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Practical Approach to Large-Scale Electronic Structure Calculations in Electrolyte Solutions via Continuum-Embedded Linear-Scaling Density Functional Theory
PublikacjaWe present the implementation of a hybrid continuum-atomistic model for including the effects of a surrounding electrolyte in large-scale density functional theory (DFT) calculations within the Order-N Electronic Total Energy Package (ONETEP) linear-scaling DFT code, which allows the simulation of large complex systems such as electrochemical interfaces. The model represents the electrolyte ions as a scalar field and the solvent...
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Active and Dynamic Graphical Code for Object Identification in Healthcare
PublikacjaA new approach for item marking using two dimensional discrete graphics markers. Proposed solution allow o change the code rapidly, upon request and in the case of thermal markers make the code invisible for unauthorized observers. Connecting the proposed codes with wearable multmedial platform such as eGlasses can create new possibilities in human-environment interaction.
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An Easy and Ecological Method of Obtaining Hydrated and Non-Crystalline WO3−x for Application in Supercapacitors
PublikacjaIn this work, we report the synthesis of hydrated and non-crystalline WO3 flakes (WO3−x) via an environmentally friendly and facile water-based strategy. This method is described, in the literature, as exfoliation, however, based on the results obtained, we cannot say unequivocally that we have obtained an exfoliated material. Nevertheless, the proposed modification procedure clearly affects the morphology of WO3 and leads to loss...
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GPU-accelerated finite element method
PublikacjaIn this paper the results of the acceleration of computations involved in analysing electromagnetic problems by means of the finite element method (FEM), obtained with graphics processors (GPU), are presented. A 4.7-fold acceleration was achieved thanks to the massive parallelization of the most time-consuming steps of FEM, namely finite-element matrix-generation and the solution of a sparse system of linear equations with the...
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Focused ion beam-based microfabrication of boron-doped diamond single-crystal tip cantilevers for electrical and mechanical scanning probe microscopy
PublikacjaIn this paper, the fabrication process and electromechanical properties of novel atomic force microscopy probes utilising single-crystal boron-doped diamond are presented. The developed probes integrate scanning tips made of chemical vapour deposition-grown, freestanding diamond foil. The fabrication procedure was performed using nanomanipulation techniques combined with scanning electron microscopy and focused ion beam technologies....
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A Task-Scheduling Approach for Efficient Sparse Symmetric Matrix-Vector Multiplication on a GPU
PublikacjaIn this paper, a task-scheduling approach to efficiently calculating sparse symmetric matrix-vector products and designed to run on Graphics Processing Units (GPUs) is presented. The main premise is that, for many sparse symmetric matrices occurring in common applications, it is possible to obtain significant reductions in memory usage and improvements in performance when the matrix is prepared in certain ways prior to computation....
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OpenGL accelerated method of the material matrix generation for FDTD simulations
PublikacjaThis paper presents the accelerated technique of the material matrix generation from CAD models utilized by the finite-difference time-domain (FDTD) simulators. To achieve high performance of these computations, the parallel-processing power of a graphics processing unit was employed with the use of the OpenGL library. The method was integrated with the developed FDTD solver, providing approximately five-fold speedup of the material...
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Optoelectronic system for monitoring of thin diamond layers growth
PublikacjaDevelopment of the optoelectronic system for monitoring of diamond/DLC (Diamond-Like-Carbon) thin films growth during mu PA ECR CVD (Microwave Plasma Assisted Electron Cyclotron Resonance Chemical Vapour Deposition) process is described. The multi-point Optical Emission Spectroscopy (OES) and Raman spectroscopy were employed as non-invasive optoelectronic tools. Dissociation of H-2 molecules, excitation and ionization of hydrogen...
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Communication and Load Balancing Optimization for Finite Element Electromagnetic Simulations Using Multi-GPU Workstation
PublikacjaThis paper considers a method for accelerating finite-element simulations of electromagnetic problems on a workstation using graphics processing units (GPUs). The focus is on finite-element formulations using higher order elements and tetrahedral meshes that lead to sparse matrices too large to be dealt with on a typical workstation using direct methods. We discuss the problem of rapid matrix generation and assembly, as well as...
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Hardware accelerated thin client for virtual reality applications
PublikacjaThin client applications often make minimal use of hardware available at the client side. This article focuses on the problem of creating portable thin client application for virtual reality applications, which allows use of client graphics hardware to aid rendering process. Some already available potential solutions are presented and entirely new protocol for client-server communication is presented to allow fast and reliable...
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Molecular dynamics-based model of VEGF-A and its heparin interactions
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Designing Emergency-Medical-Service Helicopter Interiors Using Virtual Manikins
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Evaluation of the scale-consistent UNRES force field in template-free prediction of protein structures in the CASP13 experiment
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Use of the UNRES force field in template-assisted prediction of protein structures and the refinement of server models: Test with CASP12 targets
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Ensemble fits of restrained peptides’ conformational equilibria to NMR data. Dependence on force fields: AMBER/8 ff03 versus ECEPP/3
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Modeling protein structures with the coarse-grained UNRES force field in the CASP14 experiment
PublikacjaThe UNited RESidue (UNRES) force field was tested in the 14th Community Wide Experiment on the Critical Assessment of Techniques for Protein Structure Prediction (CASP14), in which larger oligomeric and multimeric targets were present compared to previous editions. Three prediction modes were tested (i) ab initio (the UNRES group), (ii) contact-assisted (the UNRES- contact group), and (iii) template-assisted (the UNRES-template...
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Long range molecular dynamics study of interactions of the eukaryotic glucosamine-6-phosphate synthase with fructose-6-phosphate and UDP-GlcNAc
PublikacjaGlucosamine-6-phosphate synthase (EC 2.6.1.16) is responsible for catalysis of the first and practically irreversible step in hexosamine metabolism. The final product of this pathway, uridine 5 diphospho Nacetyl- d-glucosamine (UDP-GlcNAc), is an essential substrate for assembly of bacterial and fungal cell walls. Moreover, the enzyme is involved in phenomenon of hexosamine induced insulin resistance in type II diabetes, which...
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Simplified AutoDock force field for hydrated binding sites
Publikacjahas been extracted from the Protein Data Bank and used to test and recalibrate AutoDock force field. Since for some binding sites water molecules are crucial for bridging the receptor-ligand interactions, they have to be included in the analysis. To simplify the process of incorporating water molecules into the binding sites and make it less ambiguous, new simple water model was created. After recalibration of the force field on...
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Visualizing spatially decomposed intermolecular correlations in the infrared spectra of aprotic liquids
PublikacjaInfrared (IR) spectroscopy is commonly used to study intermolecular interactions in the liquid phase, including solvation phenomena. On the other hand, ab initio molecular dynamics (AIMD) simulations offer the possibility to obtain IR spectra from first principles. Surpassing the experiment, AIMD simulations can deliver additional information on the spatial intermolecular correlations underlying the IR spectrum of the liquid. Although...
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Atmospheric degradation mechanism of anthracene initiated by OH•: A DFT prediction
PublikacjaDensity functional theory (DFT) calculations at the M06-2X/def2-TZVP level have been employed to investigate the atmospheric oxidation mechanism of anthracene (ANT) initiated by HO•. Direct hydrogen atom abstraction from the ANT using HO• takes place hardly at ambient conditions while the addition of HO• to the C1, C2, and C4 sites are thermodynamically and kinetically more advantageous. The addition reactions are controlled by...
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Ball milling induced borophene flakes fabrication
PublikacjaTo fill the knowledge gap for borophene, as the youngest member of the two-dimensional (2D)nanomaterials family, a facile, cost effective, scalable and reproducible fabrication route is still stronglyrequired. Among so far studied techniques the potential of pure mechanical processes such as ballmilling is not explored yet. Therefore, in this contribution, we explore the efficiency...
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Blended Learning Model for Computer Techniques for Students of Architecture
PublikacjaAbstract: The article summarizes two-year experience of implementing hybrid formula for teaching Computer Techniques at the Faculty of Architecture at the Gdansk University of Technology. Original educational e-materials, consisting of video clips, text and graphics instructions, as well as links to online resources are embedded in the university e-learning educational platform. The author discusses technical constraints associated...
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GPU Acceleration of Multilevel Solvers for Analysis of Microwave Components With Finite Element Method
PublikacjaThe letter discusses a fast implementation of the conjugate gradient iterative method with ${rm E}$-field multilevel preconditioner applied to solving real symmetric and sparse systems obtained with vector finite element method. In order to accelerate computations, a graphics processing unit (GPU) was used and significant speed-up (2.61 fold) was achieved comparing to a central processing unit (CPU) based approach. These results...
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Application of Survey Simulator for Museums
Publikacja“Virtual Museum” is currently a very popular form of presenting museums’ collections of artefacts as well as an approach to archaeological research [1], [2], [3]. The term “virtual” can be understood in many ways – from a simple collection of on-line photographs, through multidirectional viewable panorama pictures, to complete interactive models of the real world, including 3-dimensional (3D) geometry, physical properties and many...
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A DFT+U study of carbon nanotubes under influence of a gate voltage
PublikacjaA possibility of appearance of antiferromagnetic ordering in armchair carbon nanotubes and graphene is studied using density functional theory within a DFT+U approach. It is shown that the Coulomb repulsion between electrons in the -orbitals of graphene would need to reach a threshold value of ,...
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Electrochemistry from first-principles in the grand canonical ensemble
PublikacjaProgress in electrochemical technologies, such as automotive batteries, supercapacitors, and fuel cells, depends greatly on developing improved charged interfaces between electrodes and electrolytes. The rational development of such interfaces can benefit from the atomistic understanding of the materials involved by first-principles quantum mechanical simulations with Density Functional Theory (DFT). However, such simulations are...
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Development of novel (BiO)2OHCl/BiOBr enriched with boron doped-carbon nanowalls for photocatalytic cytostatic drug degradation: Assessing photocatalytic process utilization in environmental condition
PublikacjaIn this work, a series of novel (BiO)2OHCl/BiOBr-x%B:DGNW (x = 0%, 1%, 1.5%, 2%) composites with different content of boron-doped diamond/graphene nanowalls (B:DGNW) were fabricated by simple solvothermal synthesis. A boron-doped diamond/graphene nanowalls (B:DGNW) were prepared by CVD method. A series of analyses: XRD, XPS, SEM, and TEM showed that the photocatalyst (BiO)2OHCl/BiOBr-x%B:DGNW with a “flower-like” morphology was...
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Tuning the Laser-Induced Processing of 3D Porous Graphenic Nanostructures by Boron-Doped Diamond Particles for Flexible Microsupercapacitors
PublikacjaCarbon (sp3)-on-carbon (sp2) materials have the potential to revolutionize fields such as energy storage and microelectronics. However, the rational engineering and printing of carbon-on-carbon materials on flexible substrates remains a challenge in wearable electronics technology. This study demon-strates the scalable fabrication of flexible laser-induced graphene (LIG)-boron doped diamond nanowall (BDNW) hybrid nanostructures...
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Multi-Option Model of Railway Traffic Organization Including the Energy Recuperation
PublikacjaThe article presents the issue of organization of railway traffic within the station, taking into account energy recuperation. We identified a number of factors which affect the energy efficiency of recuperation, including the issue of transfer of energy technology between a few vehicles. We presented some aspects of the decision problem of graphic train timetable construction with regard to recuperation. As an indicator of quality...
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Operational problems of large power diesel engines combusting biofuels, considered togetherwith assessment of their operation
PublikacjaWithin this article the issue of large power self ignition engines fed with biofuels has been undertaken. The analysis focused mainly on operation problems. There has been noticed some advantages and difficulties associated with the biofuel application to self ignition engines. The research problem has been characterised and the research purposes have been proposed enabling the most profitable formation of energetic features of...
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Degradation of xylose using a microbial fuel cell
PublikacjaIt is generally known, that many kind of microorganisms are capable of using carbohydrates as a source of carbon and energy in an environment. The biodegradation process of monosaccharides from pentoses (in this case- racemic mixture of D - and L – xylose) is an immense opportunity for an entire reduction of biological contamination to neutral compounds through MFC. The process is occurred in a single-chamber MFC, which is contained...
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Analytical chemistry in technical approaches: immobilization of biosorbent waste containing heavy metals in cemented materials
PublikacjaAn ecologically safe and economically justified method of stabilization of the used biosorbents was developed. Sorbent contaminated with heavy metals has been successfully solidified/stabilized using a hydraulic binder. The test results indicated that up to 1% of the biosorbent residue used could be added without compromising the compressive strength of the mortar. The compressive strength of the modified mortars did not change...
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Feature extraction in detection and recognition of graphical objects
PublikacjaDetection and recognition of graphic objects in images are of great and growing importance in many areas, such as medical and industrial diagnostics, control systems in automation and robotics, or various types of security systems, including biometric security systems related to the recognition of the face or iris of the eye. In addition, there are all systems that facilitate the personal life of the blind people, visually impaired...
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Determination of binder-aggregate adhesion by contact angle measurement
PublikacjaThe key factor in asphalt pavement durability, especially in the presence of water, is adhesion of the bituminous binder to mineral aggregates. There are currently no standard laboratory test procedures that can quickly and accurately measure the strength of the interaction (bond) between the binder and aggregate. In this regard, to evaluate the adhesion force measurements based on the contact angle between the binder and the aggregate...
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Finite element matrix generation on a GPU
PublikacjaThis paper presents an efficient technique for fast generation of sparse systems of linear equations arising in computational electromagnetics in a finite element method using higher order elements. The proposed approach employs a graphics processing unit (GPU) for both numerical integration and matrix assembly. The performance results obtained on a test platform consisting of a Fermi GPU (1x Tesla C2075) and a CPU (2x twelve-core...
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Jacobi and gauss-seidel preconditioned complex conjugate gradient method with GPU acceleration for finite element method
PublikacjaIn this paper two implementations of iterative solvers for solving complex symmetric and sparse systems resulting from finite element method applied to wave equation are discussed. The problem under investigation is a dielectric resonator antenna (DRA) discretized by FEM with vector elements of the second order (LT/QN). The solvers use the preconditioned conjugate gradient (pcg) method implemented on Graphics Processing Unit (GPU)...
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GPU based implementation of Temperature-Vegetation Dryness Index for AVHRR3 Satellite Data
PublikacjaPaper presents an implementation of TVDI (Temperature-Vegetation-Dryness Index) algorithm on GPU (Graphics Processing Unit). Calculation of this index is based on LST (Land Surface Temperature) and NDVI (Normalized Difference Vegetation Index). Discussed results are based on multi-spectral imagery retrieved from AVHRR3 sensors for area of Poland. All phases of TVDI implementation on GPU are modified in respect to CUDA platform....
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A critical review on electrospun membranes containing 2D materials for seawater desalination
PublikacjaElectrospun nanofibers are a cutting-edge class of membranes which have been applied in several molecular separations. These membranes can be well designed and tailored due to the versatility of the electrospinning process. Eminently, electrospun membranes, once implemented in membrane processes, are an alternative in removing salts and some other minerals from water, so-called desalination, for producing drinking water. Such membranes...
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Electrically Conductive Carbon‐based (Bio)‐nanomaterials for Cardiac Tissue Engineering
PublikacjaA proper self-regenerating capability is lacking in human cardiac tissue which along with the alarming rate of deaths associated with cardiovascular disorders makes tissue engineering critical. Novel approaches are now being investigated in order to speedily overcome the challenges in this path. Tissue engineering has been revolutionized by the advent of nanomaterials, and later by the application of carbon-based nanomaterials...
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Red Algae – An Alternative Source of Carbon Material for Energy Storage Application
PublikacjaNew electrode material obtained by pyrolysis of aquatic biomass macro (red algae) soaked with glucose solution has been characterized by SEM, EDX and Raman spectroscopy. Graphitized carbon was identified by Raman spectroscopy. Galvanostatic cyclic polarization of the materials in contact with 1M LiPF6 electrolyte in EC:DMC (1:1 v/v) and Li as a counter electrode was performed. Specific capacity of the novel material was enhanced...
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Implementation of TVDI calculation for coastal zone
PublikacjaPaper will show an implementation of TVDI (Temperature-Vegetation-Dryness Index) algorithm on GPU (Graphics Processing Unit). Calculation of this index is based on LST (Land Surface Temperature) and NDVI (Normalized Difference Vegetation Index). Discussed results are based on multi-spectral imagery retrieved from AVHRR3 sensors for area of Poland, especially from region of Gdańsk coastal zone. All phases of TVDI implementation...
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The Use of an Autoencoder in the Problem of Shepherding
PublikacjaThis paper refers to the problem of shepherding clusters of passive agents consisting of a large number of objects by a team of active agents. The problem of shepherding and the difficulties that arise with the increasing number of data describing the location of agents have been described. Several methods for reducing the dimensionality of data are presented. Selected autoencoding method using a Restricted Boltzmann Machine is...
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Study on 19th-century cast iron columns from the former financial office building in Kwidzyn
PublikacjaThe article presents the results for cast iron columns used as floor supports in the former financial office building in Kwidzyn (Poland).The stocktaking drawings provided the general and detailed data about the 19th century designer’s decisions. During the research, architectural and structural analysis was carried out. The graphics were used as a starting material for preparing 3D calculation models. The FEM-based numerical simulations...
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GPU-Accelerated LOBPCG Method with Inexact Null-Space Filtering for Solving Generalized Eigenvalue Problems in Computational Electromagnetics Analysis with Higher-Order FEM
PublikacjaThis paper presents a GPU-accelerated implementation of the Locally Optimal Block Preconditioned Conjugate Gradient (LOBPCG) method with an inexact nullspace filtering approach to find eigenvalues in electromagnetics analysis with higherorder FEM. The performance of the proposed approach is verified using the Kepler (Tesla K40c) graphics accelerator, and is compared to the performance of the implementation based on functions from...
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Effects of Basalt and Carbon Fillers on Fire Hazard, Thermal, and Mechanical Properties of EPDM Rubber Composites
PublikacjaDue to growing restrictions on the use of halogenated flame retardant compounds, there is great research interest in the development of fillers that do not emit toxic compounds during thermal decomposition. Polymeric composite materials with reduced flammability are increasingly in demand. Here, we demonstrate that unmodified graphene and carbon nanotubes as well as basalt fibers or flakes can act as effective flame retardants...
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GPU-Accelerated 3D Mesh Deformation for Optimization Based on the Finite Element Method
PublikacjaThis paper discusses a strategy for speeding up the mesh deformation process in the design-byoptimization of high-frequency components involving electromagnetic field simulations using the 3D finite element method (FEM). The mesh deformation is assumed to be described by a linear elasticity model of a rigid body; therefore, each time the shape of the device is changed, an auxiliary elasticity finite-element problem must be solved....
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Lignin-based carbon fibers for renewable and multifunctional lithium-ion battery electrodes
PublikacjaLignin-based carbon fibers (LCFs) from the renewable resource softwood kraft lignin were synthesized via oxidative thermostabilization of pure melt-spun lignin and carbonization at different temperatures from 1000°C to 1700°C. The resulting LCFs were characterized by tensile testing, scanning electron microscopy (SEM), X-ray diffraction (XRD) and confocal Raman spectroscopy. The microstructure is mainly amorphous carbon with some...
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3D Metamaterial Ultra-Wideband Absorber for curved surface
PublikacjaThis paper proposes a three-dimensional metamaterial absorber based on a resistive film patch array to develop a low-cost, lightweight absorber for curved surfaces. An excellent absorption over a large frequency band is achieved through two different yet controllable mechanisms; In the first mechanism, a considerable attenuation in the wave power is achieved via graphite resistive films. The absorption is then intensified through...
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Vector Field Editing and Periodic Orbit Extraction Using Morse Decomposition
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Recent Advances in Polymer Nanocomposites: Unveiling the Frontier of Shape Memory and Self-Healing Properties—A Comprehensive Review
PublikacjaShape memory and self-healing polymer nanocomposites have attracted considerable attention due to their modifiable properties and promising applications. The incorporation of nanomaterials (polypyrrole, carboxyl methyl cellulose, carbon nanotubes, titania nanotubes, graphene, graphene oxide, mesoporous silica) into these polymers has significantly enhanced their performance, opening up new avenues for diverse applications. The...