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Search results for: AMBIGUOUS RESTRAINTS, COARSE-GRAINED MODELS, NMR-ASSISTED PROTEIN-STRUCTURE MODELING, UNRES
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Surface Structure of Components Created by Stereolitography
PublicationStereolithography is an additive rapid prototyping method. This method is based on the principle of solidifying a liquid photopolymer (resin) by laser radiation. Models obtained with this method are characterized by a specific surface structure called “stairstep effect”. It causes that, the surface should be processed by additional finishing (postprocessing). To minimize the additional machining process, the model should be set...
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An interactive system for remote modeling and design validation of hybrid photovoltaic systems
PublicationAbstract: A multi-functional demonstrator of the interactive system is presented. The demostrator enables modeling, monitoring and design validation of hybrid photovoltaic systems assisted by fuel cells and thermoelectric generators, as well as experimentation and scientific research. A block diagram of the system is presented and the selection of its components is discussed. Availability of the system via Ethernet or GSM...
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Recent Advances in Performance-Driven Surrogate Modeling of High-Frequency Structures
PublicationDesign of high‐frequency structures, including microwave and antenna components, heavily relies on full‐wave electromagnetic (EM) simulation models. Their reliability comes at a price of a considerable computational cost. This may lead to practical issues whenever numerous EM analyses are to be executed, e.g., in the case of parametric optimization. The difficulties entailed by massive simulations may be mitigated by the use of...
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Methodology of Selecting the Optimal Receptor to Create an Electrochemical Immunosensor for Equine Arteritis Virus Protein Detection
PublicationThe study reports a methodology of selecting the optimal receptor to create an electrochemical immunosensor for equine arteritis virus (EAV) protein detection. The detection was based on antigen recognition by antibodies immobilized on gold electrodes. Modification steps were controlled by electrochemical impedance spectroscopy and cyclic voltammetry measurements. In order to obtain the impedance immunosensor with the best parameters,...
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Non-monotone graph searching models
PublicationGraph searching encompasses a variety of different models, many of which share a property that in optimal strategies fugitive can never access once searched regions. Monotonicity, as it is called, is vital in many established results in the field however its absence significantly impedes the analysis of a given problem. This survey attempts to gather non-monotone models, that are less researched in effort of summarizing the results...
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Wideband Modeling of DC-DC Buck Converter with GaN Transistors
PublicationThe general wideband modeling method of the power converter is presented on the example of DC-DC buck converter with GaN High Electron Mobility Transistors (HEMT). The models of all basic and parasitic components are briefly described. The two methods of Printed Circuit Board (PCB) layout parameter extraction are presented. The results of simulation in Saber@Sketch simulation software and measurements are compared. Next, the model...
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Variable-fidelity CFD models and co-Kriging for expedited multi-objective aerodynamic design optimization
PublicationPurpose – Strategies for accelerated multi-objective optimization of aerodynamic surfaces are investigated, including the possibility of exploiting surrogate modeling techniques for computational fluid dynamic (CFD)-driven design speedup of such surfaces. The purpose of this paper is to reduce the overall optimization time. Design/methodology/approach – An algorithmic framework is described that is composed of: a search space reduction,...
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Genetic and pharmacologic proteasome augmentation ameliorates Alzheimer’s-like pathology in mouse and fly APP overexpression models
PublicationThe proteasome has key roles in neuronal proteostasis, including the removal of misfolded and oxidized proteins, presynaptic protein turnover, and synaptic efficacy and plasticity. Proteasome dysfunction is a prominent feature of Alzheimer’s disease (AD). We show that prevention of proteasome dysfunction by genetic manipulation delays mortality, cell death, and cognitive deficits in fly and cell culture AD models. We developed...
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Low-Cost Data-Driven Surrogate Modeling of Antenna Structures by Constrained Sampling
PublicationFull-wave electromagnetic (EM) analysis has become one of the major design tools for contemporary antenna structures. Although reliable, it is computationally expensive which makes automated simulation-driven antenna design (e.g., parametric optimization) difficult. This difficulty can be alleviated by utilization of fast and accurate replacement models (surrogates). Unfortunately, conventional data-driven modeling of antennas...
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Methodology of Selecting the Optimal Receptor to Create an Electrochemical Immunosensor for Equine Arteritis Virus Protein Detection
PublicationThe study reports a methodology of selecting the optimal receptor to create an electrochemical immunosensor for equine arteritis virus (EAV) protein detection. The detection was based on antigen recognition by antibodies immobilized on gold electrodes. Modification steps were controlled by electrochemical impedance spectroscopy and cyclic voltammetry measurements. In order to obtain the impedance immunosensor with the best parameters,...
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Recent advances in high-frequency modeling by means of domain confinement and nested kriging
PublicationDevelopment of modern high-frequency components and circuits is heavily based on full-wave electromagnetic (EM) simulation tools. Some phenomena, although important from the point of view of the system performance, e.g., EM cross-coupling effects, feed radiation in antenna arrays, substrate anisotropy, cannot be adequately accounted for using simpler means such as equivalent network representations. Consequently, the involvement...
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Brain Structure & Function
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CELL STRUCTURE AND FUNCTION
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Catalysis Structure & Reactivity
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Food Structure-Netherlands
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Journal of Social Structure
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ARTHROPOD STRUCTURE & DEVELOPMENT
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TREES-STRUCTURE AND FUNCTION
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A Novel Approach to Fully Nonlinear Mathematical Modeling of Tectonic Plates
PublicationThe motion of the Earth's layers due to internal pressures is simulated in this research with an efficient mathematical model. The Earth, which revolves around its axis of rotation and is under internal pressure, will change the shape and displacement of the internal layers and tectonic plates. Applied mathematical models are based on a new approach to shell theory involving both two and three-dimensional approaches. It is the...
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Interplay between Structure and Charge as a Key to Allosteric Modulation of Human 20S Proteasome by the Basic Fragment of HIV-1 Tat Protein
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Are stabilizing osmolytes preferentially excluded from the protein surface? FTIR and MD studies
PublicationInteractions between osmolytes and hen egg white lysozyme in aqueous solutions were studied by means of FTIR spectroscopy and molecular dynamics. A combination of difference spectra method and chemometric analysis of spectroscopic data was used to determine the number of osmolyte molecules interacting with the protein, and the preferential interaction coefficient in presented systems. Both osmolytes – L-proline and trimethylamine-N-oxide...
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Genetic and pharmacologic proteasome augmentation ameliorates Alzheimer’s-like pathology in mouse and fly APP overexpression models
PublicationThe proteasome has key roles in neuronal proteostasis, including the removal of misfolded and oxidized proteins, presynaptic protein turnover, and synaptic efficacy and plasticity. Proteasome dysfunction is a prominent feature of Alzheimer’s disease (AD). We show that prevention of proteasome dysfunction by genetic manipulation delays mortality, cell death, and cognitive deficits in fly and cell culture AD models. We developed...
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Advanced Modeling of Management Processes in Information Technology
PublicationThis book deals with the issues of modeling management processes of information technology and IT projects while its core is the model of information technology management and its component models (contextual, local) describing initial processing and the maturity capsule as well as a decision-making system represented by a multi-level sequential model of IT technology selection, which acquires a fuzzy rule-based implementation...
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Inverse surrogate models for fast geometry scaling of miniaturized dual-band couplers
PublicationRe-design of microwave structures for various sets of performance specifications is a challenging task, particularly for compact components where considerable electromagnetic (EM) cross-couplings make the relationships between geometry parameters and the structure responses complex. Here, we address geometry scaling of miniaturized dual-band couplers by means of inverse surrogate modeling. Our approach allows for fast estimation...
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A highly thermostable, homodimeric single-stranded DNA-binding protein from Deinococcus radiopugnans
PublicationWe report the identification and characterization of the single-stranded DNA-binding protein (SSB) from the mesophile and highly radiation-resistant Deinococcus radiopugnans (DrpSSB). PCR-derived DNA fragment containing the complete structural gene for DrpSSB protein was cloned and expressed in Escherichia coli. The gene consisting of an open reading frame of 900 nucleotides encodes a protein of 300 amino acids with a calculated...
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Low-Cost and Highly-Accurate Behavioral Modeling of Antenna Structures by Means of Knowledge-Based Domain-Constrained Deep Learning Surrogates
PublicationThe awareness and practical benefits of behavioral modeling methods have been steadily growing in the antenna engineering community over the last decade or so. Undoubtedly, the most important advantage thereof is a possibility of a dramatic reduction of computational expenses associated with computer-aided design procedures, especially those relying on full-wave electromagnetic (EM) simulations. In particular, the employment of...
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Knowledge-based performance-driven modeling of antenna structures
PublicationThe importance of surrogate modeling techniques in the design of modern antenna systems has been continuously growing over the recent years. This phenomenon is a matter of practical necessity rather than simply a fashion. On the one hand, antenna design procedures rely on full-wave electromagnetic (EM) simulation tools. On the other hand, the computational costs incurred by repetitive EM analyses involved in solving common tasks...
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Software Modeling from the Perspective of Intuitive Information Processing
PublicationThere is psychological evidence that humans process information not only consciously but also intuitively. Intuitive information processing is present also during the activities related to software modeling. The goal of this paper is to analyze software modeling from the perspective of theories which describe intuitive (nonconscious, implicit) information processing. The paper includes presentation of relevant psychological theories,...
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Reduced-Cost Two-Level Surrogate Antenna Modeling using Domain Confinement and Response Features
PublicationElectromagnetic (EM) simulation tools have become indispensable in the design of contemporary antennas. Still, the major setback of EM-driven design is the associated computational overhead. This is because a single full-wave simulation may take from dozens of seconds up to several hours, thus, the cost of solving design tasks that involve multiple EM analyses may turn unmanageable. This is where faster system representations (surrogates)...
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Modeling of Performance, Reliability and Energy Efficiency in Large-Scale Computational Environment
PublicationLarge scale of complexity of distributed computational systems imposes special challanges for prediction of quality in such systems.Existing quality models for lower-scale systems include functionality,performance,reliability,flexibility and usability.Among these attributes,performance and reliability have a particular significance to the large-scale systems computing quality modeling due to their strong dependence on the system...
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Conformational Studies of Two Bradykinin Antagonists by Using Two-dimensional NMR Techniques and Molecular Dynamics Simulations
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Application of muscle model to the musculoskeletal modeling
PublicationThe purpose of this paper is to investigate new fusiform muscle models. Each of these models treats a muscle as a system composedof parts characterized by different mechanical properties. These models explain the influence of differences in the stiffness of lateral parts and the degree of muscle model discretization. Each muscle model is described by a system of differential equations and a single integro-differential equation....
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Advanced Mathematical Models and Applications
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Animal Models and Experimental Medicine
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Advances in Continuous and Discrete Models
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Andrzej Okuniewski dr inż.
PeopleEducation 2010-2014: Department of Inorganic Chemistry, Faculty of Chemistry, Gdańsk University of TechnologyPhD in chemical sciences (chemical sciences - chemistry, inorganic chemistry) 2009-2010: Faculty of Chemistry, Gdańsk University of TechnologyMaster of Chemistry (applied chemistry) 2005-2009: Faculty of Chemistry, Gdańsk University of Technologychemical engineer (applied chemistry) 2002-2005: II High School Władysław Pniewski...
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On low-fidelity models for variable-fidelity simulation-driven design optimization of compact wideband antennas
PublicationThe paper addresses simulation-driven design optimization of compact antennas involving variable-fidelity electromagnetic (EM) simulation models. Comprehensive investigations are carried out concerning selection of the coarse model discretization density. The effects of the low-fidelity model setup on the reliability and computational complexity of the optimization process are determined using a benchmark set of three ultra-wideband...
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Modeling two phase flow in large scale fractured porous media with an extended multiple interacting continua method
PublicationWe present a two phase flow conceptual model, the corresponding simulator (2pMINC) and a workflow for large-scale fractured reservoirs, based on a continuum fracture approach which uses the multiple interacting continua (MINC) method complemented with an improved upscaling technique. The complex transient behavior of the flow processes in fractured porous media is captured by subgridding the coarse blocks in nested volume elements...
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The Protein Folding Problem
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Structure and Molecular Dynamics in Renewable Polyamides from Dideoxy-Diamino Isohexide
PublicationThe chemical structure, the conformation, andthe flexibility of the polymer chain fragments present in thepolyamides synthesized from 2,5-diamino-2,5-dideoxy-1,4;3,6-dianhydrosorbitol, 1,4-diaminobutane, and either sebacic orbrassylic acid have been studied by liquid-state 2D NMRspectroscopy viz. correlation spectra (COSY) and heteronuclearmultiple-bond correlation spectra (gHMBC), by 13Ccross-polarization/magic-angle spinning...
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Unusual dynamic properties of water near the ice-binding plane of hyperactive antifreeze protein
PublicationThe dynamical properties of solvation water of hyperactive antifreeze protein from Choristoneura fumiferana (CfAFP) are analyzed and discussed in context of its antifreeze activity. The protein comprises of three well-defined planes and one of them binds to the surface of ice. The dynamical properties of solvation water around each of these planes were analyzed separately; the results are compared with the dynamical properties...
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Virtual Engineering Objects (VEO): Designing, Developing and Testing Models
PublicationIn this article, the development and implementation of the concept of Virtual Engineering Object (VEO) is described. A VEO is a computerized real world representation of an engineering object. VEO will act as a living representation of the object capable of adding, storing, improving and sharing knowledge through experience, in a way similar to an expert of that object. In this paper, it is shown through test models how the concept...
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Sylwester Kaczmarek dr hab. inż.
PeopleSylwester Kaczmarek received his M.Sc in electronics engineering, Ph.D. and D.Sc. in switching and teletraffic science from the Gdansk University of Technology, Gdansk, Poland, in 1972, 1981 and 1994, respectively. His research interests include: IP QoS and GMPLS and SDN networks, switching, QoS routing, teletraffic, multimedia services and quality of services. Currently, his research is focused on developing and applicability...
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Modeling of Performance, Reliability and Energy Efficiency in Large-Scale Computational Environments
PublicationLarge scale of complexity of distributed computational systems imposes special challenges for prediction of quality in such systems. Existing quality models for lower-scale systems include functionality, performance, reliability, flexibility and usability. Among these attributes, performance and reliability have a particular significance to the large-scale systems computing quality modeling due to their strong dependence on the...
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Accurate Modeling of Antenna Structures by Means of Domain Confinement and Pyramidal Deep Neural Networks
PublicationThe importance of surrogate modeling techniques has been gradually increasing in the design of antenna structures over the recent years. Perhaps the most important reason is a high cost of full-wave electromagnetic (EM) analysis of antenna systems. Although imperative in ensuring evaluation reliability, it entails considerable computational expenses. These are especially pronounced when carrying out EM-driven design tasks such...
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The protocol for using elastic wall model in modeling blood flow within human artery
PublicationMedical diagnostic tools will play a major role in the future for an effective patient treatment and reduction their mortality, related to the cardiovascular system diseases (CVDs). There is an urgent need for developing diagnostic procedure to be robust, reliable, accurate and efficient, in the framework of a paradigm shift. Application of numerical techniques is seen as a perspective tool for such purpose. Nevertheless, existing...
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Psychotherapy assisted with mobile applications
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Derivation of Executable Test Models From Embedded System Models using Model Driven Architecture Artefacts - Automotive Domain
PublicationThe approach towards system engineering compliant to Model-Driven Architecture (MDA) implies an increased need for research on the automation of the model-based test generation. This applies especially to embedded real-time system development where safety critical requirements must be met by a system. The following paper presents a methodology to derive basic Simulink test models from Simulink system models so as to execute them...
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Variable‐fidelity modeling of antenna input characteristics using domain confinement and two‐stage Gaussian process regression surrogates
PublicationThe major bottleneck of electromagnetic (EM)-driven antenna design is the high CPU cost of massive simulations required by parametric optimization, uncertainty quantification, or robust design procedures. Fast surrogate models may be employed to mitigate this issue to a certain extent. Unfortunately, the curse of dimensionality is a serious limiting factor, hindering the construction of conventional data-driven models valid over...
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Badanie mieszanek łoju wołowego z ciekłym i uwodornionym olejem rzepakowym przy użyciu metod DSC i NMR.
PublicationBadano właściwości fizyczne mieszanek łoju wołowego z uwodornionym i ciekłym olejem rzepakowym o różnym składzie procentowym, wykorzystując metodę skaningowej kalorymetrii różnicowej (DSC) oraz metodę pulsacyjnego NMR. Analizowane tłuszcze przed oznaczeniem zawartości fazy stałej termostatowano w różny sposób. Takie same etapy termostatowania zastosowano przed wyznaczeniem krzywych topnienia metodą DSC.