Archive for July 7th, 2012

A factor mixture analysis model for multivariate binary data






The paper proposes a latent variable model for binary data coming from an unobserved heterogeneous population. The heterogeneity is taken into account by replacing the traditional assumption of Gaussian distributed factors by a finite mixture of multivariate Gaussians. The aim of the proposed model is twofold: it allows to achieve dimension reduction when the data are dichotomous and, simultaneously, it performs model based clustering in the latent space. Model estimation is obtained by means of a maximum likelihood method via a generalized version of the EM algorithm. In order to evaluate the performance of the model a simulation study and two real applications are illustrated.


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Wish cell line: from the antiviral system to a novel reporter gene assay to test the potency of human ifn-α and ifn-β

Abstract: Interferons (IFNs) are potent biologically active proteins that are widely used as biopharmaceuticals, so their potency must be correctly identified. Usually, the biological activity is quantified by a bioassay based on its capacity to induce an antiviral state in target cells, but this type of assays is subject to virus manipulation-related issues and they show considerable intra- and inter-assay variability. In this work, we generated a reporter gene assay (RGA) supported on the WISH-Mx/eGFP reporter cell line to determine human type I IFN activity. WISH cells were stably transfected with the enhanced green fluorescent protein (eGFP) gene under the control of type I IFN-inducible Mx2 promoter. This system implies the use of a standardized cell line for human IFN-potency analysis such as WISH cells and the simultaneous use of the sensitive reporter gene eGFP, having also several advantages when compared to antiviral activity assays and other RGAs: it can determine the potency of hIFN-α and hIFN-β using only one cell line showing the highest expression of eGFP after 28h and being only observed in cells treated with type I IFNs due to the specificity of the Mx promoter. It is a sensitive assay and it represents a safe alternative when compared with the conventional antiviral tests. The cell line showed the same sensitivity along 57 generations, allowing its use during two months of successive culture. The inter- and intra-assay coefficients of variation were lower than 20%, demonstrating its reproducibility. In addition, this reporter cell line can be used for the conventional antiviral assay, either for hIFN-α or hIFN-β. In conclusion, we have developed an alternative reporter system for the analysis of type I IFNs, in which its performance make it a suitable candidate to replace or complement conventional bioassays that are currently employed to measure IFN potency. [Copyright &y& Elsevier]

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Voltammetric study and electrodeposition of copper in 1-butyl-3-methylimidazolium salicylate ionic liquid

Abstract: The voltammetric behavior of cuprous ions has been studied at disk electrodes of glassy carbon and polycrystalline platinum in a new hydrophilic 1-butyl-3-methylimidazolium salicylate ionic liquid (BMI-SAL IL). Cuprous ions Cu(I) were introduced into the IL by the anodic dissolution of a Cu wire electrode or by the addition of CuCl. This air- and water-stable hydrophilic IL is very similar to dicyanamide (DCA)-based ILs because both DCA anions and salicylate (SAL) anions have very strong ligand properties; therefore, many metal salts, such as metal halides, are very soluble in this IL. However, the source of SAL anions, sodium salicylate, is considerably cheaper than sodium dicyanamide salt. The potentiostatic electrodeposition of copper onto iron substrates has also been investigated in this study. The surface morphologies of the copper deposits were significantly altered by the electrodeposition potential; granular, mirror-like, and porous copper deposits could be obtained at different negative potentials. The activity of the copper deposit-modified iron electrodes toward the electrochemical nitrate reduction in alkaline solutions was found to significantly depend on the surface morphologies. The granular and the porous surfaces showed better activities. The mirror-like surface, however, had no activity on the electrochemical nitrate reduction. [Copyright &y& Elsevier]

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Voltammetric monitoring of electrochemical reduction of riboflavin using silver solid amalgam electrodes

Abstract: The voltammetric behavior of riboflavin (RF), an important compound belonging to the group of vitamins B, has been investigated using mercury meniscus modified electrode (m-AgSAE) and polished silver solid amalgam electrode (p-AgSAE). Obtained results were compared with those obtained using hanging mercury drop electrode (HMDE). Cyclic voltammetry (CV), direct current voltammetry (DCV) and differential pulse voltammetry (DPV) have been applied for investigation of electrochemical behavior of RF on the above mentioned electrodes. Optimum conditions for DPV determination of RF have been found in acetate buffer of pH 5 for m-AgSAE and HMDE, and in Britton–Robinson (BR) buffer of pH 3 for p-AgSAE. The limits of detection amounted to 8.2×10−10 molL−1 (m-AgSAE) and 1.3×10−9 molL−1 (p-AgSAE). DPV with optimized parameters was utilized for successful determination of RF in 2 vitamin preparations. [Copyright &y& Elsevier]

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Verification of effect of damper windings on the transient condition of synchronous generator

This paper describes the results of an experimental investigation on the effects of the damper winding of a four-pole synchronous generator at a synchronous generator transient. It is known from simulations that the damper winding acts effectively under synchronous generator transient conditions. However, experimental proof has not been obtained yet. Thus, experiments on damper effects were conducted using a laboratory-scale power system. The damper winding of the tested generator consisted of five damper bars for each pole; the number of working damper bars could be changed manually. The damper currents at each bar were measured by a Rogowski coil. FFT analysis was applied to both the damper currents and armature currents under different operating conditions. The relationships between damper currents in the rotor and armature currents in the stator were made clearer than before. © 2012 Wiley Periodicals, Inc. Electr Eng Jpn, 180(2): 33-42, 2012; Published online in Wiley Online Library (wileyonlinelibrary.com). DOI 10.1002/eej.21278 [ABSTRACT FROM AUTHOR]

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Towards achieving a flattop crystal size distribution by continuous seeding and controlled growth

Abstract: A semi-continuous crystallizer configuration that combines continuous seeding using a dual impinging jet with growth rate control in a stirred tank was experimentally demonstrated for the manufacture of l-asparagine monohydrate (LAM) crystals with the objective of obtaining a target flattop size distribution. The dual impinging jets combined hot and cold saturated solutions to generate highly uniform 20-μm crystals that were further grown to a desired size in the stirred tank with suppressed nucleation that was instrumented with attenuated total reflection–Fourier transform infrared (ATR–FTIR) spectroscopy and focused beam reflectance measurement (FBRM). The construction of calibration models and the measurement of solubility and metastable limit were obtained by an automated system that followed preset supersaturation profiles using feedback control. The experiments confirm that greatly enhanced control of the crystal size distribution can be achieved using continuous seeding. [Copyright &y& Elsevier]

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Time-scale dependence in numerical simulations: assessment of physical, chemical, and biological predictions in a stratified lake at temporal scales of hours to months

Abstract: We evaluated the predictive ability of a one-dimensional coupled hydrodynamic-biogeochemical model across multiple temporal scales using wavelet analysis and traditional goodness-of-fit metrics. High-frequency in situ automated sensor data and long-term manual observational data from Lake Mendota, Wisconsin, USA, were used to parameterize, calibrate, and evaluate model predictions. We focused specifically on short-term predictions of temperature, dissolved oxygen, and phytoplankton biomass over one season. Traditional goodness-of-fit metrics indicated more accurate prediction of physics than chemical or biological variables in the time domain. This was confirmed by wavelet analysis in both the time and frequency domains. For temperature, predicted and observed global wavelet spectra were closely related, while observed dissolved oxygen and chlorophyll fluorescence spectral characteristics were not reproduced by the model for key time scales, indicating that processes not modeled may be important drivers of the observed signal. Although the magnitude and timing of physical and biological changes were simulated adequately at the seasonal time scale through calibration, time scale-specific dynamics, for example short-term cycles, were difficult to reproduce, and were relatively insensitive to the effects of varying parameters. The use of wavelet analysis is novel to aquatic ecosystem modeling, is complementary to traditional goodness-of-fit metrics, and allows for assessment of variability at specific temporal scales. In this way, the effect of processes operating at distinct temporal scales can be isolated and better understood, both in situ and in silico. Wavelet transforms are particularly well suited for assessment of temporal and spatial heterogeneity when coupled to high-frequency data from automated in situ or remote sensing platforms. [Copyright &y& Elsevier]

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Thermogenetic tools to monitor temperature-dependent gene expression in bacteria

Abstract: Free-living bacteria constantly monitor their ambient temperature. Drastic deviations elicit immediate protective responses known as cold shock or heat shock response. Many mammalian pathogens use temperature surveillance systems to recognize the successful invasion of a host by its body temperature, usually 37°C. Translation of temperature-responsive genes can be modulated by RNA thermometers (RNATs). RNATs form complex structures primarily in the 5′-untranslated region of their transcripts. Most RNATs block the ribosome binding site at low temperatures. Translation is induced at increasing temperature by melting of the RNA structure. The analysis of such temperature-dependent RNA elements calls for adequate test systems that function in the appropriate temperature range. Here, we summarize previously established reporter gene systems based on the classical β-galactosidase LacZ, the heat-stable β-galactosidase BgaB and the green fluorescent protein GFP. We validate these systems by testing known RNATs and describe the construction and application of an optimized bgaB system. Finally, two novel RNA thermometer candidates from Escherichia coli and Salmonella will be presented. [Copyright &y& Elsevier]

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Theoretical and experimental study of anode process at the carbon in kf–alf3–al2o3 melts

Abstract: The influence of the [KF]/[AlF3] ratio (1.1–1.5molmol−1), the Al2O3 concentration (1–5wt.%) and the temperature (973–1073K) on the overpotential of the anode process for a glassy carbon electrode in a KF–AlF3–Al2O3 melt under stationary and non-stationary conditions was studied by galvanostatic polarisation and chronopotentiometry. A theoretical (mathematical) description of the two-step electrode process at the carbon anode in KF–AlF3–Al2O3 melts under stationary and non-stationary conditions is suggested. The charge of the electric double-layer, the formation of an intermediate COads adsorption product at the anode surface, the limitations of the current transfer, which include the charge transfer through the electrode/electrolyte interface, and the diffusion and chemical interaction of the electroactive ions in the melt near the anode surface were taken onto account. Alterations of the basic parameters of the process were monitored and analysed. Estimates of anode process kinetics parameters (e.g., exchange current densities and the degree of the anode surface coverage by the intermediate product COads) for different experimental conditions were made by a comparison of the modelled and experimental polarisation curves. The electrochemical desorption of the intermediate product COads from the anode surface (the second step) was shown to be relatively slower than the charge transfer process (the first step). In addition, slow chemical reactions at current densities of 0.1–1Acm−2 can occur prior to the electrode process. [Copyright &y& Elsevier]

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The electrochemical transfer reactions and the structure of the iron|oxide layer|electrolyte interface

Abstract: The thickness, barrier (protecting) and semiconducting properties of the potentiostatically formed oxide films on the pure iron electrode in an aqueous borate buffer solution were investigated by electrochemical quartz crystal nanobalance (EQCN), electrochemical impedance spectroscopy (EIS), and Mott–Schottky (MS) analysis. The thicknesses of the prepassive Fe(II)hydroxide layer (up to monolayer) nucleated on the bare iron surface and the passive Fe(II)/Fe(III) layer (up to 2nm), deposited on the top of the first one, were determined using in situ gravimetry. Electronic properties of iron prepassive and passive films as well as ionic and electronic transfer reactions at the film|solution interface were discussed on the basis of a band structure model of the surface oxide film and the potential distribution at the interface. The anodic oxide film formation and cathodic decomposition are coupled processes and their reversible inter-conversion is mediated by the availability of free charge carriers on the electrode|solution interface. The structure of the reversible double layer at the iron oxide|solution interface was discussed based on the concept of the specific adsorption of the imidazolium cation on the negatively charged electrode surface at pH>pHpzc. [Copyright &y& Elsevier]

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