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Search results for: MULTIPLE SEQUENCE ALIGNMENT
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Self-optimizing generalized adaptive notch filters - comparison of three optimization strategies
PublicationThe paper provides comparison of three different approaches to on-line tuning of generalized adaptive notch filters (GANFs) the algorithms used for identification/tracking of quasi-periodically varying dynamic systems. Tuning is needed to adjust adaptation gains, which control tracking performance of ANF algorithms, to the unknown and/or time time-varying rate of system nonstationarity. Two out ofthree compared approaches are classical...
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Network-aware Data Prefetching Optimization of Computations in a Heterogeneous HPC Framework
PublicationRapid development of diverse computer architectures and hardware accelerators caused that designing parallel systems faces new problems resulting from their heterogeneity. Our implementation of a parallel system called KernelHive allows to efficiently run applications in a heterogeneous environment consisting of multiple collections of nodes with different types of computing devices. The execution engine of the system is open for...
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Application of chiral chromatography for enantiomeric separation of currently used pesticides from various chemical groups
PublicationChiral pesticides account for more than 25 % of currently used pesticides and this ratio is still increasing. According to the number of chiral centers in the structure, a pesticide may consist of two or multiple enantiomers or stereoisomers. Studies into the stereoselective behaviour of pesticides started in the early 1990s and most research efforts focused on understanding the environmental fate and effects of these pesticides....
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Integration of protein tethering in a rapid and label-free SERS screening platform for drugs of abuse
PublicationSurface enhanced Raman spectroscopy (SERS) has emerged as a promising technique for the rapid and ultrasensitive detection of molecular species such as drugs of abuse in biofluids. Yet, it remains a significant challenge to create a viable screening tool for multiple drug classes, owing to the lack of affinity of certain species for the SERS substrate and to the matrix interference in complex media. Here we report a protein tethering...
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The Analysis of Vodka: A Review Paper
PublicationVodka is the most popular alcoholic beverage in Poland, Russia and other Eastern European countries, made from ethyl alcohol of agricultural origin that has been produced via fermentation of potatoes, grains or other agricultural products. Despite distillation and multiple filtering, it is not possible to produce 100 % ethanol. The solution with a minimum ethanol content of 96 %, which is used to produce vodkas, also contains trace amounts...
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An approach to improve the time efficiency of disjoint paths calculation
PublicationFailures of network elements can be appropriately dealt with by utilization of alternate disjoint paths to provide redirection of flows affected by failures of the respective working paths. Known approaches can be broadly divided by decision on backup paths installation into proactive and reactive mechanisms, as well as based on the scope of recovery actions into local and global rerouting. There are several important scenarios...
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New Trends in Sample Preparation Techniques for the Analysis of the Residues of Pharmaceuticals in Environmental Samples
PublicationPharmaceutical residues in the environment is a field of special interest due to the adverse effects to either human health or aquatic and soil environment. Pharmaceuticals have been already detected in underground, surface and wastewaters, soils, manure and sediments. The growing awareness of environmental pollution arising from human activity forces the need for their comprehensive determination. Environmental samples are complex...
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Lipidomics of Staphylococcus aureus – a new insight into the antibiotic resistant phenotype
PublicationStaphylococcus aureus is an aggressive pathogen responsible for a variety of diseases, in cluding life-threatening sepsis. Many strains of these bacteria are resistant to multiple classes of antibiotics, which is a substantial clinical problem in the treatment of S. aureus infections. We developed a comprehensive untargeted lipidomic workflow, including sample preparation, liquid chromatography-quadrupole-time-of-flight mass spectrometry...
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On Reduced-Cost Design-Oriented Constrained Surrogate Modeling of Antenna Structures
PublicationDesign of contemporary antenna structures heavily relies on full-wave electromagnetic (EM) simulation models. Such models are essential to ensure reliability of evaluating antenna characteristics, yet, they are computationally expensive and therefore unsuitable for handling tasks that require multiple analyses, e.g., parametric optimization. The cost issue can be alleviated by using fast surrogate models. Conventional data-driven...
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Searching for innovation knowledge: insight into KIBS companies
PublicationThe paper analyses the activity of research for “innovation knowledge”—here defined as knowledge that can lead to the introduction of service innovations—by Knowledge-Intensive Business Services (KIBS) companies. It proposes a classification of the possible search approaches adopted by those companies based on two dimensions: the pro-activity of search efforts and the source primarily used. Such classification is then discussed...
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The accuracy of alternative stock valuation methods – the case of the Warsaw Stock Exchange
PublicationThe main aim of this article is to examine the accuracy of different methods of share valuation used by Polish analysts in reports prepared in order to issue recommendations for companies listed on the Warsaw Stock Exchange. In the literature on the subject, the view which prevails is that the more sophisticated methods, i.e. those taking into account the discounting process, are characterised by higher valuation accuracy. However,...
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A comparative analysis of the effectiveness of corporate bankruptcy prediction models based on financial ratios: Evidence from Colombia, 2008 to 2015
PublicationLogit and discriminant analyses have been used for corporate bankruptcy prediction in several studies since the last century. In recent years there have been dozens of studies comparing the several models available, including the ones mentioned above and also probit, artificial neural networks, support vector machines, among others. For the first time for Colombia, this paper presents a comparative analysis of the effectiveness...
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Reduced-Cost Constrained Modeling of Microwave and Antenna Components: Recent Advances
PublicationElectromagnetic (EM) simulation models are ubiquitous in the design of microwave and antenna components. EM analysis is reliable but CPU intensive. In particular, multiple simulations entailed by parametric optimization or uncertainty quantification may considerably slow down the design processes. In order to address this problem, it is possible to employ fast metamodels. Here, the popular solution approaches are approximation...
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Investigation of Performance and Configuration of a Selected IoT System—Middleware Deployment Benchmarking and Recommendations
PublicationNowadays Internet of Things is gaining more and more focus all over the world. As a concept it gives many opportunities for applications for society and it is expected that the number of software services deployed in this area will still grow fast. Especially important in this context are properties connected with deployment such as portability, scalability and balance between software requirements and hardware capabilities. In...
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Effective Permeability of Multi Air Gap Ferrite Core 3-Phase Medium Frequency Transformer in Isolated DC-DC Converters
PublicationThe magnetizing inductance of the medium frequency transformer (MFT) impacts the performance of the isolated dc-dc power converters. The ferrite material is considered for high power transformers but it requires an assembly of type “I” cores resulting in a multi air gap structure of the magnetic core. The authors claim that the multiple air gaps are randomly distributed and that the average air gap length is unpredictable at the...
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Combined Long-Period Fiber Grating and Microcavity In-Line Mach–Zehnder Interferometer for Refractive Index Measurements with Limited Cross-Sensitivity
PublicationThis work discusses sensing properties of a long-period grating (LPG) and microcavity in-line Mach–Zehnder interferometer (µIMZI) when both are induced in the same single-mode optical fiber. LPGs were either etched or nanocoated with aluminum oxide (Al2O3) to increase its refractive index (RI) sensitivity up to ≈2000 and 9000 nm/RIU, respectively. The µIMZI was machined using a femtosecond laser as a cylindrical cavity (d = 60...
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Role of cholesterol in substrate recognition by -secretase
Publication-Secretase is an enzyme known to cleave multiple substrates within their transmembrane domains, with the amyloid precursor protein of Alzheimer’s Disease among the most prominent examples. The activity of -secretase strictly depends on the membrane cholesterol content, yet the mechanistic role of cholesterol in the substrate binding and cleavage remains unclear. In this work, we used all-atom molecular dynamics simulations to examine...
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Reshaping the Gdańsk Shipyard—The Birthplace of the Solidarity Movement. The Complexity of Adaptive Reuse in the Heritage Context
PublicationThe Gdańsk Shipyard—the birthplace of the Solidarity movement—is host to a unique example of a multi-layered brownfield redevelopment project, an area that is burdened by a complex history, overlapping heritage, and multiple memories. These circumstances require an integrated yet differentiated approach to the site’s heritage and make the creation of one homogeneous narration of its future impossible. At the same time, the size...
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Production of six-degrees-of-freedom (6DoF) navigable audio using 30 Ambisonic microphones
PublicationThis paper describes a method for planning, recording, and post-production of six-degrees-of-freedom audio recorded with multiple 3rd order Ambisonic microphone arrays. The description is based on the example of recordings conducted in August 2020 with the Poznan Philharmonic Orchestra using 30 units of Zylia ZM-1S. A convenient way to prepare and organize such a big project is proposed – this involves details of stage planning,...
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Human subarachnoid space width oscillations in the resting state
PublicationAbnormal cerebrospinal fluid (CSF) pulsatility has been implicated in patients suffering from various diseases, including multiple sclerosis and hypertension. CSF pulsatility results in subarachnoid space (SAS) width changes, which can be measured with near-infrared transillumination backscattering sounding (NIR-T/BSS). The aim of this study was to combine NIR-T/BSS and wavelet analysis methods to characterise the dynamics of the...
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Distributed Representations Based on Geometric Algebra: the Continuous Model
PublicationAuthors revise the concept of a distributed representation of data as well as two previously developed models: Holographic Reduced Representation (HRR) and Binary Spatter Codes (BSC). A Geometric Analogue (GAc - ''c'' stands for continuous as opposed to its discrete version) of HRR is introduced - it employs role-filler binding based on geometric products. Atomic objects are real-valued vectors in n-dimensional Euclidean space...
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Quasi-Global Optimization of Antenna Structures Using Principal Components and Affine Subspace-Spanned Surrogates
PublicationParametric optimization is a mandatory step in the design of contemporary antenna structures. Conceptual development can only provide rough initial designs that have to be further tuned, often extensively. Given the topological complexity of modern antennas, the design closure necessarily involves full-wave electromagnetic (EM) simulations and—in many cases—global search procedures. Both factors make antenna optimization a computationally...
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Performance Assessment of Using Docker for Selected MPI Applications in a Parallel Environment Based on Commodity Hardware
PublicationIn the paper, we perform detailed performance analysis of three parallel MPI applications run in a parallel environment based on commodity hardware, using Docker and bare-metal configurations. The testbed applications are representative of the most typical parallel processing paradigms: master–slave, geometric Single Program Multiple Data (SPMD) as well as divide-and-conquer and feature characteristic computational and communication...
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An NO2 sensor based on WO3 thin films for automotive applications in the microwave frequency range
PublicationA microwave system dedicated to the detection of nitrogen dioxide in the harsh environment of the Norway highways is proposed. An optimized transmission line type of sensor coated with a tungsten trioxide thin film that changes its electrical properties under NO2 gas exposure is developed. The sensors' response (S) is given in °/GHz and it is calculated based on wideband measurements. The advantage of wideband measurements in comparison...
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A general theory for anisotropic Kirchhoff–Love shells with in-plane bending of embedded fibers
PublicationThis work presents a generalized Kirchhoff–Love shell theory that can explicitly capture fiber-induced anisotropy not only in stretching and out-of-plane bending, but also in in-plane bending. This setup is particularly suitable for heterogeneous and fibrous materials such as textiles, biomaterials, composites and pantographic structures. The presented theory is a direct extension of classical Kirchhoff–Love shell theory to incorporate...
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The Way One Defines Specification Matters: On the Performance Criteria for Efficient Antenna Optimization in Aggregated Bi-Objective Setups
PublicationDesign of antenna structures for real-world applications is a challenging task that often involves addressing multiple design requirements at a time. Popular solution approaches to this class of problems include utilization of composite objectives. Although configuration of such functions has a significant effect on the cost and performance of the optimization, their specific structure is normally determined based on engineering...
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Data and knowledge supporting decision-making for the urban Food-Water-Energy nexus
PublicationCities are hubs of innovation and wealth creation, and magnets for an increasing urban population. Cities also face unprecedented challenges in terms of food, water and energy scarcity, and governance and management. Urban environmental issues are no longer problems for experts to address but have become issues of public debate, in which knowledge from multiple sectors is needed to support inclusive governance approaches. Consequently,...
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Guided wave propagation in debonding detection in CFRP-reinforced steel plate-like structures
PublicationThe present study investigates the guided wave propagation in multilayered steel specimens reinforced with carbon fiber reinforced polymer (CFRP) through theoretical, numerical, and experimental means. The effectiveness of externally bonded reinforcement (EBR) relies heavily on the bonding quality between the CFRP and the substrate. Premature debonding, a prevalent and hazardous defect, can arise from suboptimal manufacturing processes,...
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Three-dimensional characterization of porosity in iron ore pellets: A comprehensive study
PublicationThis paper presents a comprehensive study on the production and reduction of high-quality iron ore pellets characterized by a basicity index nearing 0.5 and diameters ranging from 1 to 2 cm. The reduction process was carried out in a hydrogen atmosphere at temperatures spanning 800–1000 ◦ C and a pressure of 8 bar. Initial f indings revealed substantial variations in pellet density and compressive strength, attributed to their...
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Magnetic superhydrophobic melamine sponges for crude oil removal from water
PublicationThis paper proposes the preparation of a new sorbent material based on melamine sponges (MS) with superhydrophobic, superoleophilic, and magnetic properties. This study involved impregnating the surface of commercially available MS with eco-friendly deep eutectic solvents (DES) and Fe3O4 nanoparticles. The DES selection was based on the screening of 105 eutectic mixtures using COSMO-RS modeling. Other parameters affecting the efficiency...
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Influence of Fragment Size on the Time and Temperature of Ethylene Vinyl Acetate Lamination Decomposition in the Photovoltaic Module Recycling Process
PublicationPhotovoltaics is a commercially available and reliable technology with significant potential for long-term growth in nearly all global regions. Several research institutes and companies are working on recycling concepts for thin film modules and modules with crystalline cells. The establishment of recycling and reuse technologies appropriate and applicable to all photovoltaics (PV) modules is a key issue to be addressed as part...
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Dynamic analysis of the railway bridge span under moving loads
PublicationThe first part of this paper provides a review of the state of knowledge of the dynamic behaviour of railway bridges under moving loads. Particular attention is paid to developments in modelling railway bridge loading and dynamic vehicle-span (structure) interaction. The most important aspects determining the advancements in this area of knowledge are identified. The contemporary techniques for defining bridge span finite element...
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Will NILM Technology Replace Multi-Meter Telemetry Systems for Monitoring Electricity Consumption?
PublicationThe estimation of electric power utilization, its baseload, and its heating, light, ventilation, and air-conditioning (HVAC) power component, which represents a very large portion of electricity usage in commercial facilities, are important for energy consumption controls and planning. Non-intrusive load monitoring (NILM) is the analytical method used to monitor the energy and disaggregate total electrical usage into appliance-related...
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INTER-LAYER SHARING OF BACKUP PATH CAPACITIES PROVIDING FAST SERVICE RECOVERY IN IP-MPLS/WDM NETWORKS
PublicationIn this paper, we investigate the issue of providing the transmission continuity in IP-MPLS/WDM networks in the presence of failures of nodes/links. Special focus is put on assuring fast restoration of flows affected after a failure in a scenario assuming sharing the backup path capacities in order to decrease the overall bandwidth consumption. In particular, we propose a new approach to inter-layer sharing of link capacity reserved...
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Information Extraction from Polish Radiology Reports using Language Models
PublicationRadiology reports are vital elements of directing patient care. They are usually delivered in free text form, which makes them prone to errors, such as omission in reporting radiological findings and using difficult-to-comprehend mental shortcuts. Although structured reporting is the recommended method, its adoption continues to be limited. Radiologists find structured reports too limiting and burdensome. In this paper, we propose...
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Embedded system using Bluetooth Low Energy sensors for smart farming applications
PublicationThe main goal of this Bachelor of Engineering project titled Embedded system using Bluetooth Low Energy sensors for smart farming applications is to create a prototype of a system consistent with Agriculture 4.0 concept using Bluetooth Low Energy (BLE) technology. Developed solution shall be easy in implementation and its main functionality shall be periodic gathering of data from environmental sensors...
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System oceny efektywności użytkowania aparatów słuchowych (Hearing aid use effectiveness evaluation system)
PublicationCelem rozprawy jest opracowanie metody oceny efektywności protezowania słuchu przy użyciu aparatów słuchowych, która pozwoli w łatwy sposób poddawać ocenie korzyść z użytkowania protez słuchowych w najbardziej typowych sytuacjach akustycznych. Przedstawiono genezę podjętych badań i na tej podstawie zaproponowano cele i tezy rozprawy doktorskiej. W pracy w pierwszej kolejności zawarto przegląd dotyczący rodzajów ubytku słuchu...
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Transport deficiency is the molecular basis of Candida albicans resistance to antifungal oligopeptides
Publication(FMDP), an inhibitor of glucosamine-6-phosphate synthase, exhibited growth inhibitory activity against Candida albicans, with minimal inhibitory concentration values in the 0.05–50 mg/L range. Uptake by the peptide permeases was found to be the main factor limiting an anticandidal activity of these compounds. Di- and tripeptide containing FMDP (F2 and F3) were transported by Ptr2p/Ptr22p peptide transporters (PTR) and FMDP-containing...
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Anticancer Properties of Amino Acid and Peptide Derivatives of Mycophenolic Acid
PublicationBackground: Although Mycophenolic Acid (MPA) is applied as prodrugs in clinic as an immunosuppressant, it also possesses anticancer activity. MPA acts as Inosine-5’-Monophosphate Dehydrogenase (IMPDH) inhibitor, where the carboxylic group at the end of the side chain interacts with Ser 276 of the enzyme via hydrogen bonds. Therefore, MPA derivatives with other polar groups indicated high inhibition too. On the other hand, potent...
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Highly Conserved Homotrimer Cavity Formed by the SARS-CoV-2 Spike Glycoprotein: A Novel Binding Site
PublicationAn important stage in severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) life cycle is the binding of the spike (S) protein to the angiotensin converting enzyme-2 (ACE2) host cell receptor. Therefore, to explore conserved features in spike protein dynamics and to identify potentially novel regions for drugging, we measured spike protein variability derived from 791 viral genomes and studied its properties by molecular...
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Generation and Characterization of a DNA-GCN4 Oligonucleotide-Peptide Conjugate: The Impact DNA/Protein Interactions on the Sensitization of DNA
PublicationRadiotherapy, the most common therapy for the treatment of solid tumors, exerts its effects by inducing DNA damage. To fully understand the extent and nature of this damage, DNA models that mimic the in vivo situation should be utilized. In a cellular context, genomic DNA constantly interacts with proteins and these interactions could influence both the primary radical processes (triggered by ionizing radiation) and secondary reactions,...
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The occurrence of heavy metals and metal-resistant bacteria in water and bottom sediments of the Straszyn reservoir (Poland)
PublicationThe aim of this study is investigate the distribution of selected heavy metals (zinc, copper, lead, cadmium) and metal-resistant bacteria in water and bottom sediments of drinking water reservoir for Gdańsk (Poland). The research area - Straszyn Lake is a dam reservoir on Radunia river, of the total volume of 3 mln m3. Sediment and water sampling took place between May and October 2013 (eight series). Regarding metal concentration...
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Independent dynamics of slow, intermediate, and fast intracranial EEG spectral activities during human memory formation
PublicationA wide spectrum of brain rhythms are engaged throughout the human cortex in cognitive functions. How the rhythms of various low and high frequencies are spatiotemporally coordinated across the human brain during memory processing is inconclusive. They can either be coordinated together across a wide range of the frequency spectrum or induced in specific bands. We used a large dataset of human intracranial electroencephalography...
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Hierarchical predictive control of integrated wastewater treatment systems
PublicationThe paper proposes an approach to designing the control structure and algorithms for optimising control of integrated wastewater treatment plant-sewer systems (IWWTS) under a full range of disturbance inputs. The optimised control of IWWTS allows for significant cost savings, fulfilling the effluent discharge limits over a long period and maintaining the system in sustainable operation. Due to the specific features of a wastewater...
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Evaluation of time-efficiency of disjoint paths calculation schemes
PublicationThe concept of alternate paths has been shown in the literature to provide fast response of a network to failures of its elements (nodes/links) affecting flows along the primary communication paths. Various approaches have been proposed to reduce the time necessary to redirect the respective flows onto the alternate paths. In this paper, we focus on another important objective, that so far has not received much attention, i.e.,...
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Accurate simulation-driven modeling and design optimization of compact microwave structures
PublicationCost efficient design optimization of microwave structures requires availability of fast yet reliable replacement models so that multiple evaluations of the structure at hand can be executed in reasonable timeframe. Direct utilization of full-wave electromagnetic (EM) simulations is often prohibitive. On the other hand, accurate data-driven modeling normally requires a very large number of training points and it is virtually infeasible...
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Electrodes consisting of PEDOT modified by Prussian Blue analogues deposited onto titania nanotubes – Their highly improved capacitance
PublicationIn this work we present the outstanding energy storage of prepared inorganic-organic heterojunction where hydrogenated ordered titania nanotubes (H-TiO2NT) were modified by the hybrid made of poly(3,4-ethylenedioxythiophene) (pEDOT) and iron hexacyanoferrate centres (Fehcf, Prussian Blue). The material TiO2NT/pEDOT:Fechf was obtained electrochemically by means of: anodization, hydrogenation and finally, electropolymerization of...
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Long Distance Vital Signs Monitoring with Person Identification for Smart Home Solutions
PublicationAbstract— Imaging photoplethysmography has already been proved to be successful in short distance (below 1m). However, most of the real-life use cases of measuring vital signs require the system to work at longer distances, to be both more reliable and convenient for the user. The possible scenarios that system designers must have in mind include monitoring of the vital signs of residents in nursing homes, disabled people, who...
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Property sustainable value versus highest and best use analyzes
PublicationThis article proposes the possibility of applying fuzzy logic theory to perform the tasks of determining the market value of agricultural lands. These tasks are of a multi‐criteria character, as multiple factors are taken into consideration during the land value valuation process. The market value of agricultural land plots, calculated using fuzzy logic methods, can provide a basis for further use in the processes that are directly...
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Towards Understanding the Health Aspects of the Processing of Lignocellulosic Fillers
PublicationHealth and safety issues should be addressed during the development and investigation of the industrial processes. In order to develop a sustainable process and fully evaluate its benefits and drawbacks for its optimization, it is crucial to determine its impact on the surrounding environment. This study aimed to assess the emission of volatile organic compounds during the modification of lignocellulosic fillers with passive dosimetry....