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Wyniki wyszukiwania dla: casp, covid, ema, model accuracy, protein structure prediction, sars-cov-2
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Analysis of Reconstituted Tripartite Complex Supports Avidity-based Recruitment of Hsp70 by Substrate Bound J-domain Protein
PublikacjaHsp70 are ubiquitous, versatile molecular chaperones that cyclically interact with substrate protein(s). The initial step requires synergistic interaction of a substrate and a J-domain protein (JDP) cochaperone, via its J-domain, with Hsp70 to stimulate hydrolysis of its bound ATP. This hydrolysis drives conformational changes in Hsp70 that stabilize substrate binding. However, because of the transient nature of substrate and JDP...
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Dehydration converts DsbG crystal diffraction from low to high resolution
PublikacjaDiffraction quality crystals are essential for crystallographic studies of protein structure, and the production of poorly diffracting crystals is often regarded as a dead end in the process. Here we show a dramatic improvement of poorly diffracting DsbG crystals allowing high-resolution diffraction data measurement. Before dehydration, the crystals are fragile and the diffraction pattern is streaky, extending to 10 Å resolution....
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IMPACT OF THE FINANCING STRUCTURE ON EFFICIENCY OF HEALTHCARE SYSTEMS IN THE FORMER EASTERN BLOC COUNTRIES
PublikacjaOut-of-pocket expenditures are a significant barrier in accessing health services. This paper aims to analyse the structure of financing system in the context of the performance indicators of healthcare systems. The study was conducted for the 28 countries of the former Eastern bloc in the years 2000 and 2013, based on data from the World Health Organization. In the DEA-CCR input-oriented model, inputs are the percentage share...
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Role of miR-15b/16–2 cluster network in endometrial cancer: An in silico pathway and prognostic analysis
PublikacjaEndometrial cancer (EC) is the second most common cancer in women. A large number of human cancers exhibit dysregulation of microRNA expression including EC. MiR-15b/16–2 is one of the best-known miRNA clusters that is expressed in many types of cancer tissues. Herein, we analyzed the expression of individual miR-15b/16–2 cluster members, its paralogues, and their target network analysis, as well as their prognostic significance...
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Ahmer Bin Hafeez
OsobyI have experience in Computational Biology, particularly bioinformatics, homology modeling, phylogenetics, structural biology, and drug discovery. Furthermore, I have hands-on experience with Bioinformatics software. Currently, my interest lies in translatable omics studies and drug discovery against novel protein targets involved in cancer and infectious diseases and Host-Pathogen PPIs. My aim involves the use of computational...
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Nonlinear Model of Synchronous Generator for Autonomous Electrical Power Systems Analysis
PublikacjaThis paper presents the nonlinear lookup table model for synchronous generator (SG) analysis. The saturation effects of the SG magnetic circuit have been considered. The saturated characteristic of the SG magnetic circuit are based on the open circuit saturation curve for magnetizing inductances. The model has been implemented into the Synopsys/Saber software using the MAST modelling language. To implement the no-load voltage characteristic...
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Novel 5-Substituted 2-(Aylmethylthio)-4-chloro-N-(5-aryl-1,2,4-triazin-3-yl)benzenesulfonamides: Synthesis, Molecular Structure, Anticancer Activity, Apoptosis-Inducing Activity and Metabolic Stability
PublikacjaA series of novel 5-substituted 2-(arylmethylthio)-4-chloro-N-(5-aryl-1,2,4-triazin-3-yl) benzenesulfonamide derivatives 27–60 have been synthesized by the reaction of aminoguanidines with an appropriate phenylglyoxal hydrate in glacial acetic acid. A majority of the compounds showed cytotoxic activity toward the human cancer cell lines HCT-116, HeLa and MCF-7, with IC50 values below 100 M. It was found that for the analogues 36–38...
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Reply to “Comment on ‘Crystal Structure Prediction by Global Optimization as a Tool for Evaluating Potentials: Role of the Dipole Moment Correction Term in Successful Predictions'” by B. P. van Eijck and J. Kroon
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The structure of demand and its economic consequences for urban transport
PublikacjaThe structure of demand for urban transport services, determined by the share of passengers entitled to free and reduced fares, is an important factor influencing its economic condition. The aim of this article is to present the results of research into the structure of demand for urban transport as well as its economic consequences. The article begins by considering the nature of the determinants and consequences of the public...
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Customization of UWB 3D-RTLS Based on the New Uncertainty Model of the AoA Ranging Technique
PublikacjaThe increased potential and effectiveness of Real-time Locating Systems (RTLSs) substantially influence their application spectrum. They are widely used, inter alia, in the industrial sector, healthcare, home care, and in logistic and security applications. The research aims to develop an analytical method to customize UWB-based RTLS, in order to improve their localization performance in terms of accuracy and precision. The analytical...
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Resonance Frequency Calculation of a Multilayer and Multipatch Spherical Microstrip Structure Using a Hybrid Technique
PublikacjaThis communication offers a rigorous analysis of the resonance frequency problem of a spherical microstrip structure mounted on a multilayer, dielectric-coated metallic sphere, with an electrically small radius. The structure consists of single or multiple metallic patches with arbitrary shapes. A full-wave analysis is employed with the use of proposed hybrid approach, combining the finite-difference technique with a spectral domain...
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An Algorithm for Listing All Minimal 2-Dominating Sets of a Tree
PublikacjaWe provide an algorithm for listing all minimal 2-dominating sets of a tree of order n in time O(1.3248n) . This implies that every tree has at most 1.3248 n minimal 2-dominating sets. We also show that this bound is tigh.
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Model of Rules for IT Organization Evolution
PublikacjaThe aim of this paper is to introduce the Model of Rules for IT Organization Evolution which shall be in compliance with the Generic IT Organization Evolution Model. Due to its general nature, a set of practical adjustments is proposed in order to adapt the Generic Model to the IT Service Management domain. Further, two sets of rules describing the evolution of the IT Service Management area are defined based on two types of rules...
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Assessing the Risk in Urban Public Transport for Epidemiologic Factors
PublikacjaPandemics have presented new challenges for public transport organisers and operators. New diseases (e.g., influenza H1N1, severe acute respiratory syndrome—SARS, as well as, more recently, SARS-CoV-2) increase the need for new protection measures to prevent epidemic outbreaks in public transport infrastructure. The authors’ goal is to present a set of actions in the area of public transport that are adjusted to different levels...
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Explicit solvent repulsive scaling replica exchange molecular dynamics ( RS‐REMD ) in molecular modeling of protein‐glycosaminoglycan complexes
PublikacjaGlycosaminoglcyans (GAGs), linear anionic periodic polysaccharides, are crucial for many biologically relevant functions in the extracellular matrix. By interacting with proteins GAGs mediate processes such as cancer development, cell proliferation and the onset of neurodegenerative diseases. Despite this eminent importance of GAGs, they still represent a limited focus for the computational community in comparison to other classes...
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On the electronic structure of methyl butyrate and methyl valerate
PublikacjaWe present novel results of the analysis of the electronic structure of two aliphatic esters: methyl butyrate and methyl valerate. High-resolution photoabsorption spectra were collected and analyzed over the energy range 4.0–10.8 eV and showed for both the molecules not only a clear band of the HOMO to LUMO transition, but also vibronic structure associated with the first Rydberg-valence transition. Photoelectron spectra recorded...
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Examination method of the effect of the incidence angle of laser beam on distance measurement accuracy to surfaces with different colour and roughness
PublikacjaInterest in the influence of the incidence angle of a laser beam to distance measurements can be seen in many areas of science and technology: geodesy, glaciology, archaeology, machine automation, and others. This paper presents results of measurements of the effect of the incidence angle of a laser beam to distance measurements to the surfaces of different colour and roughness by Topcon's electro-optical total station with an...
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Resonant Frequencies in Microstrip Structure with Omega Medium Substrate
PublikacjaThe paper presents the research on a rectangular microstrip structure with multilayer substrate containing dielectric and omega medium layers. The effect of pseudochiral medium layer location in the substrate and its thickness on the resonant frequency of the rectangular microstrip structure is investigated. The numerical analysis of investigated structures is based on expansion of electric and magnetic fields. Utilizing the continuity...
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Lattice filter based multivariate autoregressive spectral estimation with joint model order and estimation bandwidth adaptation
PublikacjaThe problem of parametric, autoregressive model based estimation of a time-varying spectral density function of a multivariate nonstationary process is considered. It is shown that estimation results can be considerably improved if identification of the autoregressive model is carried out using the two-sided doubly exponentially weighted lattice algorithm which combines results yielded by two one-sided lattice algorithms running...
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Graphs with equal domination and 2-distance domination numbers
PublikacjaW publikacji scharakteryzowane są wszystkie te drzewa i grafy jednocykliczne, w których liczba dominowania oraz liczba 2-dominowania na odległość są sobie równe.
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Edge coloring of graphs of signed class 1 and 2
PublikacjaRecently, Behr (2020) introduced a notion of the chromatic index of signed graphs and proved that for every signed graph (G, σ) it holds that ∆(G) ≤ χ′(G,σ) ≤ ∆(G) + 1, where ∆(G) is the maximum degree of G and χ′ denotes its chromatic index. In general, the chromatic index of (G, σ) depends on both the underlying graph G and the signature σ. In the paper we study graphs G for which χ′(G, σ) does not depend on σ. To this aim we...
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Modelling of localization of deformation in quasi-brittle materials with a continuum and discrete model
PublikacjaW artykule przedstawiono wyniki obliczeń lokalizacji odkształceń w materiałach kruchych przy zastosowaniu 2 modeli w ramach mechaniki ośrodka ciągłego i jednego modelu w ramach ośrodka dyskretnego. W przypadku pierwszy zastosowano model sprężysto-plastyczny i model zniszczeniowy rozszerzony o długość charakterystyczną mikrostruktury. W przypadku drugim przyjęto model rusztowy złożony z beleczek.
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Measurement Campaign and Mathematical Model Construction for the Ship Zodiak Magnetic Signature Reproduction
PublikacjaThe paper presents the partial work done within the framework of the EDA Siramis II project focused on magnetic signature reproduction of ships. Reproduction is understood here as the ability to determine the magnetic anomaly of the local Earth magnetic field in any direction and at any measurement depth due to the presence of the analysed object. The B-91 type hydrographic ship Zodiak was selected as the real case study. The work...
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Spatial differentiation of road safety in Europe based on NUTS-2 regions
PublikacjaRoad safety varies significantly across the regions in Europe. To understand the factors behind this differentiation and the effects they have, data covering 263 NUTS-2 (Nomenclature of Territorial Units for Statistics) regions across Europe (European Union and Norway) have been analysed. The assessment was made using Geographically Weighted Regression (GWR). As a dependent variable the Road Fatality Rate (RFR – number of fatalities...
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STRUCTURE
Czasopisma -
Interrelations between Travel Patterns and Urban Spatial Structure of the Largest Russian Cities
PublikacjaThe study presented within this dissertation involves the analysis of the relationship between urban spatial structure and travel patterns in the largest Russian cities. It is an empirical investigation of how the spatial structure, formed during the Soviet and post-Soviet periods, affects the travel patterns in the largest cities of contemporary Russia. It aims to determine what measures, both urban structure and transportation...
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Evaluating Pornography Problems Due to Moral Incongruence Model
PublikacjaIntroduction To date, multiple models of problematic pornography use have been proposed, but attempts to validate them have been scarce. Aim In our study, we aimed to evaluate the Pornography Problems due to Moral Incongruence model proposing that self-appraisals of pornography addiction stem from (i) general dysregulation, (ii) habits of use, and (iii) moral incongruence between internalized norms and behavior. We investigated...
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Laboratory Determination of Burger's Model Parameters for Visco-elastic Analysis of Road Pavement Materials
PublikacjaBurger's Model is one of those models that describes performance of asphalt mixtures. Its parameters can be used in road construction analysis based on visco-elastic properties in wide variety of temperatures using dedicated programs (e.g. Veroad) or in Finite Element Method (FEM). Parameters of Burger's Model can be used for example in prediction of low temperature cracking in low winter temperatures or permanent deformation...
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Membrane model of human abdominal wall. Simulations vs. in vivo measurements
PublikacjaThe study presents a methodology of defining a numerical model of human abdominal wall based on the experimentally registered data of the abdomen geometry due to variations of the intraabdominal pressure. The abdominal wall is modelled here as a simple homogeneous membrane structure made of linear orthotropic material The displacements registered during the increase of pressure are compared with the re-sults of the model static...
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Verification of the Analytical Traffic Model of a Multidomain IMS/NGN Using the Simulation Model
PublikacjaIn this paper we verify the previously proposed analytical traffic model of a multidomain Next Generation Network (NGN), which is standardized for delivering multimedia services based on the IP Multimedia Subsystem (IMS). For this reason a proper simulation model used, in which not theoretical queuing system models but the operation of real network elements and standardized call scenarios are accurately implemented. Consequently,...
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Novel N-(aryl/heteroaryl)-2-chlorobenzenesulfonamide derivatives: synthesis and anticancer activity evaluation
PublikacjaA new series of N-(aryl/heteroaryl)-2-chlorobenzenesulfonamide derivatives 4-21 have been synthesized, and evaluated at the National Cancer Institute (USA) for their in vitro activities against a panel of 60 different human cancer cell lines. Among them, compounds 16, 20 and 21 exhibited remarkable cytotoxic activity against numerous human cancer cell lines. We found that sulfonamide derivative 21 appeared to be more selective...
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MULTI-CRITERIA MODEL IN MULTIFUNCTIONAL BUILDING SYSTEM DESIGN PROCESS
PublikacjaThe paper presents a multi-criteria approach in multifunctional building system design process. The aim is to develop a theory relative to the engineering system of multifunctional with a mathematical representation defined by a holistic network for the lifecycle of the designed object. The idea of work was to define the structure of a complex system. Background for the presented field is to develop a design strategy for multifunctional...
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Clinical anatomy of the spatial structure of the right ventricular outflow trac
PublikacjaBackground. The right ventricular outflow tract (RVOT) is located above the supraventricular crest and reaches the level of the pulmonary valve. Detailed knowledge of the RVOT spatial structure and its morphology is extremely important for cardiac invasive therapeutic procedures. Objectives. To examine the spatial structure of the RVOT using virtual models of the right ventricle (RV) interior obtained post mortem. Material and...
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Module structure in Conley theory with some applications
PublikacjaA multiplicative structure in the cohomological versjon of Conley index is described . In the case of equivariant flows we apply the normalization procedure known from equivariant degree theory and we propose a new continuation invariant. The theory is then applied to obtain a mountain pass type theorem. Another application is a result on multiple bifurcations for some elliptic PDE.
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Packing Three-Vertex Paths in 2-Connected Cubic Graphs
PublikacjaW pracy rozważano problem rozmieszczanie ścieżek P3 w 2-spójnych grafach 3-regularnych. Pokazano, że w 2-spójnym grafie 3-regularnym o n wierzchołkach można zawsze pokryć 9/11 n wierzchołków przez ścieżki P3; podano także odpowiednie oszacowania górne.
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Road noise mapping in the city area: measurements compared to model-based estimations
PublikacjaThe paper presents an approach to the verification of noise prediction models in selected localization in the city of Gdansk. The experiments described include a comparison between environmentalmeasurement results performed in the terrain and the noise level prediction results. The NMPB-96 (Nouvelle Méthode de Prévision du Bruit) and Harmonoise models outcomes provide the subject ofthe analysis. The proposed solution of continuous...
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Representation of magnetic hysteresis in tape wound core using feedback Preisach model
PublikacjaThis paper presents a mathematical model for the hysteresis phenomenon in ferromagnetic tape wound core. The feedback scalar Preisach model of hysteresis is used to simulate magnetic behavior of the grain oriented silicon strip of ET114-27 type. Determination of B-H hysteretic curve is based on measurement of the initial magnetization curve and the main hysteresis loop. The Preisach distribution function (PDF) of ET114-27 material...
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Novel structure and design of compact UWB slot antenna
PublikacjaIn this paper, a novel structure of a compact UWB slot antenna is presented along with a simulation-driven design optimization algorithm for adjusting geometry parameters of the device. Our primary objective is to obtain small footprint of the structure while maintaining its acceptable electrical performance. It is achieved by introducing sufficiently large number of geometry degrees of freedom, including increased number of parameterized...
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On the Structure of Time in Computational Semantics of a Variable-Step Solver for Hybrid Behavior Analysis
PublikacjaHybrid dynamic systems combine continuous and discrete behavior. Often, computational approaches are employed to derive behaviors that approximate the analytic solution. An important part of this is the approximation of differential equation behavior by numerical integration. The accuracy and computational efficiency of the integration usually depend on the complexity of the method and its implicated approximation errors, especially...
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Isolation and structure of a covalent cross-link adduct between mitomycin C and DNA
PublikacjaA DNA cross-link adduct of the antitumor agent mitomycin C (MC) to DNA has been isolated and characterized; the results provide direct proof for bifunctional alkylation of DNA by MC. Exposure of MC to Micrococcus luteus DNA under reductive conditions and subsequent nuclease digestion yielded adducts formed between MC and deoxyguanosine residues. In addition to the two known monoadducts, a bisadduct was obtained. Reductive MC activation...
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Spurious Modes in Model Order Reduction in Variational Problems in Electromagnetics
PublikacjaIn this work, we address an everlasting issue in 2 model order reduction (MOR) in electromagnetics that has 3 remained unnoticed until now. Contrary to what has been 4 previously done, we identify for the very first time spurious 5 modes in MOR for time-harmonic Maxwell’s equations and 6 propose a methodology to remove their negative influence on the 7 reduced order model (ROM) response. These spurious modes 8 have nonzero resonance...
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Exergy and Energy Analyses of Microwave Dryer for Cantaloupe Slice and Prediction of Thermodynamic Parameters Using ANN and ANFIS Algorithms
PublikacjaThe study targeted towards drying of cantaloupe slices with various thicknesses in a microwave dryer. The experiments were carried out at three microwave powers of 180, 360, and 540 W and three thicknesses of 2, 4, and 6 mm for cantaloupe drying, and the weight variations were determined. Artificial neural networks (ANN) and adaptive neuro-fuzzy inference systems (ANFIS) were exploited to investigate energy and exergy indices of...
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On the generalized model of shell structures with functional cross-sections
PublikacjaIn the present study, a single general formulation has been presented for the analysis of various shell-shaped structures. The proposed model is comprehensive and a variety of theories can be used based on it. The cross-section of the shell structure can be arbitrarily analyzed with the presented equations. In other words, various types of shell structures, including cylindrical, conical, spherical, elliptical, hyperbolic, parabolic,...
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Example of tension fabric structure analysis
PublikacjaThe aim of the work is to examine two variants of non-linear strain-stress relations accepted to description of architectural fabric. Discussion on the fundamental equations of the dense net model, used in description of coated woven fabric behaviour is presented. An analysis of tensile fabric structures subjected to the dead load and initial pretension is described.
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Numerical FDM modelling of wave propagation in concrete structure
PublikacjaThe article presents application of finite difference method to damage detection and its size evaluation in concrete structure by elastic wave propagation method. The simulations of wave propagation in concrete structure were performed for six different damage scenarios. Damages were modelled as areas with changed material properties. Investigation focused on the influence of damage size on the energy of wave reflection. Presented...
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Pile Model Tests Using Strain Gauge Technology
PublikacjaOrdinary pile bearing capacity tests are usually carried out to determine the relationship between load and displacement of pile head. The measurement system required in such tests consists of force transducer and three or four displacement gauges. The whole system is installed at the pile head above the ground level. This approach, however, does not give us complete information about the pile-soil interaction. We can only determine...
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ECG-based prediction of ventricular fibrillation by means of the PCA
PublikacjaA Sudden Cardiac Death (SCD) is a death resulting from cardiac failure with no significant symptoms earlier than one hour before occurrence. It is the cause of for approximately 400000 deaths per year in United States and millions of deaths worldwide. The proposed system, including two-stage algorithm and wearable diagnostic device allows for SCD risk estimation and continuous monitoring of high risk patients. A single channel...
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Prediction of ringing frequencies in DC-DC boost converter
PublikacjaIn the paper ringing phenomena in a DC-DC boost converter is presented. The ringing frequency is calculated using an analytical formula. The necessary wide band models of MOSFET transistor, passive and parasitics are described. The calculation results are verified in simulation and laboratory tests.
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Theoretical pKa prediction of O-phosphoserine in aqueous solution
PublikacjaSprawdzono zdolność modelu polaryzowalnego kontinuum (PCM) do przewidywania wartości pKa w roztworze wodnym dla O-fosfoseryny (P-Ser). Obliczenia przeprowadzono w ramach teorii funkcjonału gęstości (DFT) przy użyciu funkcjonałów B3LYP i M06-2X oraz baz 6-31+G(d) and 6-31+G(d,p). Obliczenia na poziomie B3LYP/6-31+G(d,p) przy użyciu modelu solwatacji SMD zapewniają doskonałą zgodność z doświadczeniem, pod warunkiem uwzględnienia...
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Parametric method of preliminary prediction of the ship operating costs.
PublikacjaPraca zawiera rezultaty badań dotyczących parametrycznej metody prognozowania kosztów eksploatacji statku - przydatnej w metodyce projektowania wstępnego okrętów. Przedstawiono założenia koncepcyjne i teoretyczne metody, dokonano identyfikacji czynników istotnie wpływających na koszt eksploatacji statku, z uwzględnieniem czasowej wartości pieniądza. Opracowano wzory służące do wyznaczania składników kosztów eksploatacji statku...