Miracle-dz/UniFAR-FTUs huggingface dataset:
Structural Characterization of Neisseria gonorrhoeae Bacterial Peroxidase—Insights into the Catalytic Cycle of Bacterial Peroxidases

Neisseria gonorrhoeae is an obligate human pathogenic bacterium responsible for gonorrhea, a sexually transmitted disease. The bacterial peroxidase, an enzyme present in the periplasm of this bacterium, detoxifies the cells against hydrogen peroxide and constitutes one of the primary defenses against exogenous and endogenous oxidative stress in this organism. The 38 kDa heterologously produced bacterial peroxidase was crystallized in the mixed-valence state, the active state, at pH 6.0, and the crystals were soaked with azide, producing the first azide-inhibited structure of this family of enzymes. The enzyme binds exogenous ligands such as cyanide and azide, which also inhibit the catalytic activity by coordinating the P heme iron, the active site, and competing with its substrate, hydrogen peroxide. The inhibition constants were estimated to be 0.4 ± 0.1 µM and 41 ± 5 mM for cyanide and azide, respectively. Imidazole also binds and inhibits the enzyme in a more complex mechanism by binding to P and E hemes, which changes the reduction potential of the latest heme. Based on the structures now reported, the catalytic cycle of bacterial peroxidases is revisited. The inhibition studies and the crystal structure of the inhibited enzyme comprise the first platform to search and develop inhibitors that target this enzyme as a possible new strategy against N. gonorrhoeae.
Recent Progress in Development and Application of DNA, Protein, Peptide, Glycan, Antibody, and Aptamer Microarrays

Microarrays are one of the trailblazing technologies of the last two decades and have displayed their importance in all the associated fields of biology. They are widely explored to screen, identify, and gain insights on the characteristics traits of biomolecules (individually or in complex solutions). A wide variety of biomolecule-based microarrays (DNA microarrays, protein microarrays, glycan microarrays, antibody microarrays, peptide microarrays, and aptamer microarrays) are either commercially available or fabricated in-house by researchers to explore diverse substrates, surface coating, immobilization techniques, and detection strategies. The aim of this review is to explore the development of biomolecule-based microarray applications since 2018 onwards. Here, we have covered a different array of printing strategies, substrate surface modification, biomolecule immobilization strategies, detection techniques, and biomolecule-based microarray applications. The period of 2018–2022 focused on using biomolecule-based microarrays for the identification of biomarkers, detection of viruses, differentiation of multiple pathogens, etc. A few potential future applications of microarrays could be for personalized medicine, vaccine candidate screening, toxin screening, pathogen identification, and posttranslational modifications.
Generation of Western Piano Music Based on Deep Learning

A large number of automatic composition models based on deep learning have been proposed in the field of artificial intelligence. This paper regards music as a series of sequences, and proposes an improved structure of transformer (RM- Transformer), which uses random mask module to replace the original mask module. Firstly, music features are extracted during data preprocessing, and then the processed data is input to RM Transformer for training. This model learns the music features contained in the data itself. Finally, music can be generated using the trained model and compared with other network models. Among them, the prediction accuracy and sequence similarity increased by 6.6% and 9.6% respectively, and the harmony and melody of music have been greatly improved. The network structure is more suitable for music generation.
A study of optically featureless objects from the EC Survey: searching for new southern BL Lac objects

In an attempt to discover new southern BL Lac objects, 14 optically featureless objects from the Edinburgh–Cape Survey were selected. Optical polarimetry and spectroscopy, radio and IR observations were carried out in order to improve their classifications. The 14 objects were examined according to special criteria that are described. Their UBV and JHK colour–colour distributions, spectrograms, radio observations and visible-region polarimetry were utilized to conclude that the selected objects are not BL Lacs. Most of them are apparently not extragalactic objects. It is suggested that four of the 14 candidates are DC white dwarfs, one is a QSO, three are DA white dwarfs or sdB subdwarfs, one is a cataclysmic variable, one is a DAO/sdO and another is possibly a DA+dM binary (composite system with a ‘primary’ hot white dwarf and a ‘secondary’ M-type main-sequence dwarf) or a cataclysmic variable. One object is likely to be a subdwarf, while two remain unclassifiable.
Hot-wire investigation of the wake behind cylinders at low Reynolds numbers

The hot-wire technique has been used to measure the regular vortex street pattern behind a cylinder at low Reynolds number. Measurements of mean velocity distribution were made both below and above the critical Reynolds number at which the periodic motion appears. Amplitude and phase measurements gave sufficient information for computation of the instantaneous flow pattern of the vortex system. The important points resulting from the investigation are that (i) the critical Reynolds number at which vortices are shed is 40, (ii) in the range of Reynolds numbers investigated the vortices are not shed directly from the cylinder but appear some distance downstream as an instability of the laminar wake.
Reference aquaplanet climate in the Community Atmosphere Model, Version 5

Fundamental characteristics of the aquaplanet climate simulated by the Community Atmosphere Model, Version 5.3 (CAM5.3) are presented. The assumptions and simplifications of the configuration are described. A 16 year long, perpetual equinox integration with prescribed SST using the model's standard 1° grid spacing is presented as a reference simulation. Statistical analysis is presented that shows similar aquaplanet configurations can be run for about 2 years to obtain robust climatological structures, including global and zonal means, eddy statistics, and precipitation distributions. Such a simulation can be compared to the reference simulation to discern differences in the climate, including an assessment of confidence in the differences. To aid such comparisons, the reference simulation has been made available via earthsystemgrid.org. Examples are shown comparing the reference simulation with simulations from the CAM5 series that make different microphysical assumptions and use a different dynamical core.
High-frequency asymptotics of guided modes in optical fibres

The high-frequency asymptotics of guided modes of dielectric waveguides is studied, firstly under the weak guidance assumptions which lead to a scalar problem, and then for Maxwell's system. The authors prove that the field tends to vanish everywhere the refractive index is not maximum. Moreover, for the vector model, it is proved that the field tends to become transverse. If the core of the guide is homogeneous, then the limit problem, which is an eigenvalue problem set inside the core, is derived. Various asymptotic estimates on the dispersion curves are established.
Statistics Using SPSS: An Integrative Approach, second edition

SPSS (statistical product and service solutions) for Windows is one of the most popular computer programs currently available for statistical analyses. Unfortunately, the package is not self-explanatory and one does need some guidance in learning its use and functionality. This book is very helpful in filling that gap. Written by two of the eminent professionals of quantitative data, the book provides a swift overview of the package and teaches most of the essential techniques of data analysis. The authors build up the discussion logically and explain each point in a simple and easy to understand jargon-free English. A very lucid and well-structured account of the basic statistical and epidemiological concepts is definitely a great plus point of this book and I commend the authors on this. The detailed operations described in this book apply specifically to Version 14 but can very well be relevant to all the later versions. The book has 16 chapters and 5 appendices. It begins with a general introduction to the different types of data and variables, measurement scales and measures of location, and spread and skewness followed by chapters focusing on methods of loading data, performing analyses using a range of tests, making graphs, and working with SPSS syntax windows. There is a very orderly arrangement of subject matter, with one topic leading very nicely to another. The outcome of data analysis is explained in detail including what the tables show and their interpretation. Extensive exercises at the end of each chapter are definitely a great help. However, the book will not teach you statistics or which particular test to be used in any specific condition so a basic understanding of statistics is a must. The central features of the book are the use of real data, wealth of exercises and illustrated examples using these data and detailed answers to exercises. It comes with a data CD containing all the data sets; thus minimising the need to manually enter all the data while undertaking practice sessions on your own. In addition, a clear description of all data sets with details of variables is given, which is useful during teaching sessions. Although the commonly used tests have been explained very eloquently, the book is slightly shallow in two areas. Specifically, it does not give many details about logistic regression and factor analysis. We come across these tests quite regularly in the published literature; so addition of a short chapter on these techniques would be a very welcomed improvement.
Experimental and numerical characterization of ion-cyclotron heated protons on the Alcator C-Mod tokamak

Energetic minority protons with ∼100 keV effective temperature are routinely created in Alcator C-Mod plasmas with the application of ion-cyclotron-range-of-frequency (ICRF) heating. A multichannel compact neutral particle analyzer (CNPA) is used to make measurements of these distributions in Alcator C-Mod's unique and reactor-relevant operating space via active and passive charge-exchange techniques. A radially injected 50 keV diagnostic hydrogen neutral beam is used for active analysis. Using a detailed model that accounts for beam, halo and impurity electron donors, core proton temperatures of ∼30–120 keV are directly measured for the first time in lower density (ne0 ∼ (0.8–1.5) × 1020 m−3) Alcator C-Mod plasmas with up to only ∼0.5 MW of ICRF power. The model found that the minority proton temperatures are peaked spatially away from r/a = 0, even for an on-axis resonance. Additionally, noticeable phase-space anisotropy is seen as expected for ICRF heating. The measured effective temperatures also scale approximately with the Stix parameter. The CNPA temperature measurements are compared with several leading simulation packages such as the TORIC/FPPRF and AORSA/CQL3D full-wave/Fokker–Planck (FW/FP) solvers. Preliminary comparisons with the AORSA/CQL3D code which include results from a new synthetic diagnostic show good agreement and demonstrate that accurate tracking of the minority distribution during iterations of the FW and FP solvers is required to simulate Alcator C-Mod's energetic minority populations with accuracy. Physically, poor wave focusing and preferential heating of trapped energetic protons are found to move the fast proton temperature profiles off-axis. These FW/FP analyses represent the first comparison between predictions of these detailed codes and core minority tail experimental measurements on Alcator C-Mod.
Comparison of Experimental and RANS-Based Numerical Studies of the Decay of Grid-Generated Turbulence

This article presents both experimental and numerical studies of the statistical properties of turbulent flows at moderate Reynolds number (Reλ = 100) in the context of grid-generated turbulence. In spite of the popularity of passive grids as turbulence generators, their design relies essentially on empirical laws. Here we propose to test the ability of simple numerical simulations to capture the large scale properties (rms velocity, turbulence decay, pressure drop, etc) of the turbulence downstream a passive grid. With this purpose, experimental measurements are compared with the three-dimensional Reynolds-averaged Navier Stokes (RANS) equations based turbulence model simulations. To better modeling of energy cascade of turbulence, different turbulence models, mesh resolutions and turbulence model constants, which are determined in accordance with the experimentally measured corresponding values, are used. Both qualitative and quantitative comparisons are made with the experimental data to further assess the accuracy and capability of present numerical techniques for their use in different aerodynamic applications at moderate Re number.
Screening of Probiotic Properties of Bacillus Licheniformis Isolated from Yoghurt

Probiotic microorganisms are an indispensable part of a healthy life. The usage areas of the probiotic Bacillus licheniformis bacteria are quite wide, from contributing to the development of the immune system to reducing cholesterol, which is an important cause of cardiovascular diseases. In this study, Bacillus licheniformis (isolate 29) was isolated from traditional yoghurt sample obtained from town of Hatipli/ Tokat/ Türkiye. And it’s genotypic and probiotic characterizations were performed. Our results showed that the isolated Bacillus licheniformis grew better at pH 5. The survival rate of the bacteria in artificial gastric and intestinal fluid was determined as 47.51% and 65.29%, respectively. The isolate degraded all tested sodium salts, including Sodium glycocholate hydrate, Sodium taurodeoxy Cholate, Sodium taurocholic acid, Sodium tauroglyco Cholate, Sodium thioglycolate. Its surface hydrophobicity was found to be moderately 30.31 ± 0.009% in n-Hexadecane. Although RA5 antibiotic had the largest zone diameter (10 mm), antibiotic susceptibility of Bacillus licheniformis was not among the antibiotic discs tested. These findings indicated that the isolate can be a good probiotics candidate to lower the cholesterol levels.
Adaptive control of a parabolic system with time varying parameters: an averaging analysis

The model reference adaptive control of systems (e.g., thermal systems and nuclear reactor dynamics) described by parabolic partial differential equations is considered. It is assumed that the unknown parameters are spatially invariant but time-varying. The analysis is by means of averaging theory and it brings out clearly the unusual features of the spatial setting. <<ETX>>
Real-Time Malicious Traffic Detection With Online Isolation Forest Over SD-WAN

Software Defined Network (SDN) has been widely used in modern network architecture. The SD-WAN is considered as a technology that has a potential to revolutionize the WAN service usage by utilizing the SDN philosophy. Attacks within SD-WAN can affect the network and block the entire services. In this paper, we propose a machine learning based anomalous traffic detection framework named OADSD over SD-WAN that can achieve task independently and has the ability of adapting to the environment. The OADSD adopts Distributed Dynamic Feature Extraction (DDFE) to extract representative features directly from the raw traffic, and proposes the On-demand Evolving Isolation Forest (OEIF) to make the system adapt to an environment. We provide a theoretical analysis of the performance of the OADSD. We also conduct comprehensive experiments to evaluate the performance of the OADSD with real world public datasets as well as a small real testbed. Our experiments under real world public datasets show that, the OADSD can accurately detect various kinds of attacks with a high performance. Compared with the state-of-the-art systems, the OADSD can achieve up to 60% accuracy improvement.
Enhancing Yield and Physiological Performance by Foliar Applications of Chemically Inert Mineral Particles in a Rainfed Vineyard under Mediterranean Conditions

One of the biggest environmental challenges that most of the traditional and modern grape-growing areas are facing is the frequency, severity, and unpredictability of extreme weather events as a result of climate change. Sustainable tools such as chemically inert mineral particles could be a valid alternative for the promotion of environmentally-friendly viticultural techniques to enhance yield, improve physiological processes, and increase tolerance to biotic/abiotic stressors and grape quality. In regard to this concept, the effects of kaolin (KL) and zeolite (ZL) application was tested in the rosé grapevine cultivar Roditis, field-and rainfed, under the Mediterranean conditions of central Greece. In a two-year trial, the whole vine canopy was sprayed with kaolin and zeolite until runoff at a dose of 3% (w/v) twice throughout the growing season; the first at the beginning of veraison and the second one week later; treatment of the untreated control plants was also performed (C). The assimilation rate in morning and midday, the stomatal conductance, and the WUEi of the leaves of the treated and untreated plants were monitored one day after each application and at harvest. During the same time period of the day (i.e., morning and midday) in July, August, and September, the leaf temperature near the fruit zone was also recorded. At harvest, the yield parameters, cluster characteristics, grape composition, and incidence (%) of sunburned and dehydrated berries as well as berries infected by Plasmopara viticola and Lobesia botrana were recorded. The results showed that KL and ZL application decreased leaf temperature during the growing season until harvest compared to the control treatment, which resulted in an improvement in physiological parameters such as net photosynthesis and intrinsic water use efficiency. At harvest, the KL- and ZL-treated vines showed increased yield due to an increasing cluster and berry fresh weight. On the other hand, the KL and ZL application did not affect the sugar concentration and pH of the must and increased the total acidity and decreased the total phenolic compound content, but only in the first year of the experiments. Furthermore, the incidence of sunburn necrosis, dehydrated berries, and infected berries was significantly lower in the treated vines compared to the control vines. These results confirm the promising potential of kaolin and zeolite applications as a stress mitigation strategy during the summer period, with the ability to protect grapevine plants, enhance yield, and maintain or improve fruit quality in rainfed Mediterranean vineyards.
Optical activity of solid polymers

Abstract The methods of measuring optical activity of solid polymers are reviewed. The extreme difficulty of the methods is exhibited in serious drawbacks of the traditional statistical methods. The invention of HAUP (high accuracy universal polarimeter) method by Kobayashi et al. has opened a way to perfect measurements of gyro-optical properties of any solids. As an example of application of the HAUP method to helical polymers, the process of analyzing the gyration tensor components of poly-L-lactic acid and poly-D-lactic acid is illustrated in details.
Decentralized Affirmative Action Policies: Some Remarks on Their Transparency and Persistence

Successive decentralized policy makers must decide whether to implement an aﬃrmative action policy aimed at improving the performance distribution of future generations of a targeted group. Employers do not observe district by district whether workers beneﬁted from aﬃrmative action, but take into account that possibility when deciding on a wage. Workers thus receive wages corresponding to their expected performance and suﬀer a feeling of injustice when getting less than their actual performance. We ﬁnd that welfare-maximizing policy makers choose to implement aﬃrmative action perpetually , despite the resulting feeling of injustice that eventually dominates the anticipated beneﬁts to the targeted group’s performance. This contrasts with the ﬁrst-best that requires aﬃrmative action to be temporary.
Uncertainty-Aware Adaptive Semidirect LiDAR Scan Matching for Ground Vehicle Positioning

Iterative closest point (ICP) algorithms are widely used in the literature for the estimation of relative transformations using 3-D light detection and ranging (LiDAR) point clouds. This class of algorithms proves to be efficient when the 3-D data share sufficient overlapping parts and a good initial guess is provided. However, large relative motions and mutual occlusion of objects in real-road scenarios hinder traditional optimization-based ICP from achieving optimal estimation. This article explores both direct and feature-based 3-D LiDAR scan matching using the ICP framework in different contexts, such as parking, residential, urban, and highway scenarios. In order to guarantee the scan matching performances in scenarios with scarce geometric information and fast ego-vehicle motion, we propose an adaptive semidirect scan matching (SD-SM) method together with an alignment uncertainty quantification. The proposed SD-SM is tested on both the public KITTI and self-recorded LS2N datasets, which accomplishes the robust six-degree-of-freedom (DOF) pose estimation and consistent scene reconstruction. We demonstrate that the proposed approach outperforms the state of the art and achieves the leading results with 68.3% average relative fitness and 5.71-cm average root-mean-square error (RMSE).
Design and construction of multi epitope- peptide vaccine candidate for rabies virus

Rabies virus is a zoonotic pathogen that causes lethal encephalitis with a case fatality rate of almost 100% in unvaccinated individuals. The currently available vaccines against rabies are composed of inactivated viral particles that only confer a short-term immune response. It is well-known that the entry of rabies virus into host cells is mediated by a trimeric glycoprotein presents on the surface of viral envelope. As the sole viral surface protein, this trimeric glycoprotein represents a promising molecular target to design new vaccines and neutralizing antibodies against rabies virus. Epitope mapping studies had identified several antigenic sites on the surface of trimeric pre-fusion glycoprotein of rabies virus. Therefore, it is of interest to screen the rabies virus glycoprotein by different web-based immuno-informatics tools to identify potential B-cells and T-cells linear epitopes. Here, we present a construct of peptide vaccine that consists of these predicted linear epitopes of rabies virus glycoprotein together with appropriate linkers and adjuvant. Various online prediction tools, molecular docking and dynamics simulation assume that the vaccine construct may be stable, safe and effective. However, validation of these in-silico results is necessary both in vitro and in vivo setting.
Research on Flexible Control Technology of Photovoltaic and Energy Storage System

A novel circuit topology and control method for flexible grid connection of photovoltaic and energy storage systems is proposed. First, a three port circuit topology is designed, and then a virtual synchronization control strategy is proposed for the grid connected end to provide inertia and damping for the grid. The photovoltaic end uses MPPT control to track the maximum photovoltaic output, and the energy storage end ensures flexible power control. Finally, an experimental model is built in the simulation system, and the effectiveness of the proposed circuit topology and control method for photovoltaic energy storage system is verified through the operation analysis.