An exclusion process for modelling fungal hyphal growth

A simple model for mass transport within a growing fungal filament is reviewed. Inspired by the role of microtubule-transported vesicles, we embody the dynamics of mass along a quasi-one-dimensional hypha with mutually excluding particles hopping on a growing one-dimensional lattice. The model is a generalisation of the totally asymmetric simple exclusion process (TASEP) to a dynamically extending lattice. We discuss mean-field and improved mean-field equations and present a phase diagram of the model's steady-state behaviour which generalises that of the TASEP. In particular we identify a region in which a shock in the density travels forward more slowly than the tip of the lattice and thus moves away from both the boundaries.     

Dynamics of a Tagged Particle in the Asymmetric Exclusion Process with the Step Initial Condition

The one-dimensional totally asymmetric simple exclusion process (TASEP) is considered. We study the time evolution property of a tagged particle in the TASEP with the step initial condition. Calculated is the multi-time joint distribution function of its position. Using the relation of the dynamics of the TASEP to the Schur process, we show that the function is represented as the Fredholm determinant. We also study the scaling limit. The universality of the largest eigenvalue in the random matrix theory is realized in the limit. When the hopping rates of all particles are the same, it is found that the joint distribution function converges to that of the Airy process after the time at which the particle begins to move. On the other hand, when there are several particles with small hopping rate in front of a tagged particle, the limiting process changes at a certain time from the Airy process to the process of the largest eigenvalue in the Hermitian multi-matrix model with external sources.     

Transitions to electrochemical turbulence

We report experimental evidence of transitions from limit cycle oscillations through a phase turbulent regime to space-time defect turbulence in a spatially (quasi-)one-dimensional electrochemical system with nonlocal coupling. The transitions are characterized in terms of the defect density, the Karhunen-Loève decomposition dimension, and a measure of the degree of spatial correlation in the data. Furthermore, these quantities give the first experimental confirmation that the spatial coupling range in electrochemical systems indeed depends on the distance between the working and the counterelectrode.     

Dynein-Inspired Multilane Exclusion Process with Open Boundary Conditions

Motivated by the sidewise motions of dynein motors shown in experiments, we use a variant of the exclusion process to model the multistep dynamics of dyneins on a cylinder with open ends. Due to the varied step sizes of the particles in a quasi-two-dimensional topology, we observe the emergence of a novel phase diagram depending on the various load conditions. Under high-load conditions, our numerical findings yield results similar to the TASEP model with the presence of all three standard TASEP phases, namely the low-density (LD), high-density (HD), and maximal-current (MC) phases. However, for medium- to low-load conditions, for all chosen influx and outflux rates, we only observe the LD and HD phases, and the maximal-current phase disappears. Further, we also measure the dynamics for a single dynein particle which is logarithmically slower than a TASEP particle with a shorter waiting time. Our results also confirm experimental observations of the dwell time distribution: The dwell time distribution for dyneins is exponential in less crowded conditions, whereas a double exponential emerges under overcrowded conditions.     

On the equivalence between magnetic-field-induced phase transitions in the integer quantum Hall effect

Magnetic-field-induced phase transitions in the two-dimensional electron system in a AlGaAs/InGaAs/GaAs heterostructure are studied. Two kinds of magnetic-field-induced phase transitions, plateau-plateau (P-P) and insulator-quantum Hall conductor (I-QH) transitions, are observed in the integer quantum Hall effect regime at high magnetic fields. In the P-P transition, both the semicircle law and the universality of critical conductivities are broken and we do not observe the universal scaling. However, the P-P transition can still be mapped to the I-QH transition by the Landau-level addition transformation, and as the temperature decreases the critical points of these two transitions appear at the same temperature. Our observations indicate that the equivalence between P-P and I-QH transitions can be found by the suitable analysis even when some expected universal properties are invalid.     

Monte Carlo study of phase transitions in the bond-diluted 3D 4-state Potts model

Large-scale Monte Carlo simulations of the bond-diluted three-dimensional 4-state Potts model are performed. The phase diagram and the physical properties at the phase transitions are studied using finite-size scaling techniques. Evidences are given for the existence of a tricritical point dividing the phase diagram into a regime where the transitions remain of first order and a second regime where the transitions are softened to continuous ones by the influence of disorder. In the former regime, the nature of the transition is essentially clarified through an analysis of the energy probability distribution. In the latter regime critical exponents are estimated. Rare and typical events are identified and their role is qualitatively discussed in both regimes.     

Metal-insulator transition in two- and three-dimensional logarithmic plasmas

We consider the scaling of the mean square dipole moment in a plasma with logarithmic interactions in a two- and three-dimensional systems. In both cases, we establish the existence of a low-temperature regime where the mean square dipole moment does not scale with system size and a high-temperature regime where it does scale with system size. Thus, there is a nonanalytic change in the polarizability of the system as a function of temperature and hence a metal-insulator transition in both cases. The relevance of this transition in three dimensions to quantum phase transitions in (2+1)-dimensional systems is briefly discussed.     

Topological and dynamical phase transitions in the Su–Schrieffer–Heeger model with quasiperiodic and long-range hoppings

Disorders and long-range hoppings can induce exotic phenomena in condensed matter and artificial systems. We study the topological and dynamical properties of the quasiperiodic Su–Schrier–Heeger model with long-range hoppings. It is found that the interplay of quasiperiodic disorder and long-range hopping can induce topological Anderson insulator phases with non-zero winding numbers $\omega =1,2,$ and the phase boundaries can be consistently revealed by the divergence of zero-energy mode localization length. We also investigate the nonequilibrium dynamics by ramping the long-range hopping along two different paths. The critical exponents extracted from the dynamical behavior agree with the Kibble–Zurek mechanic prediction for the path with $W=0.90.$ In particular, the dynamical exponent of the path crossing the multicritical point is numerical obtained as $1/6{\rm{\sim }}0.167,$ which agrees with the unconventional finding in the previously studied XY spin model. Besides, we discuss the anomalous and non-universal scaling of the defect density dynamics of topological edge states in this disordered system under open boundary condictions.     

ac Conductivity of mixed spinel NiAl0.7Cr0.7Fe0.6O4

ac Conductivity measurements are carried out across the metal to insulator transition in NiAl_0.7Cr_0.7Fe_0.6O₄. The low frequency data is analyzed using Summerfield scaling theory for hopping conductivity. The exponent of the scaling behavior has significantly different values in the conducting and insulating regimes. The hopping frequency and the zero frequency conductivity are found to increase with temperature, slowly in the metallic regime and rapidly in the insulating regime.     

Finite-temperature phase transitions in a two-dimensional boson Hubbard model

We study finite-temperature phase transitions in a two-dimensional boson Hubbard model with zero-point quantum fluctuations via Monte Carlo simulations of a quantum rotor model and construct the corresponding phase diagram. Compressibility shows a thermally activated gapped behavior in the insulating regime. Finite-size scaling of the superfluid stiffness clearly shows the nature of the Kosterlitz-Thouless transition. The transition temperature T(c) confirms a scaling relation T(c) proportional, rho(0)(x), with x=1.0. Some evidence of anomalous quantum behavior at low temperatures is presented.     

High frequency conductivity in the quantum hall regime

We have measured the complex conductivity sigma(xx) of a two-dimensional electron system in the quantum Hall regime up to frequencies of 6 GHz at electron temperatures below 100 mK. Using both its imaginary and real part we show that sigma(xx) can be scaled to a single function for different frequencies and several transitions between plateaus in the quantum Hall effect. Additionally, the conductivity in the variable-range hopping regime is used for a direct evaluation of the localization length xi. Even for large filling factor distances deltanu from the critical point we find xi approximately equals deltanu(-gamma) with a scaling exponent gamma = 2.3.     

Phase transitions in the spinless Falicov-Kimball model with correlated hopping

The canonical Monte-Carlo is used to study the phase transitions from the low-temperature ordered phase to the high-temperature disordered phase in the two-dimensional half-filled Falicov-Kimball model with correlated hopping. As the low-temperature ordered phase we consider the chessboard phase, the axial striped phase and the segregated phase. It is shown specifically for weak coupling, which is the most interesting regime, that all three phases persist also at finite temperatures (up to the critical temperature τ _c ) and that the phase transition at the critical point is of the first order for the chessboard and axial striped phase and of the second order for the segregated phase. In addition, it is found that the critical temperature is reduced with the increasing amplitude of correlated hopping t' in the chessboard phase and it is strongly enhanced by t' in the axial striped and segregated phase.     

Modeling Translation in Protein Synthesis with TASEP: A Tutorial and Recent Developments

The phenomenon of protein synthesis has been modeled in terms of totally asymmetric simple exclusion processes (TASEP) since 1968. In this article, we provide a tutorial of the biological and mathematical aspects of this approach. We also summarize several new results, concerned with limited resources in the cell and simple estimates for the current (protein production rate) of a TASEP with inhomogeneous hopping rates, reflecting the characteristics of real genes.     

Exclusive Queueing Process with Discrete Time

In a recent study (Arita in Phys. Rev. E 80(5):051119, 2009), an extension of the M/M/1 queueing process with the excluded-volume effect as in the totally asymmetric simple exclusion process (TASEP) was introduced. In this paper, we consider its discrete-time version. The update scheme we take is the parallel one. A stationary-state solution is obtained in a slightly arranged matrix product form of the discrete-time open TASEP with the parallel update. We find the phase diagram for the existence of the stationary state. The critical line which separates the parameter space into regions with and without the stationary state can be written in terms of the stationary current of the open TASEP. We calculate the average length of the system and the average number of particles.     

Electronic phase transitions in the spinless falicov-kimball model with correlated hopping

The extrapolation of small-cluster exact-diagonalization calculations is used to examine the influence of correlated hopping on valence and metal-insulator transitions in the one-dimensional Falicov-Kimball model. It is shown that in the half-filled band case the ground-state phase diagram as well as the picture of valence and metal-insulator transitions found for the conventional Falicov-Kimball model (without correlated hopping) are strongly changed when the correlated hopping term is added. The effect of correlated hopping is so strong that it can induce the insulator-metal transition. Outside half-filling correlated hopping stabilizes the segregated phase in the ground-state, however, the nature of the ground-state remains qualitatively unchanged.     

Continuity and Anomalous Fluctuations in Random Walks in Dynamic Random Environments: Numerics,Phase Diagrams and Conjectures

We perform simulations for one dimensional continuous-time random walks in two dynamic random environments with fast (independent spin-flips) and slow (simple symmetric exclusion) decay of space-time correlations, respectively. We focus on the asymptotic speeds and the scaling limits of such random walks. We observe different behaviors depending on the dynamics of the underlying random environment and the ratio between the jump rate of the random walk and the one of the environment. We compare our data with well known results for static random environment. We observe that the non-diffusive regime known so far only for the static case can occur in the dynamical setup too. Such anomalous fluctuations give rise to a new phase diagram. Further we discuss possible consequences for more general static and dynamic random environments.     

Phase transition in the one-dimensional pair-hopping model with unusual one-electron hopping

By modifying the conventional one-electron hopping behavior, we study effects of an occupation-dependent hopping on the ground state of the half-filled one-dimensional pair-hopping model. At weak coupling, the use of bosonization and renormalization-group analysis techniques helps to derive the phase diagram. Such unusual hopping is shown to drive a spin-gap transition and to introduce a new region where the triplet superconducting instability dominates for positively small pair-hopping interaction.     

Magnetic and topological transitions in three-dimensional topological Kondo insulator

Using an extended slave-boson method,we draw a global phase diagram summarizing both magnetic phases and paramagnetic(PM) topological insulators(TIs) in a three-dimensional topological Kondo insulator(TKI). By including electron hopping(EH) up to the third neighbors, we identify four strong TI(STI) phases and two weak TI(WTI) phases. Then, the PM phase diagrams characterizing topological transitions between these TIs are depicted as functions of EH,f-electron energy level,and hybridization constant. We also find an insulator-metal transition from an STI phase that has surface Fermi rings and spin textures in qualitative agreement with the TKI candidate SmBs. In the weak hybridization regime, antiferromagnetic(AF) order naturally arises in the phase diagrams. Depending on how the magnetic boundary crosses the PM topological transition lines,AF phases are classified into the AF topological insulator(AFTI) and the non-topological AF insulator, according to their Z_2 indices. In two small regions of parameter space, two distinct topological transition processes between AF phases occur, leading to two types of AFTIs showing distinguishable surface dispersions around their Dirac points.     

Localized Optical Waves in Defocusing Regime of Negative-Index Materials

We study optical localized waves on a plane-wave background in negative-index materials governed by the defocusing nonlinear Schrodinger equation with self-steepening effect. Important characteristics of localized waves,such as the excitations, transitions, propagation stability, and mechanism, are revealed in detail. An intriguing sequential transition that involves the rogue wave, antidark-dark soliton pair, antidark soliton and antidark soliton pair can be triggered as the self-steepening effect attenuates. The corresponding phase diagram is established in the defocusing regime of negative-index materials. The propagation stability of the localized waves is confirmed numerically. In particular, our results illuminate the transition mechanism by establishing the exact correspondence between the transition and the modulation instability analysis.     

The semiclassical regime of the chaotic quantum-classical transition

An analysis of the semiclassical regime of the quantum-classical transition is given for open, bounded, one-dimensional chaotic dynamical systems. Environmental fluctuations-characteristic of all realistic dynamical systems-suppress the development of a fine structure in classical phase space and damp nonlocal contributions to the semiclassical Wigner function, which would otherwise invalidate the approximation. This dual regularization of the singular nature of the semiclassical limit is demonstrated by a numerical investigation of the chaotic Duffing oscillator.