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Discovering peptides and computational investigations of a multiepitope vaccine target Mycobacterium tuberculosis

Synthetic and Systems Biotechnology 2024年第3期9卷 391-405页

作者： Truc Ly nguyen Heebal Kim Department of Agricultural Biotechnology and Research Institute of Agriculture and Life Sciences Seoul National UniversitySeoul08826Republic of Korea Interdisciplinary Program in Bioinformatics Seoul National UniversitySeoul08826Republic of Korea eGnome Inc.Seoul05836Republic of Korea

Mycobacterium tuberculosis(MTB)is the causative agent of tuberculosis(TB),a prevalent airborne infectious *** the availability of the Bacille Calmette-Guerin vaccine,its global efficacy remains modest,and tuberculosis persists as a significant global public health *** this challenge and advancing towards the End MTB Strategy,we developed a multiepitope vaccine(MEV)based on immunoinformatics and compu-tational *** screening of MBT protein identified immune-dominant epitopes based on Major Histocompatibility Complex(MHC)allele binding,immunogenicity,antigenicity,allergenicity,toxicity,and cytokine *** epitopes were integrated into an MEV construct with adjuvant and linkers,forming a fully immunogenic vaccine *** analyses encompassed the evaluation of immunological and physicochemical properties,determination of tertiary structure,molecular docking with Toll-Like Receptors(TLR),molecular dynamics(MD)simulations for all atoms,and immune *** MEV comprises 534 amino acids,featuring 6 cytotoxic T lymphocyte,8 helper T lymphocyte,and 7 linear B lymphocyte epitopes,demonstrating high antigenicity and ***,molecular docking studies and triplicate MD simulations revealed enhanced interactions and stability of MEV with the TLR4 complex compared to *** addition,the immune simulation indicated the capacity to effectively induce elevated levels of an-tibodies and cytokines,emphasizing the vaccine’s robust immunogenic *** study presents a promising MEV against TB,exhibiting favorable immunological and physicochemical *** findings provide theoretical support for TB vaccine *** study aligns with the global initiative of the End MTB Strategy,emphasizing its potential impact on addressing persistent challenges in TB control.

关键词： Mycobacterium tuberculosis Tuberculosis Multiepitope vaccine Docking molecular Molecular dynamics simulation Immune simulation

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Advancing Wound Filling Extraction on 3D Faces:An Auto-Segmentation and Wound Face Regeneration Approach

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Computer Modeling in Engineering & Sciences 2024年第5期139卷 2197-2214页

作者： Duong Q.nguyen Thinh D.Le Phuong D.nguyen Nga T.K.Le H.nguyen-Xuan Department of Mathematics and Statistics Quy Nhon UniversityQuy Nhon City55100Viet Nam Applied Research Institute for Science and Technology Quy Nhon UniversityQuy Nhon City55100Viet Nam CIRTECH Institute HUTECH UniversityHo Chi Minh City72308Viet Nam

Facial wound segmentation plays a crucial role in preoperative planning and optimizing patient outcomes in various medical *** this paper,we propose an efficient approach for automating 3D facial wound segmentation using a two-stream graph convolutional *** method leverages the Cir3D-FaIR dataset and addresses the challenge of data imbalance through extensive experimentation with different loss *** achieve accurate segmentation,we conducted thorough experiments and selected a high-performing model from the *** selectedmodel demonstrates exceptional segmentation performance for complex 3D facial ***,based on the segmentation model,we propose an improved approach for extracting 3D facial wound fillers and compare it to the results of the previous *** method achieved a remarkable accuracy of 0.9999993% on the test suite,surpassing the performance of the previous *** this result,we use 3D printing technology to illustrate the shape of the wound *** outcomes of this study have significant implications for physicians involved in preoperative planning and intervention *** automating facial wound segmentation and improving the accuracy ofwound-filling extraction,our approach can assist in carefully assessing and optimizing interventions,leading to enhanced patient ***,it contributes to advancing facial reconstruction techniques by utilizing machine learning and 3D bioprinting for printing skin tissue *** source code is available at https://***/SIMOGroup/WoundFilling3D.

关键词： 3D printing technology face reconstruction 3D segmentation 3D printed model

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Comparative Chemical Research in Essential Oils from Six Apiaceae Species Growing in the Northern Region of Vietnam

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Phyton-International Journal of Experimental Botany 2024年第7期93卷 1677-1687页

作者： nguyen Quang Hung nguyen Thanh Tung nguyen Phuong Hanh Chu Thi Thu Ha nguyen Thi Nhung nguyen Thai An Vu Xuan Giang Luong Van Hao Oleh Koshovyi Ain Raal Institute of Ecology and Biological Resources Vietnam Academy of Science and Technology(VAST)Cau GiayHa Noi100000Viet Nam Graduate University of Science and Technology Vietnam Academy of Science and Technology(VAST)Cau GiayHa Noi100000Viet Nam Department of Pharmacognosy Faculty of Pharmacognosy and Traditional MedicineHanoi University of PharmacyHoan KiemHa Noi100000Viet Nam Sa Pa Research Center of Medicinal Materials National Institute of Medicinal MaterialsDien Bien PhuSa PaLao Cai330000Viet Nam Institute of Pharmacy Faculty of MedicineUniversity of TartuTartu50411Estonia

Our study aimed to compare the essential oil(EO)concentration and composition of several Apiaceae species growing in the Northern region of *** yields of EOs from materials ranged from 0.03%(root EO of Angelica acutiloba and aerial parts EO of Heracleum bivittatum)-0.27%(leaf EO of Xyloselinum vietnamense).Gas chromatography-mass spectrometry(GC-MS)allowed the identiﬁcation of 74 components in the EOs of six Apiaceae species,making up 94.4%–100.0%of the *** EO from Angelica acutiloba,(Z)-ligustilide accounted for an extremely large proportion(94.9%).EO of Angelica pubescens was dominated by six character-istic components includingα-pinene(21.5%),β-phellandrene(18.1%),p-cymene(12.2%),3-methylnonane(8.7%),o-cymene(8.1%),and D-sylvestrene(6.2%).The EO from Cryptotaenia japonica was characterized by high amounts ofα-selinene(48.7%),β-selinene(23.7%),and trans-β-farnesene(5.4%).The EOs from leaves and stems of Xyloselinum vietnamense were characterized by high concentrations of sabinene(69.8%and 33.8%),4-terpineol(8.7%and 7.4%)andβ-pinene(4.0%and 6.5%)while EOs from aerial parts and root of Xylo-selinum leonidii comprise four characteristic monoterpenes includingα-pinene(28.2%and 52.8%),β-pinene(7.9%and 10.3%),β-phellandrene(7.6%and 15.3%),and sabinene(3.0%and 4.1%).Additionally,cryptone is also one of the major components in the EO of Xyloselinum leonidii(13.2%in the aerial parts oil and 2.8%in the root oil).In the EOs isolated from the aerial parts and root of Heracleum bivittatum,α-pinene(22.5%and 70.2%)andβ-pinene(43.2%and 20.0%)were the predominant *** appeared in the EO from aerial parts of Heracleum bivittatum with a relatively high concentration(13.5%)while bornyl acetate(5.1%)was also one of the main components in the EO from its aerial parts but was not detected in other Apiaceae species in the present *** databases help identify and control the quality of plant material studied from the family Apiaceae growing in Vietnam.

关键词： Apiaceae essential oil terpenoids gaschromatography-mass spectrometry

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CBE Clima Tool:A free and open-source web application for climate analysis tailored to sustainable building design

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Building Simulation 2024年第3期17卷 493-508页

作者： Giovanni Betti Federico Tartarini Christine nguyen Stefano Schiavon Center for the Built Environment University of California BerkeleyBerkeleyUSA Berkeley Education Alliance for Research in Singapore SingaporeSingapore Heat and Health Research Incubator Faculty of Medicine and HealthThe University of SydneyCamperdownAustralia College of Letters and Sciences University of California BerkeleyBerkeleyUSA

Climate-responsive building design holds immense potential for enhancing comfort,energy efficiency,and environmental ***,many social,cultural,and economic obstacles might prevent the wide adoption of designing climate-adapted *** of these obstacles can be removed by enabling practitioners to easily access,visualize and analyze local climate *** CBE Clima Tool(Clima)is a free and open-source web application that offers easy access to publicly available weather files and has been created for building energy simulation and *** provides a series of interactive visualizations of the variables contained in the EnergyPlus Weather Files and several derived ones like the UTCI or the adaptive comfort *** is aimed at students,educators,and practitioners in the architecture and engineering *** its inception,Clima’s user base has exhibited robust growth,attracting over 25,000 unique users annually from across 70 *** tool is poised to revolutionize climate-adaptive building design,transcending geographical boundaries and fostering innovation in the architecture and engineering fields.

关键词： architectural design climate analysis sustainable building design web application building energy simulation open-source software

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Truly optimal semi-active damping to control free vibration of a single degree of freedom system

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Theoretical & Applied Mechanics Letters 2024年第2期14卷 142-145页

作者： Viet Duc La Ngoc Tuan nguyen Institute of Mechanics Vietnam Academy of Science and TechnologyHanoi 10000Vietnam Graduate University of Science and Technology Vietnam Academy of Science and TechnologyHanoi 10000Vietnam

This paper studies a single degree of freedom system under free vibration and controlled by a general semiactive damping.A general integral of squared error is considered as the performance index.A one-time switching damping controller is proposed and *** pontryagin maximum principle is used to prove that no other form of semi-active damping can provide the better performance than the proposed one-time switching damping.

关键词： Analytical optimization Quadratic integral Lyapunov equation Pontryagin maximum principle

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Exact solution for thermal vibration of multi-directional functionally graded porous plates submerged in fluid medium

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Defence Technology（防务技术） 2024年第5期35卷 77-99页

作者： Quoc-Hoa Pham Van Ke Tran Phu-Cuong nguyen Faculty of Engineering and Technology Nguyen Tat Thanh UniversityHo Chi Minh CityViet Nam Faculty of Mechanical Engineering Le Quy Don Technical UniversityHanoiViet Nam Advanced Structural Engineering Laboratory Department of Structural EngineeringFaculty of Civil EngineeringHo Chi Minh City Open UniversityHo Chi Minh CityViet Nam

An analytical method for analyzing the thermal vibration of multi-directional functionally graded porous rectangular plates in fluid media with novel porosity patterns is developed in this *** properties of MFG porous plates change according to the length,width,and thickness directions for various materials and the porosity distribution which can be widely applied in many fields of engineering and defence ***,new porous rules that depend on spatial coordinates and grading indexes are proposed in the present *** Hamilton's principle and the refined higher-order shear deformation plate theory,the governing equation of motion of an MFG porous rectangular plate in a fluid medium(the fluid-plate system)is *** fluid velocity potential is derived from the boundary conditions of the fluid-plate system and is used to compute the extra *** GalerkinVlasov solution is used to solve and give natural frequencies of MFG porous plates with various boundary conditions in a fluid *** validity and reliability of the suggested method are confirmed by comparing numerical results of the present work with those from available works in the *** effects of different parameters on the thermal vibration response of MFG porous rectangular plates are studied in *** findings demonstrate that the behavior of the structure within a liquid medium differs significantly from that within a vacuum ***,they offer appropriate operational approaches for the structure when employed in various mediums.

关键词： Plate-fluid contact Galerkin Vlasov's method Multi-directional functionally graded plate Novel porosity Thermal vibration Refined higher-order shear deformation theory

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Anti‐sloshing control:Flatness‐based trajectory planning and tracking control with an integrated extended state observer

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IET Cyber-Systems and Robotics 2024年第3期6卷 31-48页

作者： Khanh nguyen Viet Minh Do Duc Thanh Cao Duc Tung Lam nguyen School of Electrical and Electronic Engineering Hanoi University of Science and TechnologyHanoiVietnam Vietnam Maritime University HaiphongVietnam

The phenomenon of sloshing causes a significantly negative impact on a wide range of industries.A time‐optimal flatness‐based trajectory planning and Lyapunov‐based model predictive control(LMPC)is proposed for trajectory tracking of a transmitting cylindrical container filled with ***,this research presents an equivalent discrete model based on a mass‐spring‐damper ***,after the flatness of the adopted non‐linear model for 2D is established,time‐optimal trajectories are introduced.A control method called LMPC is shown to solve the problem of orbital tracking,which allows setting limits for state *** addition,to ensure system performance,a linear extended state observer(LESO)is integrated to cope with system ***,the efficiency of the proposed approach for liquid sloshing suppression and tracking is illustrated by simulations.

关键词： control dynamic model motion planning

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An isogeometric approach to static and transient analysis of fluid-infiltrated porous metal foam piezoelectric nanoplates with flexoelectric effects and variable nonlocal parameters

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Frontiers of Structural and Civil Engineering 2024年第3期18卷 461-489页

作者： Quoc-Hoa PHAM Van Ke Tran Phu-Cuong nguyen Faculty of Engineering and Technology Nguyen Tat Thanh UniversityHo Chi Minh City 700000Vietnam Faculty of Mechanical Engineering Le Quy Don Technical UniversityHanoi 100000Vietnam Advanced Structural Engineering Laboratory Department of Structural EngineeringFaculty of Civil EngineeringHo Chi Minh City Open UniversityHo Chi Minh City 700000Vietnam

In this work,a novel refined higher-order shear deformation plate theory is integrated with nonlocal elasticity theory for analyzing the free vibration,bending,and transient behaviors of fluid-infiltrated porous metal foam piezoelectric nanoplates resting on Pasternak elastic foundation with flexoelectric *** analysis(IGA)and the Navier solution are applied to the *** innovation in the present study is that the influence of the in-plane variation of the nonlocal parameter on the free and forced vibration of the piezoelectric nanoplates is investigated for the first *** nonlocal parameter and material characteristics are assumed to be material-dependent and vary gradually over the thickness of *** on Hamilton’s principle,equations of motion are built,then the IGA approach combined with the Navier solution is used to analyze the static and dynamic response of the ***,we investigate the effects of the porosity coefficients,flexoelectric parameters,elastic stiffness,thickness,and variation of the nonlocal parameters on the mechanical behaviors of the rectangular and elliptical piezoelectric nanoplates.

关键词： isogeometric analysis fluid-infiltrated porous piezoelectric nanoplates static and transient analysis flexoelectric effect variable nonlocal parameters

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Building the ARIMA Model for Forecasting the Production of Vietnam’s Coffee Export

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Journal of Applied Mathematics and Physics 2024年第4期12卷 1237-1246页

作者： Duy Quang Phung Quoc Thang Trinh Quang truong Do Ngan Giang nguyen Van Ha nguyen Gia Khiem Ngo Thi Minh Ngoc Tran Faculty of Technology and Data Science Foreign Trade University Hanoi Vietnam School of Economics and International Business Foreign Trade University Hanoi Vietnam

Coffee is a significant industry, accounting for 3% of Vietnam’s GDP, with annual export turnover consistently exceeding USD 3 billion. Despite global economic challenges affecting purchasing power at various times, Vietnam’s coffee exports in December 2023 continued to surge, reaching the highest level in the past 9 months at 190,000 tons, a 59.3% increase compared to November 2023, but still a slight 3.5% decrease from the same period last year. The export turnover reached USD 538 million, a 51% increase from November 2023 and a 26.4% increase from the same period last year. Therefore, forecasting the coffee export volume holds significant importance for coffee producers nationwide. This research employs the Box-Jenkins method to construct an ARIMA model for forecasting Vietnam’s coffee export volume based on annual data published by the General Statistics Office. Results indicate that among the models considered, the ARIMA(1, 1, 2) model is the most suitable. The study also provides short-term forecasts for Vietnam’s coffee export volume. However, the current model is limited to forecasting and is not yet optimized, as the assumed linearity in the model is a simplification.

关键词： ARIMA Forecasting Coffee Export Volume Data Science

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Influence of different land-use types on selected soil properties related to soil fertility in A Luoi District,Thua Thien Hue,Vietnam

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Soil Ecology Letters 2024年第1期6卷 131-140页

作者： Khoa Phuc nguyen Tan Trong Tran Huy Dinh Le Phuong Thuy nguyen Hien Thao Thi Pham Dien Thanh nguyen Ngu Huu nguyen University of Agriculture and Forestry Hue UniversityHue CityThua Thien Hue 52000Vietnam School of Biotechnology Tan Tao UniversityTan Duc ECityDuc HoaLong An850000Vietnam

Land use type affects the physicochemical properties of *** value of OM and TN is high in acacia *** acidity of soil is considered a serious constraint for *** cash crops are acacia,cassava,banana,rice and *** fertility is affected by land-use types and land management,which exacerbates soil erosion and various other forms of soil degradation in the mountainous regions of *** study was conducted in A Luoi District,Thua Thien Hue,Vietnam to identify the effects of land-use types on specific soil physicochemical characteristics related to soil *** physicochemical properties,such as organic matter(OM),total nitrogen(TN),total phosphorous(TP),and K+were significantly affected by land-use *** results showed that the soils were sandy in rice but clay loam for acacia and *** mean bulk density value of acacia soil was significantly greater than that of other *** were higher in the acacia soils than those in the rice,maize,and banana *** OM content was significantly higher in the acacia,cassava,and banana soils than those in the rice and maize *** mean of exchangeable K+in the rice soil was higher compared to those in other soils and was affected by land-use *** high exchangeable acidity content in the soils was probably due to intensive ***,both land use type and management did not affect the CEC ***,the inappropriate land use caused the disturbance of soil physicochemical properties,indicating that the conditions of rice and maize soils are becoming worse than acacia ***,lowering the intensity of cultivation,adopting incorporated soil fertility management,and applying organic fertilizer should preserve the existing conditions and enhance soil properties.

关键词： Land-use types soil characteristics soil frility suitable crop Vietnam

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