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Search results for: lyme disease, borrelia burgdorferi sensu lato, epitope mapping, serodiagnosis, chimeric proteins
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Effect of osmolytes of different type on DNA behavior in aqueous solution. Experimental and theoretical studies
PublicationOsmolytes, the small organic molecules accumulated in cells under environmental stress, can modulate the stability of biopolymers such as proteins and DNA. In spite of many years of research, there is no established molecular mechanism of the influence of osmolytes on DNA structure. Here, we used two model osmolytes that denature (urea) or stabilize (trimethylglycine, TMG) proteins to study their effect on DNA in aqueous solutions...
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A Colorimetric Microplate Assay for DNA-Binding Activity of His-Tagged MutS Protein
PublicationA simple microplate method was designed for rapid testing DNA-binding activity of proteins. The principle of the assay involves binding of tested DNA by his-tagged protein immobilized on a nickel-coated ELISA plate, following colorimetric detection of biotinylated DNA with avidin conjugated to horseradish peroxidase. The method was used to compare DNA mismatch binding activities of MutS proteins from three bacterial species. The...
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EASY ACCESS TOOL FOR SMALL INTERFERING RNA (siRNA) DATA
PublicationFor many decades it was an accepted dogma of molecular genetics that the expression of genes is a “one-way-road” leading only in one direction from DNA to RNA to proteins. Recent discoveries in modern molecular genetics have challenged this dogma showing that specific RNA molecules play a central role in controlling the activity of genes by changing the structure of DNA sequences, targeting other RNAs for degradation or blocking...
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Deep CNN based decision support system for detection and assessing the stage of diabetic retinopathy
PublicationThe diabetic retinopathy is a disease caused by long-standing diabetes. Lack of effective treatment can lead to vision impairment and even irreversible blindness. The disease can be diagnosed by examining digital color fundus photographs of retina. In this paper we propose deep learning approach to automated diabetic retinopathy screening. Deep convolutional neural networks (CNN) - the most popular kind of deep learning algorithms...
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Using Convolutional Neural Networks for Corneal Arcus Detection Towards Familial Hypercholesterolemia Screening
PublicationFamilial hypercholesterolemia (FH) is a highly undiagnosed disease. Among FH patients, the onset of premature coronary artery disease is 13 times higher than in the general population. Early diagnosis and treatment is essential to prevent cardiovascular diseases and their complications, and to prolong life. One of the clinical criteria of FH is the occurrence of a corneal arcus (CA) among patients, especially those under 45 years...
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Nanoparticles: Taking a Unique Position in Medicine
PublicationThe human nature of curiosity, wonder, and ingenuity date back to the age of humankind. In parallel with our history of civilization, interest in scientific approaches to unravel mechanisms underlying natural phenomena has been developing. Recent years have witnessed unprecedented growth in research in the area of pharmaceuticals and medicine. The optimism that nanotechnology (NT) applied to medicine and drugs is taking serious...
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Molecularly imprinted polymers for the detection of volatile biomarkers
PublicationIn the field of cancer detection, the development of affordable, quick, and user-friendly sensors capable of detecting various cancer biomarkers, including those for lung cancer (LC), holds utmost significance. Sensors are expected to play a crucial role in the early-stage diagnosis of various diseases. Among the range of options, sensors emerge as particularly appealing for the diagnosis of various diseases, owing to their cost-effectiveness,...
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The bile salt content of human bile impacts on simulated intestinal proteolysis of β-lactoglobulin
PublicationThe gastrointestinal hydrolysis of food proteins has been portrayed in scientific literature to predominantly depend on the activity and specificity of proteolytic enzymes. Human bile has not been considered to facilitate proteolysis in the small intestine, but rather to assist in intestinal lipolysis. However, human bile can potentially influence proteins that are largely resistant to gastric digestion, and which are mainly hydrolysed...
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Fatty acyl benzamido antibacterials based on inhibition of DnaK-catalyzed protein folding
PublicationWe have reported that the hsp70 chaperone DnaK from Escherichia coli might assist protein folding by catalyzing the cis/trans isomerization of secondary amide peptide bonds in unfolded or partially folded proteins. In this study a series of fatty acylated benzamido inhibitors of the cis/trans isomerase activity of DnaK was developed and tested for antibacterial effects in E. coli MC4100 cells. Nα-[Tetradecanoyl-(4-aminomethylbenzoyl)]-l-asparagine...
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Texture or Linker? Competitive Patterning of Receptor Assembly toward Ultra-Sensitive Impedimetric Detection of Viral Species at Gold-Nanotextured Titanium Surfaces
PublicationIn this work, we study the electrodes with a periodic matrix of gold particles pattered by titanium dimples and modified by 3-mercaptopropionic acid (MPA) followed by CD147 receptor grafting for specific impedimetric detection of SARS-CoV-2 viral spike proteins. The synergistic DFT and MM/MD modeling revealed that MPA adsorption geometries on the Au–Ti surface have preferential and stronger binding patterns through the carboxyl...
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Mechanism of antifreeze protein functioning and the “anchored clathrate water” concept
PublicationIn liquid water, there is a natural tendency to form aggregates that consist of water molecules linked by hydrogen bonds. Such spontaneously formed aggregates are surrounded by a "sea" of disordered water molecules, with both forms remaining in equilibrium. The process of creating water aggregates also takes place in the solvation water of proteins, but in this case the interactions of water molecules with the protein surface shift...
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Determination of antibiotic residues in honey
PublicationHoney produced by honeybees is a valuable food product. The presence of xenobiotics in honey may harm its quality and constitute a danger to human health. Antibiotics are commonly applied by beekeepers to eliminate disease among honeybees. Moreover, ubiquitous administration of antibiotics may cause bacteria to become resistant to many drugs and spread antibioticresistant strains of bacteria. Appropriate sample preparation and...
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Observation on red blood cells fluctuations by diffraction phase microscopy
PublicationNowadays there is quite huge need for more and more precise and effective fast diagnostics methods in hematology diseases. One of the most important blood components are erythrocytes – Red Blood Cells (RBCs). Due to their size they are easy to observe using microscopy. It is commonly known that the shape and lifetime of RBCs allows for early disease identification. Authors present special measurement system for RBCs fluctuations...
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Asymmetrical Modes in Polyphase Motors and Drives
PublicationThe effect of power supply and/or motor asymmetry on the phase-load distribution and the ripple of electromagnetic torque in a polyphase drive is studied by the method of symmetrical components. It is shown that the presence of asymmetry causes the mapping of all harmonics in the supply voltage into all planes of symmetrical components and eliminates the possibility of independent control of harmonics. The dynamic model of a five-phase...
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Rapid multi-objective simulation-driven design of compact microwave circuits
PublicationA methodology for rapid multi-objective design of compact microwave circuits is proposed. Our approach exploits point-by-point Pareto set identification using surrogate-based optimization techniques, auxiliary equivalent circuit models, and space mapping as the major model correction method. The proposed technique is illustrated and validated through the design of a compact rat-race coupler. A set of ten designs being trade-offs...
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Poly-L-Lysine-modified boron-doped diamond electrodes for the amperometric detection of nucleic acid bases
PublicationBoron-doped diamond (BDD) is a very promising supporting material used in the construction of biosensors for molecular recognition. The direct immobilization of structurally-organized huge molecules, such as poly-L-Lysine (PLL) provides the possibility of determining organic molecules, e.g. nucleic acid bases (e.g. adenine, guanine) or peptides and proteins. This paper describes the direct method for chemical and electrochemical...
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How water mediates the long-range interactions between remote protein molecules
PublicationThe high crowding of macromolecules in the cytoplasm affects the processes that occur inside a living cell. It can, for example, promote the forming of various loosely connected structures of proteins. It also means that bulk water is, essentially, not present there. The relatively thin layer of solvent that separates macromolecules may be able to participate in the long-range interactions between them and make them respond to...
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Molecular Strategy for Survival at a Critical High Temperature in Eschierichia coli
PublicationThe molecular mechanism supporting survival at a critical high temperature (CHT) in Escherichia coli was investigated. Genome-wide screening with a single-gene knockout library provided a list of genes indispensable for growth at 47°C, called thermotolerant genes. Genes for which expression was affected by exposure to CHT were identified by DNA chip analysis. Unexpectedly, the former contents did not overlap with the latter except...
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Novel single-stranded DNA-binding protein from psyvhrophilic bacterium Psychrobacter arcticus
PublicationTo study the biochemical properties of SSB from Psychrobacter arcticus (ParSSB), we have cloned the ssb genes obtained by PCR and have developed Escherichia coli overexpression systems. The gene consists of an open reading frame of 642 nucleotides encoding SSB protein of 213 amino acids with a calculated molecular mass of 22.8 kDa. The amino-acid sequence of ParSSB exhibits 49% identity and 57% similarity to Escherichia coli SSB....
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The structurally similar TRFH domain of TRF1 and TRF2 dimers shows distinct behaviour towards TIN2
PublicationThe telomere repeat binding-factor 1 and 2 (TRF1 and TRF2) proteins of the shelterin complex bind to duplex telomeric DNA as homodimers, and the homodimerization is mediated by their TRFH (TRF-homology) domains. We performed molecular dynamic (MD) simulations of the dimer forms of TRF1TRFH and TRF2TRFH in the presence/absence of the TIN2TBM (TIN2, TRF-interacting nuclear protein 2, TBM, TRF-binding motif) peptide. The MD results...
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A New Expression System Based on Psychrotolerant Debaryomyces macquariensis Yeast and Its Application to the Production of Cold-Active β-D-Galactosidase from Paracoccus sp. 32d
PublicationYeasts provide attractive host/vector systems for heterologous gene expression. The currently used yeast-based expression platforms include mesophilic and thermotolerant species. A eukaryotic expression system working at low temperatures could be particularly useful for the production of thermolabile proteins and proteins that tend to form insoluble aggregates. For this purpose, an expression system based on an Antarctic psychrotolerant...
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Ultrasensitive electrochemical determination of the cancer biomarker protein sPD-L1 based on a BMS-8-modified gold electrode
PublicationThis work describes the modification of a gold electrode with the BMS-8 compound that interacts with the Programmed Death-Ligand 1 (PD-L1), an immune checkpoint protein. The results show that we can confirm the presence of the sPD-L1 in the concentration range of 10−18 to 10−8 M using electrochemical impedance spectroscopy (EIS) with a limit of detection (LOD) of 1.87 × 10−14 M for PD-L1 (S/N = 3.3) and at a concentration of 10−14...
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Enzyme Conjugation - A Promising Tool for Bio-catalytic and Biotransformation Applications – A Review
PublicationEnzymes have revolutionized conventional industrial catalysts as more efficient, eco-friendly, and sustainable substitutes that can be used in different biotechnological processes, food, and pharmaceutical industries. Yet, the enzymes from nature are engineered to make them adapt and enhance their durability in the industrial environment. One promising approach involves the combined use of multiple enzymes that catalyze highly...
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GRAPHICAL REPRESENTATION OF MUSIC SET BASED ON MOOD OF MUSIC. GRAFICZNA PREZENTACJA ZBIORU MUZYCZNEGO OPARTA NA ANOTACJI NASTROJU MUZYKI
PublicationOne of the features for music recommendation, which is useful and intuitive for music listen-ers, is “mood”. The paper presents an approach to graphical representation of mood of music pieces. Subjective evaluation based on listening tests is performed for assigning mood labels of 150 pieces of music and placing them on the 2D mood plane. As a result, a map of songs is created, where music excerpts with similar mood are organized...
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Olfactory receptor-based biosensors as potential future tools in medical diagnosis
PublicationThe detection of biomarkers is the future of non-invasive medical diagnosis and screening. Discovery and identification of reliable disease specific volatile organic compounds is dependent on repeatable, accurate analysis of trace level gaseous analytes mainly in breath samples. Natural variety of the olfactory systems and the compounds capable of gas molecules binding creates wide possibilities of acquisition and implementation...
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Factors Affecting the Rheological Properties of Foods
PublicationIn this chapter, engineering aspects concerning real body mechanics and the impact of respective food ingredients on said properties are presented together. Food is a complex matrix and each of macro and micro ingredients plays its role in the formation of rheologic properties, and minor changes in the basic ingredient structure may affect the change of these properties significantly. Basic analytic techniques are presented for...
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WYKORZYSTANIE TESTU MUSHRA W BADANIU KORZYŚCI UŻYTKOWANIA PROTEZ SŁUCHOWYCH
PublicationOcena jakości dopasowania aparatów słuchowych w kontekście korzyści, jakie może przy-nieść proteza jest złożonym zagadnieniem. Obiektywne parametry aparatów, które można wy-znaczyć (np. wzmocnienie czy pasmo przenoszenia) nie zawsze mają bezpośredni i decydujący wpływ w subiektywnej ocenie jakości dopasowania protezy słuchowej przez pacjenta. Pomiary efektywności aparatu słuchowego mogą dotyczyć wielu aspektów, między innymi kompensacji...
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"Wzory Pamięci"
PublicationFascynuje mnie forma wschodnich kobierców. W swoich pracach podejmuję próbę zrozumienia kultury, która je stworzyła, kultury, która jako środek ekspresji przyjęła estetykę znaków i ornamentów. Tkaniny (w tym także wzory umieszczane na nich) są przedmiotami, których ludzkość używa od wieków. Kobierce tworzone przez mieszkańców Wschodu są wyrazem wyznawanych przez nich wartości i mają głębokie znaczenie symboliczne. Malując motywy...
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Uwarunkowania fizyczne w opracowaniu wyników badań eksperymentalnych. W:Geotechnika w budownictwie i górnictwie. Red. W. Brząbała, J. Butyra, S. Gałczyński. Wrocław: P. Wroc.**2003 s. 134-141, 9 rys. bibliogr. 5 poz.
PublicationW wielu przypadkach opracowanie wyników badań uzyskanych w formie tabelarycznej wymaga aproksymacji danych funkcją ciągłą. Poszukiwana funkcja jest kom-binacją skończonej liczby funkcji podstawowych. W artykule opisano sytuacje, w której aproksymacja wielomianami wysokiego (trzeciego i czwartego) stop-nia, mimo małych różnic pomiędzy danymi eksperymentalnymi a funkcją aprok-symującą nie może być zastosowana ze względu na utratę...
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Techniki sprzętowej teselacji do wygładzania i uszczegóławiania modeli trójwymiarowych
PublicationDirectX 11 oraz OpenGL 4 wprowadziły do potoku renderującego bardzo oczekiwaną teselację. Wraz z upływem czasu coraz więcej silników graficznych zostaje dostosowywanych do wspierania tej technologii. W artykule przedstawiona została koncepcja teselacji od strony teoretycznej oraz praktycznej. Opisany został nowy potok renderujący, a w szczególności dedykowane teselacji programy cieniujące (ang. shaders). Główną część artykułu stanowi...
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Online urban acoustic noise monitoring system
PublicationConcepts and implementation of the Online Urban Noise Monitoring System are presented. Principles of proposed solution used for dynamic acoustical maps creating are discussed. The architecture of the system and the data acquisition scheme are described. The concept of noise mapping, based on noise source model and propagation simulations, was developed and employed in the system. Dynamic estimation of noise source parameters utilized...
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On the low-cost design of abbreviated multisection planar matching transformer
PublicationA numerically demanding wideband matching transformer composed of three nonuniform transmission lines (NUTLs) has been designed and optimized at a low computational cost. The computational feasibility of the design has been acquired through the exploitation of low-fidelity NUTL models in most steps of the design procedure and an implicit space mapping optimization engine, providing high accuracy results with only a handful of EM...
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Taq DNA polymerase fused with DNA binding protein with increased resistance to inhibitors from clinical samples
PublicationNowadays PCR method is commonly used in molecular diagnostic. However, in many cases PCR is limited, by the presence of inhibitory substances in biological, soil or food samples Efficiency and fidelity of amplification is strongly connected with DNA polymerase and reaction conditions. To meet the requirements of modern diagnostic methods it is essential to seeking for new DNA polymerases with better properties useful in these field....
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Role of the disulfide bond in stabilizing and folding of the fimbrial protein DraE from uropathogenic Escherichia coli
PublicationDr fimbriae are homopolymeric adhesive organelles of uropathogenic Escherichia coli composed of DraE subunits, responsible for the attachment to host cells. These structures are characterized by enormously high stability resulting from the structural properties of an Ig-like fold of DraE. One feature of DraE and other fimbrial subunits that makes them peculiar among Ig-like domain-containing proteins is a conserved disulfide bond...
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CaZnO-based nanoghosts for the detection of ssDNA, pCRISPR and recombinant SARS-CoV-2 spike antigen and targeted delivery of doxorubicin
PublicationOverexpression of proteins/antigens and other gene-related sequences in the bodies could lead to significant mutations and refractory diseases. Detection and identification of assorted trace concentrations of such proteins/antigens and/or gene-related sequences remain challenging, affecting different pathogens and making viruses stronger. Correspondingly, coronavirus (SARS-CoV-2) mutations/alterations and spread could lead to overexpression...
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Cloning, expression, and biochemical characterization of a coldactive GDSL-esterase of a Pseudomonas sp. S9 isolated from Spitsbergen island soil
PublicationAn estS9 gene, encoding an esterase of the psychrotolerant bacterium Pseudomonas sp. S9 was cloned and sequenced. The deduced sequence revealed a protein of 636 amino acid residues with a molecular mass of 69 kDa.Further amino acid sequence analysis revealed that the EstS9 enzyme contained a G-D-S-L motif centered at a catalytic serine, an N-terminal catalytic domain and a C-terminal autotransporter domain. Two recombinant E. coli...
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Bodybuilders and high-level meat consumers’ behavior towards rabbit, beef, chicken, turkey, and lamb meat: A comparative review
PublicationIn bodybuilders’ diets, protein plays a crucial role in supporting muscle growth and repairing damaged muscle tissue. These individuals meet their protein needs by combining dietary sources with supplements. Animal-based proteins are often preferred over plant-based proteins because they are believed to better support muscle protein synthesis. This review explores the meat consumption patterns of bodybuilders and high-level meat...
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Impact of high-pressure processing on the bioactive compounds of milk - A comprehensive review
PublicationHigh-pressure processing (HPP) is a promising alternative to thermal pasteurization. Recent studies highlighted the effectivity of HPP (400–600 MPa and exposure times of 1–5 min) in reducing pathogenic microflora for up to 5 logs. Analysis of modern scientific sources has shown that pressure affects the main components of milk including fat globules, lactose, casein micelles. The behavior of whey proteins under HPP is very important...
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Characterization of Bioactivity of Selective Molecules in Fruit Wines by FTIR and NMR Spectroscopies, Fluorescence and Docking Calculations
PublicationFourier transform infrared (FTIR) and proton nuclear magnetic resonance (1H NMR) spectroscopies were applied to characterize and compare the chemical shifts in the polyphenols’ regions of some fruit wines. The obtained results showed that FTIR spectra (1800–900 cm−1) and 1H NMR (δ 6.5–9.3 ppm) of different fruit wines can be used as main indices of the year of vintage and quality of fruit wines. In addition to the classical determination...
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A robust design of a numerically demanding compact rat-race coupler
PublicationA fast and accurate design procedure of a computationally expensive microwave circuit has been presented step-by-step and experimentally validated on the basis of a compact rat-race coupler (RRC) comprising slow-wave resonant structures (SWRSs). The final compact RRC solution has been obtained by means of a sequential optimization scheme exploiting the implicit space mapping (ISM) algorithm. A well-suited surrogate optimization...
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Techniki sprzętowej teselacji do wygładzania i uszczegóławiania modeli trójwymiarowych
PublicationDirectX 11 oraz OpenGL 4 wprowadziły do potoku renderującego bardzo oczekiwaną teselację. Wraz z upływem czasu coraz więcej silników graficznych zostaje dostosowywanych do wspierania tej technologii, więc nie można pozostawać wobec niej obojętnym. W artykule przedstawiona zostanie koncepcja teselacji od strony teoretycznej oraz praktycznej. Opisany zostanie nowy potok renderujący, a w szczególności dedykowane teselacji programy...
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Recent developmentsinthesynthesisand biological activityofacridine/acridoneanalogues
PublicationMany people in the world struggle with cancer or bacterial, parasitic, viral, Alzheimer's and other diseases. Therefore, many scientists seek new, more effective, more selective and less toxic drugs. Acridine/acridone derivatives constitute a class of compounds with a broad spectrum of biological activity and are of great interest to scientists. Todate, many acridine/acridone analogues have been obtained,which, inter alia, exhibit...
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Support for research biobanks among medical students in the Republic of Kazakhstan
PublicationBackground: Over the past few years, several biobanks have been organized in the Republic of Kazakhstan (RoK). As research biobanks are becoming an increasingly important tool for precision medicine, they require competent biobankers who will help disseminate the idea of biobanking throughout the society and support donation for research purposes. This study aimed to assess the support for research...
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Transcriptomic landscape of blood platelets in healthy donors
PublicationBlood platelet RNA-sequencing is increasingly used among the scientific community. Aberrant platelet transcriptome is common in cancer or cardiovascular disease, but reference data on platelet RNA content in healthy individuals are scarce and merit complex investigation. We sought to explore the dynamics of platelet transcriptome. Datasets from 204 healthy donors were used for the analysis of splice variants, particularly with...
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Local response surface approximations and variable-fidelity electromagnetic simulations for computationally efficient microwave design optimisation
PublicationIn this study, the authors propose a robust and computationally efficient algorithm for simulation-driven design optimisation of microwave structures. Our technique exploits variable-fidelity electromagnetic models of the structure under consideration. The low-fidelity model is optimised using its local response surface approximation surrogates. The high-fidelity model is refined by space mapping with polynomial interpolation of...
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Low-fidelity model considerations for simulation-based optimisation of miniaturised wideband antennas
PublicationHere, variable-fidelity electromagnetic (EM)-based design optimisation of miniaturised antennas is discussed. The authors focus on an appropriate selection of discretisation density of the low-fidelity EM model, which results in good performance of the optimisation algorithm in terms of its computational complexity and reliability. Trust-region gradient search with low-fidelity model corrected by means of non-linear frequency scaling...
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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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Discovering patterns of Web Page Visits from Associaton Rules Viewpoint
PublicationThe popularity of the Internet results from the almost unlimited resources of information stored in it. At the same time, Internet portals have become a widespread source of information and note very large number of visits. The list of web pages opened by users is stored in web servers' log files. Extraction of knowledge on the navigation paths of users has become carefully analyzed problem. Currently, there are a number of algorithms...
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Computer animation system based on rough sets and fuzzy logic
PublicationA fuzzy logic inference system was created, based on the analysis of animated motion features. The objective of the system is to facilitate the creation of high quality animation by analyzing personalized styles contained in numerous animations. Sequences portraying a virtual character acting with a differentiating personalized style (natural or exaggerated) and various levels of fluidity were prepared and subjectively evaluated....
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On Radar DoA Estimation and Tilted Rotating Electronically Scanned Arrays
PublicationWe consider DoA estimation in a monopulse radar system employing a tilted rotating array. We investigate the case of nonzero steering angles, in which case the mapping between the target’s azimuth and elevation in the global coordinate system and their counterparts in the array local coordinate system becomes increasingly nonlinear and coupled. Since estimating the azimuth using coherently integrated signals might be difficult because...