Random sequential adsorption and diffusion of dimers and k-mers on a square lattice

We have performed extensive simulations of random sequential adsorption and diffusion of $k$-mers, up to $k=5$ in two dimensions with particular attention to the case $k=2$. We focus on the behavior of the coverage and of vacancy dynamics as a function of time. We observe that for $k=2,3$ a complete coverage of the lattice is never reached, because of the existence of frozen configurations that prevent isolated vacancies in the lattice to join. From this result we argue that complete coverage is never attained for any value of $k$. The long time behavior of the coverage is not mean field and nonanalytic, with $t^{-1/2}$ as leading term. Long time coverage regimes are independent of the initial conditions while strongly depend on the diffusion probability and deposition rate and, in particular, different values of these parameters lead to different final values of the coverage. The geometrical complexity of these systems is also highlighted through an investigation of the vacancy population dynamics.Comment: 9 pages, 9 figures, to be published in the Journal of Chemical Physic

Interaction-induced current-reversals in driven lattices

We demonstrate that long-range interactions can cause, as time evolves, consecutive reversals of directed currents for dilute ensembles of particles in driven lattices. These current-reversals are based on a general mechanism which leads to an interaction-induced accumulation of particles in the regular regions of the underlying single-particle phase space and to a synchronized single-particle motion as well as an enhanced efficiency of Hamiltonian ratchets.Comment: 5 pages, 5 figure

Correlations and pair emission in the escape dynamics of ions from one-dimensional traps

We explore the non-equilibrium escape dynamics of long-range interacting ions in one-dimensional traps. The phase space of the few ion setup and its impact on the escape properties are studied. As a main result we show that an instantaneous reduction of the trap's potential depth leads to the synchronized emission of a sequence of ion pairs if the initial configurations are close to the crystalline ionic configuration. The corresponding time-intervals of the consecutive pair emission as well as the number of emitted pairs can be tuned by changing the final trap depth. Correlations between the escape times and kinetic energies of the ions are observed and analyzed.Comment: 17 pages, 9 figure

Dynamical quantum phase transition of a two-component Bose-Einstein condensate in an optical lattice

We study dynamics of a two-component Bose-Einstein condensate where the two components are coupled via an optical lattice. In particular, we focus on the dynamics as one drives the system through a critical point of a first order phase transition characterized by a jump in the internal populations. Solving the time-dependent Gross-Pitaevskii equation, we analyze; breakdown of adiabaticity, impact of non-linear atom-atom scattering, and the role of a harmonic trapping potential. Our findings demonstrate that the phase transition is resilient to both contact interaction between atoms and external trapping confinement.Comment: 8 pages, 8 figure

Spin-orbit coupled Bose-Einstein condensate in a tilted optical lattice

Bloch oscillations appear for a particle in a weakly tilted periodic potential. The intrinsic spin Hall effect is an outcome of a spin-orbit coupling. We demonstrate that both these phenomena can be realized simultaneously in a gas of weakly interacting ultracold atoms exposed to a tilted optical lattice and to a set of spatially dependent light fields inducing an effective spin-orbit coupling. It is found that both the spin Hall as well as the Bloch oscillation effects may coexist, showing, however, a strong correlation between the two. These correlations are manifested as a transverse spin current oscillating in-phase with the Bloch oscillations.Comment: 12 pages, 7 figure

Circadian Organization in Hemimetabolous Insects

The circadian system of hemimetabolous insects is reviewed in respect to the locus of the circadian clock and multioscillatory organization. Because of relatively easy access to the nervous system, the neuronal organization of the clock system in hemimetabolous insects has been studied, yielding identification of the compound eye as the major photoreceptor for entrainment and the optic lobe for the circadian clock locus. The clock site within the optic lobe is inconsistent among reported species; in cockroaches the lobula was previously thought to be a most likely clock locus but accessory medulla is recently stressed to be a clock center, while more distal part of the optic lobe including the lamina and the outer medulla area for the cricket. Identification of the clock cells needs further critical studies. Although each optic lobe clock seems functionally identical, in respect to photic entrainment and generation of the rhythm, the bilaterally paired clocks form a functional unit. They interact to produce a stable time structure within individual insects by exchanging photic and temporal information through neural pathways, in which serotonin and pigment-dispersing factor (PDF) are involved as chemical messengers. The mutual interaction also plays an important role in seasonal adaptation of the rhythm

Tempera: spatial transformer feature pyramid network for cardiac MRI segmentation

Assessing the structure and function of the right ventricle (RV) is important in the diagnosis of several cardiac pathologies. However, it remains more challenging to segment the RV than the left ventricle (LV). In this paper, we focus on segmenting the RV in both short (SA) and long-axis (LA) cardiac MR images simultaneously. For this task, we propose a new multi-input/output architecture, hybrid 2D/3D geometric spatial TransformEr Multi-Pass fEature pyRAmid (Tempera). Our feature pyramid extends current designs by allowing not only a multi-scale feature output but multi-scale SA and LA input images as well. Tempera transfers learned features between SA and LA images via layer weight sharing and incorporates a geometric target transformer to map the predicted SA segmentation to LA space. Our model achieves an average Dice score of 0.836 and 0.798 for the SA and LA, respectively, and 26.31 mm and 31.19 mm Hausdorff distances. This opens up the potential for the incorporation of RV segmentation models into clinical workflows

Definition of Virtual Reality simulation models using Specification and Description Language Diagrams

A full representation of a simulation model encompasses the behavior of the elements that define the model, the definition of the probability distributions that define the delays of the events that control the model, the experimental framework needed for execution, and the graphical representation of certain model elements. This paper aims to use specification and description language to achieve a full model representation by adding two extensions to the language, which allows for a complete and unambiguous definition of a discrete simulation model that is similar to a common discrete operations research simulation tool.Peer ReviewedPostprint (published version

Ionic strength and calcium regulate membrane interactions of myelin basic protein and the cytoplasmic domain of myelin protein zero

The formation of a mature myelin sheath in the vertebrate nervous system requires specific protein-membrane interactions. Several myelin-specific proteins are involved in stacking lipid membranes into multilayered structures around axons, and misregulation of these processes may contribute to chronic demyelinating diseases. Two key proteins in myelin membrane binding and stacking are the myelin basic protein (MBP) and protein zero (P0). Other factors, including Ca2+, are important for the regulation of myelination. We studied the effects of ionic strength and Ca2+ on the membrane interactions of MBP and the cytoplasmic domain of P0 (P0ct). MBP and P0ct bound and aggregated negatively charged lipid vesicles, while simultaneously folding, and both ionic strength and calcium had systematic effects on these interactions. When decreasing membrane net negative charge, the level and kinetics of vesicle aggregation were affected by both salt and Ca2+. The effects on lipid membrane surfaces by ions can directly affect myelin protein-membrane interactions, in addition to signalling effects in myelinating glia.publishedVersio