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Antibody-Like Phosphorylation Sites in Focus of Statistically Based Bilingual Approach

Computational Molecular Bioscience 2016年第1期6卷 1-22页

作者： Jaroslav Kubrycht Karel Sigler pavel souček Jiří Hudeček Department of Physiology Second Faculty of Medicine Charles University Prague Czech Republic Laboratory of Cellular Biology Institute of Microbiology Academy of Sciences of the Czech Republic Prague Czech Republic Toxicogenomics Unit National Institute of Public Health Prague Czech Republic Department of Biochemistry Charles University Prague Czech Republic

In accordance with previous reports, the sequences related to phosporylated protein segments occur in conserved variable domains of immunoglobulins including first of all certain N-terminally located segments. Consequently, we look here for the sequences 1) composing human and mouse proteins different from antigen receptors, 2) identical with or highly similar to nucleotide sequence representatives of conserved variable immunoglobulin segments and 3) identical with or closely related to phosphorylation sites. More precisely, we searched for the corresponding actual pairs of DNA and protein sequence segments using five-step bilingual approach employing among others a) different types of BLAST searches, b) two in-principle-different machine-learning methods predicting phosphorylated sites and c) two large databases recording existing phosphorylation sites. The approach identified seven existing phosphorylation sites and thirty-seven related human and mouse segments achieving limits for several predictions or phylogenic parameters. Mostly serines phosporylated with ataxia-telangiectasia-related kinase (involved in regulation of DNA-double-strand-break repair) were indicated or predicted in this study. Hypermutation motifs, located in effective positions of the selected sequence segments, occurred significantly less frequently in transcribed than non-transcribed DNA strands suggesting thus the incidence of mutation events. In addition, marked differences between the numbers and proportions of human and mouse cancer-related sequence items were found in different steps of selection process. The possible role of hypermutation changes within the selected segments and the observed structural relationships are discussed here with respect to DNA damage, carcinogenesis, cancer vaccination, ageing and evolution. Taken together, our data represent additional and sometimes perhaps complementary information to the existing databases of empirically proven phosphorylation sites or pa

关键词： Ataxia Telangiectasia-Mutated-Protein (i.e. Kinase ATM Whose Pathogenic Mutation Is Responsible for Early Death of People) Complementarity Determining Region 1 (of Immunoglobulins i.e. CDR1 or Hypervariable Region 1) Database (of Functional Structures) Hypermutation (i.e. Mutation of DNA Sequences Mediated by Enzymes) Immunoglobulin (i.e. Ig or Antibody) Phosphorylation (Enzyme Mediated Modification Concerns Here Mostly Protein Sequences)

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SPEED:an integrated,smartphone-operated,handheld digital PCR Device for point-of-care testing

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Microsystems & Nanoengineering 2024年第3期10卷 149-158页

作者： Haoqing Zhang Xiaocheng Liu Xinlu Wang Zhiqiang Yan Ying Xu Martina Gaňová TomášŘezníček Marie Korabečná pavel Neuzil Ministry of Education Key Laboratory of Micro and Nano Systems for Aerospace School of Mechanical EngineeringNorthwestern Polytechnical University127 West Youyi RoadXi’anShaanxi 710072PR China The Key Laboratory of Biomedical Information Engineering of the Ministry of Education School of Life Science and TechnologyXi’an Jiaotong UniversityXi’anShaanxi 710049PR China Bioinspired Engineering and Biomechanics Center(BEBC) Xi’an Jiaotong UniversityXi’an 710049PR China School of Marine Science and Technology Northwestern Polytechnical UniversityXi’anShaanxi 710072PR China Central European Institute of Technology Brno University of TechnologyPurkyňova 12361300 BrnoCzech Republic ITD Tech S.R.O Osvoboditelu100573581 BohumínCzech Republic Institute of Biology and Medical Genetics First Faculty of MedicineCharles University and General University Hospital of PragueAlbertov 412800 PragueCzech Republic

This study elaborates on the design,fabrication,and data analysis details of SPEED,a recently proposed smartphonebased digital polymerase chain reaction(dPCR)*** dPCR chips incorporate partition diameters ranging from 50μm to 5μm,and these partitions are organized into six distinct blocks to facilitate image *** to the superior thermal conductivity of Si and its potential for mass production,the dPCR chips were fabricated on a Si substrate.A temperature control system based on a high-power density Peltier element and a preheating/cooling PCR protocol user interface shortening the thermal cycle *** optical design employs four 470 nm light-emitting diodes as light sources,with filters and mirrors effectively managing the light emitted during *** algorithm is utilized for image processing and illumination nonuniformity correction including conversion to a monochromatic format,partition identification,skew correction,and the generation of an image correction *** validated the device using a range of deoxyribonucleic acid targets,demonstrating its potential applicability across multiple ***,we provide guidance and verification of the design and testing of the recently proposed SPEED device.

关键词： correction smart testing

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An integrated microfluidic platform for nucleic acid testing

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Microsystems & Nanoengineering 2024年第3期10卷 181-194页

作者： Antao Sun Petra Vopařilová Xiaocheng Liu Bingqian Kou TomášŘezníček TomášLednický Sheng Ni JiříKudr Ondřej Zítka Zdenka Fohlerová Petr Pajer Haoqing Zhang pavel Neužil Ministry of Education Key Laboratory of Micro and Nano Systems for Aerospace School of Mechanical EngineeringNorthwestern Polytechnical University127 West Youyi RoadXi’anShaanxi 710072P.R.China Department of Chemistry and Biochemistry Mendel University in BrnoZemědělská161300 BrnoCzech Republic ITD Tech s.r.o Osvoboditelů100573581 BohumínCzech Republic Central European Institute of Technology Brno University of TechnologyPurkyňova 123Brno 61200Czech Republic Department of Electronic and Computer Engineering The Hong Kong University of Science and TechnologyClear Water BayKowloonHong Kong SARChina Department of Microelectronics Faculty of Electrical Engineering and CommunicationBrno University of TechnologyTechnická3058/10Brno 61600Czech Republic Military Health Institute U Vojenskénemocnice 120016200 Praha 6Czech Republic The Key Laboratory of Biomedical Information Engineering of Ministry of Education School of Life Science and TechnologyXi’an Jiaotong UniversityXi’anShaanxi 710049P.R.China Bioinspired Engineering and Biomechanics Center(BEBC) Xi’an Jiaotong UniversityXi’an 710049P.R.China

This study presents a rapid and versatile low-cost sample-to-answer system for SARS-CoV-2 *** system integrates the extraction and purification of nucleic acids,followed by amplification via either reverse transcriptionquantitative polymerase chain reaction(RT–qPCR)or reverse transcription loop-mediated isothermal amplification(RT–LAMP).By meeting diverse diagnostic and reagent needs,the platform yields testing results that closely align with those of commercial RT-LAMP and RT‒qPCR *** advantages of our system include its speed and *** assay is completed within 28 min,including sample loading(5 min),ribonucleic acid(RNA)extraction(3 min),and RT-LAMP(20 min).The cost of each assay is≈$9.5,and this pricing is competitive against that of Food and Drug Administration(FDA)-approved commercial *** some RNA loss during on-chip extraction is observed,the platform maintains a potential limit of detection lower than 297 *** makes the system particularly useful in environments where centralized laboratories are either unavailable or inconveniently *** key feature is the platform’s versatility,allowing users to choose between RT‒qPCR or RT‒LAMP tests based on specific requirements.

关键词： testing maintain versatile

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Architecture of Graphics System with 3D Acceleration Support for Embedded Operating Systems

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Tsinghua Science and Technology 2024年第3期29卷 863-873页

作者： Alexander Giatsintov Kirill Mamrosenko pavel Bazhenov Center of Visualization and Sattelite Information Technologies Scientific Research Institute for System Analysis of the Russian Academy of Sciences(SRISA RAS)Moscow 117218Russia

An increasing number of tasks now require the use of hardware accelerators to reduce the time required for computation and display the computational *** paper presents a new graphics system architecture for operating systems(OSs)with microkernel architecture,including real-time *** proposed system architecture provides capabilities for displaying graphical images on various information display devices and for accelerating graphical operations on *** architecture of the graphics system uses a concept of allocators to manage system and video memory,provides an abstraction of memory operations with a single interface for video memory management,and simplifies memory handling where incorrect operation is the cause of many failures.A comparison between the performance of a real-time OS and Linux OS implementing the graphics system using the example of a glmark2 benchmark is presented,thereby the superiority of the proposed architecture in several scenarios is demonstrated.

关键词： real-time operating system(RTOS) graphics system rendering system architecture operatingsystem visualization system programming

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Thermogravimetric,kinetic study and gas emissions analysis of the thermal decomposition of waste-derived fuels

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Journal of Environmental Sciences 2024年第3期137卷 155-171页

作者： Vadim V.Dorokhov Galina S.Nyashina pavel A.Strizhak Heat and Mass Transfer Laboratory National Research Tomsk Polytechnic University30 Lenin AvenueTomsk 634050Russia

A wide range of wastes can potentially be used to generate thermal and electrical *** co-combustion of several types of waste as part of water-containing waste-derived fuels is a promising method for their *** this research,we use thermogravimetric analysis and differential scanning calorimetry to study the thermal behavior and kinetics of coal slime,biomass,waste oils,and blends on their *** also analyze the concentrations of gaseous *** results show that biomass,oils,and coal slime significantly affect each other in the course of their co-combustion when added to slurry *** preparation of coal-water slurry based on slime and water reduced the ignition and burnout temperature by up to 16%.Adding biomass and waste oils additionally stimulated the slurry ignition and burnout,which occurred at lower *** to dry coal slime,threshold ignition temperatures and burnout temperatures decreased by 6%–9%and 17%–25%,***,the use of biomass and waste oils as part of slurries inhibited NOхand SO_(2)emission by 2.75 *** to the kinetic analysis,added biomass and waste turbine oil provide a 28%–51%reduction in the activation energy as compared to a coal-water slurry without additives.

关键词： Coal-water slurry Water-containing composite fuels Combustion Emission Kinetic TGA-DSC

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Consideration of the influence of supports in modeling the electromagnetic fields of 25 kV traction networks under emergency conditions

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Global Energy Interconnection 2024年第4期7卷 528-540页

作者： Konstantin Suslov Andrey Kryukov ekaterina Voronina pavel Ilyushin Department of Hydropower and Renewable Energy National Research UniversityMoscow Power Engineering InstituteMoscow 11250Russia Department of Power Supply and Electrical Engineering Irkutsk National Research Technical UniversityIrkutsk 664074Russia Department of Transport Electric Power Irkutsk State Transport UniversityIrkutsk 664074Russia Department of Research on the Relationship between Energy and the Economy Energy Research Institute of the Russian Academy of SciencesMoscow 117186Russia

Single-phase 25 kV traction networks of electrified alternating current(AC)railways create electromagnetic fields(EMFs)with significant levels of *** most intense magnetic fields occur when short circuits exist between the contact wire and rails or *** the short duration of exposure,they can adversely affect electronic devices and induce significant voltages in adjacent power lines,which is dangerous for operating *** numerous investigations have focused on modeling the EMF of traction networks and power lines,the challenge of determining the three-dimensional electromagnetic fields near metal supports during the flow of a short-circuit current through them is yet to be *** this case,the field has a complex spatial structure that significantly complicates the calculations of *** study proposes a methodology,algorithms,software,and digital models for determining the EMF in the described emergency *** the modeling process,the objects being studied were represented by segments of thin wires to analyze the distribution of the electric charge and calculate the intensities of the electric and magnetic *** approach was implemented in the Fazonord software,and the modeling results show a substantial increase in EMF levels close to the support,with a noticeable decrease in the levels as the distance from it *** procedure implemented in the commercial software Fazonord is universal and can be used to determine electromagnetic fields at any electrical power facility that includes live parts of limited *** on the proposed procedure,the EMF near the supports of overhead power lines and traction networks of various designs could be determined,the EMF levels at substations can be calculated,and the influence of metal structures located near traction networks,such as pedestrian crossings at railway stations,can be considered.

关键词： Power supply systems AC railways Emergency conditions Electromagnetic fields near supports Modeling Electromagnetic safety

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Technological parameters of thin-film pulsed laser scribing for perovskite photovoltaics

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CLEAN ENERGY 2024年第3期8卷 127-135页

作者： Ishteev, Rustam Gostishchev, pavel Tiukhova, Mariia Sorokin, Anton Ishteev, Arthur Kondratenko, Vladimir RTU MIREA Inst Adv Technol & Ind Programming Dept Nanoelect Lab Precis Machining Mat Moscow Russia Res & Pract Clin Ctr Diagnost & Telemed Technol Moscow Hlth Care Dept Moscow Russia Natl Univ Sci & Technol MISIS Lab Adv Solar Energy LASE 4 Leninsky St Moscow Russia Russian Acad Sci RAS Semenov Fed Res Ctr Chem Phys 4 Kosygina Str Moscow Russia

Over the past decade, the power conversion efficiency of halide perovskite solar cells has shown a rapid increase to 26.1%. The significant efficiency growth and the relative simplification of the technology for obtaining thin-film solar cells due to liquid printing methods determine the high potential for the low-cost perovskite solar cells manufacturing. However, efficient use of cell geometry is comparable to the size of standard crystalline-Si wafers (156:156 mm and more). Therefore, modular geometry similar to amorphous-Si solar cell approaches is used to scale perovskite solar cells. Serial electrical connection of thin-film cells requires precise processing of the conductive layers that form the device p-i-n structure. The subject of research is the development of a full pulsed laser scribing cycle for inverted perovskite solar cells. In this work, we propose a study of a laser-patterning technology In2O3:SnO2 (ITO) conductive layer and a photoactive perovskite layer Cs0,2(CH(NH2)2)0,8PbI3. Process regimes of transparent conducting electrodes based on ITO and halide perovskite layer Cs0,2(CH(NH2)2)0,8PbI3 laser patterning were obtained. The optimal parameters for the multipass mode processing of ITO and perovskite layer were determined. The cell was electrically isolated at a scribe line width of 30 mu m. A full pulsed-laser scribing cycle for inverted perovskite solar cells is developed and applied to laser-patterning of an indium-tin oxide (ITO) conductive layer and a photoactive perovskite layer. The optimal parameters for the multipass mode processing of ITO and perovskite layers are determined. Graphical Abstract

关键词： patterning perovskite solar cell perovskite solar cell photovoltaics scribing SOLAR MODULES CELLS

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Resonantly enhanced second-and third-harmonic generation in dielectric nonlinear metasurfaces

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Opto-Electronic Advances 2024年第5期7卷 5-19页

作者： Ji Tong Wang pavel Tonkaev Kirill Koshelev Fangxing Lai Sergey Kruk Qinghai Song Yuri Kivshar Nicolae C.Panoiu Department of Electronic and Electrical Engineering University College LondonLondon WC1E 7JEUnited Kingdom Nonlinear Physics Center Research School of PhysicsAustralian National UniversityCanberra ACT 2601Australia Ministry of Industry and Information Technology Key Lab of Micro-Nano Optoelectronic Information System Guangdong Provincial Key Laboratory of Semiconductor Optoelectronic Materials and Intelligent Photonic SystemsHarbin Institute of TechnologyShenzhen 518055China Wuzhen Laboratory EGO Wuzhen Digital Economy Industrial ParkNo.925 Daole RoadTongxiangChina

Nonlinear dielectric metasurfaces provide a promising approach to control and manipulate frequency conversion optical processes at the nanoscale,thus facilitating both advances in fundamental research and the development of new practical applications in photonics,lasing,and ***,we employ symmetry-broken metasurfaces made of centrosymmetric amorphous silicon for resonantly enhanced second-and third-order nonlinear optical *** the rich physics of optical quasi-bound states in the continuum and guided mode resonances,we comprehensively study through rigorous numerical calculations the relative contribution of surface and bulk effects to second-harmonic generation(SHG)and the bulk contribution to third-harmonic generation(THG) from the ***,we experimentally achieve optical resonances with high quality factors,which greatly boosts light-matter interaction,resulting in about 550 times SHG enhancement and nearly 5000-fold increase of THG.A good agreement between theoretical predictions and experimental measurements is *** gain deeper insights into the physics of the investigated nonlinear optical processes,we further numerically study the relation between nonlinear emission and the structural asymmetry of the metasurface and reveal that the generated harmonic signals arising from linear sharp resonances are highly dependent on the asymmetry of the *** work suggests a fruitful strategy to enhance the harmonic generation and effectively control different orders of harmonics in all-dielectric metasurfaces,enabling the development of efficient active photonic nanodevices.

关键词： second-harmonic generation third-harmonic generation bound state in the continuum guided mode resonance all-dielectric metasurfaces nonlinear optics

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Phase transitions and degradation/oxidation mechanisms in lead-free CsSnI3 halide perovskites

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CLEAN ENERGY 2024年第3期8卷 109-115页

作者： Ivanova, Alexandra Golikova, Margarita Luchnikov, Lev Gostishchev, pavel Shetinin, Igor Voronov, Victor Saranin, Danila Khovaylo, Vladimir Natl Univ Sci & Technol MISIS NUST MISIS Leninsky Ave 4 Moscow 119049 Russia Belgorod State Univ Pobedy St 85 Belgorod 308015 Russia

Halide perovskites possess ultra-low thermal conductivity and show high potential for thermoelectric devices. The chemical properties and molecular structure of halide perovskite materials are not completely stable under ambient conditions, which hinders their use in thermoelectric generators. Changes in the properties of bulk halide perovskite thermoelectrics are accompanied by partial phase transitions and surface oxidation processes. In this paper, we conducted a comprehensive study of the transport and structural properties of CsSnI3, which were pristine by vacuum melting followed by spark plasma sintering. The research results on the electrical transport of these materials revealed that exposure to an inert atmosphere does not deteriorate stability and the properties of the materials remain unchanged. However, prolonged exposure to air leads to a significant degradation of the electrical transport properties. Contrary to thin-film samples, the shift to the double perovskite structure from the perovskite one is limited to a specific surface layer. This change significantly influences the electrical transport of the material while maintaining the essential properties of both perovskite types. [GRAPHICS]

关键词： halide perovskites degradation oxidation transport properties surface STABILITY PHOTOLUMINESCENCE CONDUCTIVITY MOBILITY

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Development of Prefabricated Timber-Concrete Composite Floors

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Journal of Civil Engineering and Architecture 2024年第8期18卷 394-402页

作者： pavel Nechanický Department of Steel and Timber Structures Czech Technical University in PragueKladno 27201Czech Republic

Timber-concrete composite structures are coming to be very important in housing *** have many advantages compared to traditional timber floors and are widely used as an effective method for refurbishment of existing timber *** research at CTU(Czech Technical University)is focused on industrial production of prefabricated timber-concrete panels and their easy and quick assembly,in order to reduce the total cost of production,transport and assembly.A new shear connector was developed for those *** is a punched metal plate fastener with double-sided teeth and omitted area nearby contact of timber and *** shear tests were performed on four series of punched metal plate fasteners with different geometrical *** of these tests and determination of slip modules Kser and Ku is presented in this paper.

关键词： Timber-concrete composite structures tests.

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