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At least 865 records · Page 48

Primate immunodeficiency virus classification and nomenclature: Review

The International Committee for the Taxonomy and Nomenclature of Viruses does not rule on virus classifications below the species level. The definition of species for viruses cannot be clearly defined for all types of viruses. The complex and interesting epidemiology of Human Immunodeficiency Viruses demands a detailed and informative nomenclature system, while at the same time it presents challenges such that many of the rules need to be flexibly applied or modified over time. As a result, this review outlines the nomenclature system for primate lentiviruses and provides an update on new findings since the last review was written in 2000.

59 BASIC BIOLOGICAL SCIENCES↗

Imaging particle collision data for event classification using machine learning

We propose a method to organize experimental data from particle collision experiments in a general format which can enable a simple visualisation and effective classification of collision data using machine learning techniques. The method is based on sparse fixed-size matrices with single- and two-particle variables containing information on identified particles and jets. As a result, we illustrate this method using an example of searches for new physics at the LHC experiments.

47 OTHER INSTRUMENTATION↗

Grain boundary slip transfer classification and metric selection with artificial neural networks

An artificial neural network is used to evaluate the effectiveness of six metrics and their combinations to assess whether slip transfers across grain boundaries in coarse-grained oligocrystalline Al foils. This approach extends the one- or two-dimensional projections formerly applied to analyze slip transfer. The accuracy of this binary classification reaches around 87% for the best single metric and around 90% when considering two or more metrics simultaneously. Here, the results suggest slip transfer mostly depends on the geometric relationship between grains. Training a double-layer network having 10 nodes per hidden layer with 40 measurements is sufficient to render the maximum accuracy.

36 MATERIALS SCIENCE↗

Classification of Adsorbed Hydrocarbons Based on Bonding Configurations of the Adsorbates and Surface Site Stabilities

The design of heterogeneous catalysts can be accelerated by identifying relevant descriptors that accurately and effectively link the binding and activation energies to reactivity. Herein, we investigated scaling relations between binding energies of various hydrocarbon-based adsorbates on three different Pt surfaces and metal binding energies estimated via the recently developed α-scheme model. In this study, we find that the scaling slopes are similar for certain groups of adsorbates, which then can be classified based on their spatial and electronic structure enabling fast description of binding strengths for each member of the class. Hence, our findings show that the binding energies of simple hydrocarbons CH x , x = {0,1,2,3,4}, and CHCH 2 can be used to identify the binding energies of more complex hydrocarbon-based adsorbates. We introduce this classification to establish a generalizable scheme in which complex hydrogenation/dehydrogenation processes of higher hydrocarbons can be predicted via the binding energies of simpler hydrocarbon-based species and ultimately through surface site stabilities.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

An Explainable Classification Framework for Determining and Understanding the Suitability of Solvent Extraction for Bioproduct Recovery

Lignocellulosic biomass is an abundant feedstock for producing sustainable fuels and chemicals. However, a key challenge in most biomass utilization strategies is the recovery of products from a dilute, typically aqueous, phase. In this respect, liquid–liquid extraction, which relies on a solvent to transfer a product of interest from one liquid phase to another (solvent-rich) phase, is a technology that can reduce the energy requirements for product recovery. To reduce solvent consumption, liquid–liquid extraction needs to be combined with another separation method (e.g., distillation) to recycle the solvent. Despite the research on solvent extraction, there are limited system-wide methods that allow us to determine when extraction is well suited to carry out a specific separation. Accordingly, we present a classification framework to predict whether extraction, coupled with distillation, is feasible and more economical than distillation. Our framework is based on features such as feed composition, liquid–liquid equilibrium constants, relative volatilities, and solvent price, and leads to trained classifiers that show good prediction accuracy. We further study how specific features influence the suitability of extraction. Furthermore, to showcase the applicability of the framework, we use it to analyze the separation of acetic acid from water.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Development of characterization protocol for mixed liquid radioactive waste classification

Mixed liquid organic waste generated from health-care and research activities containing tritium, carbon-14, and other radionuclides posed specific challenges in its management. Often, these wastes become legacy waste in many nuclear facilities and being considered as ‘problematic’ waste. One of the most important recommendations made by IAEA is to perform multistage processes aiming at declassification of the waste. At this moment, approximately 3000 bottles of mixed liquid waste, with estimated volume of 6000 litres are currently stored at the National Radioactive Waste Management Centre, Malaysia and some have been stored for more than 25 years. The aim of this study is to develop a characterization protocol towards reclassification of these wastes. The characterization protocol entails waste identification, waste screening and segregation, and analytical radionuclides profiling using various analytical procedures including gross alpha/ gross beta, gamma spectrometry, and LSC method. The results obtained from the characterization protocol are used to establish criteria for speedy classification of the waste.

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗

Quantum graph learning and algorithms applied in quantum computer sciences and image classification

Graph and network theory play a fundamental role in quantum computer sciences, including quantum information and computation. Random graphs and complex network theory are pivotal in predicting novel quantum phenomena, where entangled links are represented by edges. Quantum algorithms have been developed to enhance solutions for various network problems, giving rise to quantum graph computing and quantum graph learning (QGL). Here, in this review, we explore graph theory and graph learning methods as powerful tools for quantum computers to generate efficient solutions to problems beyond the reach of classical systems. We delve into the development of quantum complex network theory and its applications in quantum computation, materials discovery, and research. We also discuss quantum machine learning (QML) methodologies for effective image classification using qubits, quantum gates, and quantum circuits. Additionally, the paper addresses the challenges of QGL and algorithms, emphasizing the steps needed to develop flexible QGL solvers. This review presents a comprehensive overview of the fields of QGL and QML, highlights recent advancements, and identifies opportunities for future research.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Plasma confinement state classification via FPP relevant microwave diagnostics

We present a parsimonious and robust machine learning approach for identifying plasma confinement states in fusion power plants (FPPs) where reliable identification of the low-confinement and high-confinement regimes is critical for safe and efficient operation. Unlike research-oriented devices, FPPs must operate with a severely constrained set of diagnostics. To address this challenge, we demonstrate that a minimalist model, using only electron cyclotron emission (ECE) signals, can achieve accurate and reliable state classification. ECE provides electron temperature profiles without the engineering or survivability issues of in-vessel probes, making it a primary candidate for FPP-relevant diagnostics. Our framework employs ECE as input, extracts features using radial basis functions, and applies a gradient boosting classifier, achieving a test accuracy of 96% (correct predictions). Robustness analysis and feature importance analyzes confirm the approach’s reliability. These results demonstrate that state-of-the-art performance is attainable from a restricted diagnostic set, paving the way for minimalist yet resilient plasma control architectures for FPPs.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

STag. II. Classification of Serendipitous Supernovae Observed by Galaxy Redshift Surveys

With the number of supernovae observed expected to drastically increase thanks to large-scale surveys like the Dark Energy Spectroscopic Instrument (DESI), it is necessary that the tools we use to classify these objects keep up with this increase. We previously created Supernova Tagging and Classification (STag) to address this problem by employing machine learning techniques alongside logistic regression in order to assign “tags” to spectra based on spectral features. STag II is a continuation of this work, which now makes use of model supernova spectra combined with real DESI spectra in order to train STag to better deal with realistic data. Furthermore, we also make use of the rlap score as a trustworthiness cut, making for a more robust and accurate supernova classifier than before.

Astrostatistics techniques↗

Large-Scale Classification of Urban Structural Units From Remote Sensing Imagery

Remote sensing in combination with deep learning has become instrumental for efficiently and accurately classifying land-use and land-cover across large geographic areas. These technologies have also been successful in characterizing urban environments in terms of their structural units, structure types, or morphological regions. In these approaches, an urban area is partitioned into regions that exhibit homogeneous physical characteristics. However, existing approaches are typically limited to a single city, use inconsistent typologies, and lack scalability and generalization capacity. In this article, we propose an urban structural units categorization scheme and demonstrate its utility by applying it to 13 cities. Inspired by the lack of scalability and generalization capacity in urban structural units mapping, we extend the reach of deep learning and conduct a set of classification experiments in all 13 cities. These experiments offer insights into the strengths and limitations of deep neural networks for classifying urban structural units over diverse geographic regions and on heterogeneous collections of satellite imagery. The efficacy of the proposed deep learning approach is compared to a baseline method of multiscale image features and support vector machines. Our validation on five cities shows that better performance is achieved with deep neural networks. Additionally, we evaluate the impact of input size, model depth, and spatial pyramid pooling to assess the generalization capacity of deep neural networks.

47 OTHER INSTRUMENTATION↗

Compression Analytics for Classification and Anomaly Detection within Network Communication

Here, the flexibility of network communication within Internet protocols is fundamental to network function, yet this same flexibility permits the possibility of malicious use. In particular, malicious behavior can masquerade as benign traffic, thus evading systems designed to catch misuse of network resources. However, perfect imitation of benign traffic is difficult, meaning that small unintentional deviations from normal can occur. Identifying these deviations requires that the defenders know what features reveal malicious behavior. Herein we present an application of compression-based analytics to network communication that can reduce the need for defenders to know a priori what features they need to examine. Motivating the approach is the idea that compression relies on the ability to discover and make use of predictable elements in information, thereby highlighting any deviations between expected and received content. We introduce a so-called “slice compression” score to identify malicious or anomalous communication in two ways. First, we apply normalized compression distances (NCDs) to classification problems and discuss methods for reducing the noise by excising application content (as opposed to protocol features) using slice compression. Second, we present a new technique for anomaly detection, referred to as slice compression for anomaly detection (SCADe). A diverse collection of datasets are analyzed to illustrate the efficacy of the proposed approaches. While our focus is network communication, other types of data are also considered to illustrate the generality of the method.

97 MATHEMATICS AND COMPUTING↗

Improving Deep Neural Networks’ Training for Image Classification With Nonlinear Conjugate Gradient-Style Adaptive Momentum

Momentum is crucial in stochastic gradient-based optimization algorithms for accelerating or improving training deep neural networks (DNNs). In deep learning practice, the momentum is usually weighted by a well-calibrated constant. However, tuning the hyperparameter for momentum can be a significant computational burden. In this article, we propose a novel adaptive momentum for improving DNNs training; this adaptive momentum, with no momentum-related hyperparame- ter required, is motivated by the nonlinear conjugate gradient (NCG) method. Stochastic gradient descent (SGD) with this new adaptive momentum eliminates the need for the momentum hyperparameter calibration, allows using a significantly larger learning rate, accelerates DNN training, and improves the final accuracy and robustness of the trained DNNs. For example, SGD with this adaptive momentum reduces classification errors for training ResNet110 for CIFAR10 and CIFAR100 from 5.25% to 4.64% and 23.75% to 20.03%, respectively. Furthermore, SGD, with the new adaptive momentum, also benefits adversarial training and, hence, improves the adversarial robustness of the trained DNNs.

97 MATHEMATICS AND COMPUTING↗

Multi-Source Data Aggregation and Real-Time Anomaly Classification and Localization in Power Distribution Systems

This paper proposes a real-time anomaly location and classification framework for power distribution systems to simultaneously determine the type of anomaly (i.e., short-circuit fault, cyber attack, DER switching) and its location. The proposed framework employs the data aggregation module to collect the measurement data from multiple field devices operating at different sampling rates, such as protection relays and D-PMUs. The output of the data aggregation is then fed into a multi-task learning-based long-based short-term memory (MTL-LSTM) to classify the type of anomaly and the location in two separate tasks. The proposed MTL-LSTM approach can be utilized in real-time operation in order to distinguish between normal and several anomalous operations and locate the anomaly. The proposed framework is tested on a modified IEEE 33-bus test feeder benchmark that integrates solar generation and energy storage. Furthermore, the results show that the proposed framework can locate and classify anomalies for several operation conditions with more than 96% accuracy. Further experiments highlight the impact of aggregating multiple sources of data on the performance of the proposed model.

24 POWER TRANSMISSION AND DISTRIBUTION↗

A starting guide to root ecology: strengthening ecological concepts and standardising root classification, sampling, processing and trait measurements

In the context of a recent massive increase in research on plant root functions and their impact on the environment, root ecologists currently face many important challenges to keep on generating cutting-edge, meaningful and integrated knowledge. Consideration of the below-ground components in plant and ecosystem studies has been consistently called for in recent decades, but methodology is disparate and sometimes inappropriate. This handbook, based on the collective effort of a large team of experts, will improve trait comparisons across studies and integration of information across databases by providing standardised methods and controlled vocabularies. It is meant to be used not only as starting point by students and scientists who desire working on below-ground ecosystems, but also by experts for consolidating and broadening their views on multiple aspects of root ecology. Beyond the classical compilation of measurement protocols, we have synthesised recommendations from the literature to provide key background knowledge useful for: (1) defining below-ground plant entities and giving keys for their meaningful dissection, classification and naming beyond the classical fine-root vs coarse-root approach; (2) considering the specificity of root research to produce sound laboratory and field data; (3) describing typical, but overlooked steps for studying roots (e.g. root handling, cleaning and storage); and (4) gathering metadata necessary for the interpretation of results and their reuse. Most importantly, all root traits have been introduced with some degree of ecological context that will be a foundation for understanding their ecological meaning, their typical use and uncertainties, and some methodological and conceptual perspectives for future research. Considering all of this, we urge readers not to solely extract protocol recommendations for trait measurements from this work, but to take a moment to read and reflect on the extensive information contained in this broader guide to root ecology, including sections I–VII and the many introductions to each section and root trait description. Finally, it is critical to understand that a major aim of this guide is to help break down barriers between the many subdisciplines of root ecology and ecophysiology, broaden researchers’ views on the multiple aspects of root study and create favourable conditions for the inception of comprehensive experiments on the role of roots in plant and ecosystem functioning.

59 BASIC BIOLOGICAL SCIENCES↗

Effect of image resolution on automated classification of chest X-rays

Deep learning (DL) models have received much attention lately for their ability to achieve expert-level performance on the accurate automated analysis of chest X-rays (CXRs). Recently available public CXR datasets include high resolution images, but state-of-the-art models are trained on reduced size images due to limitations on graphics processing unit memory and training time. As computing hardware continues to advance, it has become feasible to train deep convolutional neural networks on high-resolution images without sacrificing detail by downscaling. This study examines the effect of increased resolution on CXR classification performance. We used the publicly available MIMIC-CXR-JPG dataset, comprising 377,110 high resolution CXR images for this study. We applied image downscaling from native resolution to 2048 × 2048 pixels, 1024 × 1024 pixels, 512 × 512 pixels, and 256 × 256 pixels and then we used the DenseNet121 and EfficientNet-B4 DL models to evaluate clinical task performance using these four downscaled image resolutions. We find that while some clinical findings are more reliably labeled using high resolutions, many other findings are actually labeled better using downscaled inputs. We qualitatively verify that tasks requiring a large receptive field are better suited to downscaled low resolution input images, by inspecting effective receptive fields and class activation maps of trained models. Lastly, we show that stacking an ensemble across resolutions outperforms each individual learner at all input resolutions while providing interpretable scale weights, indicating that diverse information is extracted across resolutions.

47 OTHER INSTRUMENTATION↗

Grassmannian Diffusion Maps--Based Dimension Reduction and Classification for High-Dimensional Data

This work introduces the Grassmannian diffusion maps (GDMaps), a novel nonlinear dimensionality reduction technique that defines the affinity between points through their representation as low-dimensional subspaces corresponding to points on the Grassmann manifold. Here, the method is designed for applications, such as image recognition and data-based classification of constrained high-dimensional data where each data point itself is a high-dimensional object (i.e., a large matrix) that can be compactly represented in a lower-dimensional subspace. The GDMaps is composed of two stages. The first is a pointwise linear dimensionality reduction wherein each high-dimensional object is mapped onto the Grassmann manifold representing the low-dimensional subspace on which it resides. The second stage is a multipoint nonlinear kernel-based dimension reduction using diffusion maps to identify the subspace structure of the points on the Grassmann manifold. To this end, an appropriate Grassmannian kernel is used to construct the transition matrix of a random walk on a graph connecting points on the Grassmann manifold. Spectral analysis of the transition matrix yields low-dimensional Grassmannian diffusion coordinates embedding the data into a low-dimensional reproducing kernel Hilbert space. Further, a novel data classification/recognition technique is developed based on the construction of an overcomplete dictionary of reduced dimension whose atoms are given by the Grassmannian diffusion coordinates. Three examples are considered. First, a "toy" example shows that the GDMaps can identify an appropriate parametrization of structured points on the unit sphere. The second example demonstrates the ability of the GDMaps to revealing the intrinsic subspace structure of high-dimensional random field data. In the last ex- ample, a face recognition problem is solved considering face images subject to varying illumination conditions, changes in face expressions, and occurrence of occlusions. The technique presented high recognition rates (i.e., 95% in the best case) using a fraction of the data required by conventional methods.

42 ENGINEERING↗

AviSense: A Real-time System for Detection, Classification, and Analysis of Aviation Signals

Wireless systems are an integral part of aviation. Apart from their apparent use in air-to-ground communication, wireless systems play a crucial role in avionic functions including navigation and landing. An interference-free wireless environment is therefore critical for the uninterrupted operation and safety of an aircraft. Hence, there is an urgency for airport facilities to acquire the capability to continuously monitor aviation frequency bands for real-time detection of interference and anomalies. To meet this critical need, we design and build AviSense, an SDR-based real-time, versatile system for monitoring aviation bands. AviSense detects and characterizes signal activities to enable practical and effective anomaly detection. We identify and tackle the challenges posed by a diverse set of critical aviation bands and technologies. We evaluate our methodology with real-world aviation signal measurements and two custom datasets of anomalous signals. We find that our signal classification capability achieves a true positive rate of ~99%, with few exceptions, and a false positive rate of less than 4%. We also demonstrate that AviSense can effectively distinguish between different types of anomalies. We build and evaluate a prototype implementation of AviSense that supports distributed monitoring.

42 ENGINEERING↗

CYPminer: an automated cytochrome P450 identification, classification, and data analysis tool for genome data sets across kingdoms

Background: Cytochrome P450 monooxygenases (termed CYPs or P450s) are hemoproteins ubiquitously found across all kingdoms, playing a central role in intracellular metabolism, especially in metabolism of drugs and xenobiotics. The explosive growth of genome sequencing brings a new set of challenges and issues for researchers, such as a systematic investigation of CYPs across all kingdoms in terms of identification, classification, and pan-CYPome analyses. Such investigation requires an automated tool that can handle an enormous amount of sequencing data in a timely manner. Results: CYPminer was developed in the Python language to facilitate rapid, comprehensive analysis of CYPs from genomes of all kingdoms. CYPminer consists of two procedures i) to generate the Genome-CYP Matrix (GCM) that lists all occurrences of CYPs across the genomes, and ii) to perform analyses and visualization of the GCM, including pan-CYPomes (pan- and core-CYPome), CYP co-occurrence networks, CYP clouds, and genome clustering data. The performance of CYPminer was evaluated with three datasets from fungal and bacterial genome sequences. Conclusions: CYPminer completes CYP analyses for large-scale genomes from all kingdoms, which allows systematic genome annotation and comparative insights for CYPs. CYPminer also can be extended and adapted easily for broader usage.

59 BASIC BIOLOGICAL SCIENCES↗