simulation with time step quantification in terms of Langevin dynamics

For the description of thermally activated dynamics in systems of classical magnetic moments numerical methods are desirable. We consider a simple model for isolated magnetic particles in a uniform field with an oblique angle to the easy axis of the particles. For this model, a comparison of the Monte Carlo method with Langevin dynamics yields new insight in the interpretation of the Monte Carlo process, leading to the implementation of a new algorithm where the Monte Carlo step is time-quantified. The numeric results for the characteristic time of the magnetisation reversal are in excellent agreement with asymptotic solutions which itself are in agreement with the exact numerical results obtained from the Fokker-Planck equation for the Neel-Brown model.Comment: 5 pages, Revtex, 4 Figures include

Thermodynamic instability and first-order phase transition in an ideal Bose gas

We conduct a rigorous investigation into the thermodynamic instability of ideal Bose gas confined in a cubic box, without assuming thermodynamic limit nor continuous approximation. Based on the exact expression of canonical partition function, we perform numerical computations up to the number of particles one million. We report that if the number of particles is equal to or greater than a certain critical value, which turns out to be 7616, the ideal Bose gas subject to Dirichlet boundary condition reveals a thermodynamic instability. Accordingly we demonstrate - for the first time - that, a system consisting of finite number of particles can exhibit a discontinuous phase transition featuring a genuine mathematical singularity, provided we keep not volume but pressure constant. The specific number, 7616 can be regarded as a characteristic number of 'cube' that is the geometric shape of the box.Comment: 1+21 pages; 3 figures (2 color and 1 B/W); Final version to appear in Physical Review A. Title changed from the previous one, "7616: Critical number of ideal Bose gas confined in a cubic box

Black Holes and the SYM Phase Diagram

Making combined use of the Matrix and Maldacena conjectures, the relation between various thermodynamic transitions in super Yang-Mills (SYM) and supergravity is clarified. The thermodynamic phase diagram of an object in DLCQ M-theory in four and five non-compact space dimensions is constructed; matrix strings, matrix black holes, and black $p$-branes are among the various phases. Critical manifolds are characterized by the principles of correspondence and longitudinal localization, and a triple point is identified. The microscopic dynamics of the Matrix string near two of the transitions is studied; we identify a signature of black hole formation from SYM physics.Comment: 36 pages, latex; 6 eps figure

Improved efficiency of doubled haploid generation in hexaploid triticale by in vitro chromosome doubling

Extent: 7p.Background: Doubled haploid production is a key technology in triticale research and breeding. A critical component of this method depends on chromosome doubling, which is traditionally achieved by in vivo treatment of seedlings with colchicine. Results: In this study we investigated the applicability of an in vitro approach for chromosome doubling based on microspore culture. Our results show a pronounced increase in the proportion of doubled haploid triticale plants compared to the spontaneous doubling rate, but also compared to the doubling obtained by the standard in vivo approach. In addition, the frequency of plants surviving from culture medium to maturity is also much higher for the in vitro approach. Colchicine concentrations of 1 mM for 24 h or 0.3 mM applied for 48 or 72 h during the first hours of microspore culture performed best. Conclusions: Our results suggest that for triticale, in vitro chromosome doubling is a promising alternative to the in vivo approach.Tobias Würschum, Matthew R Tucker, Jochen C Reif and Hans Peter Maure

Adiabatically changing the phase-space density of a trapped Bose gas

We show that the degeneracy parameter of a trapped Bose gas can be changed adiabatically in a reversible way, both in the Boltzmann regime and in the degenerate Bose regime. We have performed measurements on spin-polarized atomic hydrogen in the Boltzmann regime demonstrating reversible changes of the degeneracy parameter (phase-space density) by more than a factor of two. This result is in perfect agreement with theory. By extending our theoretical analysis to the quantum degenerate regime we predict that, starting close enough to the Bose-Einstein phase transition, one can cross the transition by an adiabatic change of the trap shape.Comment: 4 pages, 3 figures, Latex, submitted to PR