Search results for: protein secondary structure prediction

Authors: Esmat Jalalvandi, Rohah Abd. Majid, Taravat Ghanbari

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Thermoplastic starch, polylactic acid glycerol and maleic anhydride (MA) were compounded with natural montmorillonite (MMT) through a twin screw extruder to investigate the effects of different loading of MMT on structure, thermal and absorption behavior of the nanocomposites. X-ray diffraction analysis (XRD) showed that sample with MMT loading 4phr exhibited exfoliated structure while sample that contained MMT 8 phr exhibited intercalated structure. FESEM images showed big lump when MMT loading was at 8 phr. The thermal properties were characterized by using differential scanning calorimeter (DSC). The results showed that MMT increased melting temperature and crystallization temperature of matrix but reduction in glass transition temperature was observed Meanwhile the addition of MMT has improved the water barrier property. The nanosize MMT particle is also able to block a tortuous pathway for water to enter the starch chain, thus reducing the water uptake and improved the physical barrier of nanocomposite.

Keywords: Montmorillonite, Nanocomposite, Polylactic acid, Starch.

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Authors: Arun Goel

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The present paper attempts to investigate the prediction of air entrainment rate and aeration efficiency of a free overfall jets issuing from a triangular sharp crested weir by using regression based modelling. The empirical equations, Support vector machine (polynomial and radial basis function) models and the linear regression techniques were applied on the triangular sharp crested weirs relating the air entrainment rate and the aeration efficiency to the input parameters namely drop height, discharge, and vertex angle. It was observed that there exists a good agreement between the measured values and the values obtained using empirical equations, Support vector machine (Polynomial and rbf) models and the linear regression techniques. The test results demonstrated that the SVM based (Poly & rbf) model also provided acceptable prediction of the measured values with reasonable accuracy along with empirical equations and linear regression techniques in modelling the air entrainment rate and the aeration efficiency of a free overfall jets issuing from triangular sharp crested weir. Further sensitivity analysis has also been performed to study the impact of input parameter on the output in terms of air entrainment rate and aeration efficiency.

Keywords: Air entrainment rate, dissolved oxygen, regression, SVM, weir.

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Authors: A. Shooshtari, A. R. Masoodi, S. Heyrani Moghaddam

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Free vibration analysis of a gabled frame with elastic support and semi-rigid connections is performed by using a program in OpenSees software. Natural frequencies and mode shape details of frame are obtained for two states, which are semi-rigid connections and elastic supports, separately. The members of this structure are analyzed as a prismatic nonlinear beam-column element in software. The mass of structure is considered as two equal lumped masses at the head of two columns in horizontal and vertical directions. Note that the degree of freedom, allocated to all nodes, is equal to three. Furthermore, the mode shapes of frame are achieved. Conclusively, the effects of connections and supports flexibility on the natural frequencies and mode shapes of structure are investigated.  

Keywords: Natural frequency, mode shape, gabled frame, semi-rigid connection, elastic support, OpenSees software.

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Authors: Ya Lv

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This article presents the application of the semi-analytic method (SAM) in the thermal management solution (TMS) of the energy storage system (ESS). The TMS studied in this work is fluid cooling. In fluid cooling, both effective heat conduction and heat convection are indispensable due to the heat transfer from solid to fluid. Correspondingly, an efficient TMS requires a design investigation of the following parameters: fluid inlet temperature, ESS initial temperature, fluid flow rate, working c rate, continuous working time, and materials properties. Their variation induces a change of thermal performance in the battery module, which is usually evaluated by numerical simulation. Compared to complicated computation resources and long computation time in simulation, the SAM is developed in this article to predict the thermal influence within a few seconds. In SAM, a fast prediction model is reckoned by combining numerical simulation with theoretical/empirical equations. The SAM can explore the thermal effect of boundary parameters in both steady-state and transient heat transfer scenarios within a short time. Therefore, the SAM developed in this work can simplify the design cycle of TMS and inspire more possibilities in TMS design.

Keywords: Semi-analytic method, fast prediction model, thermal influence of boundary parameters, energy storage system.

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Authors: Mevlüt Burak Dalmış, Kemal Yaman

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In this study, flutter characteristics of cantilever rectangular plate structure under incompressible flow regime are investigated by comparing the results of commercial flutter analysis program ZAERO^© with wind tunnel tests conducted in Ankara Wind Tunnel (ART). A rectangular polycarbonate (PC) plate, 5x125x1000 mm in dimensions, is used for both numerical and experimental investigations. Analysis and test results are very compatible with each other. A comparison between two different solution methods (g and k-method) of ZAERO^© is also done. It is seen that, k-method gives closer result than the other one. However, g-method results are on conservative side and it is better to use conservative results namely g-method results. Even if the modal analysis results are used for the flutter analysis for this simple structure, a modal test should be conducted in order to validate the modal analysis results to have accurate flutter analysis results for more complicated structures.

Keywords: Flutter, plate, subsonic flow, wind tunnel.

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Authors: A. Abdikian

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A quantum breathing mode has been theatrically studied in quantum dusty plasma. By using linear quantum hydrodynamic model, not only the quantum dispersion relation of rotation mode but also void structure has been derived in the presence of an external magnetic field. Although the phase velocity of the magnetized quantum breathing mode is greater than that of unmagnetized quantum breathing mode, attenuation of the magnetized quantum breathing mode along radial distance seems to be slower than that of unmagnetized quantum breathing mode. Clearly, drawing the quantum breathing mode in the presence and absence of a magnetic field, we found that the magnetic field alters the distribution of dust particles and changes the radial and azimuthal velocities around the axis. Because the magnetic field rotates the dust particles and collects them, it could compensate the void structure.

Keywords: The linear quantum hydrodynamic model, the magnetized quantum breathing mode, the quantum dispersion relation of rotation mode, void structure.

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Authors: Dahi Ghareab Abdelsalam Ibrahim

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Axial and lateral measurements of a step depth standard are presented. The axial measurement is performed based on the ISO 5436 profile analysis. The lateral measurement is performed based on the Hamming window band-pass filter method. The method is applied to calibrate a groove structure of a step depth standard of 60 nm. For the axial measurement, the computed results show that the depth of the groove structure is 59.7 ± 0.6 nm. For the lateral measurement, the computed results show that the difference between the two line edges of the groove structure is 151.7 ± 2.5 nm. The method can be applied to any step height/depth regardless of the sharpness of the line edges.

Keywords: Hamming window, band-pass filter, metrology, interferometry.

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Authors: J. Hey, D. A. Howey, R. Martinez-Botas, M. Lamperth

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This paper presents the development of a hybrid thermal model for the EVO Electric AFM 140 Axial Flux Permanent Magnet (AFPM) machine as used in hybrid and electric vehicles. The adopted approach is based on a hybrid lumped parameter and finite difference method. The proposed method divides each motor component into regular elements which are connected together in a thermal resistance network representing all the physical connections in all three dimensions. The element shape and size are chosen according to the component geometry to ensure consistency. The fluid domain is lumped into one region with averaged heat transfer parameters connecting it to the solid domain. Some model parameters are obtained from Computation Fluid Dynamic (CFD) simulation and empirical data. The hybrid thermal model is described by a set of coupled linear first order differential equations which is discretised and solved iteratively to obtain the temperature profile. The computation involved is low and thus the model is suitable for transient temperature predictions. The maximum error in temperature prediction is 3.4% and the mean error is consistently lower than the mean error due to uncertainty in measurements. The details of the model development, temperature predictions and suggestions for design improvements are presented in this paper.

Keywords: Electric vehicle, hybrid thermal model, transient temperature prediction, Axial Flux Permanent Magnet machine.

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Authors: M. Rad, M. Dolatshahi Pirooz, M. Esmayili

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To understand the seismic behavior of the offshore structures, the dynamic interaction of the water-structure-soil should be assessed. In this regard the role of the water dynamic properties in magnifying or reducing of the effects of earthquake induced motions on offshore structures haven't been investigated in precise manner in available literature. In this paper the sea water level fluctuations effects on the seismic behavior of a sample of offshore structures has been investigated by emphasizing on the water-structure interaction phenomenon. For this purpose a two dimensional finite element model of offshore structures as well as surrounded water has been developed using ANSYS software. The effect of soil interaction with embedded pile foundation has been imposed by using a series of nonlinear springs in horizontal and vertical directions in soil-piles contact points. In the model, the earthquake induced motions have been applied on springs and consequently the motions propagated upward to the structure and surrounded water. As a result of numerical study, the horizontal deformations of the offshore deck as well as internal force and buckling coefficient in structural elements have been recorded and controlled with and without water presence. In part of study a parametric study has been accomplished on sea water level fluctuations and effect of this parameter has been studied on the aforementioned numerical results.

Keywords: Fluid-Structure Interaction, Jacket, Sea Water Level, Seismic Loading.

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Authors: Keith Danila Aquino Neves, Júlia Borges dos Santos

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There is little published research about the influence of execution methods on structural behavior. Structural analysis is typically based on a constructed building, considering the actions of all forces under which it was designed. However, during construction, execution loads do not match those designed, and in some cases the loads begin to act when the concrete has not yet reached its maximum strength. Changes to structural element support conditions may occur, resulting in unforeseen alterations to the structure’s behavior. Shoring is an example of a construction process that, if executed improperly, will directly influence the structural performance, and may result in unpredicted cracks and displacements. The NBR 14931/2004 standard, which guides the execution of reinforced concrete structures, mentions that shoring must be executed in a way that avoids unpredicted loads and that it may be removed after previous analysis of the structure’s behavior by the professional responsible for the structure’s design. Differences in structural behavior are reduced for small spans. It is important to qualify and quantify how the incorrect placement of shores can compromise a structure’s safety. The results of this research allowed a more precise acknowledgment of the relationship between spans and loads, for which the influence of execution processes can be considerable, and reinforced that civil engineering practice must be performed with the presence of a qualified professional, respecting existing standards’ guidelines.

Keywords: Structural analysis, structural behavior, reshoring, static scheme, reinforced concrete.

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Authors: M. Tazky, R. Hela, P. Novosad, L. Osuska

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This paper deals with the possibility of safe incorporation fluidised bed combustion fly ash (waste material) into cement matrix together with next commonly used secondary raw material, which is high-temperature fly ash. Both of these materials have a very high pozzolanic ability, and the right combination could bring important improvements in both the physico-mechanical properties and the better durability of a cement composite. This paper tries to determine the correct methodology for designing green concrete by using modern methods measuring rheology of fresh concrete and following hydration processes. The use of fluidised bed combustion fly ash in cement composite production as an admixture is not currently common, but there are some real possibilities for its potential. The most striking negative aspect is its chemical composition which supports the development of new product formation, influencing the durability of the composite. Another disadvantage is the morphology of grains, which have a negative effect on consistency. This raises the question of how this waste can be used in concrete production to emphasize its positive properties and eliminate negatives. The focal point of the experiment carried out on cement pastes was particularly on the progress of hydration processes, aiming for the possible acceleration of pozzolanic reactions of both types of fly ash.

Keywords: High-temperature fly ash, fluidised bed combustion fly ash, pozzolanic, CaO (calcium oxide), rheology.

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Authors: Lucie Novakova, Petr Homola, Vaclav Kafka

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Asymmetric incremental sheet forming (AISF) could significantly reduce costs incurred by the fabrication of complex industrial components with a minimal environmental impact. The AISF experiments were carried out on commercially pure titanium (Ti-Gr2), Timetal (15-3-3-3) alloy, and Ti-6Al-4V (Ti-Gr5) alloy. A special testing geometry was used to characterize the titanium alloys properties from the point of view of the forming zone and titanium structure effect. The structure and properties of the materials were assessed by means of metallographic analyses and microhardness measurements.The highest differences in the parameters assessed as a function of the sampling zone were observed in the case of alpha-phase Ti-Gr2at the expense of the most substantial sheet thinning occurrence. A springback causes a smaller stored deformation in Timetal (β alloy) resulting in less pronounced microstructure refinement and microhardness increase. Ti-6Al-4V alloy exhibited early failure due to its poor formability at ambient temperature.

 

Keywords: Incremental forming, metallography, hardness, titanium alloys.

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Authors: Ewa Wywial, Shaneen M. Singh

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The PRAF family of proteins is a plant specific family of proteins with distinct domain architecture and various unique sequence/structure traits. We have carried out an extensive search of the Arabidopsis genome using an automated pipeline and manual methods to verify previously known and identify unknown instances of PRAF proteins, characterize their sequence and build 3D structures of their individual domains. Integrating the sequence, structure and whatever little known experimental details for each of these proteins and their domains, we present a comprehensive characterization of the different domains in these proteins and their variant properties.

Keywords: PRAF proteins, homology modeling, Arabidopsisthaliana

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Authors: M. Abou-Amouna, A. Radwan, L. Al-kuwari, A. Hammuda, K. Al-Khalifa

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There is growing concern over increasing incidences of road accidents and consequent loss of human life in Qatar. In light to the future planned event in Qatar, World Cup 2022; Qatar should put into consideration the future deaths caused by road accidents, and past trends should be considered to give a reasonable picture of what may happen in the future. Qatar roads should be arranged and paved in a way that accommodate high capacity of the population in that time, since then there will be a huge number of visitors from the world. Qatar should also consider the risk issues of road accidents raised in that period, and plan to maintain high level to safety strategies. According to the increase in the number of road accidents in Qatar from 1995 until 2012, an analysis of elements affecting and causing road accidents will be effectively studied. This paper aims to identify and criticize the factors that have high effect on causing road accidents in the state of Qatar, and predict the total number of road accidents in Qatar 2022. Alternative methods are discussed and the most applicable ones according to the previous researches are selected for further studies. The methods that satisfy the existing case in Qatar were the multiple linear regression model (MLR) and artificial neutral network (ANN). Those methods are analyzed and their findings are compared. We conclude that by using MLR the number of accidents in 2022 will become 355,226 accidents, and by using ANN 216,264 accidents. We conclude that MLR gave better results than ANN because the artificial neutral network doesn’t fit data with large range varieties.

Keywords: Road Safety, Prediction, Accident, Model, Qatar.

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Authors: Yasaman Tohidi, Shidvash Vakilipour, Saeed Ebadi Tavallaee, Shahin Vakilipoor Takaloo, Hossein Amiri

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The numerical modeling is performed to study the effects of N₂ addition to the fuel stream on the flame structure and temperature distribution of methane-air swirl diffusion flames with different swirl intensities. The Open source Field Operation and Manipulation (OpenFOAM) has been utilized as the computational tool. Flamelet approach along with modified k-ε model is employed to model the flame characteristics.  The results indicate that the presence of N₂ in the fuel stream leads to the flame temperature reduction. By increasing of swirl intensity, the flame structure changes significantly. The flame has a conical shape in low swirl intensity; however, it has an hour glass-shape with a shorter length in high swirl intensity. The effects of N₂ dilution decrease the flame length in all swirl intensities; however, the rate of reduction is more noticeable in low swirl intensity.

Keywords: Swirl diffusion flame, N2 dilution, OpenFOAM, Swirl intensity.

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Authors: Yunos Zahri, Ab Hamid R. Susanty, Ahmad Mustaffa

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This paper explores the need for a national baseline study on understanding the level of cyber security situational awareness among primary and secondary school students in Malaysia. The online survey method was deployed to administer the data collection exercise. The target groups were divided into three categories: Group 1 (primary school aged 7-9 years old), Group 2 (primary school aged 10-12 years old), and Group 3 (secondary school aged 13-17 years old). A different questionnaire set was designed for each group. The survey topics/areas included Internet and digital citizenship knowledge. Respondents were randomly selected from rural and urban areas throughout all 14 states in Malaysia. A total of 9,158 respondents participated in the survey, with most states meeting the minimum sample size requirement to represent the country’s demographics. The findings and recommendations from this baseline study are fundamental to develop teaching modules required for children to understand the security risks and threats associated with the Internet throughout their years in school. Early exposure and education will help ensure healthy cyber habits among millennials in Malaysia.

Keywords: Cyber security awareness, cyber security education, cyber security, students.

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Authors: Choeng-Ryul Choi, Chang-Nyung Kim, Tae-Hyub Hong

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A numerical method is developed for simulating the motion of particles with arbitrary shapes in an effectively infinite or bounded viscous flow. The particle translational and angular motions are numerically investigated using a fluid-structure interaction (FSI) method based on the Arbitrary-Lagrangian-Eulerian (ALE) approach and the dynamic mesh method (smoothing and remeshing) in FLUENT ( ANSYS Inc., USA). Also, the effects of arbitrary shapes on the dynamics are studied using the FSI method which could be applied to the motions and deformations of a single blood cell and multiple blood cells, and the primary thrombogenesis caused by platelet aggregation. It is expected that, combined with a sophisticated large-scale computational technique, the simulation method will be useful for understanding the overall properties of blood flow from blood cellular level (microscopic) to the resulting rheological properties of blood as a mass (macroscopic).

Keywords: Blood Flow, Fluid-Structure Interaction (FSI), Micro-Channels, Arbitrary Shapes, Red Blood Cells (RBCs)

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Authors: Ang Ling Weay, Mona Masood

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This paper discusses the potential benefits of an interactive multimedia information representation in enhancing students’ critical thinking aligned with history reasoning in learning history amongst Secondary School students in Malaysia. Two modes of multimedia information representation were implemented; chronologic and thematic information representations. A qualitative study of an unstructured interview was conducted among two history teachers, one history education lecturer, two i-think experts, and five students from Form Four secondary school. The interview was to elicit their opinions on the implementation of thinking maps and interactive multimedia information representation in history learning. The key elements of the interactive multimedia (e.g. multiple media, user control, interactivity and use of timelines and concept maps) were then considered to improve the learning process. Findings of the preliminary investigation reveal that the interactive multimedia information representations have the potential benefits to be implemented as an instructional resource in enhancing students’ higher order thinking skills (HOTs). This paper concludes by giving suggestions for future work.

Keywords: Multimedia Information Representation, Critical Thinking, History Reasoning, Chronological and Thematic Information Representation.

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Authors: F. Javier Benitez, Juan Luis Acero, Francisco J. Real, Gloria Roldan, Francisco Casas

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The degradation of selected pharmaceuticals in some water matrices was studied by using several chemical treatments. The pharmaceuticals selected were the beta-blocker metoprolol, the nonsteroidal anti-inflammatory naproxen, the antibiotic amoxicillin, and the analgesic phenacetin; and their degradations were conducted by using UV radiation alone, ozone, Fenton-s reagent, Fenton-like system, photo-Fenton system, and combinations of UV radiation and ozone with H2O2, TiO2, Fe(II), and Fe(III). The water matrices, in addition to ultra-pure water, were a reservoir water, a groundwater, and two secondary effluents from two municipal WWTP. The results reveal that the presence of any second oxidant enhanced the oxidation rates, with the systems UV/TiO2 and O3/TiO2 providing the highest degradation rates. It is also observed in most of the investigated oxidation systems that the degradation rate followed the sequence: amoxicillin > naproxen > metoprolol > phenacetin. Lower rates were obtained with the pharmaceuticals dissolved in natural waters and secondary effluents due to the organic matter present which consume some amounts of the oxidant agents.

Keywords: Pharmaceuticals, UV radiation, ozone, advancedoxidation processes, water matrices, degradation rates

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Authors: Hiren Mewada, Suprava Patnaik

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Object identification and segmentation application requires extraction of object in foreground from the background. In this paper the Bhattacharya distance based probabilistic approach is utilized with an active contour model (ACM) to segment an object from the background. In the proposed approach, the Bhattacharya histogram is calculated on non-linear structure tensor space. Based on the histogram, new formulation of active contour model is proposed to segment images. The results are tested on both color and gray images from the Berkeley image database. The experimental results show that the proposed model is applicable to both color and gray images as well as both texture images and natural images. Again in comparing to the Bhattacharya based ACM in ICA space, the proposed model is able to segment multiple object too.

Keywords: Active Contour, Bhattacharya Histogram, Structure tensor, Image segmentation.

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Authors: Ju-Hong Lee, Chong-Jia Ciou, Yuan-Hau Yang

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This paper deals with the problem of two-dimensional (2-D) recursive doubly complementary (DC) digital filter design. We present a structure of 2-D recursive DC filters by using 2-D symmetric half-plane (SHP) recursive digital all-pass lattice filters (DALFs). The novelty of using 2-D SHP recursive DALFs to construct a 2-D recursive DC digital lattice filter is that the resulting 2-D SHP recursive DC digital lattice filter provides better performance than the existing 2-D SHP recursive DC digital filter. Moreover, the proposed structure possesses a favorable 2-D DC half-band (DC-HB) property that allows about half of the 2-D SHP recursive DALF’s coefficients to be zero. This leads to considerable savings in computational burden for implementation. To ensure the stability of a designed 2-D SHP recursive DC digital lattice filter, some necessary constraints on the phase of the 2-D SHP recursive DALF during the design process are presented. Design of a 2-D diamond-shape decimation/interpolation filter is presented for illustration and comparison.

Keywords: All-pass digital filter, doubly complementary, lattice structure, symmetric half-plane digital filter, sampling rate conversion.

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Authors: W. Abu Rayyan, A. Singh, A. M. Al-Jaafreh, W. Abu Dayyih, M. Bustami, S. Salem, N. Seder, K. Schröppel

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Hyphal growth and the transcriptional regulation to the host environment are key issues during the pathogenesis of C. albicans. Tec1p is the C. albicans homolog of a TEA transcription factor family, which share a conserved DNA-binding TEA domain in their N-terminal. In order to define a structure-function relationship of the C. albicans Tec1p protein, we constructed several mutations on the N terminal, C terminal or in the TEA binding domain itself by homologous recombination technology. The modifications in the open reading frame of TEC1 were tested for reconstitution of the morphogenetic development of the tec1/tec1 mutant strain CaAS12. Mutation in the TEA consensus sequence did not confer transition to hyphae whereas the reconstitution of the full-length Tec1p has reconstituted hyphal development. A deletion in one of glutamine-rich regions either in the Tec1p N-terminal or the C-terminal in regions of 53-212 or 637–744 aa, respectively, did not restore morphological development in mutant CaAS12 strain. Whereas, the reconstitution with Tec1p mutants other than the glutamate-rich region has restored the morphogenetic switch. Additionally, the deletion of the glutamine-rich region has attenuated the invasive growth and the heat shock resistance of C. albicans. In conclusion, we show that a glutamine-rich region of Tec1p is essential for the hyphal development and mediating adaptation to the host environment of C. albicans.

Keywords: Candida albicans, transcription factor, TEA domain, hyphal formation, morphogenetic development, TEC1, Tet-induced.

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Authors: Dmitriy Yu. Korulkin, Raissa A. Muzychkina

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The article represents the results of isolation and component chromatographic analysis of essential oils of Polygonym L. plants growing in Kazakhstan in commercial reserves at the territory of Kazakhstan. The results of research of antiviral activity of isolated substances to flu virus have been represented in this article. The main pharmacophore groups in the structure of alkaloids have been identified.

Keywords: Alkaloids, antiviral, bioactive substances, isolation, pharmacophore groups, Polygonum L.

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Authors: Veronica Diaz Quezada

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A study and its preliminary results are presented. The research is descriptive and exploratory and it is still in process. Its objective is to develop an assessment method in the field of fostering values using competence mathematics problem solving. This is part of a more extensive research that aims at contributing to educational integration in Latin America, particularly to the development of proposals to link education for citizenship and the mathematics lessons. This is being carried out by research teams of University of Barcelona-España; University Nacional of Costa Rica; University Autónoma of Querétaro-México; Pontificia University Católica of Perú, University Nacional of Villa María- Argentina and University of Los Lagos-Chile, in the context of Andrés Bello Chair for the Association of Latin American Universities. This research was developed and implemented in Chile in 2016, using mixed research methods. It included interviews and a problem-solving math test with ethical values that was administered to students of the secondary education of the regions of Los Ríos and of the Lakes of Chile. The results show the lack of integration between the teaching of values and science discipline.

Keywords: Citizenship, ethical values, mathematics, secondary school, solving problem.

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Authors: Maxence Queyrel, Edi Prifti, Alexandre Templier, Jean-Daniel Zucker

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Analysis of the human microbiome using metagenomic sequencing data has demonstrated high ability in discriminating various human diseases. Raw metagenomic sequencing data require multiple complex and computationally heavy bioinformatics steps prior to data analysis. Such data contain millions of short sequences read from the fragmented DNA sequences and stored as fastq files. Conventional processing pipelines consist in multiple steps including quality control, filtering, alignment of sequences against genomic catalogs (genes, species, taxonomic levels, functional pathways, etc.). These pipelines are complex to use, time consuming and rely on a large number of parameters that often provide variability and impact the estimation of the microbiome elements. Training Deep Neural Networks directly from raw sequencing data is a promising approach to bypass some of the challenges associated with mainstream bioinformatics pipelines. Most of these methods use the concept of word and sentence embeddings that create a meaningful and numerical representation of DNA sequences, while extracting features and reducing the dimensionality of the data. In this paper we present an end-to-end approach that classifies patients into disease groups directly from raw metagenomic reads: metagenome2vec. This approach is composed of four steps (i) generating a vocabulary of k-mers and learning their numerical embeddings; (ii) learning DNA sequence (read) embeddings; (iii) identifying the genome from which the sequence is most likely to come and (iv) training a multiple instance learning classifier which predicts the phenotype based on the vector representation of the raw data. An attention mechanism is applied in the network so that the model can be interpreted, assigning a weight to the influence of the prediction for each genome. Using two public real-life data-sets as well a simulated one, we demonstrated that this original approach reaches high performance, comparable with the state-of-the-art methods applied directly on processed data though mainstream bioinformatics workflows. These results are encouraging for this proof of concept work. We believe that with further dedication, the DNN models have the potential to surpass mainstream bioinformatics workflows in disease classification tasks.

Keywords: Metagenomics, phenotype prediction, deep learning, embeddings, multiple instance learning.

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Authors: Seyed Abolhasan Naeini, Saeideh Mohammadi

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Site response has a profound effect on earthquake damages. Seismic interaction of urban tunnels with surface structures could also affect seismic site response. Here, we use FLAC 2D to investigate the interaction of a single tunnel and twin tunnels-surface structures on the site response. Soil stratification and properties are selected based on Line. No 7 of the Tehran subway. The effect of surface structure is considered in two ways: Equivalent surcharge and geometrical modeling of the structure. Comparison of the results shows that consideration of the structure geometry is vital in dynamic analysis and leads to the changes in the magnitude of displacements, accelerations and response spectrum. Therefore it is necessary for the surface structures to be wholly modeled and not just considered as a surcharge in dynamic analysis. The use of twin tunnel also leads to the reduction of dynamic residual settlement.

Keywords: Superstructure, tunnel, site response, surcharge, interaction.

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Authors: Gwanghee Heo, Geonhyeok Bang, Chunggil Kim, Chinok Lee

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This paper attempts to develop a wireless feedback control system as a primary step eventually toward a bio-inspired structure system where inanimate structure behaves like a life form autonomously. It is a standalone wireless control system which is supposed to measure externally caused structural responses, analyze structural state from acquired data, and take its own action on the basis of the analysis with an embedded logic. For an experimental examination of its effectiveness, we applied it on a model of two-span bridge and performed a wireless control test. Experimental tests have been conducted for comparison on both the wireless and the wired system under the conditions of Un-control, Passive-off, Passive-on, and Lyapunov control algorithm. By proving the congruence of the test result of the wireless feedback control system with the wired control system, its control performance was proven to be effective. Besides, it was found to be economical in energy consumption and also autonomous by means of a command algorithm embedded into it, which proves its basic capacity as a bio-inspired system.

Keywords: Structural vibration control, wireless system, MR damper, feedback control, embedded system.

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Authors: Adriana Souza M. Batista, Cláubia Pereira, Luiz O. Faria

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The irradiation of polymeric materials has received much attention because it can produce diverse changes in chemical structure and physical properties. Thus, studying the chemical and structural changes of polymers is important in practice to achieve optimal conditions for the modification of polymers. The effect of gamma irradiation on the crystalline structure of poly(vinylidene fluoride) (PVDF) has been investigated using differential scanning calorimetry (DSC) and X-ray diffraction techniques (XRD). Gamma irradiation was carried out in atmosphere air with doses between 100 kGy at 3,000 kGy with a Co-60 source. In the melting thermogram of the samples irradiated can be seen a bimodal melting endotherm is detected with two melting temperature. The lower melting temperature is attributed to melting of crystals originally present and the higher melting peak due to melting of crystals reorganized upon heat treatment. These results are consistent with those obtained by XRD technique showing increasing crystallinity with increasing irradiation dose, although the melting latent heat is decreasing.

Keywords: Differential scanning calorimetry, gamma irradiation, PVDF, X-ray diffraction technique.

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Authors: Sima Ziaee, Khosro Jafarpur

Abstract:

Among all mechanical joining processes, welding has been employed for its advantage in design flexibility, cost saving, reduced overall weight and enhanced structural performance. However, for structures made of relatively thin components, welding can introduce significant buckling distortion which causes loss of dimensional control, structural integrity and increased fabrication costs. Different parameters can affect buckling behavior of welded thin structures such as, heat input, welding sequence, dimension of structure. In this work, a 3-D thermo elastic-viscoplastic finite element analysis technique is applied to evaluate the effect of shell dimensions on buckling behavior and entropy generation of welded thin shells. Also, in the present work, the approximated longitudinal transient stresses which produced in each time step, is applied to the 3D-eigenvalue analysis to ratify predicted buckling time and corresponding eigenmode. Besides, the possibility of buckling prediction by entropy generation at each time is investigated and it is found that one can predict time of buckling with drawing entropy generation versus out of plane deformation. The results of finite element analysis show that the length, span and thickness of welded thin shells affect the number of local buckling, mode shape of global buckling and post-buckling behavior of welded thin shells.

Keywords: Buckling behavior, Elastic viscoplastic model, Entropy generation, Finite element method, Shell dimensions.

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Authors: Jahar Sarkar

Abstract:

In the present study, a steady-state simulation model has been developed to evaluate the system performance of a transcritical carbon dioxide heat pump system for simultaneous water cooling and heating. Both the evaporator (including both two-phase and superheated zone) and gas cooler models consider the highly variable heat transfer characteristics of CO2 and pressure drop. The numerical simulation model of transcritical CO2 heat pump has been validated by test data obtained from experiments on the heat pump prototype. Comparison between the test results and the model prediction for system COP variation with compressor discharge pressure shows a modest agreement with a maximum deviation of 15% and the trends are fairly similar. Comparison for other operating parameters also shows fairly similar deviation between the test results and the model prediction. Finally, the simulation results are presented to study the effects of operating parameters such as, temperature of heat exchanger fluid at the inlet, discharge pressure, compressor speed on system performance of CO2 heat pump, suitable in a dairy plant where simultaneous cooling at 4oC and heating at 73oC are required. Results show that good heat transfer properties of CO2 for both two-phase and supercritical region and efficient compression process contribute a lot for high system COPs.

Keywords: CO2 heat pump, dairy system, experiment, simulation model, validation.

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