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Search results for: MOLECULAR-ORBITAL METHODS
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Agile Methods In Formation of Metropolis Neighbourhood
PublicationA study of the zone adjoining the metropolis area of Tricity (Poland) was conducted on the basis of analyses of changes in spatial development, outline planning decisions and local plans of spatial development. Localities placed at several dozen kilometres from strongly urbanized areas do not constitute metropolis outskirts. The vicinity of large urban centres is an obstacle to the development of localities as self-sufficient units...
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Molecular targets for antifungals in amino acid and protein biosynthetic pathways
PublicationFungi cause death of over 1.5 million people every year, while cutaneous mycoses are among the most common infections in the world. Mycoses vary greatly in severity, there are long-term skin (ringworm), nail or hair infections (tinea capitis), recurrent like vaginal candidiasis or severe, life-threatening systemic, multiorgan infections. In the last few years, increasing importance is attached to the health and economic problems...
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Molecular Dynamics simulations of thermal conductivity of penta-graphene
PublicationThe thermal conductivity of penta-graphene (PG), a new two dimensional carbon allotrope and its dependence on temperature, strain, and direction are studied in this paper. The thermal conductivity of PG is investigated using a non-equilibrium molecular dynamics simulation (NEMD) with the Two Region Method by applying the optimized Tersoff interatomic potential. Our study shows that the thermal conductivity of PG (determined for...
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Molecular aspects of the interaction between amphotericin B and a phospholipid bilayer: molecular dynamics studies.
PublicationAmfoterycyna B jest antybiotykiem z grupy polienów makrolidowych. Stosowany jest on w leczeniu układowych infekcji grzybowych. Wiadomo że związek ten oddziałuje ze składnikami błon lipidowych i tworzy kanały. W przedstawianej pracy prezentowane są wyniki symulacji przeprowadzonej dynamiką molekularną układu składającego się z 200 cząsteczek lipidów DMPC i jednej cząsteczki amfoterycyny ułożonej na powierzchni błony. Z przeprowadzonej...
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Anisotropic mechanical behavior and auxeticity of penta-graphene: Molecular statics/molecular dynamics studies
PublicationWe investigate the mechanical properties of penta-graphene (PG), a recently proposed two-dimensional carbon allotrope using atomistic simulation techniques combined with the empirical description of interatomic interactions. We report on the dependence of its three in-plane mechanical moduli (i.e. Young's modulus, Poisson's ratio and shear modulus) on the deformation direction, strain and temperature. We show that PG displays a...
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Diver Observations by Means of Acoustic Methods
PublicationSearching for objects, especially small ones, moving under water near its the free surface, is always not an easy task. Designing tools for the detection of such targets is a real challenge when the possibility of a terrorist attack is a real threat. This paper presents some aspects of diver detection by means of acoustics methods, both active (side scan sonar) and passive ones (linear receiving antenna). This approach is quite...
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Organisational methods in teaching ergonomics
PublicationCivilisation generates many problems connected with job, which cannot be resolved by one field of science that deals with matters fragmentarily, only from its own point of view. Ergonomics, i.e. synthetic knowledge about job, can solve these problems by using the resources of many fields, e.g. physiology, psychology, technical science or economy. The achievements of these fields are used in ergonomics and thus problems connected...
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A review of explainable fashion compatibility modeling methods
PublicationThe paper reviews methods used in the fashion compatibility recommendation domain. We select methods based on reproducibility, explainability, and novelty aspects and then organize them chronologically and thematically. We presented general characteristics of publicly available datasets that are related to the fashion compatibility recommendation task. Finally, we analyzed the representation bias of datasets, fashion-based algorithms’...
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Mangiferin Affects Melanin Synthesis by an Influence on Tyrosinase: Inhibition, Mechanism of Action and Molecular Docking Studies
PublicationMangiferin is a strong antioxidant that presents a wide range of biological activities. The aim of this study was to evaluate, for the first time, the influence of mangiferin on tyrosinase, an enzyme responsible for melanin synthesis and the unwanted browning process of food. The research included both the kinetics and molecular interactions between tyrosinase and mangiferin. The research proved that mangiferin inhibits tyrosinase...
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Direct chromatographic methods in the context of green analytical chemistry
PublicationWe review analytical protocols based on gas and liquid chromatography (GC and LC), but involving no sample preparation.Green analytical chemistry seeks to minimize negative impacts of analytical chemistry. Direct analytical methods ideally fulfillthis requirement, as they preclude sample preparation - the most polluting step of the analytical procedure.We describe examples of GC methodologies for environmental and food analysis...
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Structure of liquid gold from tight-binding driven molecular-dynamics
PublicationPraca przedstawia wyniki symulacji ciekłego złota w nadkomórce periodycznej przy użyciu stworzonego przez autorów programu komputerowego, za pomocą połączonych metod dynamiki molekularnej (MD) i ciasnego wiązania (TB). Omówiono strukturę tak symulowanej cieczy, porównując ją z dostępnymi danymi doświadczalnymi oraz wynikami innych symulacji, pod kątem radialnej i kątowej funkcji rozkładu i elektronowej gęstości stanów.A tight-binding...
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Structural and dynamic insights on the EmrE protein with TPP+ and related substrates through molecular dynamics simulations
PublicationEmrE is a bacterial transporter protein that forms an anti-parallel homodimer with four transmembrane helices in each monomer. EmrE transports positively charged aromatic compounds, such as TPP+ and its derivatives. We performed molecular dynamics (MD) simulations of EmrE in complex with TPP+, MeTPP+, and MBTPP+ embedded in a membrane. The detailed molecular properties and interactions were analysed for all EmrE-ligand complexes....
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Same but different — Molecular comparison of human KTI12 and PSTK
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Review of Shoreline Extraction Methods from Aerial Laser Scanning
PublicationAutonomous technologies are increasingly used in various areas of science. The use of unmanned vehicles for hydrographic surveys in shallow coastal areas requires accurate estimation of shoreline position. This is a nontrivial task, which can be performed using a wide range of sensors and methods. The aim of the publication is to review shoreline extraction methods based solely on data from aerial laser scanning (ALS). This narrative...
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Molecular Simulations of Rhodopsin Tetrameter
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Advances in Atomic and Molecular Spectroscopy
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Molecular detection of Candida krusei
PublicationThe species identification of fungi belonging to genus Candida is an important issue as this genus becomes the emerging problem of nosocomial infections. As Candida krusei presents intrinsicresistance to the fluconazole that is the drug of the first choice in case of invasive candidiasis the PCR identifying the DNA of C. krusei was elaborated. The analytical sensitivity of the assay on spiked blood samples was estimated at 3-5...
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Molecular dynamics simulations of the growth of poly(chloro-para-xylylene) films
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The molecular mechanism of genistein action in lysosomal storage diseases: A transcriptomic approach
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Molecular basis and quantitative assessment of TRF1 and TRF2 protein interactions with TIN2 and Apollo peptides
PublicationShelterin is a six-protein complex (TRF1, TRF2, POT1, RAP1, TIN2, and TPP1) that also functions in smaller subsets in regulation and protection of human telomeres. Two closely related proteins, TRF1 and TRF2, make high-affinity contact directly with double-stranded telomeric DNA and serve as a molecular platform. Protein TIN2 binds to TRF1 and TRF2 dimer-forming domains, whereas Apollo makes interaction only with TRF2. To elucidate...
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Analysis of Position Calculating Methods in Indoor Environment
PublicationIn the paper a modified gradient method has been proposed for position calculation on basis of distance measurement in indoor environment. It is shown that the well-known Chan method of position calculation is inefficient in indoor circumstances. Author presents Chan and modified gradient methods and achieved results for each one for real measurements.
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Self-Association of Amphotericin B: Spontaneous Formation of Molecular Structures Responsible for the Toxic Side Effects of the Antibiotic
PublicationAmphotericin B (AmB) is a lifesaving antibiotic used to treat deep-seated mycotic infections. Both the pharmaceutical activity and highly toxic side effects of the drug rely on its interaction with biomembranes, which is governed by the molecular organization of AmB. In the present work we present detailed analysis of self-assembly of AmB molecules in different environments, interesting from the physiological standpoint, based...
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The methods of secure data transmission in the KNX system
PublicationThe article presents the demands concerning data security in distributed building automation systems and shows the need for providing mechanisms of secure communication in the KNX system. Three different methods developed for KNX data protection are discussed: EIBsec, KNX Data Security and the author's method. Their properties are compared and potential areas of application are presented.
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Machine-Learning Methods for Estimating Performance of Structural Concrete Members Reinforced with Fiber-Reinforced Polymers
PublicationIn recent years, fiber-reinforced polymers (FRP) in reinforced concrete (RC) members have gained significant attention due to their exceptional properties, including lightweight construction, high specific strength, and stiffness. These attributes have found application in structures, infrastructures, wind power equipment, and various advanced civil products. However, the production process and the extensive testing required for...
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Waldemar Stampor dr hab. inż.
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Free volume in physical absorption of carbon dioxide in ionic liquids: Molecular dynamics supported modeling
PublicationUnderstanding the mechanisms underlying the carbon dioxide (CO2) absorption in ionic liquids (ILs) is the key to their efficient utilization in industrial flue gas treatment. One of the parameters considered substantially important in the process is the Free Volume. In this study, the Fractional Free Volume (FFV) of 73 ILs was calculated using Molecular Dynamics (MD). A quantitative Structure-Property Relationship (QSPR) study...
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Methods of selenium supplementation. Bioavability and determination of selenium compounds
PublicationIn This paper the method of supplementation of selenium in the environment and analytical methods of determining selenium were described
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Hydration of amino acids: FTIR spectra and molecular dynamics studies
PublicationThe hydration of selected amino acids, alanine, glycine, proline, valine, isoleucine and phenylalanine, has been studied in aqueous solutions by means of FTIR spectra of HDO isotopically diluted in H2O. The difference spectra procedure and the chemometric method have been applied to remove the contribution of bulk water and thus to separate the spectra of solute-affected HDO. To support interpretation of obtained spectral results,...
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Excited-state proton transfer and geminate recombination in the molecular cage of β-cyclodextrin
PublicationExcited-state proton transfer and geminate recombination in aqueous heptakis(2,6-di-O-methyl)-β-cyclodextrin have been compared with those in water by monitoring the photoinduced prototropic tautomerization of 6-hydroxyquinoline, which occurs via forming anionic intermediate. Enol deprotonation decelerates by 18 times whereas its reverse process accelerates slightly with encapsulation. The imine protonation of the intermediate...
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OVERALL SET OF BANDSAW TEETH VERSUS METHODS OF MEASUREMENTS
PublicationThis article deals with the impact of the manual methods of measurement on the overall set measurement results. It describes the results of the measurement of bandsaw teeth kerf with the use of a micrometer and a digital calliper. It is commonly known that the cutting process causes the wear of cutting tools. The wear of the cutting edge depends on the cutting conditions as well as on the mechanical properties of the processed...
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Structural and dynamic changes adopted by EmrE, multidrug transporter protein—Studies by molecular dynamics simulation
PublicationEmrE protein transports positively charged aromatic drugs (xenobiotics) in exchange for two protons and thus provides bacteria resistance to variety of drugs. In order to understand how this protein may recognize ligands, the monomer and asymmetric apo-form of the EmrE dimer embedded in a heterogeneous phospholipid (POPE + POPG) membrane were studied by molecular dynamics simulations. Dimer is regarded as a functional form of the...
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The Verification of the Usefulness of Electronic Nose Based on Ultra-Fast Gas Chromatography and Four Different Chemometric Methods for Rapid Analysis of Spirit Beverages
PublicationSpirit beverages are a diverse group of foodstuffs. They are very often counterfeited which cause the appearance of low quality products or wrongly labelled products on the market. It is important to find a proper quality control and botanical origin method enabling the same time preliminary check of the composition of investigated samples, which was the main goal of this work. For this purpose, the usefulness of electronic nose...
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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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Identification of ship’s hull mathematical model with numerical methods
PublicationThe modern maritime industry is moving toward the development of technology that will allow for full or partial autonomy of ship operation. This innovation places high demands on ship performance prediction techniques at the design stage. The researchwork presented in the article is related to the design stage of the ship and concerns methods for prognosis and evaluation of the specific operational condition of the ship, namely...
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ANALYSIS OF EFFECTIVENESS AND COMPUTATIONAL COMPLEXITY OF TREND REMOVAL METHODS
PublicationThe paper presents a method of processing measurement data due to remove slowly varying component of the trend occurring in the recorded waveforms. Comparison of computational complexity and trend removal efficiency between some commonly used methods is presented. The impact of these procedures on probability distribution and power spectral density is shown. Effectiveness and computational complexity of these methods depend essentially...
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Molecular dynamics simulations of the affinity of chitin and chitosan for collagen: the effect of pH and the presence of sodium and calcium cations
PublicationChitosan and chitin are promising biopolymers used in many areas including biomedical applications, such as tissue engineering and viscosupplementation. Chitosan shares similar properties with hyaluronan, a natural component of synovial fluid, making it a good candidate for joint disease treatment. The structural and energetic consequences of intermolecular interactions are crucial for understanding the biolubrication phenomenon...
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Density functional theory-based simulations of sum frequency generation spectra involving methyl stretching vibrations: effect of the molecular model on the deduced molecular orientation and comparison with an analytical approach
PublicationThe knowledge of the first hyperpolarizability tensor elements of molecular groups is crucial for a quantitative interpretation of the sum frequency generation (SFG) activity of thin organic films at interfaces. Here, the SFG response of the terminal methyl group of a dodecanethiol (DDT) monolayer has been interpreted on the basis of calculations performed at the density functional theory (DFT) level of approximation. In particular,...
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Novel analysis methods of dynamic properties for vehicle pantographs
PublicationTransmission of electrical energy from a catenary system to traction units must be safe and reliable especially for high speed trains. Modern pantographs have to meet these requirements. Pantographs are subjected to several forces acting on their structural elements. These forces come from pantograph drive, inertia forces, aerodynamic effects, vibration of traction units etc. Modern approach to static and dynamic analysis should...
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Computational Study of Molecular Interactions in ZnCl2(urea)2 Crystals as Precursors for Deep Eutectic Solvents
PublicationDeep eutectic solvents (DESs) are now enjoying an increased scientific interest due to their interesting properties and growing range of possible applications. Computational methods are at the forefront of deciphering their structure and dynamics. Type IV DESs, composed of metal chloride and a hydrogen bond donor, are among the less studied systems when it comes to their understanding at a molecular level. An important example...
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Echolocation Methods - 2022/23
e-Learning Courses -
[IMe] Modern optimisation methods
e-Learning Courses{mlang pl} Dyscyplina: Inżynieria Mechaniczna Zajęcia obowiązkowe dla doktorantów I roku Prowadzący: dr hab. inż. K. Tesch Liczba godzin: 20h Forma zajęć: wykład {mlang} {mlang en} Discipline: Mechanical Engineering Obligatory course for 1st year PhD students Academic teacher: dr hab. inż. K. Tesch Total hours of training: 20 teaching hours Course type: lecture {mlang}
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Numerical Methods - Data Engineering
e-Learning Coursesstudia inżynierskie, informatyka i inżynieria danych
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Echolocation Methods - 2024/25
e-Learning Courses -
[IMe] Modern optimisation methods
e-Learning Courses{mlang pl} Dyscyplina: Inżynieria Mechaniczna Zajęcia obowiązkowe dla doktorantów I roku Prowadzący: Prof. dr hab. inż. K. Tesch Liczba godzin: 20h Forma zajęć: wykład {mlang} {mlang en} Discipline: Mechanical Engineering Obligatory course for 1st year PhD students Academic teacher: Prof. dr hab. inż. K. Tesch Total hours of training: 20 teaching hours Course type: lecture {mlang}
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[IMe] Modern optimisation methods
e-Learning Courses{mlang pl} Dyscyplina: Inżynieria mechaniczna (PG+IMP PAN) Zajęcia obowiązkowe Prowadzący: dr hab. inż. Krzysztof Tesch, prof. uczelni Liczba godzin: 20 h Forma zajęć: wykład {mlang} {mlang en} Discipline: mechanical engineering (GUT + IFFM PAS) Obligatory course Academic teacher: dr hab. inż. Krzysztof Tesch, prof. uczelni Total hours of training: 20 teaching hours Course type: lecture {mlang}
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Echolocation Methods - 2023/24
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Numerical Methods 2023/2024
e-Learning CoursesJest to pomocnicza formatka do tworzenia kursów wspomagających nauczanie stacjonarne na WILiŚ. Formatka została utworzona i udostępniona przez CNE. Uwaga: W celu wykorzystania i modyfikacji należy: 1) skopiować kurs wzorcowy 2) dopiero w kopii nanosić zmiany.
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Analytical Methods for Causality Evaluation of Photonic Materials
PublicationWe comprehensively review several general methods and analytical tools used for causality evaluation of photonic materials. Our objective is to call to mind and then formulate, on a mathematically rigorous basis, a set of theorems which can answer the question whether a considered material model is causal or not. For this purpose, a set of various distributional theorems presented in literature is collected as the distributional...
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Prediction of Weld Deformations by Numerical Methods - Review
PublicationThe welding process is the basic technique of joining in the shipbuilding industry. This method generates welding distortions that cause a lot of problems during the manufacturing process due to both the time and cost of straightening as well as their influence on later stages of production. Proper preparation of welding processes plays a growing role in the shipbuilding industry and the development of calculating tools is being...
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Hydration of N-Hydroxyurea from Ab Initio Molecular Dynamics Simulations
PublicationN-Hydroxyurea (HU) is an important chemotherapeutic agent used as a first-line treatment in conditions such as sickle cell disease and β-thalassemia, among others. To date, its properties as a hydrated molecule in the blood plasma or cytoplasm are dramatically understudied, although they may be crucial to the binding of HU to the radical catalytic site of ribonucleotide reductase, its molecular target. The purpose of this work...