Adaptive Anisotropic Spectral Stochastic Methods for Uncertain Scalar Conservation Laws

This paper deals with the design of adaptive anisotropic discretization schemes for conservation laws with stochastic parameters. A Finite Volume scheme is used for the deterministic discretization, while a piecewise polynomial representation is used at the stochastic level. The methodology is designed in the context of intrusive Galerkin projection methods with Roe-type solver. The adaptation aims at selecting the stochastic resolution level based on the local smoothness of the solution in the stochastic domain. In addition, the stochastic features of the solution greatly vary in the space and time so that the constructed stochastic approximation space depends on space and time. The dynamically evolving stochastic discretization uses a tree-structure representation that allows for the efficient implementation of the various operators needed to perform anisotropic multiresolution analysis. Efficiency of the overall adaptive scheme is assessed on the stochastic traffic equation with uncertain initial conditions and velocity leading to expansion waves and shocks that propagate with random velocities. Numerical tests highlight the computational savings achieved as well as the benefit of using anisotropic discretizations in view of dealing with problems involving a larger number of stochastic parameters

Roe Solver with Entropy Corrector for Uncertain Hyperbolic Systems

International audienceThis paper deals with intrusive Galerkin projection methods with Roe-type solver for uncertain hyperbolic systems using a finite volume discretization in physical space and a piecewise continuous representation at the stochastic level. The aim of this paper is to design a cost-effective adaptation of the deterministic Dubois and Mehlman corrector to avoid entropy-violating shocks in the presence of sonic points. The adaptation relies on an estimate of the eigenvalues and eigenvectors of the Galerkin Jacobian matrix of the deterministic system of the stochastic modes of the solution and on a correspondence between these approximate eigenvalues and eigenvectors for the intermediate states considered at the interface. Some indicators are derived to decide where a correction is needed, thereby reducing considerably the computational costs. The effectiveness of the proposed corrector is assessed on the Burgers and Euler equations including sonic points

Bayesian-based method with metamodels for rebuilding freestream conditions in atmospheric entry flows

International audienceThe paper investigates a new methodology to rebuild freestream conditions for the trajectory of a reentry vehicle from measurements of stagnation-point pressure and heat flux. Uncertainties due to measurements and model parameters are taken into account and a Bayesian setting supplied with metamodels is used to solve the associated stochastic inverse problem

Alterations of the mitochondrial proteome caused by the absence of mitochondrial DNA: A proteomic view

The proper functioning of mitochondria requires that both the mitochondrial and the nuclear genome are functional. To investigate the importance of the mitochondrial genome, which encodes only 13 subunits of the respiratory complexes, the mitochondrial rRNAs and a few tRNAs, we performed a comparative study on the 143B cell line and on its Rho-0 counterpart, i.e., devoid of mitochondrial DNA. Quantitative differences were found, of course in the respiratory complexes subunits, but also in the mitochondrial translation apparatus, mainly mitochondrial ribosomal proteins, and in the ion and protein import system, i.e., including membrane proteins. Various mitochondrial metabolic processes were also altered, especially electron transfer proteins and some dehydrogenases, but quite often on a few proteins for each pathway. This study also showed variations in some hypothetical or poorly characterized proteins, suggesting a mitochondrial localization for these proteins. Examples include a stomatin-like protein and a protein sharing homologies with bacterial proteins implicated in tyrosine catabolism. Proteins involved in apoptosis control are also found modulated in Rho-0 mitochondria.Comment: website publisher: http://www3.interscience.wiley.com

Subcell resolution in simplex stochastic collocation for spatial discontinuities

Subcell resolution has been used in the Finite Volume Method (FVM) to obtain accurate approximations of discontinuities in the physical space. Stochastic methods are usually based on local adaptivity for resolving discontinuities in the stochastic dimensions. However, the adaptive refinement in the probability space is ineffective in the non-intrusive uncertainty quantification framework, if the stochastic discontinuity is caused by a discontinuity in the physical space with a random location. The dependence of the discontinuity location in the probability space on the spatial coordinates then results in a staircase approximation of the statistics, which leads to first-order error convergence and an underprediction of the maximum standard deviation. To avoid these problems, we introduce subcell resolution into the Simplex Stochastic Collocation (SSC) method for obtaining a truly discontinuous representation of random spatial discontinuities in the interior of the cells discretizing the probability space. The presented SSC–SR method is based on resolving the discontinuity location in the probability space explicitly as function of the spatial coordinates and extending the stochastic response surface approximations up to the predicted discontinuity location. The applications to a linear advection problem, the inviscid Burgers’ equation, a shock tube problem, and the transonic flow over the RAE 2822 airfoil show that SSC–SR resolves random spatial discontinuities with multiple stochastic and spatial dimensions accurately using a minimal number of samples

Construction d'un modèle thermodynamique fiable et robuste pour les mélanges liquide-vapeur

La prédiction numérique des effets de transfert de masse dans les écoulements diphasiques est un outil fondamental dans plusieurs domaines tels que la production d'énergie, les moteurs aérospatiaux,... Un des problèmes est lié au traitement du mélange liquide-vapeur, notamment au niveau thermodynamique. Dans la littérature, de nombreuses équations d'états sont proposées ; néanmoins, on préfère en général utiliser des équations 'convexes', c'est-à-dire, qui présentent une vitesse du son toujours réelle au-dessous de la courbe de saturation dans le mélange liquide-vapeur. L'équation d'état 'Stiffened Gas (SG)' en est un exemple, qui permet un bon compromis entre la facilité d'implémentation et la précision au niveau thermodynamique. Cependant, son utilisation dans la phase gaz ne garantit pas la prise en compte des effets de gaz réel, qui requièrent des lois beaucoup plus complexes généralement non-convexes. Cette étude se concentre sur la formulation d'un algorithme innovant de couplage fort entre un modèle de type SG et une équation d'état complexe quelconque pour la modélisation de la phase gazeuse, basé sur des données expérimentales. En outre, on souhaite considérer les incertitudes inhérentes au modèle, qui concernent certains paramètres thermiques et calorifiques. L'algorithme proposé sera basé sur un cadre bayésien et des techniques de quantification d'incertitudes, permettant la prise en compte d'incertitudes sur les mesures et le modèle. Il réalisera le couplage des deux équations grâce à une calibration de paramètres, cohérente par rapport à la thermodynamique des fluides considérés. La méthode sera appliquée à plusieurs cas d'étude, utilisant différents fluides et différentes lois d'état pour la phase gazeuse. Enfin, un résultat de simulation d'écoulements fluides incluant le nouveau modèle thermodynamique sera montré

Reliable and robust thermodynamic model for liquid-vapor mixture

Numerical simulation of mass transfer in biphase flows is a fundamental tool in various disciplines. One major issue is related to the thermodynamics of the liquid-vapor mixture. Usually, convex equations of state are used, where a real sound speed can be defined under the saturation curve, such as for exemple the Stiffened Gas (SG) equation. Neverthless, the use of this equation in the gas phase, ban the prediction of real-gas effects, demanding a more complex equation of state, generally non-convex. The aim of this work is to formulate an innovative algorithm for a strong coupling between a SG equation and a whatever more complex equation for the gas phase, using experimental data. The proposed algorithm relies on a bayesian-based method, taking into account model and data uncertainties

Exocytosis and Endocytosis in Neuroendocrine Cells: Inseparable Membranes!

International audienceAlthough much has been learned concerning the mechanisms of secretory vesicle formation and fusion at donor and acceptor membrane compartments, relatively little attention has been paid toward understanding how cells maintain a homeostatic membrane balance through vesicular trafficking. In neurons and neuroendocrine cells, release of neurotrans-mitters, neuropeptides, and hormones occurs through calcium-regulated exocytosis at the plasma membrane. To allow recycling of secretory vesicle components and to preserve organelles integrity, cells must initiate and regulate compensatory membrane uptake. This review relates the fate of secretory granule membranes after full fusion exocytosis in neuroendocrine cells. In particular, we focus on the potential role of lipids in preserving and sorting secretory granule membranes after exocytosis and we discuss the potential mechanisms of membrane retrieval

Simplex stochastic collocation with ENO-type stencil selection for robust uncertainty quantification

Multi-element uncertainty quantification approaches can robustly resolve the high sensitivities caused by discontinuities in parametric space by reducing the polynomial degree locally to a piecewise linear approximation. It is important to extend the higher degree interpolation in the smooth regions up to a thin layer of linear elements that contain the discontinuity to maintain a highly accurate solution. This is achieved here by introducing Essentially Non-Oscillatory (ENO) type stencil selection into the Simplex Stochastic Collocation (SSC) method. For each simplex in the discretization of the parametric space, the stencil with the highest polynomial degree is selected from the set of candidate stencils to construct the local response surface approximation. The application of the resulting SSC–ENO method to a discontinuous test function shows a sharper resolution of the jumps and a higher order approximation of the percentiles near the singularity. SSC–ENO is also applied to a chemical model problem and a shock tube problem to study the impact of uncertainty both on the formation of discontinuities in time and on the location of discontinuities in space

HIV-1 Tat protein inhibits neurosecretion by binding to phosphatidylinositol 4,5-bisphosphate.

HIV-1 transcriptional activator (Tat) enables viral transcription and is also actively released by infected cells. Extracellular Tat can enter uninfected cells and affect some cellular functions. Here, we examine the effects of Tat protein on the secretory activity of neuroendocrine cells. When added to the culture medium of chromaffin and PC12 cells, Tat was actively internalized and strongly impaired exocytosis as measured by carbon fiber amperometry and growth hormone release assay. Expression of Tat mutants that do not bind to phosphatidylinositol 4,5-bisphosphate [PtdIns(4,5)P2] did not affect secretion, and overexpression of phosphatidylinositol 4-phosphate 5-kinase (PIP5K), the major PtdIns(4,5)P2 synthesizing enzyme, significantly rescued the Tat-induced inhibition of neurosecretion. This suggests that the inhibition of exocytosis may be the consequence of PtdIns(4,5)P2 sequestration. Accordingly, expression of Tat in PC12 cells interfered with the secretagogue-dependent recruitment of annexin A2 to the plasma membrane, a PtdIns(4,5)P2-binding protein that promotes the formation of lipid microdomains that are required for exocytosis. In addition Tat significantly prevented the reorganization of the actin cytoskeleton necessary for the movement of secretory vesicles towards plasma membrane fusion sites. Thus, the capacity of extracellular Tat to enter neuroendocrine cells and sequester plasma membrane PtdIns(4,5)P2 perturbs several PtdIns(4,5)P2-dependent players of the exocytotic machinery, thereby affecting neurosecretion. We propose that Tat-induced inhibition of exocytosis is involved in the neuronal disorders associated with HIV-1 infection.journal articleresearch support, non-u.s. gov't2013 Jan 152012 11 23importe