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Search results for: SUBCUBIC GRAPHS
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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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Long range molecular dynamics study of interactions of the eukaryotic glucosamine-6-phosphate synthase with fructose-6-phosphate and UDP-GlcNAc
PublicationGlucosamine-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
Publicationhas 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
PublicationInfrared (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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Modeling protein structures with the coarse-grained UNRES force field in the CASP14 experiment
PublicationThe 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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Molecular dynamics-based model of VEGF-A and its heparin interactions
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The application of nonlinear curvature sections in the turnout diverging track
PublicationThe paper presents the analytical method of modelling the diverging track of railway turnout with nonlinear curvature sections. These sections were used for smoothing the graph of curvature in the extreme areas of turnout. The problem of the curvature distribution was identified with the use of differential equations. The resulting solutions are of universal nature for example the ability of assuming any values of curvature at...
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Distributed state estimation using a network of asynchronous processing nodes
PublicationWe consider the problem of distributed state estimation of continuous-time stochastic processes using a~network of processing nodes. Each node performs measurement and estimation using the Kalman filtering technique, communicates its results to other nodes in the network, and utilizes similar results from the other nodes in its own computations. We assume that the connection graph of the network is not complete, i.e. not all nodes...
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Distributed state estimation using a network of asynchronous processing nodes
PublicationWe consider the problem of distributed state estimation of continuous-time stochastic processes using a~network of processing nodes. Each node performs measurement and estimation using the Kalman filtering technique, communicates its results to other nodes in the network, and utilizes similar results from the other nodes in its own computations. We assume that the connection graph of the network is not complete, i.e. not all nodes...
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Parallel Computations of Text Similarities for Categorization Task
PublicationIn this chapter we describe the approach to parallel implementation of similarities in high dimensional spaces. The similarities computation have been used for textual data categorization. A test datasets we create from Wikipedia articles that with their hyper references formed a graph used in our experiments. The similarities based on Euclidean distance and Cosine measure have been used to process the data using k-means algorithm....
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Study of Slip Effects in Reverse Roll Coating Process Using Non-Isothermal Couple Stress Fluid
PublicationThe non-isothermal couple stress fluid inside a reverse roll coating geometry is considered. The slip condition is considered at the surfaces of the rolls. To develop the flow equations, the mathematical modelling is performed using conservation of momentum, mass, and energy. The LAT (lubrication approximation theory) is employed to simplify the equations. The closed form solution for velocity, temperature, and pressure gradient...
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Argentum Triggering Research Grants Identification of selected defects on the running surface of rails using vibration signals
ProjectsProject realized in Faculty of Civil and Environmental Engineering according to DEC-3/1/2022/IDUB/I3b/Ag agreement from 2023-03-27
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TECHNETIUM TALENT MANAGEMENT GRANTS Household credit scoring using the Luxembourg Income Study Database (LIS)
ProjectsProject realized in Gdańsk University of Technology according to DEC-18/2022/IDUB/III.4.1/Tc agreement from 2022-03-23
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Technetium Talent Management Grants Burnout syndrome among students: analysis and modeling.
ProjectsProject realized in Gdańsk University of Technology according to 26/1/2024/IDUB/III.4c/Tc agreement from 2024-02-22
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Technetium Talent Management Grants Construction and characterization of an enzyme-electrode (bio)reactor for efficient simulation of phase II metabolic reactions of small-molecule chemical compounds exhibiting biological activity.
ProjectsProject realized in Wydział Chemiczny according to DEC-10/1/2024/IDUB/III.4c/Tc agreement from 2024-04-30
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Mariusz Deja dr hab. inż.
PeopleAssistant Professor in the Department of Manufacturing Engineering and Automation. He graduated in 1993, obtaining Master degree at the Faculty of Mechanical Engineering, Gdańsk University of Technology in the field of study: Mechanical Engineering, specialization: Technological Process Design. After graduation he worked for the Department of Manufacturing Engineering and Automation and his main research area was associated with...
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Anna Brillowska-Dąbrowska dr hab. inż.
PeopleAnna Brillowska-Dąbrowska, born in 1971 in Gdańsk, Poland, graduated in 1996 in Biotechnology from the Faculty of Chemistry, Gdańsk University of Technology (GUT). In 2001 she got her PhD, in 2013 became a DSc (habilitation). She was employed in 2004 as a researcher in Statens Serum Institut in Denmark. Currently she is an Associate Professor (adiunkt) in the Department of Molecular Biotechnology and Microbiology and Vice-dean...
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Gdańsk oczami Irlandzkich i Polskich Artystów Plastyków. Krenz J.: Cykl 7 akwarel i pasteli. Zimowy Gdańsk
PublicationMiędzynarodowa wystawa zbiorowa, poplenerowa: Gdańsk oczami Irlandzkich i Polskich Artystów Plastyków. Galeria Sztuki Domu Aktora w Gdańsku. Przez kilka grudniowych dni artyści plastycy z Irlandii i Polski malowali zimowy Gdańsk. Stronę irlandzką reprezentowali: Jonathan Brennan, Katherine St.Angelo, Esther O’Kelly, Joanna Mules, Marcus Patton. Polscy uczestnicy: Magdalena Nowacka-Kolano, Anna Schumacher, Krzysztof Ludwin i Komisarz...
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Działalność w obszarze grantów realizowana przez Katedrę Sieci Teleinformacyjnych
PublicationPrzedstawiono działalność Katedry Sieci Teleinformacyjnych PG WETI w obszarze grantów finansowanych przez instytucje centralne, przy czym główny nacisk położono na scharakteryzowanie aktualnie realizowanych projektów. Opisano dwa projekty finansowane przez NCBiR. Pierwszy dotyczy koncepcji oraz implementacji integracji informacji w rozproszonych elementach systemu wymiany danych Straży Granicznej, natomiast drugi strumieniowej...
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Knowledge-based functional safety management using ProSIL software
PublicationIn the article the ProSIL software for computer aided functional safety management is presented. The software consists of three modules for the determination of the required SIL level (ProSILen) and verification of the SIL level (ProSILver). In the ProSIL the calibrated knowledge-based risk graph method for determining the required safety integrity level (SIL) of the safety functions identified in hazard analysis is implemented....
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Social activities in The Vistula Marshlands
PublicationSocial activities in The Vistula Marshlands favouring development in this part of the Pomeranian Voivodeship and preserving its specific character have recently been a domain of Local Activity Groups, clubs and societies, as well as cultural centres and local schools. The activation of local environment is supported by the possibility of gaining EU grants, particularly 4 LEADER Axis from the Rural Development Programme for years...
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Wear of Electroplated Tools Used for Flat Grinding of Ceramics
PublicationTwo methods for the abrasive properties evaluation, based on the image processing, are presented in the paper. Image processing analysis was developed to evaluate quickly the abrasive properties as the tool wears down. The coefficient based on the image brightness was calculated and additional analysis was based on the number of grains located on the active surface of the tool before and after machining. The active surfaces of...
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GPU-accelerated finite element method
PublicationIn 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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Błędy w przedstawianiu wyników pomiarów i wartości wielkości fizycznych popełniane w pracach studenckich
PublicationArtykuł powstał na bazie doświadczeń zdobytych podczas pracy dydaktycznej autora jako wykładowcy i nauczyciela akademickiego prowadzącego zajęcia w Laboratorium Podstaw Metrologii. Przytoczono przykłady nieprawidłowości w przedsta-wianiu wyników pomiarów i wartości wielkości fizycznych pochodzące z prac pisemnych studentów i skonfrontowano je z zaleceniami Międzynarodowego Układu Jednostek Miar (SI), oraz polskimi aktami prawnymi.
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Results after grinding C45 steel
Open Research DataThe database contains results from nanoindenter, scanning microscope and also X-ray diffractometer. To determine the residual stresses and the size of the crystallites in the ferrite grains in the grinded surface layer, the Williamson Hall analysis of the X-ray diffraction patterns was performed. XRD diffraction patterns were also used to perform a...
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Water mobility and thermal properties of smoked soft cheese
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Subjective tests for gathering knowledge for applying color grading to video clips automatically
PublicationThe analysis of film music concerning caused emotions may allow for a more accurate adaptation of the color of the film in the context of color grading. Therefore, this paper aims to gather knowledge on the correlation between the applied color palette to a video clip, music associated with a particular shot, and emotions evoked. For that purpose, subjective tests are prepared in which several video clips are presented with or...
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Medical Image Dataset Annotation Service (MIDAS)
PublicationMIDAS (Medical Image Dataset Annotation Service) is a custom-tailored tool for creating and managing datasets either for deep learning, as well as machine learning or any form of statistical research. The aim of the project is to provide one-fit-all platform for creating medical image datasets that could easily blend in hospital's workflow. In our work, we focus on the importance of medical data anonimization, discussing the...
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On the non-linear dynamics of torus-shaped and cylindrical shell structures
PublicationIn this study, the non-linear dynamic analysis of torus-shaped and cylindrical shell-like structures has been studied. The applied material is assumed as the functionally graded material (FGM). The structures are considered to be used for important machines such as wind turbines. The effects of some environmental factors on the analysis like temperature and humidity have been considered. The strain field has been calculated in...
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Subjective tests for gathering konwledge for applaying color grading to video clips automatically
PublicationThe analysis of film music concerning caused emotions may allow for a more accurate adaptation of the color of the film in the context of color grading. Therefore, this paper aims to gather knowledge on the correlation between the applied color palette to a video clip, music associated with a particular shot,and emotions evoked. For that purpose, subjective tests are prepared in which several video clips are presented with...
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Hat problem on the cycle C4
PublicationThe topic of our paper is the hat problem. In that problem, each of n people is randomly tted with a blue or red hat. Then everybody can try to guess simultanously his own hat color looking at the hat colors of the other people. The team wins if at least one person guesses his hat color correctly and no one guesses his hat color wrong, otherwise the team loses. The aim is to maximize the probability of win. In this version every...
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Mitigation of Fake Data Content Poisoning Attacks in NDN via Blockchain
PublicationAbstract—Information-centric networks struggle with content poisoning attacks (CPAs), especially their stronger form called Fake Data CPA, in which an intruder publisher uploads content signed with stolen credentials. Following an existing graphinfection based approach leveraging the constrained time when stolen credentials are useful, we design a blockchain-based mitigation scheme for Named Data Networking architectures. We postulate...
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The influence of food phytochemicals on cyclic phosphodiesterase 4 (PDE4) activity
PublicationCyclic phosphodiesterase 4 (PDE4) belongs to family of cyclic phosphodiesterases, which are expressed predominantly in inflammatory cells, airway smooth muscles, cardiovascular tissues and brain. Inhibitors of this family of enzymes found medicinal applications as antidepressants, antiinflamatory drugs (mainly in airway diseases) or antiasthmatics (Ibudilast). PDE4 inhibitors are also being tested for preventing the development...
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Processing, Mechanical and Morphological Properties of GTR Modified by SBS Copolymers
PublicationIn this work, ground tire rubber (GTR) was thermo-mechanically treated in the presence of styrene-butadiene-styrene (SBS) copolymers. During preliminary investigation, the effects of different SBS copolymer grades, the variable content of SBS copolymer on the Mooney viscosity, and the thermal and mechanical properties of modified GTR were determined. Subsequently, GTR modified by SBS copolymer and cross-linking agents (sulfur-based...
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A Task-Scheduling Approach for Efficient Sparse Symmetric Matrix-Vector Multiplication on a GPU
PublicationIn 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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New kinematic systems in single-sided lapping and their influence on lap wear
PublicationPrevious studies on one-sided lapping allow to state that not only parameters of lapping elements (i.e. properties of workpiece, abrasive grains and lapping plate) impact on a lapping efficiency. Influential are also kinematics and dynamics of the process. It is crucial to control an average velocity of lapping (v), a distribution of tangential acceleration (at), a nominal pressure (p), a lapping time (t) and disposal of workpiece...
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OpenGL accelerated method of the material matrix generation for FDTD simulations
PublicationThis 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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Paradigm of deep pectoral myopathy in broiler chickens
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Adjusting Game Difficulty by Recreating Behavioral Trees of Human Player Actions
PublicationThis paper presents a proposition of a method for adjusting game difficulty to the current level of player's skills in one-on-one games. The method is based on recognition of human player's actions and recording of those actions in the form of behavioral trees. Such trees are later used to drive behaviors of computer-controlled opponents so that human player has beat hit own strategy and improve on it, to win subsequent games....
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On the partition dimension of trees
PublicationGiven an ordered partition Π={P1,P2,…,Pt} of the vertex set V of a connected graph G=(V,E), the partition representation of a vertex v∈V with respect to the partition Π is the vector r(v|Π)=(d(v,P1),d(v,P2),…,d(v,Pt)), where d(v,Pi) represents the distance between the vertex vv and the set Pi. A partition Π of V is a resolving partition of G if different vertices of G have different partition representations, i.e., for every...
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Big Data i 5V – nowe wyzwania w świecie danych (Big Data and 5V – New Challenges in the World of Data)
PublicationRodzaje danych, składające się na zbiory typu Big Data, to m.in. dane generowane przez użytkowników portali internetowych, dane opisujące transakcje dokonywane poprzez Internet, dane naukowe (biologiczne, astronomiczne, pomiary fizyczne itp.), dane generowane przez roboty w wyniku automatycznego przeszukiwania przez nie Internetu (Web mining, Web crawling), dane grafowe obrazujące powiązania pomiędzy stronami WWW itd. Zazwyczaj,...
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Analysis of the effect of the seismic gap on the response of buildings experiencing pounding during earthquakes
PublicationThe aim of this paper is to investigate the effect of the seismic gap on the dynamic response of buildings experiencing earthquake-induced pounding. Three buildings have been analysed, which are 5-storey, 7-storey and 9-storey structures. Three possible pounding scenarios have been considered, which are pounding between 5-storey and 7-storey buildings, pounding between 5-storey and 9-storey buildings and pounding between 7-storey...
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Boron-Doped Diamond/GaN Heterojunction—The Influence of the Low-Temperature Deposition
PublicationWe report a method of growing a boron-doped diamond film by plasma-assisted chemical vapour deposition utilizing a pre-treatment of GaN substrate to give a high density of nucleation. CVD diamond was deposited on GaN substrate grown epitaxially via the molecular-beam epitaxy process. To obtain a continuous diamond film with the presence of well-developed grains, the GaN substrates are exposed to hydrogen plasma prior to deposition....
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Daylight evaluation for multi-family housing in Poland
PublicationThis PhD dissertation focuses on methods of daylight appraisal useful in the design of the contemporary multifamily housing. The theoretical part of the thesis offers a review of daylight indicators, evaluations methods and tools within the built environment. It covers a review of daylight recommendations found in building standards and other normative documents affecting the design of the residential spaces. A pilot work survey...
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Hardware accelerated thin client for virtual reality applications
PublicationThin 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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Multi-Option Model of Railway Traffic Organization Including the Energy Recuperation
PublicationThe 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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Variability in the distribution of phytoplankton as affected by changes to the main physical parameters in the Baltic Sea**The study was financially supported by the Polish State Committee of Scientific Research (grants: No. N N305 111636, N N306 353239) and ECOOP IP WP 10.1.3 Project. Partial support for this study was also provided by the Satellite Monitoring of the Baltic Sea Environment – SatBatłyk project founded by the European Union through European Regional Development Fund contract No. POIG 01.01.02-22-011/09.
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Feature extraction in detection and recognition of graphical objects
PublicationDetection 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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Modifiers for Medical Grade Polymeric Systems used in FDM 3D Printing - Short Review
PublicationFDM 3D printing could find an application in the wide range of biomedical applications. Unfortunately, the quantity of polymeric biomaterials suitable to processing into filaments is limited. The most frequently used biomaterials for medical constructs such as bone grafts, soft tissue scaffolds or another DDS include PCL, PLA, PVA, HPC, EVA copolymer, EC and TPUs. Various modifiers such as TCP, HA, TEC, MMC could be applicated...