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Search results for: next-generation sequencing
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Generating amplicon reads for microbial community assessment with next‐generation sequencing
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Associative and Physical Mapping of Markers Related to Fusarium in Maize Resistance, Obtained by Next-Generation Sequencing (NGS)
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Identification and Analysis of Candidate Genes Associated with Yield Structure Traits and Maize Yield Using Next-Generation Sequencing Technology
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Tracking Clonal Evolution of Multiple Myeloma Using Targeted Next-Generation DNA Sequencing
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Next Generation Digital
PublicationThe paper outlines the major objectives of the MENAID research project, eimed at novel architectures of digital documents. Such documents will enable reduction of information overflow and strain, a major threat to the growth of a digital society. They will be forward compatible, technology neutral and lightweight, allowing workers of network organizations to use personal devices of any type.
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The Challenges Of The Next Generation Leader 5.0
Publicationhttp://ak.aos.sk/images/repozitar/zborniky/NTPP_clanky23/10_Balcerzyk.pdf
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Next generation automatic IP configuration deployment issues
PublicationAlthough Dynamic Host Configuration Protocol for IPv6 (DHCPv6) protocol was defined in 2003, it was designed as a framework rather than a complete solution to the automatic configuration in IPv6 networks. There are still some unsolved problems and new options yet to be defined. One example of such case is Fully Qualified Domain Name (FQDN) option, which final version has been published in late 2007. It describes DHCPv6 client...
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Toward the next generation of air quality monitoring: Mercury
PublicationMercury is a global pollutant that is ubiquitous in the environment. Enrichment of mercury in the biosphere as the result of human activities and subsequent production of methylmercury (MeHg) has resulted in elevated concentrations in fish, wildlife and marine mammals globally. Elemental mercury (Hg0) is the most common form of mercury in the atmosphere, and the form that is most readily transported long distances from its emission...
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Modeling of Wireless Traffic Load in Next Generation Wireless Networks
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Next generation ITS implementation aspects in 5G wireless communication network
PublicationIn the paper the study of Intelligent Transportation systems implementation in the 5G wireless communication network is presented. Firstly, small-cell concept in Ultra Dense Heterogeneous network was analyzed. Secondly, the 5G network requirements were presented which are important from the point of view of transportation systems development. Next, the study on the 5G network architectures proposals dedicated to the ITS systems...
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Doped Two-Dimensional Silicon Nanostructures as a Platform for Next-Generation Sensors
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Choosing source of microorganisms and processing technology for next generation beet bioinoculant
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Which Simulator to Choose for Next Generation Wireless Network Simulations? NS-3 or OMNeT++
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In vitro to in vivo extrapolation to support the development of the next generation risk assessment (NGRA) strategy for nanomaterials
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Colonization of axenic beet by rhizosphere bacteria takes place in discreet phases regardless of bioinculation with next generation bioinoculant
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Multi-Technique Investigation of Grave Robes from 17th and 18th Century Crypts Using Combined Spectroscopic, Spectrometric Techniques, and New-Generation Sequencing
PublicationThe textile fragments of the funeral clothes found in the 17th and 18th century crypts were subjected to spectroscopic, spectrometric, and microbial investigation. The next-generation sequencing enabled DNA identification of microorganisms at the genus and in five cases to the species level. The soft hydrofluoric acid extraction method was optimized to isolate different classes of dyes from samples that had direct contact with...
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Metody metagenomiczne w badaniu mikrobiomu jelitowego człowieka
PublicationMikroorganizmy zamieszkujące ciało człowieka to nie tylko komensale i groźne patogeny, ale także organizmy symbiotyczne pełniące kluczową rolę w zachowaniu homeostazy gospodarza. Badania metagenomiczne wykorzystujące techniki sekwen-cjonowania nowej generacji i metody bioinformatyczne pozwalają na dogłębne po-znanie mikrobiomu ludzkiego i poszukiwanie jego związku ze stanem zdrowia czło-wieka. Celem pracy jest omówienie różnych...
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Triazoloacridone C-1305 impairs XBP1 splicing by acting as a potential IRE1α endoribonuclease inhibitor
PublicationInositol requiring enzyme 1 alpha (IRE1α) is one of three signaling sensors in the unfolding protein response (UPR) that alleviates endoplasmic reticulum (ER) stress in cells and functions to promote cell survival. During conditions of irrevocable stress, proapoptotic gene expression is induced to promote cell death. One of the three signaling stressors, IRE1α is an serine/threonine-protein kinase/endoribonuclease (RNase) that...
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Evaluation of Partial Nitritation/Anammox (PN/A) Process Performance and Microorganisms Community Composition under Different C/N Ratio
PublicationA one-stage partial nitritation/anammox (PN/A) process with intermittent aeration is possible under sidestream conditions, but implementation in a mainstream is a challenge due to increased Carbon/Nitrogen (C/N) ratios in domestic wastewater. This study investigated the effect of C/N ratios on process efficiency and the effect of narrowing non-aeration time on process improvement at high chemical oxygen demand (COD) load. An increase...
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Personalized prediction of the secondary oocytes number after ovarian stimulation: A machine learning model based on clinical and genetic data
PublicationControlled ovarian stimulation is tailored to the patient based on clinical parameters but estimating the number of retrieved metaphase II (MII) oocytes is a challenge. Here, we have developed a model that takes advantage of the patient’s genetic and clinical characteristics simultaneously for predicting the stimulation outcome. Sequence variants in reproduction-related genes identified by next-generation sequencing were matched...
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Insights into the microbial community of treated wastewater, its year-round variability and impact on the receiver, using cultivation, microscopy and amplicon-based methods
PublicationApart from chemical constituents, wastewater treatment plant (WWTP) effluents also release microorganisms that can be important to the receiving water bodies either from a sanitary point of view, or taking to the account the biogeochemical potential of the recipients. However, little is known about the treated wastewater microbial community, its composition, seasonal changes, functions and fate in the waters of the receiver. Thus,...
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The microbial community, its biochemical potential, and the antimicrobial resistance of Enterococcus spp. in Arctic lakes under natural and anthropogenic impact (West Spitsbergen)
PublicationThe sustainable management of small human communities in the Arctic is challenging. In this study, both a water supply system (Lake 1) under the natural impact of a bird-nesting area, and a wastewater receiver (Lake 2) were analysed in the vicinity of the Polish Polar Station on West Spitsbergen. Microbial community composition, abundance and activity were assessed in samples of the treated wastewater, lake water and sediments...
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Combinated treatment of landfill leachates with wastewater in a sequencing batch reactor (SBR)
PublicationSanitary landfill leachates are treated usually by multistage systems using physical, chemical and biological processes. One of the most economic and efficient method is combined treatment of landfill leachates with municipal wastewater in a sequencing batch reactor (SBR. The main advantage of such co-treatment is that landfill leachates variability (in quality and quantity) do not influence the effectiveness of biological processes....
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Nitrogen removal via the nitrite pathway during wastewater co-treatment with ammonia-rich landfill leachates in a sequencing batch reactor
PublicationThe biological treatment of ammonia-rich landfill leachates due to an inadequate C to N ratio requires expensive supplementation of carbon from an external carbon source. In an effort to reduce treatment costs, the objective of the study was to determine the feasibility of nitrogen removal via the nitrite pathway during landfill leachate co-treatment with municipal wastewater. Initially, the laboratory-scale sequencing batch reactor...
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Fungal Typin Methods
PublicationThe broad application of the molecular techniques in mycoses diagnosis is related to increase of infections caused by fungi in many countries. The oldest typing methods relaying on fenotypic observation, physiological and biochemical examination have had very limited importance from decades. Novadays, the molecular biology methods took their place. Most of the genotyping methods have been devoleped to be applied for typing of bacteria...
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Application of mechanistic and data-driven models for nitrogen removal in wastewater treatment systems
PublicationIn this dissertation, the application of mechanistic and data-driven models in nitrogen removal systems including nitrification and deammonification processes was evaluated. In particular, the influential parameters on the activity of the Nitrospira activity were assessed using response surface methodology (RSM). Various long-term biomass washout experiments were operated in two parallel sequencing batch reactor (SBR) with a different...
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Bioaugmentation of a sequencing batch reactor with Archaea for the treatment of reject water
PublicationIn this study, the bioaugmentation of a sequencing batch reactor (SBR) for the treatment of reject water from wastewater treatment plant was evaluated. For the bioaugmentation step a product containing an enrichment of microorganisms from the Archaea domain was used to enhance the performance of the reactor for treating reject water. The experiment was carried out in two parallel lab-scale sequencing batch reactors. The first one...
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Platelet RNA Sequencing Data Through the Lens of Machine Learning
PublicationLiquid biopsies offer minimally invasive diagnosis and monitoring of cancer disease. This biosource is often analyzed using sequencing, which generates highly complex data that can be used using machine learning tools. Nevertheless, validating the clinical applications of such methods is challenging. It requires: (a) using data from many patients; (b) verifying potential bias concerning sample collection; and (c) adding interpretability...
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Removal of Pharmaceutically Active Compounds in Sequencing Batch Reactor
PublicationIn recent years, considerable attention was paid to the presence of organic micro-pollutants such as Active Pharmaceutical Ingredients (API) in the aquatic environment due to their negative impact on public health and aquatic ecosystems. Numerous papers have pointed out API presence as common constituents of effluents from Wastewater Treatment Plants (WWTPs). This is the result of various efficiencies of API removal by conventional...
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Detection of circulating tumor cells by means of machine learning using Smart-Seq2 sequencing
PublicationCirculating tumor cells (CTCs) are tumor cells that separate from the solid tumor and enter the bloodstream, which can cause metastasis. Detection and enumeration of CTCs show promising potential as a predictor for prognosis in cancer patients. Furthermore, single-cells sequencing is a technique that provides genetic information from individual cells and allows to classify them precisely and reliably. Sequencing data typically...
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Living and working beneath the sea – next approach
PublicationThe idea of living beneath the sea is very new if compared with millennia of shipping activity. In fact, ocean surface was considered mainly as medium suitable for transport of persons and goods as well as aggression and robbery. More practical attempts to live “on” the water surface are limited to well protected internal waters. The presented concept of “an underwater-above water accommodation, especially for residential purposes”...
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Better understanding EMI generation of power converters
PublicationPrzedstawiono metodę przewidywania poziomu zaburzeń w układzie podwyższającym napięcie w oparciu o metodę filtracji Wienera. Pozwoliło to na określenie odpowiedzi impulsowej pomiędzy przyczyną zaburzenia (zmianą napięcia na elementach półprzewdonikowych) a zaburzeniem. Metodę zwerifikowano przy użyciu danych z symulacji oraz pomiarów w rzeczywistym obiekcie
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Supervisory fuzzy control system for biological processes in sequencing wastewater batch reactor
PublicationThe paper proposes the design of the supervisory heuristic fuzzy control system applied to a Sequencing Batch Reactor (SBR) in the Wastewater Treatment Plant (WWTP). Based on real data records and the biological process and aeration system models, a control system for biological processes has been designed. The supervisory control system performs management of the reactor work cycle, determines the phase length, controls the sludge...
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Modelling of sequencing batch reactor operating at various aeration modes
PublicationThe presented study involved designing a computer model of a sequencing batch reactor (SBR) at laboratory scale. The data pertaining to the technical aspects of the bioreactor and quality indicators of wastewater constituted the input for the employed simulation tool, i.e. GPS-X software package. The results of a simulation involving a 12-hour operation cycle are presented in this work; each cycle included 6 phases: filling, mixing,...
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Nonlinear Fuzzy Control System for Dissolved Oxygen with Aeration System in Sequencing Batch Reactor
PublicationBiological processes at a wastewater treatment plant are complex, multivariable, time varying and nonlinear. Moreover, interactions between the components are very strong. Control of dissolved oxygen is one of most important task at the plant. The level of dissolved oxygen in aerobic tanks has significant influence on behaviour and activity of microorganisms at the plant. Air for aerated tanks is supplied by the aeration system...
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The Influence of Sulfate on Anaerobic Ammonium Oxidation in a Sequencing Batch Reactor
PublicationAnaerobic ammonia-oxidizing bacteria have a more comprehensive metabolism than expected - there may be other electron acceptors that oxidize ammonium nitrogen under anaerobic conditions, in addition to the well-known nitrite nitrogen, one of which is sulfate in the sulfammox process. Sulfate-containing compounds are part of the medium for the anammox process, but their concentrations are not particularly high (0.2 g MgSO4 ∙ 7H2O/dm3...
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Modeling sequencing batch reactor operational conditions depending on oxygen concentration
PublicationSequencing batch reactors (SBR) can be used as a fill-and draw activated sludge system for wastewater treatment with considerable operating flexibility and the possibility to conduct experiments under standard conditions and extreme case scenarios. Mathematical modeling and computer simulations provide an opportunity to implement existing wastewater processes in modeling software and evaluate different modifications at low costs...
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Optimising Sequencing Batch Reactor Operation Cycle Planning Using Evolutionary Algorithm
PublicationThe objective of this research was to optimise the operation cycle of the Sequencing Batch Reactor (SBR). Appropriate time balances of aerobic to anaerobic phases, as well as a set dissolved oxygen level are the key to ensuring the quality of effluent from the wastewater treatment process. The proposal to solve this optimisation problem was based on multi-objective optimisation using an evolutionary multi-objective optimisation...
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Quality of Cryptocurrency Mining on Previous Generation NVIDIA GTX GPUs
PublicationCurrently, there is a lot of previous generation NVIDIA GTX graphical processing units (GPUs) available on the market, which were ousted from by next-gen RTX units. Due to this fact, numerous fully-operational devices remain underused, which are available at an affordable price. First, this paper presents an analysis of the cryptocurrency market. Next, in this context, the results of research on the performance of NVIDIA graphics...
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Finite element matrix generation on a GPU
PublicationThis paper presents an efficient technique for fast generation of sparse systems of linear equations arising in computational electromagnetics in a finite element method using higher order elements. The proposed approach employs a graphics processing unit (GPU) for both numerical integration and matrix assembly. The performance results obtained on a test platform consisting of a Fermi GPU (1x Tesla C2075) and a CPU (2x twelve-core...
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Machining process sequencing and machine assignment in generative feature-based CAPP for mill-turn parts
PublicationProcess selection and sequencing, as one of the most complex issues when evaluated from a mathematical point of view and crucial in CAPP, still attract research attention. For the current trend of intelligent manufacturing, machining features (MFs) are the information carriers for workpiece geometry and topology representation. They are basically derived from CAD models and are used by downstream engineering applications. A feature-based...
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Analysis of electricity generation variability in 2019 with special consideration of electrical energy generation from wind sources.
PublicationThis article presents issues related to the broadly understood development of wind energy. The state of the art of wind energy in the world has been discussed. This paper also shows issues related to factors affecting the development of renewable energy sources and their impact on the natural environment on the basis of available research. The focus is, however, on the critical analysis of phenomena in the data of the Transmission...
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Prediction of protein assemblies, the next frontier: The CASP14‐CAPRI experiment
PublicationWe present the results for CAPRI Round 50, the 4th joint CASP-CAPRI protein assembly prediction challenge. The Round comprised a total of 12 targets, including 6 dimers, 3 trimers, and 3 higher-order oligomers. Four of these were easy targets, for which good structural templates were available either for the full assembly, or for the main interfaces (of the higher-order oligomers). Eight were difficult targets for which only distantly...
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A Model-Based Improved Control of Dissolved Oxygen Concentration in Sequencing Wastewater Batch Reactor
PublicationBiochemical processes at wastewater treatment plant are complex, nonlinear, time varying and multivariable. Moreover, relationships between processes are very strong. One of the most important issues is exerting proper control over dissolved oxygen levels during nitrification phase. This parameter has a very large impact on activity of microorganisms in activated sludge and on quality of pollution removal processes. Oxygen is supplied...
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Evaluation and start-up of an electro-Fenton-sequencing batch reactor for dairy wastewater treatment
PublicationThis study examined the performance of an integrated wastewater (WW) treatment system, namely an electro-Fenton (EF)-sequencing batch reactor (SBR), for dairy industry WW. The EF process was used as the first stage of the SBR. It degrades bio-refractory compounds via advanced oxidation processes, thereby resulting in the formation of simple biodegradable intermediates. Several factors, including the hydraulic retention time (HRT),...
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Systematic Test Data Generation for Embedded Software
PublicationSystematic Test Data Generation for Embedded Software
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Mixed integer nonlinear optimization of biological processes in wastewater sequencing batch reactor
PublicationWastewater treatment plays a key role for humanity. The waste entering lakes, rivers, and seas deteriorates daily quality of life. Therefore, it is very important to improve the efficiency of wastewater treatment. From a control point of view, a biological wastewater treatment plant is a complex, non-linear, multidimensional, hybrid control system. The paper presents the design of the optimizing hierarchical control system applied...
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Application capabilities of the maximum distributed generation estimate methodology
PublicationThe paper presents application capabilities of the maximum distributed generation estimate methodology. This subject is an example of solutions to the problem that today face the transmission system operator and distribution system operators, which is related to the high saturation with wind power generation predicted for the near future.
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Supervisory Control System for Adaptive Phase and Work Cycle Management of Sequencing Wastewater Treatment Plant
PublicationThe paper presents the design of the integrated control system applied to Sequencing Batch Reactor (SBR) in a biological Wastewater Treatment Plant (WWTP) in Swarzewo, which operates under activated sludge technology. Based on the real data records, ASM2d biological processes model and aeration system model, hierarchical control system for dissolved oxygen tracking and cycle management is designed. Internal Model Controller (IMC)...
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CRVG - a new model for wireless networks topology generation
PublicationThis paper presents a new model of wireless network topology generator. Its main advantage is the possibility of relatively sparse networks generation. Because no iteration is needed, the model can be used for massive generation of networks for testing. The topological properties of produced graphs place them in the class of scale free networks, resembling real ones.