1,163 research outputs found

    Parallel Self-Consistent-Field Calculations via Chebyshev-Filtered Subspace Acceleration

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    Solving the Kohn-Sham eigenvalue problem constitutes the most computationally expensive part in self-consistent density functional theory (DFT) calculations. In a previous paper, we have proposed a nonlinear Chebyshev-filtered subspace iteration method, which avoids computing explicit eigenvectors except at the first SCF iteration. The method may be viewed as an approach to solve the original nonlinear Kohn-Sham equation by a nonlinear subspace iteration technique, without emphasizing the intermediate linearized Kohn-Sham eigenvalue problem. It reaches self-consistency within a similar number of SCF iterations as eigensolver-based approaches. However, replacing the standard diagonalization at each SCF iteration by a Chebyshev subspace filtering step results in a significant speedup over methods based on standard diagonalization. Here, we discuss an approach for implementing this method in multi-processor, parallel environment. Numerical results are presented to show that the method enables to perform a class of highly challenging DFT calculations that were not feasible before

    Expression of human Kallikrein 14 (KLK14) in breast cancer is associated with higher tumour grades and positive nodal status

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    Human kallikrein 14 (KLK14) is a steroid hormone-regulated member of the tissue kallikrein family of serine proteases, for which a prognostic and diagnostic value in breast cancer has been suggested. To further characterise the value of KLK14 as a breast tumour marker, we have carefully analysed KLK14 expression in normal breast tissue and breast cancer both on the RNA level by real-time RT-PCR (n=39), and on the protein level (n=127) using a KLK14-specific antibody for immunohistochemistry. We correlated KLK14 protein expression data with available clinico-pathological parameters (mean follow-up time was 55 months) including patient prognosis. KLK14 RNA expression as quantified by real-time RT-PCR was significantly more abundant in breast tumours compared to normal breast tissue (P=0.027), an issue that had not been clarified recently. Concordantly with the RNA data, cytoplasmic KLK14 protein expression was significantly higher in invasive breast carcinomas compared to normal breast tissues (P=0.003). Furthermore, KLK14 protein expression was associated with higher tumour grade (P=0.041) and positive nodal status (P=0.045) but was not significantly associated with shortened disease-free or overall patient survival time in univariate analyses. We conclude that KLK14 is clearly overexpressed in breast cancer in comparison to normal breast tissues and is positively associated with conventional parameters of tumour aggressiveness, but due to a missing association with survival times, the use of KLK14 immunohistochemistry as a prognostic marker in breast cancer is questionable

    Foetal echocardiographic assessment of borderline small left ventricles can predict the need for postnatal intervention

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    Abstract Background We sought to prospectively determine foetal echocardiographic factors associated with neonatal interventions in borderline hypoplastic left ventricles. Methods Foetuses were included who had a left ventricle that was 2-4 standard deviations below normal for length or diameter and had forward flow across the mitral and aortic valves. Factors associated with an intervention in the first month of life or no need for intervention were sought using univariate and multivariate logistic regression models. Results From 2005 to 2008, 47 foetuses meeting the criteria had an additional diagnosis (+foetal coarctation/+transverse arch hypoplasia): atrioventricular septal defect 7 (+2/+0), double outlet right ventricle 2 (+0/+0), Shone's complex 19 (+9/+4), and ventricular disproportion 19 (+13/+11; 4 both). There were seven pregnancies terminated, three foetal demises, and five had compassionate care. There were 32 livebirths that either had a biventricular repair (n = 20, n = 2 dead), univentricular palliation (n = 2, both alive), or no intervention (n = 9). Overall survival of livebirths to 6 months of age was 79%. Factors associated with early intervention on first foetal echocardiogram were: obstructed or retrograde arch flow (p = 0.08, odds ratio 3.3), coarctation (p = 0.05, odds ratio 11.4), and left ventricle outflow obstruction (p = 0.05, odds ratio 12.5). Neonatal factors included: Shone's diagnosis (p = 0.02, odds ratio 4.9), bicuspid aortic valve (p = 0.005, odds ratio 11.7), and larger tricuspid valve z-score (p = 0.05, odds ratio 3.6). A neonatal factor associated with no intervention was a larger mitral valve z-score (mean −3.8 versus −4.2 intervention group, p = 0.04, odds ratio 2.8). Discussion The need for early intervention in foetuses with borderline hypoplastic left ventricle can be predicted by foetal echocardiograph

    Biobased Terpene Derivatives: Stiff and Biocompatible Compounds to Tune Biodegradability and Properties of Poly(butylene succinate)

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    Different copolymers incorporating terpene oxide units (e.g., limonene oxide) have been evaluated considering thermal properties, degradability, and biocompatibility. Thus, polycarbonates and polyesters derived from aromatic, monocyclic and bicyclic anhydrides have been considered. Furthermore, ring substitution with myrcene terpene has been evaluated. All polymers were amorphous when evaluated directly from synthesis. However, spherulites could be observed after the slow evaporation of diluted chloroform solutions of polylimonene carbonate, with all isopropene units possessing an R configuration. This feature was surprising considering the reported information that suggested only the racemic polymer was able to crystallize. All polymers were thermally stable and showed a dependence of the maximum degradation rate temperature (from 242 °C to 342 °C) with the type of terpene oxide. The graduation of glass transition temperatures (from 44 °C to 172 °C) was also observed, being higher than those corresponding to the unsubstituted polymers. The chain stiffness of the studied polymers hindered both hydrolytic and enzymatic degradation while a higher rate was detected when an oxidative medium was assayed (e.g., weight losses around 12% after 21 days of exposure). All samples were biocompatible according to the adhesion and proliferation tests performed with fibroblast cells. Hydrophobic and mechanically consistent films (i.e., contact angles between 90° and 110°) were obtained after the evaporation of chloroform from the solutions, having different ratios of the studied biobased polyterpenes and poly(butylene succinate) (PBS). The blend films were comparable in tensile modulus and tensile strength with the pure PBS (e.g., values of 330 MPa and 7 MPa were determined for samples incorporating 30 wt.% of poly(PA-LO), the copolyester derived from limonene oxide and phthalic anhydride. Blends were degradable, biocompatible and appropriate to produce oriented-pore and random-pore scaffolds via a thermally-induced phase separation (TIPS) method and using 1,4-dioxane as solvent. The best results were attained with the blend composed of 70 wt.% PBS and 30 wt.% poly(PA-LO). In summary, the studied biobased terpene derivatives showed promising properties to be used in a blended form for biomedical applications such as scaffolds for tissue engineering

    Selection of ground motion prediction equations for the global earthquake model

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    Ground motion prediction equations (GMPEs) relate ground motion intensity measures to variables describing earthquake source, path, and site effects. From many available GMPEs, we select those models recommended for use in seismic hazard assessments in the Global Earthquake Model. We present a GMPE selection procedure that evaluates multidimensional ground motion trends (e.g., with respect to magnitude, distance, and structural period), examines functional forms, and evaluates published quantitative tests of GMPE performance against independent data. Our recommendations include: four models, based principally on simulations, for stable continental regions; three empirical models for interface and in-slab subduction zone events; and three empirical models for active shallow crustal regions. To approximately incorporate epistemic uncertainties, the selection process accounts for alternate representations of key GMPE attributes, such as the rate of distance attenuation, which are defensible from available data. Recommended models for each domain will change over time as additional GMPEs are developed

    Cholinergic stimulation blocks endothelial cell activation and leukocyte recruitment during inflammation

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    Endothelial cell activation plays a critical role in regulating leukocyte recruitment during inflammation and infection. Based on recent studies showing that acetylcholine and other cholinergic mediators suppress the production of proinflammatory cytokines via the α7 nicotinic acetylcholine receptor (α7 nAChR) expressed by macrophages and our observations that human microvascular endothelial cells express the α7 nAChR, we examined the effect of cholinergic stimulation on endothelial cell activation in vitro and in vivo. Using the Shwartzman reaction, we observed that nicotine (2 mg/kg) and the novel cholinergic agent CAP55 (12 mg/kg) inhibit endothelial cell adhesion molecule expression. Using endothelial cell cultures, we observed the direct inhibitory effects of acetylcholine and cholinergic agents on tumor necrosis factor (TNF)-induced endothelial cell activation. Mecamylamine, an nAChR antagonist, reversed the inhibition of endothelial cell activation by both cholinergic agonists, confirming the antiinflammatory role of the nAChR cholinergic pathway. In vitro mechanistic studies revealed that nicotine blocked TNF-induced nuclear factor–κB nuclear entry in an inhibitor κB (IκB)α- and IκBɛ-dependent manner. Finally, with the carrageenan air pouch model, both vagus nerve stimulation and cholinergic agonists significantly blocked leukocyte migration in vivo. These findings identify the endothelium, a key regulator of leukocyte trafficking during inflammation, as a target of anti-inflammatory cholinergic mediators

    Evaluation of EIT systems and algorithms for handling full void fraction range in two-phase flow measurement

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    In the aqueous-based two-phase flow, if the void fraction of dispersed phase exceeds 0.25, conventional electrical impedance tomography (EIT) produces a considerable error due to the linear approximation of the sensitivity back-projection (SBP) method, which limits the EIT's wider application in the process industry. In this paper, an EIT sensing system which is able to handle full void fraction range in two-phase flow is reported. This EIT system employs a voltage source, conducts true mutual impedance measurement and reconstructs an online image with the modified sensitivity back-projection (MSBP) algorithm. The capability of the Maxwell relationship to convey full void fraction is investigated. The limitation of the linear sensitivity back-projection method is analysed. The MSBP algorithm is used to derive relative conductivity change in the evaluation. A series of static and dynamic experiments demonstrating the mean void fraction obtained using this EIT system has a good agreement with reference void fractions over the range from 0 to 1. The combination of the new EIT system and MSBP algorithm would significantly extend the applications of EIT in industrial process measurement

    Multi-hazard socio-physical resilience assessment of hurricane-induced hazards on coastal communities

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    Hurricane-induced hazards can result in significant damage to the built environment cascading into major impacts to the households, social institutions, and local economy. Although quantifying physical impacts of hurricane-induced hazards is essential for risk analysis, it is necessary but not sufficient for community resilience planning. While there have been several studies on hurricane risk and recovery assessment at the building- and community-level, few studies have focused on the nexus of coupled physical and social disruptions, particularly when characterizing recovery in the face of coastal multi-hazards. Therefore, this study presents an integrated approach to quantify the socio-physical disruption following hurricane-induced multi-hazards (e.g., wind, storm surge, wave) by considering the physical damage and functionality of the built environment along with the population dynamics over time. Specifically, high-resolution fragility models of buildings, and power and transportation infrastructures capture the combined impacts of hurricane loading on the built environment. Beyond simulating recovery by tracking infrastructure network performance metrics, such as access to essential facilities, this coupled socio-physical approach affords projection of post-hazard population dislocation and temporal evolution of housing and household recovery constrained by the building and infrastructure recovery. The results reveal the relative importance of multi-hazard consideration in the damage and recovery assessment of communities, along with the role of interdependent socio-physical system modeling when evaluating metrics such as housing recovery or the need for emergency shelter. Furthermore, the methodology presented here provides a foundation for resilience-informed decisions for coastal communities

    Alignment of nanostructured tripeptide gels by directional ultrasonication

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    We demonstrate an in-situ ultrasonic approach to influence self-assembly across the supramolecular to micron length scales, showing enhancement of supramolecular interactions, chirality and orientation, which depends on the peptide sequence and solvent environment. This is the first successful demonstration of using oscillating pressure waves to generate anisotropic organo- and hydro- gels consisting of oriented tripeptides structures
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