EuroPineDB: a high-coverage web database for maritime pine transcriptome

Pinus pinaster is an economically and ecologically important species that is becoming a woody gymnosperm model. Its enormous genome size makes whole-genome sequencing approaches are hard to apply. Therefore, the expressed portion of the genome has to be characterised and the results and annotations have to be stored in dedicated databases.

Evaluación de los procesos software de una organización enfocando en la disminución de la resistencia al cambio

En este artículo se describe un método para la evaluación del rendimiento de los procesos software de una organización de desarrollo de software utilizando técnicas alternativas a los cuestionarios (utilizados actualmente como técnica principal para evaluar el rendimiento de los procesos software en las organizaciones de desarrollo software). La importancia de la evaluación de procesos de una organización radica en qué, si es realizada de manera correcta, esta actividad permite identificar las oportunidades de mejora y dirigir el esfuerzo de la mejora hacia los procesos software que necesitan ser mejorados para alcanzar los objetivos del negocio establecidos por la alta dirección con la finalidad de generar ventajas competitivas respecto de sus competidores y garantizar su permanencia en el mercado.

Refined second law of thermodynamics for fast random processes

We establish a refined version of the Second Law of Thermodynamics for Langevin stochastic processes describing mesoscopic systems driven by conservative or non-conservative forces and interacting with thermal noise. The refinement is based on the Monge-Kantorovich optimal mass transport and becomes relevant for processes far from quasi-stationary regime. General discussion is illustrated by numerical analysis of the optimal memory erasure protocol for a model for micron-size particle manipulated by optical tweezers.

Nonequlibrium particle and energy currents in quantum chains connected to mesoscopic Fermi reservoirs

We propose a model of nonequilibrium quantum transport of particles and energy in a system connected to mesoscopic Fermi reservoirs (mesoreservoir). The mesoreservoirs are in turn thermalized to prescribed temperatures and chemical potentials by a simple dissipative mechanism described by the Lindblad equation. As an example, we study transport in monoatomic and diatomic chains of noninteracting spinless fermions. We show numerically the breakdown of the Onsager reciprocity relation due to the dissipative terms of the model.

A non-perturbative renormalization group study of the stochastic NavierStokes equation

We study the renormalization group flow of the average action of the stochastic Navier-Stokes equation with power-law forcing. Using Galilean invariance, we introduce a nonperturbative approximation adapted to the zero-frequency sector of the theory in the parametric range of the Hölder exponent 4−2 ɛ of the forcing where real-space local interactions are relevant. In any spatial dimension d, we observe the convergence of the resulting renormalization group flow to a unique fixed point which yields a kinetic energy spectrum scaling in agreement with canonical dimension analysis. Kolmogorov's −5/3 law is, thus, recovered for ɛ=2 as also predicted by perturbative renormalization. At variance with the perturbative prediction, the −5/3 law emerges in the presence of a saturation in the ɛ dependence of the scaling dimension of the eddy diffusivity at ɛ=3/2 when, according to perturbative renormalization, the velocity field becomes infrared relevant.

Current in coherent quantum systems connected to mesoscopic Fermi reservoirs

We study particle current in a recently proposed model for coherent quantum transport. In this model, a system connected to mesoscopic Fermi reservoirs (meso-reservoir) is driven out of equilibrium by the action of super-reservoirs thermalized to prescribed temperatures and chemical potentials by a simple dissipative mechanism described by the Lindblad equation. We compare exact (numerical) results with theoretical expectations based on the Landauer formula.

Optimal fits of diffusion constants from single-time data points of Brownian trajectories

Experimental methods based on single particle tracking (SPT) are being increasingly employed in the physical and biological sciences, where nanoscale objects are visualized with high temporal and spatial resolution. SPT can probe interactions between a particle and its environment but the price to be paid is the absence of ensemble averaging and a consequent lack of statistics. Here we address the benchmark question of how to accurately extract the diffusion constant of one single Brownian trajectory. We analyze a class of estimators based on weighted functionals of the square displacement. For a certain choice of the weight function these functionals provide the true ensemble averaged diffusion coefficient, with a precision that increases with the trajectory resolution.

First passages in bounded domains: When is the mean first passage time meaningful?

We study the first passage statistics to adsorbing boundaries of a Brownian motion in bounded two-dimensional domains of different shapes and configurations of the adsorbing and reflecting boundaries. From extensive numerical analysis we obtain the probability P(ω) distribution of the random variable ω=τ1/(τ1+τ2), which is a measure for how similar the first passage times τ1 and τ2 are of two independent realizations of a Brownian walk starting at the same location. We construct a chart for each domain, determining whether P(ω) represents a unimodal, bell-shaped form, or a bimodal, M-shaped behavior. While in the former case the mean first passage time (MFPT) is a valid characteristic of the first passage behavior, in the latter case it is an insufficient measure for the process. Strikingly we find a distinct turnover between the two modes of P(ω), characteristic for the domain shape and the respective location of absorbing and reflective boundaries. Our results demonstrate that large fluctuations of the first passage times may occur frequently in two-dimensional domains, rendering quite vague the general use of the MFPT as a robust measure of the actual behavior even in bounded domains, in which all moments of the first passage distribution exist.

Foundations and applications of non-equilibrium statistical mechanics

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Particle and energy transport in quantum disordered and quasi-periodic chains connected to mesoscopic Fermi reservoirs

We study a model of nonequilibrium quantum transport of particles and energy in a many-body system connected to mesoscopic Fermi reservoirs (the so-called meso-reservoirs). We discuss the conservation laws of particles and energy within our setup as well as the transport properties of quasi-periodic and disordered chains.

Search strategies and the automated control of plant diseases

We propose the use of the "infotaxis" search strategy as the navigation system of a robotic platform, able to search and localize infectious foci by detecting the changes in the profile of volatile organic compounds emitted by and infected plant. We builded a simple and cost effective robot platform that substitutes odour sensors in favour of light sensors and study their robustness and performance under non ideal conditions such as the exitence of obstacles due to land topology or weeds.

On ergodic least-squares estimators of the generalized diffusion coefficient for fractional Brownian motion

We analyse a class of estimators of the generalized diffusion coefficient for fractional Brownian motion Bt of known Hurst index H, based on weighted functionals of the single time square displacement. We show that for a certain choice of the weight function these functionals possess an ergodic property and thus provide the true, ensemble-averaged, generalized diffusion coefficient to any necessary precision from a single trajectory data, but at expense of a progressively higher experimental resolution. Convergence is fastest around H ? 0.30, a value in the subdiffusive regime.

Gromov hyperbolicity of periodic planar graphs

The study of hyperbolic graphs is an interesting topic since the hyperbolicity of a geodesic metric space is equivalent to the hyperbolicity of a graph related to it. The main result in this paper is a very simple characterization of the hyperbolicity of a large class of periodic planar graphs.

Asymptotic values of quasiregular maps

Suslin analytic sets characterize the sets of asymptotic values of entire holomorphic functions. By a theorem of Ahlfors, the set of asymptotic values is finite for a function with finite order of growth. Quasiregular maps are a natural generalization of holomorphic functions to dimensions n ≥ 3 and, in fact, many of the properties of holomorphic functions have counterparts for quasiregular maps. It is shown that analytic sets also characterize the sets of asymptotic values of quasiregular maps in Rn, even for those with finite order of growth. Our construction is based on Drasin's quasiregular sine function

Quasi-isometries and isoperimetric inequalities

We consider the stability of isoperimetric inequalities under quasi-isometries between Riemann surfaces. Kanai observed that quasi-isometries preserve isoperimetric inequalities on complete Riemannian manifolds with finite geometry: positive injectivity radius and Ricci curvature bounded from below (see [2]). In [1], it is shown that the linear isoperimetric inequality is a quasi-isometric invariant for planar Riemann surfaces (genus zero surfaces) with vanishing injectivity radius. Moreover, it is proved that non-linear isoperimetric inequalities can only hold for Riemann surfaces with positive injectivity radius, and hence, by Kanai's observation, preserved by quasi-isometries. In this talk we present an overview on isoperimetric inequalities and give some of the ideas of the proofs of the results cited above.