Hessian‐based model reduction: large‐scale inversion and prediction

Hessian‐based model reduction was previously proposed as an approach in deriving reduced models for the solution of large‐scale linear inverse problems by targeting accuracy in observation outputs. A control‐theoretic view of Hessian‐based model reduction that hinges on the equality between the Hessian and the transient observability gramian of the underlying linear system is presented. The model reduction strategy is applied to a large‐scale ( degrees of freedom) three‐dimensional contaminant transport problem in an urban environment, an application that requires real‐time computation. In addition to the inversion accuracy, the ability of reduced models of varying dimension to make predictions of the contaminant evolution beyond the time horizon of observations is studied. Results indicate that the reduced models have a factor speedup in computing time for the same level of accuracy. Copyright © 2012 John Wiley & Sons, Ltd.     

On polynomial EkP matrices

In this paper the relation betweenEP--matrices andE ^k P--matrices over an arbitrary filedF is studied. Further, conditions for the product ofE ^k P--matrices to be anE ^k P--matrix and for the reverse order law to hold for the polynomial Moore-Penrose inverse of the product ofE ^k P--matrices are determined     

Sorption of Cadmium from Aqueous Solutions at Different Temperatures by Mexican HEU-type Zeolite Rich Tuff

Many factors may affect the heavy metals sorption on natural zeolites among them the temperature, for this reason in this paper the cadmium retention behavior on Mexican zeolitic rich tuff as a function of temperature is considered. The kinetic and the isotherms were determined at 303, 318, and 333 K, the remaining cadmium in the solution samples was analyzed by atomic absorption spectrometry. The pseudo-second order rate constant, k, as well as the apparent diffusion coefficients were calculated from the cadmium uptake by the zeolitic rock as a function of the contact time and temperature, the highest amounts were found for the experiments done at 333 K. The maximum cadmium adsorption capacity by the zeolitic material was 12.2 mg Cd²⁺/g at 318 K corresponding to 20% of the effective ion exchange capacity of the Chihuahua zeolitic rock. In order to explain the cadmium sorption behavior different kinetics and isotherm models were considered.     

Complementing genomics with proteomics: the membrane subproteome of Pseudomonas aeruginosa PAO1

With the completion of many genome projects, a shift is now occurring from the acquisition of gene sequence to understanding the role and context of gene products within the genome. The opportunistic pathogen Pseudomonas aeruginosa is one organism for which a genome sequence is now available, including the annotation of open reading frames (ORFs). However, approximately one third of the ORFs are as yet undefined in function. Proteomics can complement genomics, by characterising gene products and their response to a variety of biological and environmental influences. In this study we have established the first two-dimensional gel electrophoresis reference map of proteins from the membrane fraction of P. aeruginosa strain PA01. A total of 189 proteins have been identified and correlated with 104 genes from the P. aeruginosa genome. Annotated membrane proteins could be grouped into three distinct categories: (i) those with functions previously characterised in P. aeruginosa (38%); (ii) those with significant sequence similarity to proteins with assigned function or hypothetical proteins in other organisms (46%); and (iii) those with unknown function (16%). Transmembrane prediction algorithms showed that each identified protein sequence contained at least one membrane-spanning region. Furthermore, the current methodology used to isolate the membrane fraction was shown to be highly specific since no contaminating cytosolic proteins were characterised. Preliminary analysis showed that at least 15 gel spots may be glycosylated in vivo, including three proteins that have not previously been functionally characterised. The reference map of membrane proteins from this organism is now the basis for determining surface molecules associated with antibiotic resistance and efflux, cell-cell signalling and pathogen-host interactions in a variety of P. aeruginosa strains.     

Sensitivity‐guided decision‐making for wind farm micro‐siting

This paper presents a quantitative risk assessment for design and development of a renewable energy system to support decision‐making among design alternatives. Throughout the decision‐making phases, resources are allocated among exploration and exploitation tasks to manage the uncertainties in design parameters and to adapt designs to new information for enhanced performance. The resource allocation problem is formulated as a sequential decision feedback loop for a quantitative analysis of exploration and exploitation trade‐offs. We support decision‐making by tracking the evolution of uncertainties, the sensitivity of design alternatives to the uncertainties, and the performance, reliability, and robustness of each design. This is achieved by analyzing the uncertainties in the wind resource, the turbine performance and operation, and the models that define the power curve and wake deficiency. Comparison of the performance, reliability, and robustness of aligned and staggered turbine layouts before and after wind assessment experiments aids in improving micro‐siting decisions. The results demonstrate that design decisions can be supported by efficiently allocating resources towards improved estimates of achievable design objectives and by quantitatively assessing the risk in meeting those objectives. Copyright © 2016 John Wiley & Sons, Ltd.     

Effects of lipopolysaccharide-induced inflammation on expression of growth-associated genes by corticospinal neurons

Background  

Inflammation around cell bodies of primary sensory neurons and retinal ganglion cells enhances expression of neuronal growth-associated genes and stimulates axonal regeneration. We have asked if inflammation would have similar effects on corticospinal neurons, which normally show little response to spinal cord injury. Lipopolysaccharide (LPS) was applied onto the pial surface of the motor cortex of adult rats with or without concomitant injury of the corticospinal tract at C4. Inflammation around corticospinal tract cell bodies in the motor cortex was assessed by immunohistochemistry for OX42 (a microglia and macrophage marker). Expression of growth-associated genes c-jun, ATF3, SCG10 and GAP-43 was investigated by immunohistochemistry or in situ hybridisation.     

Halogenated Dihydropyrrol-2-One Molecules Inhibit Pyocyanin Biosynthesis by Blocking the Pseudomonas Quinolone Signaling System

Quorum-sensing (QS) systems of Pseudomonas aeruginosa are involved in the control of biofilm formation and virulence factor production. The current study evaluated the ability of halogenated dihydropyrrol-2-ones (DHP) (Br (4a), Cl (4b), and F (4c)) and a non-halogenated version (4d) to inhibit the QS receptor proteins LasR and PqsR. The DHP molecules exhibited concentration-dependent inhibition of LasR and PqsR receptor proteins. For LasR, all compounds showed similar inhibition levels. However, compound 4a (Br) showed the highest decrease (two-fold) for PqsR, even at the lowest concentration (12.5 µg/mL). Inhibition of QS decreased pyocyanin production amongst P. aeruginosa PAO1, MH602, ATCC 25619, and two clinical isolates (DFU-53 and 364707). In the presence of DHP, P. aeruginosa ATCC 25619 showed the highest decrease in pyocyanin production, whereas clinical isolate DFU-53 showed the lowest decrease. All three halogenated DHPs also reduced biofilm formation by between 31 and 34%. The non-halogenated compound 4d exhibited complete inhibition of LasR and had some inhibition of PqsR, pyocyanin, and biofilm formation, but comparatively less than halogenated DHPs.     

Steering in computational science: Mesoscale modelling and simulation

This paper outlines the benefits of computational steering for high performance computing applications. Lattice-Boltzmann mesoscale fluid simulations of binary and ternary amphiphilic fluids in two and three dimensions are used to illustrate the substantial improvements which computational steering offers in terms of resource efficiency and time to discover new physics. We discuss details of our current steering implementations and describe their future outlook with the advent of computational grids.     

First integrals and analytical solutions of the nonlinear fin problem with temperature-dependent thermal conductivity and heat transfer coefficient

Fin materials can be observed in a variety of engineering applications. They are used to ease the dissipation of heat from a heated wall to the surrounding environment. In this work, we consider a nonlinear fin problem with temperature-dependent thermal conductivity and heat transfer coefficient. The equation(s) under study are highly nonlinear. Both the thermal conductivity and the heat transfer coefficient are given as arbitrary functions of temperature. Firstly, we consider the Lie group analysis for different cases of thermal conductivity and the heat transfer coefficients. These classifications are obtained from the Lie group analysis. Then, the first integrals of the nonlinear straight fin problem are constructed by three methods, namely, Noether’s classical method, partial Noether approach and Ibragimov’s nonlocal conservation method. Some exact analytical solutions are also constructed. The obtained result is also compared with the result obtained by other methods.