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Search results for: ambiguous restraints, coarse-grained models, nmr-assisted protein-structure modeling, unres
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Heterogeneity of quaternary structure of glucosamine-6-phosphate deaminase from Giardia lamblia
PublicationThe oligoHis-tagged versions of glucosamine-6- phosphate deaminase from Giardia lamblia (GlmNagB-HisN, GlmNagB-HisC) were constructed and purified to hear homogeneity, and their kinetic and structural properties were compared to those of the wild-type enzyme (GlmNagB). Introduction of the oligoHis tag at the GlmNagB C-terminus resulted in almost complete loss of the catalytic activity, while the catalytic properties of GlmNagB-HisN...
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Deep eutectic solvent-based shaking-assisted extraction for determination of bioactive compounds from Norway spruce roots
PublicationPolyphenolic compounds play an essential role in plant growth, reproduction, and defense mechanisms against pathogens and environmental stresses. Extracting these compounds is the initial step in assessing phytochemical changes, where the choice of extraction method significantly influences the extracted analytes. However, due to environmental factors, analyzing numerous samples is necessary for statistically significant results,...
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Release of Encapsulated Bioactive Compounds from Active Packaging/Coating Materials and Its Modeling: A Systematic Review
PublicationThe issue of achieving controlled or targeted release of bioactive compounds with specific functional properties is a complex task that requires addressing several factors, including the type of bioactive, the nature of the delivery system, and the environmental conditions during transportation and storage. This paper deals with extensive reporting for the identification of original articles using Scopus and Google Scholar based...
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Laser-Assisted Synthesis and Oxygen Generation of Nickel Nanoparticles
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Computer assisted method for proving existence of periodic orbits
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Peroxymonosulfate-assisted photocatalytic degradation of artificial sweeteners in water
PublicationIn the present study, peroxymonosulfate (PMS) activation was proposed for efficient photocatalytic degradation of aspartame, acesulfame, saccharin, and cyclamate - artificial sweeteners frequently present in wastewaters and surface waters worldwide. The TiO2 nanosheets with exposed {0 0 1} facets were synthesised using the fluorine-free lyophilisation technique as a green concept for the synthesis and used for the photodegradation...
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Laser-Assisted Synthesis and Oxygen Generation of Nickel Nanoparticles
PublicationNowadays, more than ever, environmental awareness is being taken into account when it comes to the design of novel materials. Herein, the pathway to the creation of a colloid of spherical, almost purely metallic nickel nanoparticles (NPs) through pulsed laser ablation in ethanol is presented. A complex description of the colloid is provided through UV-vis spectroscopy and dynamic light scattering analysis, ensuring insight into...
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Vocalic Segments Classification Assisted by Mouth Motion Capture
PublicationVisual features convey important information for automatic speech recognition (ASR), especially in noisy environment. The purpose of this study is to evaluate to what extent visual data (i.e. lip reading) can enhance recognition accuracy in the multi-modal approach. For that purpose motion capture markers were placed on speakers' faces to obtain lips tracking data during speaking. Different parameterizations strategies were tested...
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Construction and development of IT Competence Centers - organizational structure
PublicationThe author presents the situation of the current units working between academic environment and business. the paper presents the possibility of using a dynamic structure to develop UCC.
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In-Out Surface Modification of Halloysite Nanotubes (HNTs) for Excellent Cure of Epoxy: Chemistry and Kinetics Modeling
PublicationIn-out surface modification of halloysite nanotubes (HNTs) has been successfully performed by taking advantage of 8-hydroxyquinolines in the lumen of HNTs and precisely synthesized aniline oligomers (AO) of different lengths (tri- and pentamer) anchored on the external surface of the HNTs. Several analyses, including FTIR, H-NMR, TGA, UV-visible spectroscopy, and SEM, were used to establish the nature of the HNTs’ surface engineering....
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Rough Set Based Modeling and Visualization of the Acoustic Field Around the Human Head
PublicationThe presented research aims at modeling acoustical wave propagation phenomena by applying rough set theory in a novel manner. In a typical listening environment sound intensity is determined by numerous factors: a distance from a sound source, signal levels and frequencies, obstacles’ locations and sizes. Contrarily, a free-field is characterized by direct, unimpeded propagation of the acoustical waves. The proposed approach is...
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STRUCTURE AND MAGNETIC PROPERTIES OF Bi5Ti3FeO15 CERAMICS PREPARED BY SINTERING, MECHANICAL ACTIVATION AND EDAMM PROCESS. A COMPARATIVE STUDY
PublicationThree different methods were used to obtain Bi5Ti3FeO15 ceramics, i.e. solid-state sintering, mechanical activation (MA) with subsequent thermal treatment, and electrical discharge assisted mechanical milling (EDAMM). The structure and magnetic properties of produced Bi5Ti3FeO15 samples were characterized using X-ray diffraction and Mössbauer spectroscopy. The purest Bi5Ti3FeO15 ceramics was obtained by standard solid-state sintering...
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Type III Responses to Transient Inputs in Hybrid Nonlinear Neuron Models
PublicationExperimental characterization of neuronal dynamics involves recording both of spontaneous activity patterns and of responses to transient and sustained inputs. While much theoretical attention has been devoted to the spontaneous activity of neurons, less is known about the dynamic mechanisms shaping their responses to transient inputs, although these bear significant physiological relevance. Here, we study responses to transient...
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Optimal shape design of multi-element trawl-doors using local surrogate models
PublicationTrawl-doors have a large influence on the fuel consumption of fishing vessels. Design and optimiza-tion of trawl-doors using computational models are a key factor in minimizing the fuel consump-tion. This paper presents an optimization algorithm for the shape design of trawl-door shapes using computational fluid dynamic (CFD) models. Accurate CFD models are computationally expensive. Therefore, the direct use of traditional optimization...
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Asymptotic Expansion Method with Respect to Small Parameter for Ternary Diffusion Models
PublicationTernary diffusion models lead to strongly coupled systems of PDEs. We choose the smallest diffusion coefficient as a small parameter in a power series expansion whose components fulfill relatively simple equations. Although this series is divergent, one can use its finite sums to derive feasible numerical approximations, e.g. finite difference methods (FDMs).
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Evaluation of accuracy of surrogate models
PublicationArtykuł przestawia statystyczne podejście do oceny dokładności modeli zastępczych. Prezentowana jest miara dokładności bazująca na dystrybucji błędów w zbiorze testowym. Praca zawiera dyskusję na temat oceny dokładności samego modelu oraz zasadności wyboru kryterium zatrzymującego proces automatycznego tworzenia modelu.
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Models in the Research Process of Psoriasis
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Models of the kinematics of lapping machines.
PublicationPrzedstawiono wyniki analiz symulacyjnych układów kinematycznych docierania jednotarczowego powierzchni płaskich. Analizowano układ standardowy i układy niekonwencjonalne, zmieniając ich parametry geometryczne i kinematyczne. Wytypowano układ optymalny w aspekcie równomierności zużycia tarczy docierającej.
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Active shape models in practice
PublicationAutorzy wykonali uniwersalny system lokalizacji obiektów zawierający implementację aktywnych modeli kształtu, a przeprowadzone z użyciem tego systemu eksperymenty wykazały powżne wady badanej metody. W pracy przedstawiono zaobserwowane w praktyce problemy związane ze stosowaniem metody aktywnych modeli kształtu (ASM).
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Extended hypoplastic models for soils
PublicationPoprawione i poszerzone wydanie pracy habilitacyjnej nt. hipoplastycznego modelu konstytutywnego gruntów.
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Digital waveguide models of the panpipes
PublicationW artykule przedstawiono główne cechy syntezy falowodowej. Omówiono cechy instrumentu fletni Pana. Przedyskutowano cechy zaproponowanych dwóch modeli fletni Pana różniących się złożonością obliczeniową. Pokazano szczegóły implementacyjne tych modeli, a także uzyskane wyniki symulacji dźwięków w modelach. Dokonano porównania dźwięków rzeczywistych i uzyskanych w wyniku syntezy falowodowej.
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Graph models of clos networks
Publication...
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The use of mathematical models for diagnosis of activated sludge systems in WWTP
PublicationIn this study diagnosis of activated sludge systems in wastewater treatment plant (WWTP) was investigated. Diagnosis of technical objects can be realized in many ways. One of the divisions of the diagnostic methods include modelling with or without a model of the object. The first of these is the analysis of the symptoms for which, based on the parameter values, the abnormality in the diagnosed objects are sought. Another way is...
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Rapid design of miniaturised branch-line couplers through concurrent cell optimisation and surrogate-assisted fine-tuning
PublicationIn this study, the authors introduce a methodology for low-cost simulation-driven design optimisation of highly miniaturised branch-line couplers (BLCs). The first stage of their design approach exploits fast concurrent optimisation of geometrically dependent, but electromagnetically isolated cells that constitute a BLC. The cross-coupling effects between the cells are taken into account in the second stage, where a surrogate-assisted...
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Knowledge-Based Virtual Modeling and Simulation of Manufacturing Processes for Industry 4.0
PublicationABSTRACT Industry 4.0 aims at providing a digital representation of a production landscape, but the challenges in building, maintaining, optimizing, and evolving digital models in inter-organizational production chains have not been identified yet in a systematic manner. In this paper, various Industry 4.0 research and technical challenges are addressed, and their present scenario is discussed. Moreover, in this article, the novel...
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Application of different building representation techniques in HEC-RAS 2-D for urban flood modeling using the Toce River experimental case
PublicationThis paper presents the impact of the choice of building representation techniques and hydrodynamic models on urban flood simulations using HEC-RAS 2-D for the Toce River physical model. To this end, eight numerical models based on previous laboratory experiments were prepared to simulate unsteady urban flooding on each side of building units. Two simplified building layouts (aligned and staggered) were examined, where models were...
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The ILs-assisted electrochemical synthesis of TiO2 nanotubes: The effect of ionic liquids on morphology and photoactivity
PublicationFacile and environmentally benign one-step titanium anodization method for TiO2 nanotubes (NTs) formation in a presence of ionic liquids (ILs) was proposed. Influence of the IL structure and its content in ethylene glycol electrolyte on morphology, surface properties and photoactivity of the TiO2 NTs was investigated. Possible interactions between IL and TiO2 NTs as well as the mechanism of NTs formation during anodic oxidation...
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Selection of main engines for hopper suction dredgers with the use oobability models
PublicationThis paper presents a new original method of selection of main engines for hopper suction dredgers with regard to probabilistic models. It was proposed to use the normal distribution to describe the operational loads of the main receivers. The principles for determination of parameters of load distribution and design power of the main engines were formulated. Lastly, the principles of selection of the size and number of main engines...
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Chemical-Assisted Mechanical Lapping of Thin Boron-Doped Diamond Films: A Fast Route Toward High Electrochemical Performance for Sensing Devices
PublicationThere is an urgent need for an effective and economically viable increase in electrochemical performance of boron-doped diamond (BDD) electrodes that are used in sensing and electrocatalytic applications. Specifically, one must take into consideration the electrode heterogeneity due to nonhomogenous boron-dopant distribution and the removal of sp2 carbon impurities saturating the electrode, without interference in material integrity....
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Software modules and application layer's security structure of RSMAD
PublicationThe paper discusses the software modules of Radio System for Monitoring and Acquisition of Data from Traffic Enforcement Cameras (in short RSMAD). The structure of the application layer of the system has also been analysed in details, including: purpose, structure and principles of operation of software modules constituting this system. In addition, the paper presents and discusses the structure of security of application layer...
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Apple pectin complexes with whey protein isolate
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Pea Protein for Hempseed Oil Nanoemulsion Stabilization
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Some applications of thermophiles and their enzymes for protein processing
PublicationPrzedstawiono charakterystykę, właściwości oraz możliwości zastosowań enzymów proteolitycznych wytwarzanych przez termofile. Zaletą tych biokatalizatorów jest między innymi duża odporność na działanie rozpuszczalników organicznych, detergentów i innych czynników denaturujących białka oraz mała wrażliwość na zmiany pH. Dokonano też przeglądu czynników powodujących dużą stabilność proteaz z termofili.
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ANALYSIS OF THE p53 PROTEIN GENE EXPRESSION MODEL
PublicationWe study the asymptotic behaviour of the solutions of the p53-Mdm2 model proposed by Monk (2003). The p53 gene is crucial for cellular inhibition of the angiogenesis process, while Mdm2 is a negative regulator of the p53 tumor-suppressor. We investigate the stability of the positive steady state and perform some numerical experiments.
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Phenolic compounds from Nerium oleander leaves: microwave assisted extraction, characterization, antiproliferative and cytotoxic activities
PublicationA microwave-assisted extraction (MAE) method was used for the extraction of phenolic compounds from Nerium oleander leaves. The influence of variables such as ethanol concentration, microwave power, irradiation time and liquid/solid ratio on polyphenol extraction was modelled using a second-order regression equation based on response surface methodology (RSM). The optimal conditions for MAE were: extraction solvent 35% ethanol...
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Silica In Silico: A Molecular Dynamics Characterization of the Early Stages of Protein Embedding for Atom Probe Tomography
PublicationA novel procedure for the application of atom probe tomography (APT) to the structural analysis of biological systems, has been recently proposed, whereby the specimen is embedded by a silica matrix and ablated by a pulsed laser source. Such a technique, requires that the silica primer be properly inert and bio-compatible, keeping the native structural features of the system at hand, while condensing into an amorphous, glass-like...
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Cost-Efficient Bi-Layer Modeling of Antenna Input Characteristics Using Gradient Kriging Surrogates
PublicationOver the recent years, surrogate modeling has been playing an increasing role in the design of antenna structures. The main incentive is to mitigate the issues related to high cost of electromagnetic (EM)-based procedures. Among the various techniques, approximation surrogates are the most popular ones due to their flexibility and easy access. Notwithstanding, data-driven modeling of antenna characteristics is associated with serious...
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Molecular simulations study of ligand-release mechanism in an odorant-binding protein from the southern house mosquito
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Comparative analysis of various transformation techniques for voiceless consonants modeling
PublicationIn this paper, a comparison of various transformation techniques, namely Discrete Fourier Transform (DFT), Discrete Cosine Transform (DCT) and Discrete Walsh Hadamard Transform (DWHT) are performed in the context of their application to voiceless consonant modeling. Speech features based on these transformation techniques are extracted. These features are mean and derivative values of cepstrum coefficients, derived from each transformation....
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Justifying the prolongation of the service life of the bearing structure of a tank car when using Y25 bogies
PublicationThis paper substantiates the use of Y25 bogies under tank cars in order to prolong their service life. The reported study has been carried out for a tank car with rated parameters, as well as the actual ones, registered during full-scale research. Mathematical modeling was performed to determine the basic indicators of the tank car dynamics. The differential equations of motion were solved by a Runge-Kutta method using the Mathcad...
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Influence of chemical structure on physicochemical properties and thermal decomposition of the fully bio-based poly(propylene succinate-co-butylene succinate)s
PublicationIn this work, two polyesters and four copolyesters were studied. All materials were synthesized to obtain the monomers dedicated for thermoplastic polyurethane elastomers. For this type of PUR, the monomers should characterize by appropriate selected physicochemical properties and macromolecular structure distribution, which depends on synthesis conditions. The study of chemical structure with extensive and knowledgeable analysis...
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Why is the cubic structure preferred in newly formed ice?
PublicationMolecular dynamics was employed to explain the preference for the cubic structure in newly formed crystals of ice. The results showed that in supercooled liquid water the molecules connected by hydrogen bonds are more likely to adopt relative orientations similar to the ones characteristic for cubic ice. The observed preference for certain relative orientations of molecules in the hydrogen-bonded pairs results in the higher probability...
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Reliable computationally-efficient behavioral modeling of microwave passives using deep learning surrogates in confined domains
PublicationThe importance of surrogate modeling techniques has been steadily growing over the recent years in high-frequency electronics, including microwave engineering. Fast metamodels are employed to speedup design processes, especially those conducted at the level of full-wave electromagnetic (EM) simulations. The surrogates enable massive system evaluations at nearly EM accuracy and negligible costs, which is invaluable in parameter...
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Isolation and structure of a covalent cross-link adduct between mitomycin C and DNA
PublicationA 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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Influence of dopants on structure of polycrystalline bismuth niobate
PublicationBismuth niobate (BiNbO4) has attracted attention as a low-fired ceramics with promising microwave application potential. BiNbO4 ceramics was fabricated by mixed oxide method and sintered at temperature T<1000˚C. As the sintering aids a small amount of CuO oxide was used. The crystalline structure of the ceramic samples was examined by X-ray diffraction method at room temperature. The Rietveld refinement method was used for analysis...
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Evaluation of Foundation Input Motions Based on Kinematic Interaction Models
PublicationThe present study was designed to demonstrate the importance of baseslab averaging and embedment effects on the foundation-level input motions due to earthquake excitations. Evaluation of foundation-level input motions based on the most commonly adopted kinematic interaction models are presented. In order to conduct this investigation, original records of horizontal accelerations for two casestudy buildings were utilized. Computed...
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Signal propagation in electromagnetic media described by fractional-order models
PublicationIn this paper, signal propagation is analysed in electromagnetic media described by fractional-order (FO) models (FOMs). Maxwell’s equations with FO constitutive relations are introduced in the time domain. Then, their phasor representation is derived for one-dimensional case of the plane wave propagation. With the use of the Fourier transformation, the algorithm for simulation of the non-monochromatic wave propagation is introduced....
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Sequence variants of p21 gene of the MRL/MpJ mouse: a possible association with the deficit of p21 protein and regenerative phenotype.
PublicationThe MRL/MpJ mouse is known for its enhanced regeneration abilities that manifested themselves by scarless ear-hole wound closure. The deficit of p21 found in the MRL is associated with the regenerative capacity as the p21 gene knockout in a mouse strain unrelated to the MRL mouse results in an ear-hole closure effect, similar to that observed in the MRL mouse. Cdkn1a gene encodes p21 protein, a cyclin-dependent kinase inhibitor,...
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Which Curve Fits Best: Fitting ROC Curve Models to Empirical Credit-Scoring Data
PublicationIn the practice of credit-risk management, the models for receiver operating characteristic (ROC) curves are helpful in describing the shape of an ROC curve, estimating the discriminatory power of a scorecard, and generating ROC curves without underlying data. The primary purpose of this study is to review the ROC curve models proposed in the literature, primarily in biostatistics, and to fit them to actual credit-scoring ROC data...
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Inverse Modeling and Optimization of CSRR-based Microwave Sensors for Industrial Applications
PublicationDesign optimization of multivariable resonators is a challenging topic in the area of microwave sensors for industrial applications. This paper proposes a novel methodology for rapid re-design and parameter tuning of complementary split-ring resonators (CSRRs). Our approach involves inverse surrogate models established using pre-optimized resonator data as well as analytical correction techniques to enable rapid adjustment of geometry...