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Search results for: MOLECULAR DYNAMICS METHOD
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Method of lines for physiologically structured models with diffusion
PublicationWe deal with a size-structured model with diffusion. Partial differential equations are approximated by a large system of ordinary differential equations. Due to a maximum principle for this approximation method its solutions preserve positivity and boundedness. We formulate theorems on stability of the method of lines and provide suitable numerical experiments.
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Transcriptome Dynamics Underlying Planticine®-Induced Defense Responses of Tomato (Solanum lycopersicum L.) to Biotic Stresses
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Molecular Modeling of the Neurohypophyseal Receptor/Atosiban Complexes
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Multigap superconducting state in molecular metallic hydrogen
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MOLECULAR SIMULATIONS OF NEOCARZINOSTATIN CHROMOPHORE RELEASE MECHANISM
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A ferrocene-templated Pd-bearing molecular reactor
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Molecular Modelling of the Neurophysin II/Vasopressin Complex
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Comment on “Molecular Origin of Anticooperativity in Hydrophobic Association”
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Molecular simulation study of cooperativity in hydrophobic association
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Coherent electron transport in hydrocarbon molecular devices
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Hubbard operators approach to the transport in molecular junctions
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Molecular basis of TRF proteins and their interactions with peptides
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Molecular Classification of Low-Grade Diffuse Gliomas
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Professor Edward Borowski and molecular aspects of chemotherapy.
PublicationPrzedstawiono sylwetkę naukową i krótkie podsumowanie najważniejszych osiągnięć badawczych profesora Edwarda Borowskiego. Profesor Borowski jest autorem lub współautorem około 800 publikacji naukowych oraz 70 patentów, a jego prace były cytowane ponad 1100 razy. Do najważniejszych osiągnięć prof. Borowskiego i Jego zespołu naukowego należy zaliczyć: izolację i charakterystykę antybiotyków peptydowych, tetainy i edeiny oraz antybiotyków...
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Do positrons measure atomic and molecular diameters?
PublicationWe report on density functional calculations (DFT) of elastic integral scattering cross-sections for positron collisions with argon, krypton, nitrogen and methane. The long-range asymptotic polarization potential is described using higher-order terms going much beyond an induced dipole potential (−α / r 4) while the short-range interaction is modeled by two different forms of electron – positron correlation potential (Boroński-Nieminen...
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Parametric method for evaluating optimal ship deadweight
PublicationThe paper presents a method of choosing the optimal value of the cargo ships deadweight. The method may be useful at the stage of establishing the main owners requirements concerning the ship design parameters as well as for choosing a proper ship for a given transportation task. The deadweight is determined on the basis of a selected economic measure of the transport effectiveness of ship – the Required Freight Rate (RFR). The...
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Fractional neutron point kinetics equations for nuclear reactor dynamics – Numerical solution investigations
PublicationThis paper presents results concerning numerical solutions to a fractional neutron point kinetics model for a nuclear reactor. The paper discusses and expands on results presented in (Espinosa-Paredes et al., 2011). The fractional neutron point kinetics model with six groups of delayed neutron precursors was developed and a numerical solution using the Edwards’ method was proposed (Edwards et al., 2002). The mathematical model...
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Electrochemical, theoretical and surface physicochemical studies of the alkaline copper corrosion inhibition by newly synthesized molecular complexes of benzenediamine and tetraamine with π acceptor
PublicationTwo charge transfer complexes, namely [(BDAH)+(PA−)] CT1 [(BTAH)2+(PA−)2] and CT2 (BDAH = 1,2-benzenediamine, BTAH = 1,2,4,5-benzenetetramine, and PA− = 2,4,6-trinitrophenolate), were synthesized and fully characterized using various spectroscopic techniques. CT1 and CT2 were tested as inhibitors to effectively control the uniform and anodic corrosion processes of copper in an alkaline electrolyte (1.0 M KOH) using various electrochemical...
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A random signal generation method for microcontrollers with DACs
PublicationA new method of noise generation based on software implementation of a 7-bit LFSR based on a common polynomial PRBS7 using microcontrollers equipped with internal ADCs and DACs and a microcontroller noise generator structure are proposed in the paper. Two software applications implementing the method: written in ANSI C and based on the LUT technique and written in AVR Assembler are also proposed. In the method the ADC results are...
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A method of measuring RLC components for microcontroller systems
PublicationA new method of measuring RLC components for microcontroller systems dedicated to compact smart impedance sensors based on a direct sensor-microcontroller interface is presented. In the method this direct interface composed of a reference resistor connected in series with the tested sensor impedance is stimulated by a square wave generated by the microcontroller, and then its voltage response is sampled by an internal ADC of the...
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A METHOD OF TRUST MANAGEMENT IN WIRELESS SENSOR NETWORKS
PublicationThe research problem considered in this paper is how to protect wireless sensor networks (WSN) against cyber-threats by applying trust management and how to strengthen network resilience to attacks targeting the trust management mechanism itself. A new method, called WSN Cooperative Trust Management Method (WCT2M), of distributed trust management in multi-layer wireless sensor networks is proposed and its performance is evaluated....
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Local basis function method for identification of nonstationary systems
PublicationThis thesis is focused on the basis function method for the identification of nonstationary processes. The first chapter describes a group of models that can be identified using the basis function method. The next chapter describes the basic version of the basis function method, including its algebraic and statistical properties. The following section introduces the local basis function (LBF) method: its properties are described...
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The dispersive micro-solid phase extraction method for MS-based lipidomics of human breast milk*
PublicationA simple and rapid microextraction method ensuring high lipidome coverage was developed for liquid chromatography mass spectrometry (LC-MS)-based lipidomics of human breast milk. The dispersive microsolid phase extraction (D-µ-SPE) technique, coupled with the design of experiment (DoE) method, enabled the study of the influence of several conditions (desorption solvent, stationary phase ratio, and sorption and desorption time)...
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The Dynamical Projectors Method Hydro and Electrodynamics
PublicationThe dynamical projectors method proves to reduce a multicomponent problem to the simplest one-component problem with its solution determined by specific initial or boundary conditions. Its universality and application in many different physical problems make it particularly useful in hydrodynamics, electrodynamics, plasma physics, and boundary layer problems. A great variety of underlying mechanisms are included making this book...
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Spectral Finite Element Method in Condition Monitoring and Damage Detection
PublicationIt is well known that the dynamic behaviour of engineering structures may carry very important and crucial information that can be further used for the assessment of their condition as well as detection of any damage induced. The current interest in monitoring techniques based on the propagation of guided elastic waves requires that numerical techniques used for modelling the phenomena associated must shift into the realm of high...
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An adaptive-noise Augmented Kalman Filter approach for input-state estimation in structural dynamics
PublicationThe establishment of a Digital Twin of an operating engineered system can increase the potency of Structural Health Monitoring (SHM) tools, which are then bestowed with enhanced predictive capabilities. This is particularly relevant for wind energy infrastructures, where the definition of remaining useful life is a main driver for assessing the efficacy of these systems. In order to ensure a proper representation of the physical...
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Study on population dynamics for triple-linked food chain using a simulation-based approach
PublicationThe procedures based on simulation have become a feasible testing method that does not require investing valuable resources to create a concrete prototype, especially with the increasing computational power of computers. Thus, design changes can be adopted and design errors can be fixed before it is too late. Simulation turns to be a cheap, safe and often more acceptable from an ethical perspective. In our work we summarize the...
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Molecular biaxiality determines the helical structure – infrared measurements of the molecular order in the nematic twist-bend phase of difluoro terphenyl dimer
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Analysis of measurement uncertainty for contact-less method used to measure the position of catenary contact wire, performed with the use of Monte Carlo method
PublicationCurrently the majority of main railway lines in Europe are electrified, and electric trains have the biggest share in the entire amount of rail transport. Reliability of electrified railways is closely related to the issue of supplying traction vehicles with energy. The problems connected with diagnostics of energy consumption node, namely the contact line and the current collector, are therefore of fundamental importance for maintaining...
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A method to determine the tightening sequence for standing rigging of a mast
PublicationThe article proposes an alternative method to determine the sequence of generation of pre-tension forces in standing rigging of a mast. The proposed approach has been verified on both a virtual simulation experiment and laboratory tests. In this method, the desired tension values are obtained using the influence matrix which allows to calculate the effect of tension change in an individual rope on the tension distribution in the...
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Hybridization of the FDTD method with use of the discrete Green's function
PublicationIn this contribution, a hybrid technique is presented which combines the finite-difference time-domain (FDTD) method and the discrete Green's function (DGF) formulation of this method. FDTD is a powerful technique for the analysis of complex penetrable objects but its application is not efficient when the computational domain includes many free-space cells. Therefore, the hybrid method was developed which is applicable to complex...
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A Simplistic Downlink Channel Estimation Method for NB-IoT
PublicationThis paper presents a downlink channel estimation method intended for a Narrowband Internet of Things (NB-IoT) access link. Due to its low computational complexity, this method is well suited for energy-efficient IoT devices, still providing acceptable reception quality in terms of signal-to-noise (SNR) performance. This paper describes the physical layer of NB-IoT within the scope of channel estimation, and also reviews existing...
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Are the short cationic lipopeptides bacterial membrane disruptors? Structure-Activity Relationship and molecular dynamic evaluation
PublicationShort cationic lipopeptides are amphiphilic molecules that exhibit antimicrobial activity mainly against Grampositives. These compounds bind to bacterial membranes and disrupt their integrity. Here we examine the structure-activity relation (SAR) of lysine-based lipopeptides, with a prospect to rationally design more active compounds. The presented study aims to explain how antimicrobial activity of lipopeptides is affected by...
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Bearing capacity of the working platform with kinematic method
PublicationBearing capacity of the working platform for heavy tracks was analysed using Distinct Layout Optimization (DLO) method. The platform layer constructed from cohesionless soils is resting on weak cohesive subgrade. Different thickness of the platform, its effective angle of internal friction and undrained shear strength of the soft soil were taken into consideration. Kinematic method permits different failure mechanisms to be analyzed....
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The Point Estimate Method in a Reticulated Shell Reliability Analysis
PublicationThe objective of this paper is to present an application of the point estimate method (PEM) to determine the probabilistic moments for engineering structures. Reliability analysis is illustrated by two examples: an estimation of the critical force in linear elastic buckling analysis and a reticulated shell limit load determinations. Calculations were also made using Monte Carlo method. It has been shown the practical usefulness...
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Effect of the Catalytic Center on the Electron Transfer Dynamics in Hydrogen-Evolving Ruthenium-Based Photocatalysts Investigated by Theoretical Calculations
PublicationThe light-induced relaxation pathways in the molecular photocatalyst [(tbbpy)2Ru(tpphz)PtCl2]2+ are investigated with time-dependent density functional theory calculations together with the Marcus theory of electron transfer (ET). The calculations show that metal (Ru) to ligand (tpphz) charge transfer (MLCT) triplet states are populated following an excitation in the longer wavelength range of the absorption spectrum, but that an...
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Molecular basis of the osmolyte effect on protein stability: a lesson from the mechanical unfolding of lysozyme
PublicationOsmolytes are a class of small organic molecules that shift the protein folding equilibrium. For this reason, they are accumulated by organisms under environmental stress, and find applications in biotechnology where proteins need to be stabilized or dissolved. However, despite years of research, debate continues over the exact mechanisms underpinning the stabilizing and denaturing effect of osmolytes. Here, we simulated the mechanical...
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Solubility of dapsone in deep eutectic solvents: Experimental analysis, molecular insights and machine learning predictions
PublicationBackground. Dapsone (DAP) is an anti-inflammatory and antimicrobial active pharmaceutical ingredient used to treat, e.g., AIDS-related diseases. However, low solubility is a feature hampering its efficient use. Objectives. First, deep eutectic solvents...
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Evaluation of possibilities of genotyping of Candida glabrata clinical isolates with RAPD-PCR method and microsatellite analysis
PublicationThe aim of the study was to compare the discriminatory power of RAPD-PCR method using RSD10 primer and microsatellite (GACA)4 analysis for genotyping clinical isolates of C. glabrata. Isolates were received from patients of two Polish hospitals: Children's Memorial Health Institute in Warsaw (n=17) and Medical University of Gdansk (n=37). Species identification was confirmed by two phenotypic methods: growth on chromagar plates...
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A new and convenient method for the preparation of functionalized phosphorothioates
PublicationA new and efficient method for the synthesis of alkyl and aryl phosphorothioates in high yields via the reaction of (5,5-dimethyl-2-thioxo-1,3,2-dioxaphosphorin-2-yl)disulfanyl derivatives with trimethyl phosphite was developed.
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Processing of point cloud data retrieved from terrestrial laser scanning for structural modeling by Finite Element Method
PublicationFinite Element Method is one most popular contemporary method of strength analysis. The method is an advanced method for solving differential equations, based on discretization, which means that area is divided into finite elements. Each finite element has a solution of the equation approximated by specific functions and performing the actual calculations only for nodes of this division. Finite Element Method is widely used in...
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The contribution of Hans von Wartenberg to the development of the Czochralski method
PublicationThe contribution of Hans von Wartenberg to the development of the Czochralski Method for pulling single crystals is often overlooked. He was its earliest adopter, having introduced the use of seed crystals, and his detailed description of the method was the basis for its subsequent dissemination.
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Rothe’s method for physiologically structured models with diffusion
PublicationWe consider structured population models with diffusion and dynamic boundary conditions. The respective approximation, called Rothe’s method, produces positive and exponentially bounded solutions. Its solutions converge to the exact solution of the original PDE.
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Modelling method for a class of distributed-lumped parameter systems
PublicationThe paper presents an alternative approach for modelling and order reduction of continuous system. The proposed methodology combines application of two methods: the modal decomposition method and the rigid finite element method. The given continuous structure is divided into 1D continuous substructures. For each 1D substructure modal decomposition and reduction procedure is applied. Interactions between substructures are described...
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Dissolution of Nb-doped hydroxyapatite prepared via low-temperature mechanochemical method: Spectroscopy studies
PublicationCalcium phosphate glass ceramics with nominal hydroxyapatite stoichiometry doped with niobium were synthesized using simple as well as low-temperature mechanochemical method and then in the form of compressed pellet were submitted to the static dissolution process in distilled water for one month. The results of structural analysis, performed mainly on the base of spectroscopic methods such as: infrared absorption spectroscopy,...
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Adaptive dynamic control allocation for over-actuated dynamic positioning system based on backstepping method in case of thruster faults
PublicationThe objective of the research considered in this paper is dynamic positioning of a nonlinear over-actuated marine vessel in the presence of limited information about thruster forces. First, the adaptive backstepping method is used to estimate the input matrix which will compensate partial loss of actuator effectiveness in the presence of actuator dynamics. Then, the adaptive commanded virtual forces and moment are allocated into...
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Accuracy of the Discrete Green's Function Formulation of the FDTD Method
PublicationThis paper reports an evaluation of the accuracy of the discrete Greens function (DGF) formulation of the finite-difference time-domain (FDTD) method. Recently, the closed-form expression for the DGF and its efficient numerical implementation were presented, which facilitates applications of the DGF in FDTD simulations of radiation and scattering problems. So far, the accuracy of the DGF formulation of the FDTD method has been...
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The point estimate method in a reticulated shell reliability analysis
PublicationThe objective of this paper is to present an application of the point estimate method (PEM) that can determine the probabilistic moments for engineering structures. The method is reasonably robust and adequately accurate for a wide range of practical problems. It is a special case of numerical quadrature based on orthogonal polynomials. The main advantage of this method is that, unlike FORM or SORM, it is not necessary to carry...
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Spectroscopy and Dynamics of Cryptolepine in the Nanocavity of Cucurbit[7]uril and DNA
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Vegetation Dynamics and Diversity Status in Mughal Garden Wah, Pakistan
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