A Coarse-grained model for diffusion in zeolites based on clustering of short MD trajectories

Zeolites form a class of microporous aluminosilicates of great interest due to their multifarious applications in industry and everyday life. Their porous structure allows small molecules to be adsorbed and to diffuse inside crystals, and depending on the zeolite type and on the diffusant species a variety of behaviours is possible. Molecular Dynamics is now widely used in order to understand the microscopic mechanisms of adsorption and diffusion occurring within these materials as well as in MOFs and ZIFs. A major drawback of MD for this kind of systems is its high computational cost, so that coarse-grained methods, speeding up simulations without losing the essential features of dynamics, are valuable tools for exploring the behaviour of guest molecules on time and space scales hardly, if at all, reachable with ordinary MD. The first step in our proposed method is the clustering of MD trajectories to obtain a discretized version of the motion of adsorbed molecules within the zeolite. Each pore in the aluminosilicate is partitioned in a number of regions and each point in the original trajectory is mapped to the proper region based on a distance criterion. The regions correspond roughly to the main basins in the potential energy surface (PES)

Fault Sneaking Attack: a Stealthy Framework for Misleading Deep Neural Networks

Despite the great achievements of deep neural networks (DNNs), the vulnerability of state-of-the-art DNNs raises security concerns of DNNs in many application domains requiring high reliability.We propose the fault sneaking attack on DNNs, where the adversary aims to misclassify certain input images into any target labels by modifying the DNN parameters. We apply ADMM (alternating direction method of multipliers) for solving the optimization problem of the fault sneaking attack with two constraints: 1) the classification of the other images should be unchanged and 2) the parameter modifications should be minimized. Specifically, the first constraint requires us not only to inject designated faults (misclassifications), but also to hide the faults for stealthy or sneaking considerations by maintaining model accuracy. The second constraint requires us to minimize the parameter modifications (using L0 norm to measure the number of modifications and L2 norm to measure the magnitude of modifications). Comprehensive experimental evaluation demonstrates that the proposed framework can inject multiple sneaking faults without losing the overall test accuracy performance.Comment: Accepted by the 56th Design Automation Conference (DAC 2019

A metabolomic approach to animal vitreous humor topographical composition: A pilot study

The purpose of this study was to evaluate the feasibility of a 1H-NMR-based metabolomic approach to explore the metabolomic signature of different topographical areas of vitreous humor (VH) in an animal model. Five ocular globes were enucleated from five goats and immediately frozen at 280uC. Once frozen, three of them were sectioned, and four samples corresponding to four different VH areas were collected: the cortical, core, and basal, which was further divided into a superior and an inferior fraction. An additional two samples were collected that were representative of the whole vitreous body. 1H-NMR spectra were acquired for twenty-three goat vitreous samples with the aim of characterizing the metabolomic signature of this biofluid and identifying whether any site-specific patterns were present. Multivariate statistical analysis (MVA) of the spectral data were carried out, including Principal Component Analysis (PCA), Hierarchical Cluster Analysis (HCA), and Partial Least Squares Discriminant Analysis (PLS-DA). A unique metabolomic signature belonging to each area was observed. The cortical area was characterized by lactate, glutamine, choline, and its derivatives, N-acetyl groups, creatine, and glycerol; the core area was characterized by glucose, acetate, and scyllo-inositol; and the basal area was characterized by branched-chain amino acids (BCAA), betaine, alanine, ascorbate, lysine, and myo-inositol. We propose a speculative approach on the topographic role of these molecules that are mainly responsible for metabolic differences among the as-identified areas. 1H-NMR-based metabolomic analysis has shown to be an important tool for investigating the VH. In particular, this approach was able to assess in the samples here analyzed the presence of different functional areas on the basis of a different metabolite distribution.The purpose of this study was to evaluate the feasibility of a 1H-NMR-based metabolomic approach to explore the metabolomic signature of different topographical areas of vitreous humor (VH) in an animal model. Five ocular globes were enucleated from five goats and immediately frozen at -80°C. Once frozen, three of them were sectioned, and four samples corresponding to four different VH areas were collected: the cortical, core, and basal, which was further divided into a superior and an inferior fraction. An additional two samples were collected that were representative of the whole vitreous body. 1H-NMR spectra were acquired for twenty-three goat vitreous samples with the aim of characterizing the metabolomic signature of this biofluid and identifying whether any site-specific patterns were present. Multivariate statistical analysis (MVA) of the spectral data were carried out, including Principal Component Analysis (PCA), Hierarchical Cluster Analysis (HCA), and Partial Least Squares Discriminant Analysis (PLS-DA). A unique metabolomic signature belonging to each area was observed. The cortical area was characterized by lactate, glutamine, choline, and its derivatives, N-acetyl groups, creatine, and glycerol; the core area was characterized by glucose, acetate, and scyllo-inositol; and the basal area was characterized by branched-chain amino acids (BCAA), betaine, alanine, ascorbate, lysine, and myo-inositol. We propose a speculative approach on the topographic role of these molecules that are mainly responsible for metabolic differences among the as-identified areas. 1H-NMR-based metabolomic analysis has shown to be an important tool for investigating the VH. In particular, this approach was able to assess in the samples here analyzed the presence of different functional areas on the basis of a different metabolite distribution. © 2014 Locci et al

Exact solutions to the focusing nonlinear Schrodinger equation

A method is given to construct globally analytic (in space and time) exact solutions to the focusing cubic nonlinear Schrodinger equation on the line. An explicit formula and its equivalents are presented to express such exact solutions in a compact form in terms of matrix exponentials. Such exact solutions can alternatively be written explicitly as algebraic combinations of exponential, trigonometric, and polynomial functions of the spatial and temporal coordinates.Comment: 60 pages, 18 figure

A unified approach to Darboux transformations

We analyze a certain class of integral equations related to Marchenko equations and Gel'fand-Levitan equations associated with various systems of ordinary differential operators. When the integral operator is perturbed by a finite-rank perturbation, we explicitly evaluate the change in the solution. We show how this result provides a unified approach to Darboux transformations associated with various systems of ordinary differential operators. We illustrate our theory by deriving the Darboux transformation for the Zakharov-Shabat system and show how the potential and wave function change when a discrete eigenvalue is added to the spectrum.Comment: final version that will appear in Inverse Problem

High prevalence of bronchiectasis is linked to HTLV-1-associated inflammatory disease.

BACKGROUND: Human T-lymphotropic virus type 1 (HTLV-1), a retrovirus, is the causative agent of HTLV-1-associated myelopathy/tropical spastic paraparesis (HAM/TSP) and adult T-cell leukaemia/lymphoma (ATLL). The reported association with pulmonary disease such as bronchiectasis is less certain. METHODS: A retrospective case review of a HTLV-1 seropositive cohort attending a national referral centre. The cohort was categorised into HTLV-1 symptomatic patients (SPs) (ATLL, HAM/TSP, Strongyloidiasis and HTLV associated inflammatory disease (HAID)) and HTLV-1 asymptomatic carriers (ACs). The cohort was reviewed for diagnosis of bronchiectasis. RESULT: 34/246 ACs and 30/167 SPs had been investigated for respiratory symptoms by computer tomography (CT) with productive cough +/- recurrent chest infections the predominant indications. Bronchiectasis was diagnosed in one AC (1/246) and 13 SPs (2 HAID, 1 ATLL, 10 HAM/TSP) (13/167, RR 19.2 95 % CI 2.5-14.5, p = 0.004) with high resolution CT. In the multivariate analysis ethnicity (p = 0.02) and disease state (p < 0.001) were independent predictors for bronchiectasis. The relative risk of bronchiectasis in SPs was 19.2 (95 % CI 2.5-14.5, p = 0.004) and in HAM/TSP patients compared with all other categories 8.4 (95 % CI 2.7-26.1, p = 0.0002). Subjects not of African/Afro-Caribbean ethnicity had an increased prevalence of bronchiectasis (RR 3.45 95 % 1.2-9.7, p = 0.02). CONCLUSIONS: Bronchiectasis was common in the cohort (3.4 %). Risk factors were a prior diagnosis of HAM/TSP and ethnicity but not HTLV-1 viral load, age and gender. The spectrum of HTLV-associated disease should now include bronchiectasis and HTLV serology should be considered in patients with unexplained bronchiectasis

Increased serum levels of sortilin are associated with depression and correlated with BDNF and VEGF

AbstractNeurotrophic factors have been investigated in relation to depression. The aim of the present study was to widen this focus to sortilin, a receptor involved in neurotrophic signalling. The serum sortilin level was investigated in 152 individuals with depression and 216 control individuals, and eight genetic markers located within the SORT1 gene were successfully analysed for association with depression. Genotyping was performed using the Sequenom MassARRAY platform. All the individuals returned a questionnaire and participated in a semi-structured diagnostic interview. Sortilin levels were measured by immunoassay, and potential determinants of the serum sortilin level were assessed by generalized linear models. Serum levels of brain-derived neurotrophic factor (BDNF) and vascular endothelial growth factor (VEGF) were measured in previous studies. We identified a significant increase of serum sortilin levels in depressed individuals compared with controls (P=0.0002) and significant positive correlation between serum sortilin levels and the corresponding levels of BDNF and VEGF. None of the genotyped SNPs were associated with depression. Additional analyses showed that the serum sortilin level was influenced by several other factors. Alcohol intake and body mass index, as well as depression, serum BDNF and serum VEGF were identified as predictors of serum sortilin levels in our final multivariate model. In conclusion, the results suggest a role of circulating sortilin in depression which may relate to altered activity of neurotrophic factors.</jats:p

Diffusion in tight confinement: a lattice-gas cellular automaton approach. I. Structural equilibrium properties

The thermodynamic and transport properties of diffusing species in microporous materials are strongly influenced by their interactions with the confining framework, which provide the energy landscape for the transport process. The simple topology and the cellular nature of the α cages of a ZK4 zeolite suggest that it is appropriate to apply to the study of the problem of diffusion in tight confinement a time-space discrete model such as a lattice-gas cellular automaton (LGCA). In this paper we investigate the properties of an equilibrium LGCA constituted by a constant number of noninteracting identical particles, distributed among a fixed number of identical cells arranged in a three-dimensional cubic network and performing a synchronous random walk at constant temperature. Each cell of this network is characterized by a finite number of two types of adsorption sites: the exit sites available to particle transfer and the inner sites not available to such transfers. We represent the particle-framework interactions by assuming a differentiation in binding energy of the two types of sites. This leads to a strong dependence of equilibrium and transport properties on loading and temperature. The evolution rule of our LGCA model is constituted by two operations (randomization, in which the number of particles which will be able to try a jump to neighboring cells is determined, and propagation, in which the allowed jumps are performed), each one applied synchronously to all of the cells. The authors study the equilibrium distribution of states and the adsorption isotherm of the model under various conditions of loading and temperature. In connection with the differentiation in energy between exit and inner sites, the adsorption isotherm is described by a conventional Langmuir isotherm at high temperature and by a dual-site Langmuir isotherm at low temperature, while a first order diffuse phase transition takes place at very low temperature

Exact Solutions to the Sine-Gordon Equation

A systematic method is presented to provide various equivalent solution formulas for exact solutions to the sine-Gordon equation. Such solutions are analytic in the spatial variable $x$ and the temporal variable $t,$ and they are exponentially asymptotic to integer multiples of $2\pi$ as $x\to\pm\infty.$ The solution formulas are expressed explicitly in terms of a real triplet of constant matrices. The method presented is generalizable to other integrable evolution equations where the inverse scattering transform is applied via the use of a Marchenko integral equation. By expressing the kernel of that Marchenko equation as a matrix exponential in terms of the matrix triplet and by exploiting the separability of that kernel, an exact solution formula to the Marchenko equation is derived, yielding various equivalent exact solution formulas for the sine-Gordon equation.Comment: 43 page