Fidelity of holonomic quantum computations in the case of random errors in the values of control parameters

We investigate the influence of random errors in external control parameters on the stability of holonomic quantum computation in the case of arbitrary loops and adiabatic connections. A simple expression is obtained for the case of small random uncorrelated errors. Due to universality of mathematical description our results are valid for any physical system which can be described in terms of holonomies. Theoretical results are confirmed by numerical simulations.Comment: 7 pages, 3 figure

Transient rectification of Brownian diffusion with asymmetric initial distribution

In an ensemble of non-interacting Brownian particles, a finite systematic average velocity may temporarily develop, even if it is zero initially. The effect originates from a small nonlinear correction to the dissipative force, causing the equation for the first moment of velocity to couple to moments of higher order. The effect may be relevant when a complex system dissociates in a viscous medium with conservation of momentum

Avoiding dark states in open quantum systems by tailored initial correlations

We study the transport of excitations on a V-shaped network of three coupled two-level systems that are subjected to an environment that induces incoherent hopping between the nodes. Two of the nodes are coupled to a source while the third node is coupled to a drain. A common feature of these networks is the existence of a dark-state that blocks the transport to the drain. Here we propose a means to avoid this state by a suitable choice of initial correlations, induced by a source that is common to both coupled nodes.Comment: 5 pages, 3 figure

Is transport in time-dependent random potentials universal ?

The growth of the average kinetic energy of classical particles is studied for potentials that are random both in space and time. Such potentials are relevant for recent experiments in optics and in atom optics. It is found that for small velocities uniform acceleration takes place, and at a later stage fluctuations of the potential are encountered, resulting in a regime of anomalous diffusion. This regime was studied in the framework of the Fokker-Planck approximation. The diffusion coefficient in velocity was expressed in terms of the average power spectral density, which is the Fourier transform of the potential correlation function. This enabled to establish a scaling form for the Fokker-Planck equation and to compute the large and small velocity limits of the diffusion coefficient. A classification of the random potentials into universality classes, characterized by the form of the diffusion coefficient in the limit of large and small velocity, was performed. It was shown that one dimensional systems exhibit a large variety of novel universality classes, contrary to systems in higher dimensions, where only one universality class is possible. The relation to Chirikov resonances, that are central in the theory of Chaos, was demonstrated. The general theory was applied and numerically tested for specific physically relevant examples.Comment: 5 pages, 3 figure

Generalized Fokker-Planck equation, Brownian motion, and ergodicity

Microscopic theory of Brownian motion of a particle of mass $M$ in a bath of molecules of mass $m\ll M$ is considered beyond lowest order in the mass ratio $m/M$. The corresponding Langevin equation contains nonlinear corrections to the dissipative force, and the generalized Fokker-Planck equation involves derivatives of order higher than two. These equations are derived from first principles with coefficients expressed in terms of correlation functions of microscopic force on the particle. The coefficients are evaluated explicitly for a generalized Rayleigh model with a finite time of molecule-particle collisions. In the limit of a low-density bath, we recover the results obtained previously for a model with instantaneous binary collisions. In general case, the equations contain additional corrections, quadratic in bath density, originating from a finite collision time. These corrections survive to order $(m/M)^2$ and are found to make the stationary distribution non-Maxwellian. Some relevant numerical simulations are also presented

How accurate are the non-linear chemical Fokker-Planck and chemical Langevin equations?

The chemical Fokker-Planck equation and the corresponding chemical Langevin equation are commonly used approximations of the chemical master equation. These equations are derived from an uncontrolled, second-order truncation of the Kramers-Moyal expansion of the chemical master equation and hence their accuracy remains to be clarified. We use the system-size expansion to show that chemical Fokker-Planck estimates of the mean concentrations and of the variance of the concentration fluctuations about the mean are accurate to order $\Omega^{-3/2}$ for reaction systems which do not obey detailed balance and at least accurate to order $\Omega^{-2}$ for systems obeying detailed balance, where $\Omega$ is the characteristic size of the system. Hence the chemical Fokker-Planck equation turns out to be more accurate than the linear-noise approximation of the chemical master equation (the linear Fokker-Planck equation) which leads to mean concentration estimates accurate to order $\Omega^{-1/2}$ and variance estimates accurate to order $\Omega^{-3/2}$. This higher accuracy is particularly conspicuous for chemical systems realized in small volumes such as biochemical reactions inside cells. A formula is also obtained for the approximate size of the relative errors in the concentration and variance predictions of the chemical Fokker-Planck equation, where the relative error is defined as the difference between the predictions of the chemical Fokker-Planck equation and the master equation divided by the prediction of the master equation. For dimerization and enzyme-catalyzed reactions, the errors are typically less than few percent even when the steady-state is characterized by merely few tens of molecules.Comment: 39 pages, 3 figures, accepted for publication in J. Chem. Phy

Stochastic dynamics beyond the weak coupling limit: thermalization

We discuss the structure and asymptotic long-time properties of coupled equations for the moments of a Brownian particle's momentum derived microscopically beyond the lowest approximation in the weak coupling parameter. Generalized fluctuation-dissipation relations are derived and shown to ensure convergence to thermal equilibrium at any order of perturbation theory.Comment: 6+ page

The matter distribution in the local Universe as derived from galaxy groups in SDSS DR12 and 2MRS

Context. Friends-of-friends algorithms are a common tool to detect galaxy groups and clusters in large survey data. In order to be as precise as possible, they have to be carefully calibrated using mock catalogues. Aims. We create an accurate and robust description of the matter distribution in the local Universe using the most up-to-date available data. This will provide the input for a specific cosmological test planned as follow-up to this work, and will be useful for general extragalactic and cosmological research. Methods. We created a set of galaxy group catalogues based on the 2MRS and SDSS DR12 galaxy samples using a friends-of-friends based group finder algorithm. The algorithm was carefully calibrated and optimised on a new set of wide-angle mock catalogues from the Millennium simulation, in order to provide accurate total mass estimates of the galaxy groups taking into account the relevant observational biases in 2MRS and SDSS. Results. We provide four different catalogues (i) a 2MRS based group catalogue; (ii) an SDSS DR12 based group catalogue reaching out to a redshift z = 0.11 with stellar mass estimates for 70% of the galaxies; (iii) a catalogue providing additional fundamental plane distances for all groups of the SDSS catalogue that host elliptical galaxies; (iv) a catalogue of the mass distribution in the local Universe based on a combination of our 2MRS and SDSS catalogues. Conclusions. While motivated by a specific cosmological test, three of the four catalogues that we produced are well suited to act as reference databases for a variety of extragalactic and cosmological science cases. Our catalogue of fundamental plane distances for SDSS groups provides further added value to this paper.Comment: 31 pages, 25 figures, accepted for publication in A&

Positive Feedback Regulation Results in Spatial Clustering and Fast Spreading of Active Signaling Molecules on a Cell Membrane

Positive feedback regulation is ubiquitous in cell signaling networks, often leading to binary outcomes in response to graded stimuli. However, the role of such feedbacks in clustering, and in spatial spreading of activated molecules, has come to be appreciated only recently. We focus on the latter, using a simple model developed in the context of Ras activation with competing negative and positive feedback mechanisms. We find that positive feedback, in the presence of slow diffusion, results in clustering of activated molecules on the plasma membrane, and rapid spatial spreading as the front of the cluster propagates with a constant velocity (dependent on the feedback strength). The advancing fronts of the clusters of the activated species are rough, with scaling consistent with the Kardar-Parisi-Zhang (KPZ) equation in one dimension. Our minimal model is general enough to describe signal transduction in a wide variety of biological networks where activity in the membrane-proximal region is subject to feedback regulation.Comment: 37 pages, 8 figures. Journal of Chemical Physics (in press

Fluctuating noise drives Brownian transport

The transport properties of Brownian ratchet was studied in the presence of stochastic intensity noise (SIN) in both overdamped and underdamped regimes. In the overdamped case, analytical solution using the matrix continued fraction method revealed the existence of a maximum current when the noise intensity fluctuates on intermediate time scale regions. Similar effects were observed for the underdamped case by Monte Carlo simulations. The optimal time-correlation for the Brownian transport coincided with the experimentally observed time-correlation of the extrinsic noise in Esherichia coli gene expression and implied the importance of environmental noise for molecular mechanisms.Comment: 22 pages, 8 figure