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Wyniki wyszukiwania dla: IDENTIFICATION GENETIC DIVERSITY MOLECULAR METHODS SEQUENCING
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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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A review on computer‐aided chemogenomics and drug repositioning for rational COVID ‐19 drug discovery
PublikacjaApplication of materials capable of energy harvesting to increase the efficiency and environmental adaptability is sometimes reflected in the ability of discovery of some traces in an environment―either experimentally or computationally―to enlarge practical application window. The emergence of computational methods, particularly computer-aided drug discovery (CADD), provides ample opportunities for the rapid discovery and development...
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Measurements of Subnanometer Molecular Layers
PublikacjaSelected methods of formation and detection of nanometer and subnanometer molecular layers were shown. Additionally, a new method of detection and measurement with subnanometer resolution of layers adsorbed or bonded to the gate dielectric of the ion selective field effect transistor (ISFET) was presented.
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Investigation of Microbes in the Stratosphere – Stardust Project
PublikacjaThe stratospheric microbiota has been investigated many times using the methods of classical microbiology. In this research a few modern methods, including NGS sequencing and multiple displacement amplification of DNA, were in use. The analysis of metagenome helped to determine the content of various species of bacteria in the sample collected in the stratosphere by a hydrogen-filled balloon holding...
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Conditions for increasing the recognition of degradation in thermal-flow diagnostics, taking into account environmental legal aspects
PublikacjaThe ever-increasing demand for electricity and the need for conventional sources to cooperate with renewable ones generates the need to increase the efficiency and safety of the generation sources. Therefore, it is necessary to find a way to operate existing facilities more efficiently with full detection of emerging faults. These are the requirements of Polish, European and International law, which demands that energy facilities...
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Automatic Watercraft Recognition and Identification on Water Areas Covered by Video Monitoring as Extension for Sea and River Traffic Supervision Systems
PublikacjaThe article presents the watercraft recognition and identification system as an extension for the presently used visual water area monitoring systems, such as VTS (Vessel Traffic Service) or RIS (River Information Service). The watercraft identification systems (AIS - Automatic Identification Systems) which are presently used in both sea and inland navigation require purchase and installation of relatively expensive transceivers...
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Spectral Methods for Modelling of Wave Propagation in Structures in Terms of Damage Detection—A Review
PublikacjaModern methods of detection and identification of structural damage direct the activities of scientific groups towards the improvement of diagnostic methods using for example the phenomenon of mechanical wave propagation. Damage detection methods that use mechanical wave propagation in structural components are extremely effective. Many different numerical approaches are used to model this phenomenon, but, due to their universal...
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Molecular dynamics simulations of the growth of poly (chloro-para-xylylene) films.
PublikacjaParylene C, poly(chloro-para-xylylene) is the most widely used member of the parylene family due to its excellent chemical and physical properties. In this work we analyzed the formation of the parylene C film using molecular mechanics and molecular dynamics methods. A five unit chain is necessary to create a stable hydrophobic cluster and to adhere to a covered surface. Two scenarios were deemed to take place. The obtained results...
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Novel primosomal protein B from thermophilic bacterium Thermoanerobacter tengcongensis
PublikacjaWe report the identification and characterization of theprimosomal protein B (PriB) from thermophilic bacteriumThermoanerobacter tengcongensis (TtePriB). It is the largestknown bacterial PriB protein consisting 216 amino acidresidues with a calculated molecular mass of 25 kDa. Surprisingly,it is functional as monomer containing two single-stranded DNA binding domain (OB-fold) and it is thecompletely new kind structure of SSB protein....
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Stardust - Investigation of Microbes in the Stratosphere
PublikacjaThe stratospheric microbiome has been investigated several times using the methods of classical microbiology. In this experiment, we have combined them with some novel approaches including whole- metagenome amplification, Maldi TOF mass spectrometry and Sanger DNA sequencing. The results of the experiment may provide the scientists with knowledge about the mechanisms of survivability of microorganisms in stratospheric conditions...
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Geometry optimization of steroid sulfatase inhibitors - the influence on the free binding energy with STS
PublikacjaIn the paper we review the application of two techniques (molecular mechanics and quantum mechanics) to study the influence of geometry optimization of the steroid sulfatase inhibitors on the values of descriptors coded their chemical structure and their free binding energy with the STS protein. We selected 22 STS-inhibitors and compared their structures optimized with MM+, PM7 and DFT B3LYP/6–31++G* approaches considering separately...
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Chromatographic separation, determination and identification of ecdysteroids: Focus on Maral root (Rhaponticum carthamoides, Leuzea carthamoides )
PublikacjaThe review presents general principles for choosing optimal conditions for ecdysteroid separation, identification, and isolation using HPLC/TLC techniques in RP, NP- HILIC or NP modes. Analytics of ecdyteroids pose a still insufficiently resolved problem. Plant-derived ecdysteroids are a point of interest of pharmaceutical industry and sport medicine due to their postulated adaptogenic and anabolic properties. In insects, ecdysteroids...
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A modelling approach to the transport support for the harvesting and transportation complex under uncertain conditions
PublikacjaThe article proposes a modelling approach based on structural and parametric identification of the transport support of the harvesting and transportation complex. The efficiency and effectiveness of the proposed methods of structural and parametric identification for the development of a system for harvesting and transportation complex operation has been proved. A mathematical model based on fuzzy logic has been developed. It reflects...
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Spectrum-based modal parameters identification with Particle Swarm Optimization
PublikacjaThe paper presents the new method of the natural frequencies and damping identification based on the Artificial Intelligence (AI) Particle Swarm Optimization (PSO) algorithm. The identification is performed in the frequency domain. The algorithm performs two PSO-based steps and introduces some modifications in order to achieve quick convergence and low estimation error of the identified parameters’ values for multi-mode systems....
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Postawy pracowników wobec zróżnicowania wiekowego w zespołach i organizacjach
PublikacjaArtykuł dotyczy postaw pracowników wobec zróżnicowania wiekowego w zespołach i organizacjach. W literaturze podkreśla się, że czynnikiem warunkującym efektywność takich zespołów są m.in. postawy pracowników wobec osób z innych grup wiekowych oraz wobec pracy z nimi, a ocena postaw pracowników jest niezbędna do wykorzystania właściwych metod zarządzania takim zespołem. Celem artykułu jest przedstawienie wyników badań dotyczących...
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Novel application of terminal restriction fragments length polymorphism method (t-RFLP) for identification of six clinically important Candida sp.
PublikacjaTerminal restriction fragments length polymorphism method (t-RFLP) is a modified classical RFLP method. The main difference is based on carrying out PCR using a fluorescently labeled primer or primers. The result of such modification is that after digestion of amplicons only terminal fragments of PCR product (containing fluorescent dye) are visualized. T-RFLP method has found application in environmental microbiology and epidemiology....
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Evaluation of possibilities of genotyping of Candida glabrata clinical isolates with RAPD-PCR method and microsatellite analysis
PublikacjaThe aim of the study was to compare the discriminatory power of RAPD-PCR method using RSD10 primer and microsatellite (GACA)4 analysis for genotyping clinical isolates of C. glabrata. Isolates were received from patients of two Polish hospitals: Children's Memorial Health Institute in Warsaw (n=17) and Medical University of Gdansk (n=37). Species identification was confirmed by two phenotypic methods: growth on chromagar plates...
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Toxoplasma gondii Recombinant Antigens in the Serodiagnosis of Toxoplasmosis in Domestic and Farm Animals
PublikacjaToxoplasmosis is caused by an intracellular protozoan, Toxoplasma gondii, and is a parasitic disease that occurs in all warm-blooded animals, including humans. Toxoplasmosis is one of the most common parasitic diseases of animals and results in reproductive losses. Toxoplasmosis in humans is usually caused by eating raw or undercooked meat or consuming dairy products containing the parasite. Diagnosis of toxoplasmosis is currently...
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Identification of Fast Time-varying Communication Channels Using the Preestimation Technique
PublikacjaAccurate identification of stochastic systems with fast-varying parameters is a challenging task which cannot be accomplished using model-free estimation methods, such as weighted least squares, which assume only that system coefficients can be regarded as locally constant. The current state-of-the-art solutions are based on the assumption that system parameters can be locally approximated by a linear combination of appropriately...
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Principles and applications of Ligation Mediated PCR methods for DNA-based typing of microbial organisms
PublikacjaA significant number of DNA-based techniques has been introduced into the field of microorganisms’ characterization and taxonomy. These genomic fingerprinting methods were developed to detect DNA sequence polymorphisms by using general principles, such as restriction endonuclease analysis, molecular hybridization, and PCR amplification. In recent years, some alternative techniques based on ligation of oligonucleotide adapters before...
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Optical photoluminescent, and electroluminescent properties of organic solids
PublikacjaThis chapter discusses optical, photoluminescence and electroluminescence properties of organic materials. First, the spectral features of individual molecules and molecular solid states are analysed. Next, the excitonic processes in organic materials are discussed. The chapter reviews experimental methods leading to the determination of basic excitonic parameters. Finally, the electroluminescence phenomena in organic materials...
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BASECOL2023 scientific content
PublikacjaContext. The global context of making numerous data produced by researchers available requires collecting and organising the data, assigning meaningful metadata, and presenting the data in a meaningful and homogeneous way. The BASECOL database, which collects inelastic rate coefficients for application to the interstellar medium and to circumstellar and cometary atmospheres, meets those requirements. Aims. We aim to present the...
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Molecular dynamics and verisimilitude - to what extent can one trust a computational simulation?
PublikacjaFor the last several tens of years, computer simulations have become of undeniable importance. Molecular Dynamics (MD) simulation techniques are used to examine the phenomena which occur at the level that cannot be observed directly. Thus, they can be successfully exploited in many different scientific fields such as: materials science, applied mathematics and theoretical physics, biochemistry, biophysics or drug design. Despite...
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Selection of optimal location and rated power of capacitor banks in distribution network using genetic algorithm
PublikacjaIn this paper, the problem of placement and rated power of capacitor banks in the Distribution Network (DN) is considered. We try to suggest the best places for installing capacitor banks and define their reactive power. The considered formulation requires the optimization of the cost of two different objectives. Therefore the use of properly multiobjective heuristic optimization methods is desirable. To solve this problem we use...
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Two-Stage Identification of Locally Stationary Autoregressive Processes and its Application to the Parametric Spectrum Estimation
PublikacjaThe problem of identification of a nonstationary autoregressive process with unknown, and possibly time-varying, rate of parameter changes, is considered and solved using the parallel estimation approach. The proposed two-stage estimation scheme, which combines the local estimation approach with the basis function one, offers both quantitative and qualitative improvements compared with the currently used single-stage methods.
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Gender approaches to evolutionary multi-objective optimization using pre-selection of criteria
PublikacjaA novel idea to perform evolutionary computations (ECs) for solving highly dimensional multi-objective optimization (MOO) problems is proposed. Following the general idea of evolution, it is proposed that information about gender is used to distinguish between various groups of objectives and identify the (aggregate) nature of optimality of individuals (solutions). This identification is drawn out of the fitness of individuals...
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Phase transition of a dimorphic fungus Penicillium marneffei
PublikacjaPenicillium marneffei is a pathogenic fungus that afflicts immunocompromised individuals who live or travel in Southeast Asia. This species is unique, because it is the only dimorphic member of the genus Penicillium. Dimorphism results from a process, termed phase transition, which is regulated by temperature of incubation. At room temperature, the fungus grows filamentously (mould phase), but at body temperature (37°C), a uninucleate...
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The New Klebsiella pneumoniae ST152 Variants with Hypermucoviscous Phenotype Isolated from Renal Transplant Recipients with Asymptomatic Bacteriuria-Genetic Characteristics by WGS.
PublikacjaKlebsiella pneumoniae (Kp) is one of the most important etiological factors of urinary tract infections in renal transplant (RTx) recipients. We described the antimicrobial susceptibility phenotypes and genomic features of two hypermucoviscous (HM) Kp isolates recovered from RTx recipients with asymptomatic bacteriuria (ABU). Using whole genome sequencing (WGS) data, we showed that the strains belong to the ST152 lineage with the...
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Novel single-stranded DNA-binding proteins from extreme psychrophilic bacterium Psychromonas ingrahamii 37
PublikacjaWe report the identification and characterization of the single-stranded DNA binding protein (SSB) from extreme psychrophilic bacterium Psychromonas ingrahamii 37 (PinSSB) that grows expotentially at -12°C and may well grow at even lower temperatures. PinSSB is one of the largest known bacterial SSB protein consisting 222 amino acid residues with a calculated molecular mass of 25.1 kDa. The analysis by gel filtration chromatography...
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PCR-RFLP assays for species-specific identification of fungi belonging to Scopulariopsis and related genera
PublikacjaFungi of the Scopulariopsis genus, commonly found in the environment, are opportunistic pathogens that can cause various types of human infections. So far, no efficient molecular method has been developed for species differentiation among Scopulariopsis and related genera. In order to advance this field, we have evaluated performance of polymerase chain reaction restriction fragment length polymorphism (PCR-RFLP) assays, based...
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Biofilm Production and Presence of ica and bap Genes in Staphylococcus aureus Strains Isolated from Cows with Mastitis in the Eastern Poland
PublikacjaThe aim of the study was phenotypic and genotypic analysis of 132 S. aureus strains isolated from mastitis in eastern Poland in respect to their biofilm formation ability. The analysis of the size polymorphism of fragment X in the gene encoding protein A (spa) revealed high genetic differentiation of the analyzed group of isolates. The ability of biofilm formation by the isolates was tested using two phenotypic methods. The Congo...
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Development and Research of the Text Messages Semantic Clustering Methodology
PublikacjaThe methodology of semantic clustering analysis of customer’s text-opinions collection is developed. The author's version of the mathematical models of formalization and practical realization of short textual messages semantic clustering procedure is proposed, based on the customer’s text-opinions collection Latent Semantic Analysis knowledge extracting method. An algorithm for semantic clustering of the text-opinions is developed,...
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BIODIVERSITY OF YEASTS ISOLATED FROM CAVES OF THE POLISH TATRA MOUNTAINS, AND ITS BIOTECHNOLOGICAL POTENTIAL
PublikacjaMost of the Earth’s biosphere is permanently or periodically exposed to temperatures below 5°C. Cold habitats harbor a wide diversity of psychrophiles. For many years Antarctica has been the geographic area preferred for studying the diversity and properties of cold-adapted microorganisms. However, the non-Antarctic habitats like Himalayas or Alps are also extensively explored. The Tatra Mountains are Europe’s second-highest massif...
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TOXIC GASES IDENTIFICATION USING SINGLE ELECTROCATALYTIC SENSOR RESPONSES AND ARTIFICIAL NEURAL NETWORK
PublikacjaThe need for precise detection of toxic gases drives development of new gas sensors structures and methods of processing the output signals from the sensors. In literature, artificial neural networks are considered as one of the most effective tool for the analysis of gas sensors or sensors arrays responses. In this paper a method of toxic gas components identification using a electrocatalytic gas sensor as a detector and an artificial...
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Why Are Left-Handed G-Quadruplexes Scarce?
PublikacjaG-quadruplexes (G4s) are nucleic acid structures crucial for the regulation of gene expression and genome maintenance. While they hold promise as nanodevice components, achieving desired G4 folds requires understanding the interplay between stability and structural properties, like helicity. Although right-handed G4 structures dominate the experimental data, the molecular basis for this preference over left-handed helicity is unclear....
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Selection of effective cocrystals former for dissolution rate improvement of active pharmaceutical ingredients based on lipoaffinity index
PublikacjaNew theoretical screening procedure was proposed for appropriate selection of potential cocrystal formers possessing the ability of enhancing dissolution rates of drugs. The procedure relies on the training set comprising 102 positive and 17 negative cases of cocrystals found in the literature. Despite the fact that the only available data were of qualitative character, performed statistical analysis using binary classification...
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On various modelling approaches to real-time visualisation of blood flow
PublikacjaThis paper reviews various modelling approaches to real-time visualisation of blood flow. These include classic, macroscale approach based on the momentum conservation equation together with a proper constitutive equation. Moreover, modern micro- and mesoscale approaches, such as molecular dynamics and dissipative particle dynamics, are discussed. Advantages and disadvantages of the discussed methods are highlighted with particular...
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Uczenie maszynowe do samoorganizacji systemów rozproszonych w zastosowaniach gospodarczych
PublikacjaW pracy omówiono uczenie maszynowe do samoorganizacji systemów rozproszonych w zastosowaniach gospodarczych ze szczególnym uwzględnieniem sieci neuronowych do predykcji finansowych oraz szacowania ratingu przedsiębiorstw. Oprócz sieci neuronowych, istotną rolę w przygotowaniu i testowaniu informatycznych systemów finansowych może pełnić programowanie genetyczne. Z tego powodu omówiono uczenie maszynowe w aplikacjach konstruowanych...
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A fair distribution scheme for joint fingerprinting and decryption methods= Sprawiedliwy schemat dystrybucji dla metod łącznego osadzania odcisku palca oraz deszyfracji
PublikacjaThe paper addresses the fairness of the security provided by digital fingerprinting methods. It was noted that the digital fingerprinting techniques are designed primarily to protect service providers against the actions of malicious users, while honest users remain vulnerable to acts of malicious providers. The paper describes the customer's rights problem and the unbinding problem, which also apply to joint fingerprinting and...
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The use of fungi in biofiltration to remove hydrophobic volatile organic compounds
PublikacjaThe growing importance placed on air quality by environmental regulations and public opinion necessitate the minimization and removal of volatile organic compound emissions (VOCs), including odours. The removal of hydrophobic VOCs from the air by biological methods remains a major technical challenge (despite its importance in the shift to green engineering). A potential solution to this challenge is the use of fungi in biofiltration....
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Analysis of pesticide residues in fruits and vegetables using QuEChERS sample preparation method and gas chromatography with electron capture detection
PublikacjaPesticides are a numerous and diverse group of chemical compounds. They are some of the most toxic substances contaminating the environment, which are used to eliminate pests in agriculture and the household. Despite considerable progress in the development of methods for preparing samples for analysis and for the final determination of analytes, the analysis of pesticides in biological samples continues to present challenges to...
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Spectroscopic studies on physicochemical properties of selected unsymmetrical bisacridine derivatives and NMR analysis of their interactions with the model sequence Pu22 aided by molecular dynamics
PublikacjaIn recent years, new promising acridine derivatives have appeared, belonging to the unsymmetrical bisacridines (UAs) family with high anticancer activity. Both their physicochemical properties and their mechanism of action at the molecular level have not been thoroughly analyzed so far. Four derivatives were selected for the study, termed as: C-2028, C-2041, C-2045 and C-2053. The first aim of this work was to determine the protonation...
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Voice command recognition using hybrid genetic algorithm
PublikacjaAbstract: Speech recognition is a process of converting the acoustic signal into a set of words, whereas voice command recognition consists in the correct identification of voice commands, usually single words. Voice command recognition systems are widely used in the military, control systems, electronic devices, such as cellular phones, or by people with disabilities (e.g., for controlling a wheelchair or operating a computer...
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Experimental and Theoretical Insights into the Intermolecular Interactions in Saturated Systems of Dapsone in Conventional and Deep Eutectic Solvents
PublikacjaSolubility is not only a crucial physicochemical property for laboratory practice but also provides valuable insight into the mechanism of saturated system organization, as a measure of the interplay between various intermolecular interactions. The importance of these data cannot be overstated, particularly when dealing with active pharmaceutical ingredients (APIs), such as dapsone. It is a commonly used anti-inflammatory and...
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The ONETEP linear-scaling density functional theory program
PublikacjaWe present an overview of the ONETEP program for linear-scaling density functional theory (DFT) calculations with large basis set (planewave) accuracy on parallel computers. The DFT energy is computed from the density matrix, which is constructed from spatially localized orbitals we call Non-orthogonal Generalized Wannier Functions (NGWFs), expressed in terms of periodic sinc (psinc) functions. During the calculation, both the...
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Microscopic and Spectroscopic Imaging and Thermal Analysis of Acrylates, Silicones and Active Pharmaceutical Ingredients in Adhesive Transdermal Patches
PublikacjaDermal or transdermal patches are increasingly becoming a noteworthy alternative ascarriers for active pharmaceutical ingredients (APIs), which makes their detailed physicochemical evaluation essential for pharmaceutical development. This paper demonstrates mid-infrared (FTIR) and Raman spectroscopy with complementary microscopic methods (SEM, optical and confocal Raman microscopy) and differential scanning calorimetry...
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Mass spectrometry based identification of geometric isomers during metabolic stability study of a new cytotoxic sulfonamide derivatives supported by quantitative structure-retention relationships
PublikacjaA set of 15 new sulphonamide derivatives, presenting antitumor activity have been subjected to a metabolic stability study. The results showed that besides products of biotransformation, some additional peaks occurred in chromatograms. Tandem mass spectrometry revealed the same mass and fragmentation pathway, suggesting that geometric isomerization occurred. Thus, to support this hypothesis, quantitative structure-retention relationships...
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Toward Human Chromosome Knowledge Engine
PublikacjaHuman chromosomes carry genetic information about our life. Chromosome classification is crucial for karyotype analysis. Existing chromosome classification methods do not take into account reasoning, such as: analyzing the relationship between variables, modeling uncertainty, and performing causal reasoning. In this paper, we introduce a knowledge engine for reasoning-based human chromosome classification that stores knowledge...
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Identification of Optocoupler Devices with RTS Noise
PublikacjaThe results of noise measurements in low frequency range for CNY 17 type optocouplers are presented. The research were carried out on devices with different values of Current Transfer Ratio (CTR). The methods for identification of Random Telegraph Signal (RTS) in noise signal of optocouplers were proposed. It was found that the Noise Scattering Pattern method (NSP method) enables to identify RTS noise as non-Gaussian component...
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DIFFRACTION PHASE MICROSCOPY FOR OBSERVATION ON RED BLOOD CELLS FLUCTUATION
PublikacjaNowadays 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 – RBCs (Red Blood Cells). 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 observation...