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At least 793 records · Page 44

PlasmidHostFinder: Prediction of Plasmid Hosts Using Random Forest

Plasmids play a major role facilitating the spread of antimicrobial resistance between bacteria. Understanding the host range and dissemination trajectories of plasmids is critical for surveillance and prevention of antimicrobial resistance. Identification of plasmid host ranges could be improved using automated pattern detection methods compared to homology-based methods due to the diversity and genetic plasticity of plasmids. In this study, we developed a method for predicting the host range of plasmids using machine learning—specifically, random forests. We trained the models with 8,519 plasmids from 359 different bacterial species per taxonomic level; the models achieved Matthews correlation coefficients of 0.662 and 0.867 at the species and order levels, respectively. Our results suggest that despite the diverse nature and genetic plasticity of plasmids, our random forest model can accurately distinguish between plasmid hosts. This tool is available online through the Center for Genomic Epidemiology (https://cge.cbs.dtu.dk/services/PlasmidHostFinder/).

59 BASIC BIOLOGICAL SCIENCES↗

Completion Effects on Diagnosing Multistage Facture Treatments with Distributed Temperature Sensing

Summary Distributed temperature sensing (DTS) is a valuable tool to diagnose multistage hydraulic fracture treatments. When a stage interval is shut in, the clusters that take more fluid during pumping warm up more slowly. Therefore, the fluid volume injected into each cluster can be quantitatively interpreted by numerical inversion of the warm-back temperature behavior. This general concept assumes that the different warm-back behavior is controlled by only the injected fluid volume; however, recent observations of DTS data indicate that completion configurations significantly influence the warm-back behavior. This paper investigates the completion effects on the DTS interpretation. In ideal conditions, when a stage is fractured, the upstream stage intervals should show an almost uniform temperature that is close to the injected fluid temperature. This is due to the high fluid velocity of injected fluid in the wellbore, and the upstream intervals have not been perforated (noncommunicating intervals), so the only heat transfer is heat conduction between the wellbore fluid and the surrounding reservoir. But the field DTS data show considerably irregular variations in temperature along the upstream stage intervals. These variations are caused by the completion effects. The nonuniform temperature profile is caused by different heat transfer behavior induced by completion hardware along the production casing string, such as joints, clamps, and blast protectors, and by the sensing cable location in the cement, as well as the cement quality. Because the varying heat transfer behavior impacts the warm-back behavior as well as the temperature profile, the completion effects need to be considered in DTS interpretation. A method of DTS interpretation considering the completion effects to diagnose multistage fracture treatments was developed. Because the heat transfer between a wellbore and a reservoir depends on the overall heat transfer coefficient describing heat conduction through the completion in a forward model, this parameter needs to be tuned all along the wellbore. To calibrate the completion effect, the temperature inversion is conducted using the temperature measured at a stage interval that is upstream of a stage interval currently being treated. Because the interpreted stage interval is not perforated at that time, the thermal behavior at the noncommunicating interval is governed by only the heat conduction through the completion environment. Once the effective values of the overall heat transfer coefficient are estimated along the interpreted stage interval, they can be assumed to be constant physical parameters. Then, the fluid volume distribution is interpreted by using the effective overall heat transfer coefficient profile along each interval. This study provides a field application of the developed interpretation method. The new interpretation method provides more accurate diagnosis of fracture treatments by DTS interpretation.

Engineering↗

Developing an intrinsically secure information barrier for arms control verification through machine learning

Near-term solutions are needed to allow for flexible engagement in future nuclear arms control discussions. This project developed a method for implementing an information barrier (IB) on commercial systems, shortening the research and development lifecycle for warhead verification technologies while offering improved and inherently flexible capabilities. The crux of the verification challenge remains the difficulty in developing an authenticatable IB which prevents sensitive host country information from inadvertent transmission to an inspector. Many concepts for IB’s rely on dedicated “trusted” processor modules developed with dedicated custom radiation detection systems and associated algorithms. Without a priori knowledge of the treaty item, the parameter space for measurements can be nearly infinite and robustness against spoofing without the ability to view sensitive data is key. This project has produced an unclassified framework capable of ingesting data from common gamma detectors and identifying the presence of weapons grade nuclear material at over 90% accuracy.

45 MILITARY TECHNOLOGY, WEAPONRY, AND NATIONAL DEF↗

Method Validation Summary for L16.2 AD-ISO-0015 for ISO-17025 / NFAC Applications

Methods for the analysis of semi-volatile organic compounds are employed at Savannah River National Laboratory (SRNL) for routine and non-routine samples from tank waste, process control, waste acceptance, and a wide array of other process and research samples. A method has been developed by SRNL, based on existing methods for semi-volatile analysis, for the analysis of nitroaromatic high explosives by gas chromatography / mass spectrometry in soils and sediments. Relative to past work performed at SRNL on nitroaromatic explosives, this developed, optimized, and validated method can achieve lower limits of detection and quantitation, greater precision, lower bias, higher linearity, and accuracy across a greater linear range.

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗

Numerical Methods to Evaluate Hyperelastic Transducers: Hexagonal Distributed Embedded Energy Converters

Hexagonal distributed embedded energy converters, also known as hexDEECs, are centimeter-scale energy transducers that leverage variable capacitance to generate electricity when their hyperelastic structure is dynamically deformed. To better understand, characterize, and optimize hexDEEC designs, a series of numerical methods and techniques were developed to model the hyperelastic mechanics of hexDEECs, electrostatic properties, and electricity generation characteristics. The numerical methods developed for the hyperelastic structural analysis were corroborated by empirical results from another study, and the models and equations for capacitance, electrostatic forces, and electrical potential energy were derived from fundamental electrostatic equations. These methods and techniques were implemented within the STAR-CCM+ multiphysics software Version 2020.3 (15.06.008) environment. Results from this analysis revealed methodologies and techniques necessary to model the energy converters, which will enable future exploration and optimization of more specific designs and corresponding applications.

24 POWER TRANSMISSION AND DISTRIBUTION↗

Towards exact finite temperature electronic structure in solids and molecules (Final Technical Report)

This report describes the University of Iowa portion of a project that is now continuing at Michigan State University. We are developing novel methods, algorithms, and software to enable simulations of molecules and materials at high temperature. This is a key challenge in chemistry and materials science. By refining an approach called Density Matrix Quantum Monte Carlo (DMQMC), we developed faster and more accurate ways to conduct these simulations. These advances will help us understand how temperature affects the behavior of electrons, chemical bonds, and phase transitions in solids and molecules. These breakthroughs are especially important for applications where light and heat drive chemical reactions, superconductivity, and materials used in energy and sensing. In addition, this project involved the development of the open-source HANDE-QMC software package, supporting the broader community in benchmarking and developing finite-temperature electronic structure methods.

36 MATERIALS SCIENCE↗

Day-Ahead Probabilistic Forecasting of Net-Load and Demand Response Potentials with High Penetration of Behind-the-Meter Solar-plus-Storage

The goal of this project is to develop advanced methods for day-ahead net-load forecasting, by leveraging the state-of-the-art machine learning techniques. The developed models produce both point and probabilistic forecasts for a variety of use cases, and are versatile to work with different types of data sets. The innovation lies in the novel design of the architectures, leveraging the most recent advances in machine learning that have not been explored in power systems, accompanied by techniques in the broader artificial intelligence fields such as fuzzy systems. This project has achieved the following accomplishments: (1) preprocessing of over 10 data sets covering varying geographical regions, time horizons, and system levels, which form a robust foundation for training and evaluating forecasting models across a wide range of realistic grid scenarios; (2) development of an interactive web app that enables exploratory analysis of load and generation data, and supports better understanding of data trends, anomalies, and correlations, facilitating model development and stakeholder engagement; (3) implementation of over 10 benchmark models for point and probabilistic forecasting, which include a mix of conventional machine learning methods and state-of-the-art deep learning approaches, providing a comprehensive baseline for performance comparison and validation of the proposed models; (4) development of a fuzzy system based gradient boosting model, tailored for small (less than 3 years) data sets, which achieves a mean absolute percentage error (MAPE) of 4% for point forecasting and a 20% improvement in average pinball loss for probabilistic forecasting; (5) development of a Transformer (a state-of-the-art deep learning architecture) based neural network model, tailored for large (3 years or more) data sets, which achieves a MAPE of 2% for point forecasting and a 20% improvement in average pinball loss for probabilistic forecasting; (6) development of a methodology for quantifying DR potential, and extensions of the previous models for multi-target forecasting of net load and DR potential, which achieve a MAPE of 10% for DR potential.

24 POWER TRANSMISSION AND DISTRIBUTION↗

Predictions of the glass transition temperature and viscosity of organic aerosols from volatility distributions

Abstract. Volatility and viscosity are important properties of organic aerosols (OA), affecting aerosol processes such as formation, evolution, and partitioning of OA. Volatility distributions of ambient OA particles have often been measured, while viscosity measurements are scarce. We have previously developed a method to estimate the glass transition temperature (Tg) of an organic compound containing carbon, hydrogen, and oxygen. Based on analysis of over 2400 organic compounds including oxygenated organic compounds, as well as nitrogen- and sulfur-containing organic compounds, we extend this method to include nitrogen- and sulfur-containing compounds based on elemental composition. In addition, parameterizations are developed to predict Tg as a function of volatility and the atomic oxygen-to-carbon ratio based on a negative correlation between Tg and volatility. This prediction method of Tg is applied to ambient observations of volatility distributions at 11 field sites. The predicted Tg values of OA under dry conditions vary mainly from 290 to 339 K and the predicted viscosities are consistent with the results of ambient particle-phase-state measurements in the southeastern US and the Amazonian rain forest. Reducing the uncertainties in measured volatility distributions would improve predictions of viscosity, especially at low relative humidity. We also predict the Tg of OA components identified via positive matrix factorization of aerosol mass spectrometer (AMS) data. The predicted viscosity of oxidized OA is consistent with previously reported viscosity of secondary organic aerosols (SOA) derived from α-pinene, toluene, isoprene epoxydiol (IEPOX), and diesel fuel. Comparison of the predicted viscosity based on the observed volatility distributions with the viscosity simulated by a chemical transport model implies that missing low volatility compounds in a global model can lead to underestimation of OA viscosity at some sites. The relation between volatility and viscosity can be applied in the molecular corridor or volatility basis set approaches to improve OA simulations in chemical transport models by consideration of effects of particle viscosity in OA formation and evolution.

54 ENVIRONMENTAL SCIENCES↗

252 Cf yield calibration method for nuclear material accountancy and safeguards practitioners

Californium-252 is an isotope commonly encapsulated as a physically small but strong spontaneous fission neutron source for applications in industry, academia, and research. Within the nuclear safeguards community, a well-characterized 252 Cf source is often used as an accessible alternative for plutonium in calibrations measurements, which require the absolute source strength. Current methods of source strength quantification can provide an accurate estimate, approximately 1% uncertainty under optimal conditions, but are typically costly and time consuming. An alternative method was developed to determine 252 Cf source strength using passive neutron correlation counting (PNCC). The PNCC method enables institutions and facilities to perform 252 Cf source calibration measurements in-house using detection systems that are common within the nuclear safeguards community. This novel method was previously successfully demonstrated using neutron multiplicity well counters. However, the previous evaluation utilized detection systems with high neutron detection efficiencies, greater than 60%. The purpose of the current study is to extend the previous evaluation and demonstrate the feasibility of the PNCC 252 Cf calibration method for suite of coincidence counters with lower neutron detection efficiencies, between 15% and 35%, which are more commonly encountered in the field, as well as to provide a step-by-step guide to using the method. The neutron source used in this evaluation was previously certified by the National Institutes of Science and Technology (NIST), which provides a reference for the accuracy of the PNCC method. In conclusion, the present source yield calculations demonstrate excellent agreement with a NIST calibration technique and achieve a standard uncertainty below the target 1%.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

Green Catalysts for Reprocessing Thermoset Polyurethanes

Polyurethane (PU) thermosets are usually landfilled at the end of their service lifetimes and cannot be recycled through conventional means. Although dibutyltin dilaurate (DBTDL) is an effective catalyst for reprocessing PU thermosets, organotins are immunotoxic and teratogenic, which is concerning for catalysts embedded within covalent adaptable networks (CANs). Here, we identify Zr(acac) 4 and Zr(tmhd) 4 as catalysts to reprocess PU CANs more sustainably. Thermoset PU foams containing Zr-based catalysts exhibit characteristic stress relaxation times between 6 and 200 s, similar or faster than DBTDL. These catalysts are capable of reprocessing a PU foam for four or five cycles. Dynamic mechanical thermal analysis indicates that zirconium-based catalysts preserve glass transition temperature and crosslink density between cycles and are promising catalysts for bulk reprocessing of thermoset PUs. Here, a solvent-free reprocessing method was developed by co-milling the PU foam and the Zr catalyst. Ultimately, these reprocessing methods using Zr-based catalysts will impart greater sustainability and circularity to PU plastics.

Catalysts↗

Unusual flat and extended morphology of intercalated Cu under MoS 2

We report a general method was developed to intercalate metals under layered materials through a controlled density of sputtered defects. The method has already been applied to study a range of metals intercalated under graphite, and different types of morphologies were realized. In the current work, we extend the method to the study of intercalation under MoS 2 , noting that work on this system is rather limited. We use Cu as the prototype metal for comparison with Cu intercalation under graphite. Although the growth conditions needed for intercalation under graphite and MoS 2 are similar, the type of intercalated phases is very different. Each Cu island that nucleates on top of MoS 2 during Cu deposition provides material that is transferred below MoS 2 through sputtered defects under the island base; this transfer results in a uniform intercalated Cu “carpet” morphology that extends over the mesoscale. On the contrary, Cu intercalation under graphite results in well separated, compact islands formed by monomer detachment from small Cu islands on top and transfer below through defects far from the islands. The structural techniques (scanning electron microscopy and atomic force microscopy) and spectroscopic techniques (x-ray photoelectron spectroscopy and energy-dispersive spectroscopy) are used for the characterization of the intercalated Cu layer.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗

Optimizing Signal Timing Control for Large Urban Traffic Networks Using an Adaptive Linear Quadratic Regulator Control Strategy

We discuss how traffic signal control is important for intersection safety and efficiency. However, most traffic signal control methods are designed for individual intersections or corridors. Although some adaptive control systems have been developed, the methods used are often proprietary and not published, making it difficult to evaluate their effectiveness. This study proposes an adaptive multi-input and multi-output traffic signal control method that not only can improve network-wide traffic operations in terms of reduced traffic delay and energy consumption, but also is more computationally feasible than existing centralized signal control methods. Considering intersection interactions, a linear dynamic traffic system model was built and adaptively updated to reflect how the signal control input of each intersection affects network-wide vehicle travel delay. Based on the system model, an adaptive linear-quadratic regulator (LQR) was designed to minimize both traffic delay and incremental changes in the control input. The proposed control method was evaluated in a microscopic traffic simulation environment with a 35-intersection network of Bellevue City, Washington. Simulation results show that the proposed method had shorter average traffic delays in the network when compared with the traffic delays controlled by the state-of-the-art max-pressure, self-organizing traffic lights, and independent deep Q network methods.

42 ENGINEERING↗

Using discrete Bayesian networks for diagnosing and isolating cross-level faults in HVAC systems

Fault detection and diagnosis (FDD) technologies are critical to ensure satisfactory building performance, such as reducing energy wastes and negative impacts on occupant comfort and productivity. Existing FDD technologies mainly focus on component-level FDD solutions, which could lead to mis-diagnosis of cross-level faults in heating, ventilating, and air-conditioning (HVAC) systems. Cross-level faults are those faults that occur in one component or subsystem, but cause operational abnormalities in other components or subsystems, and result in a building level performance degradation. How to effectively diagnose the root cause of a cross-level fault is the focus of this study. Here, this paper presents a novel discrete Bayesian Network (DisBN)-based method for diagnosing cross-level faults in an HVAC system commonly used in commercial buildings. A two-level DisBN structure model is developed in this study. The parameters used in the DisBN model are obtained either from expert knowledge or through machine-learning strategies from normal system operation data. Meanwhile, the probability parameters are discretized to incorporate the uncertainties associated with typical expert knowledge. Thus, the developed DisBN method addresses the challenges many other BN based FDD methods face, i.e., the lack of fault data for BN parameter training. The developed DisBN represents causal relationships between a fault and its cross-level system impacts (i.e., fault symptoms or fault indicators) by considering how fault impacts propagate across different levels in an HVAC system. A weather and schedule information-based Pattern Matching (WPM) method is employed to automatically create WPM baseline data sets for each incoming real time snapshot data from the building systems. Consequently, BN inference and real-time diagnostics are achieved by comparing incoming snapshot data and the WPM baseline data set. The proposed method is evaluated using experimental fault data collected in a campus building. Fault diagnosis results demonstrate that the WPM-DisBN method is effective at locating the root causes of cross-level faults in an HVAC system.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗

Recent advancements in atomic many-body methods for high-precision studies of isotope shifts

The development of atomic many-body methods, capable of incorporating electron correlation effects accurately, is required for isotope shift (IS) studies. In combination with precise measurements, such calculations help to extract nuclear charge radii differences, and to probe for signatures of physics beyond the Standard Model of particle physics. Here, we review here a few recently-developed methods in the relativistic many-body perturbation theory (RMBPT) and relativistic coupled-cluster (RCC) theory frameworks for calculations of IS factors in the highly charged ions (HCIs), and neutral or singly-charged ions, respectively. The results are presented for a wide range of atomic systems in order to demonstrate the interplay between quantum electrodynamics (QED) and electron correlation effects. In view of this, we start our discussions with the RMBPT calculations for a few HCIs by rigorously treating QED effects; then we outline methods to calculate IS factors in the one-valence atomic systems using two formulations of the RCC approach. Then we present calculations for two valence atomic systems, by employing the Fock-space RCC methods. For completeness, we briefly discuss theoretical input required for the upcoming experiments, their possibilities to probe nuclear properties and implications to fundamental physics studies.

QED effects↗

Implicit extensions of an explicit multirate Runge–Kutta scheme

In this work, we propose a new method that extends conservative explicit multirate methods to implicit explicit-multirate methods. We develop extensions of order one and two with different stability properties on the implicit side. The method is suitable for time-stepping adaptive mesh refinement PDE discretizations with different degrees of stiffness. A numerical example with an advection-diffusion problem illustrates the new method's properties.

97 MATHEMATICS AND COMPUTING↗

Tearing Stable Stationary ITER Baseline Operation in DIII-D

We present a tearing stable, stationary and reproducible operating solution for DIII-D plasmas characterized by the ITER Baseline Scenario normalized parameter set and shape. In these plasmas low differential rotation (Δf1,2) between the core and edge is identified as the single root cause of the onset of the primary limiting instability, the 2,1 Neoclassical Tearing Mode (NTM), while a group of other examined parameters have a much weaker impact on the stability. Explanation is offered by drift kinetic simulations, which show a six-fold reduction in the NTM onset threshold due to diminished stabilizing ion polarization currents when the seed island drift frequency ceases in the local plasma frame. Based on the experimental observation and the explanation provided by the theory, a new method is developed to sustain Δf1,2 by modifying the edge neoclassical potential through neutral gas fueling. This method enables stationary ITER baseline operation free of disruptive 2,1 tearing modes.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

Design, Flow Field, and Heat Transfer Characterization of the Conjugate Aero-Thermal Test Facility at NETL

A new aerothermal test facility was constructed for the purpose of studying film cooling performance in an environment that accurately simulates conjugate heat transfer characteristics that exist in engine operation. Here, this paper details the design of the facility and the plan for conducting steady state film cooling experiments to improve the understanding of conjugate heat transfer scaling from laboratory to engine conditions. The test facility consists of two separate low channels (hot gas/coolant) and each gas path has a flow conditioning section, a convergent nozzle and a test section/channel with viewports. Numerical simulations were conducted to predict flow field characteristics supporting the design of the flow loop facility. Preliminary experiments were conducted to characterize the flow field using velocity and temperature profile measurements. In addition, infrared (IR) thermography methods were developed to measure surface temperatures on the hot side of the test plate. The IR measurement methods including calibration of the IR camera is explained in detail. It was concluded that appropriate hot gas path flow conditioning could be achieved using a strainer-like tube, a perforated plate, and a honeycomb-mesh screen system upstream of the test section. Flow field measurements from preliminary experiments showed that the boundary layer profile follows the law of the wall.

47 OTHER INSTRUMENTATION↗

Real Time Applications Using Linear State Estimation Technology (RTA/LSE)

Electric Power Group, LLC (EPG) was awarded DOE OE0000849 to design, develop, and demonstrate three real-time applications for monitoring power system stability. The applications use phasor measurements and processing by a linear state estimator (LSE) to improve system visibility and accuracy. These applications leverage the large and expanding phasor measurement systems being deployed by utilities throughout the world, and specifically in the United States. Phasor measurements provide a much more detailed view of the power systems than traditional SCADA systems, so can provide better visibility of events and an early warning of developing problems. These three applications are real-time contingency analysis (RTCA), area angle monitoring (AAM), and a voltage stability index (VSI). The project was fully completed as proposed. All three applications were successfully implemented and demonstrated. There were challenges the caused project delays, however. While the RTCA is based on well-known concepts and readily available tools, its deployment using phasor measurements meant it needed to be adapted to sometimes sparse measurements and limited coverage areas. EPG met these challenges with extensive modeling and testing. The AAM is based on unproven research, so EPG had to deal with a lot of unknowns and develop additional methods for practical implementation. These activities took more time than anticipated, so required extra time for development. In addition, there was difficulty getting adequate measurement locations for successful deployment and utility installation delays. Consequently, the project required a time extension to complete. These three real-time applications, RTCA, AAM, and VSI, use only phasor measurement input. Since they do not require the EMS or other measurement systems, they can serve as a backup and security check for the EMS. Phasor measurements are validated and extended by an LSE. The LSE will always produce an output even when some inputs are impaired, so the RT applications will operate even when the EMS state estimator does not converge and the applications it supports cannot function. Consequently, these RT applications can provide valuable additional reliability for control center operation.

24 POWER TRANSMISSION AND DISTRIBUTION↗