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At least 865 records · Page 48

A scalable variational method for estimating the latent infection-rate field of an outbreak

In this paper, we explore whether the infection-rate of a disease can serve as a robust monitoring variable in epidemiological surveillance algorithms. The infection-rate is dependent on population mixing patterns that do not vary erratically day-to-day; in contrast, daily case-counts used in contemporary surveillance algorithms are corrupted by reporting errors. The technical challenge lies in estimating the latent infection-rate from case-counts. Here we devise a Bayesian method to estimate the infection-rate across multiple adjoining areal units, and then use it, via an anomaly detector, to discern a change in epidemiological dynamics. We extend an existing model for estimating the infection-rate in an areal unit by incorporating a Markov random field model, so that we may estimate infection-rates across multiple areal units, while preserving spatial correlations observed in the epidemiological dynamics. To carry out the high-dimensional Bayesian inverse problem, we develop an implementation of mean-field variational inference specific to the infection model and integrate it with the random field model to incorporate correlations across counties. The method is tested on estimating the COVID-19 infection-rates across all 33 counties in New Mexico using data from the summer of 2020, and then employing them to detect the arrival of the Fall 2020 COVID-19 wave. We perform the detection using a temporal algorithm that is applied county-by-county. We also show how the infection-rate field can be used to cluster counties with similar epidemiological dynamics.

60 APPLIED LIFE SCIENCES↗

Estimating Subhourly Inverter Clipping Loss From Satellite-Derived Irradiance Data

Photovoltaic system production simulations are conventionally run using hourly weather datasets. Hourly simulations are sufficiently accurate to predict the majority of long-term system behavior but cannot resolve high-frequency effects like inverter clipping caused by short-duration irradiance variability. Direct modeling of this subhourly clipping error is only possible for the few locations with high-resolution irradiance datasets. This paper describes a method of predicting the magnitude of this error using a machine learning regressor ensemble model, comprised of a random forest and an XGBoost model, and 30-minute satellite irradiance data. The method predicts a correction for each 30-minute interval with the potential to roll up into 60-minute corrections to match an hourly energy model. The model is trained and validated at locations where the error can be directly simulated from 1-minute ground data. The validation shows low bias at most ground station locations. The model is also applied to gridded satellite irradiance to produce a heatmap of the estimated clipping error across the United States. Finally, the relative importance of each predictor satellite variable is retrieved from the model and discussed.

41 EE - Solar Energy Technologies Office (EE-4S)↗

Differentially Private Synthesis and Sharing of Network Data Via Bayesian Exponential Random Graph Models

Abstract Network data often contain sensitive relational information. One approach to protecting sensitive information while offering flexibility for network analysis is to share synthesized networks based on the information in originally observed networks. We employ differential privacy (DP) and exponential random graph models (ERGMs) and propose the DP-ERGM method to synthesize network data. We apply DP-ERGM to two real-world networks. We then compare the utility of synthesized networks generated by DP-ERGM, the DyadWise Randomized Response (DWRR) approach, and the Synthesis through Conditional distribution of Edge given nodal Attribute (SCEA) approach. In general, the results suggest that DP-ERGM preserves the original information significantly better than two other approaches in network structural statistics and inference for ERGMs and latent space models. Furthermore, DP-ERGM satisfies node DP through modeling the global network structure with ERGM, a stronger notion of privacy than the edge DP under which DWRR and SCEA operate.

graph synthesis↗

Equivalent linearization for fatigue life estimates of a nonlinear structure

An adaptation of the method of equivalent linearization is developed in order to estimate the fatigue life of a nonlinear structure excited by Gaussian white noise. While conventional equivalent linearization has been successfully applied to approximate the mean square responses of the variety of complex nonlinear systems, it has not been possible to apply the method for fatigue predictions. This limitation results from the assumption that the probability density of the response of the nonlinear system is Gaussian, which is not generally true. In the present effort, a modification of equivalent linearization, developed by the author, is employed which has been shown in recent studies to provide a much more accurate description of the random response of a nonlinear structure than provided by conventional equivalent linearization. A method is presented for estimating fatigue life based on this approach and results are compared with those obtained using both numerical simulation and the classical method. The fatigue life is estimated for a nonlinear plate vibrating in a single resonant mode with random white noise excitation. Excellent agreement is found between all three methods. These results indicate that equivalent linearization may be extended to predict the fatigue life of more complex nonlinear systems than can be analyzed at present.

Miles, R. N.↗

Circulating levels of micronutrients and risk of osteomyelitis: a Mendelian randomization study

Background Few observational studies have investigated the effect of micronutrients on osteomyelitis, and these findings are limited by confounding and conflicting results. Therefore, we conducted Mendelian randomization (MR) analyses to evaluate the association between blood levels of eight micronutrients (copper, selenium, zinc, vitamin B12, vitamin C, and vitamin D, vitamin B6, vitamin E) and the risk of osteomyelitis. Methods We performed the two-sample and multivariable Mendelian randomization (MVMR) to investigate causation, where instrument variables for the predictor (micronutrients) were derived from the summary data of micronutrients from independent cohorts of European ancestry. The outcome instrumental variables were used from the summary data of European-ancestry individuals ( n = 486,484). The threshold of statistical significance was set at p < 0.00625. Results We found a significant causal association that elevated zinc heightens the risk of developing osteomyelitis in European ancestry individuals OR = 1.23 [95% confidence interval (CI) [1.07, 1.43]; p = 4.26E-03]. Similarly, vitamin B6 showed a similar significant causal effect on osteomyelitis as a risk factor OR = 2.78 (95% CI [1.34, 5.76]; p = 6.04E-03; in the secondary analysis). Post-hoc analysis suggested this result (vitamin B6). However, the multivariable Mendelian randomization (MVMR) provides evidence against the causal association between zinc and osteomyelitis OR = 0.98(95% CI [−0.11, 0.07]; p = 7.20E-1). After searching in PhenoScanner, no SNP with confounding factors was found in the analysis of vitamin B6. There was no evidence of a reverse causal impact of osteomyelitis on zinc and vitamin B6. Conclusion This study supported a strong causal association between vitamin B6 and osteomyelitis while reporting a dubious causal association between zinc and osteomyelitis.

Zhang, Xu↗

Mapping Mangrove Extent and Change: A Globally Applicable Approach

This study demonstrates a globally applicable method for monitoring mangrove forest extent at high spatial resolution. A 2010 mangrove baseline was classified for 16 study areas using a combination of ALOS PALSAR and Landsat composite imagery within a random forests classifier. A novel map-to-image change method was used to detect annual and decadal changes in extent using ALOS PALSAR/JERS-1 imagery. The map-to-image method presented makes fewer assumptions of the data than existing methods, is less sensitive to variation between scenes due to environmental factors (e.g., tide or soil moisture) and is able to automatically identify a change threshold. Change maps were derived from the 2010 baseline to 1996 using JERS-1 SAR and to 2007, 2008 and 2009 using ALOS PALSAR. This study demonstrated results for 16 known hotspots of mangrove change distributed globally, with a total mangrove area of 2,529,760 ha. The method was demonstrated to have accuracies consistently in excess of 90% (overall accuracy: 92.2–93.3%, kappa: 0.86) for mapping baseline extent. The accuracies of the change maps were more variable and were dependent upon the time period between images and number of change features. Total change from 1996 to 2010 was 204,850 ha (127,990 ha gain, 76,860 ha loss), with the highest gains observed in French Guiana (15,570 ha) and the highest losses observed in East Kalimantan, Indonesia (23,003 ha). Changes in mangrove extent were the consequence of both natural and anthropogenic drivers, yielding net increases or decreases in extent dependent upon the study site. These updated maps are of importance to the mangrove research community, particularly as the continual updating of the baseline with currently available and anticipated spaceborne sensors. It is recommended that mangrove baselines are updated on at least a 5-year interval to suit the requirements of policy makers.

Thomas, Nathan↗

Turbulent flow simulation - A large eddy simulator's viewpoint

The state of the art of the data base on turbulent structures and numerical turbulence modelling is assessed. The failure of statistical methods to produce accurate results revealed that turbulence is more than simply random noise. Both randomness and coherence may be characteristics of turbulence, which may also feature noise that is a remnant of previous coherence. Five methods are presently used for numerically predicting turbulent flow behavior: correlations, integral methods, the k-epsilon model, and phenomenological and exact solutions to the Navier-Stokes equations. The higher level models include large eddy simulation and full simulation with numerical solutions to the Navier-Stokes equations; the two methods are applicable to experimental, rather than design work.

Ferziger, J. H.↗

Entanglement features of random neural network quantum states

Restricted Boltzmann machines (RBMs) are a class of neural networks that have been successfully employed as a variational ansatz for quantum many-body wave functions. Here, we develop an analytic method to study quantum many-body spin states encoded by random RBMs with independent and identically distributed complex Gaussian weights. By mapping the computation of ensemble-averaged quantities to statistical mechanics models, we are able to investigate the parameter space of the RBM ensemble in the thermodynamic limit. We discover qualitatively distinct wave functions by varying RBM parameters, which correspond to distinct phases in the equivalent statistical mechanics model. Notably, there is a regime in which the typical RBM states have near-maximal entanglement entropy in the thermodynamic limit, similar to that of Haar-random states. However, these states generically exhibit nonergodic behavior in the Ising basis, and do not form quantum state designs, making them distinguishable from Haar-random states.

36 MATERIALS SCIENCE↗

Application of advanced reliability methods to local strain fatigue analysis

When design factors are considered as random variables and the failure condition cannot be expressed by a closed form algebraic inequality, computations of risk (or probability of failure) might become extremely difficult or very inefficient. This study suggests using a simple, and easily constructed, second degree polynomial to approximate the complicated limit state in the neighborhood of the design point; a computer analysis relates the design variables at selected points. Then a fast probability integration technique (i.e., the Rackwitz-Fiessler algorithm) can be used to estimate risk. The capability of the proposed method is demonstrated in an example of a low cycle fatigue problem for which a computer analysis is required to perform local strain analysis to relate the design variables. A comparison of the performance of this method is made with a far more costly Monte Carlo solution. Agreement of the proposed method with Monte Carlo is considered to be good.

Wu, T. T.↗

Likelihood-Based Particle Identification in the Short-Baseline Near Detector

Accurate particle identification is crucial in any high-energy physics experiment, allowing scientists to understand the unique interactions and mechanisms at play in a detector. In this project, I develop and study a new particle identification (PID) algorithm for the Short-Baseline Near Detector, a likelihood-based approach, different from out current $\chi^2$ method. A likelihood estimation offers a more physically motivated strategy for PID. The distribution random energy losses of charged particles traveling through a medium are described by the Vavilov probability density function. By using this model, we can account for random energy losses and construct likelihood functions specific to each particle type, potentially enabling a more accurate method for PID.

Vanderwaal, Sophia [U. Alabama, Huntsville] (ORCID↗

Wang–Landau approach to the simulation of water clusters

The Wang–Landau Monte Carlo method [Wang FG, Landau DP. Efficient, multiple-range random walk algorithm to calculate the density of states. Phys Rev Lett. 2001;86:2050-2053; Determining the density of states for classical statistical models: a random walk algorithm to produce a flat histogram. Phys Rev E. 2001;64:056101] has been established as an effective computational approach for studying complex systems. In this study, we review the properties of 6 popular empirical water potentials, including a recently proposed explicit 3-body potential, obtained by applying the Wang–Landau method to the simulation of water clusters. Finally, comparing to numerous classical and first principle calculations, we show that several classical water models can provide a consistent description of the structural and thermodynamical properties of water clusters partially in agreement of ab initio results, although they were designed to reproduce macroscopic properties of water at ambient conditions.

74 ATOMIC AND MOLECULAR PHYSICS↗

Electrothermal coating with nanostructures mixture and method for making the same

An electrothermal coating can include a nanostructure mixture randomly dispersed in a polymer matrix with more than one type of low-dimensional nanostructure. These types of low-dimensional nanostructures can include a combination of a nanospheroid plus one or both of a linear nanostructure and a planar nanostructure. Useful conductivity is achieved, while concentration of the mixed nanostructures is within the cured polymer composite coating being below the percolation limit of each individual carbon nanostructure type, alone, within an identical polymer matrix.

36 MATERIALS SCIENCE↗

Evaluation of normalization strategies for mass spectrometry-based multi-omics datasets

Introduction Data normalization is crucial for multi-omics integration, reducing systematic errors and maximizing the likelihood of discovering true biological variation. Most studies assess normalization for a single omics type or use datasets from separate experiments. Few address time-course data, where normalization might bias temporal differentiation. In this study, we compared common normalization methods and a machine learning approach, Systematical Error Removal using Random Forest (SERRF), using multi-omics datasets generated from the same experiment—even from the same cell lysate. Objectives To develop a straightforward process to assess normalization effects and identify the most robust methods across multi-omics datasets. Methods We analyzed metabolomics, lipidomics, and proteomics datasets from primary human cardiomyocytes and motor neurons exposed to acetylcholine-active compounds over time. Normalization effectiveness was evaluated based on improvement in QC features consistency and observing the change in treatment and time-related variance. Results Probabilistic Quotient Normalization (PQN) and Locally Estimated Scatterplot Smoothing (LOESS) QC were identified as optimal for metabolomics and lipidomics, while PQN, Median, and LOESS normalization excelled for proteomics. These methods consistently enhanced QC feature consistency in metabolomics and lipidomics, and preserved time-related variance or treatment-related variance in proteomics, demonstrating their effectiveness and robustness. SERRF normalization, applied only to metabolomics in this study, outperformed other methods in some datasets but inadvertently masked treatment-related variance in others. Conclusion Our evaluation identified PQN and LoessQC as the top methods for metabolomics and lipidomics, and PQN, Median, and Loess normalization for proteomics, in multi-omics integration in a temporal study.

60 APPLIED LIFE SCIENCES↗

Coupling flux balance analysis with reactive transport modeling through machine learning for rapid and stable simulation of microbial metabolic switching

Integrating genome-scale metabolic networks with reactive transport models (RTMs) provides a detailed description of the dynamic changes in microbial growth and metabolism. Despite promising demonstrations in the past, computational inefficiency has been pointed out as a critical issue to overcome because it requires repeated application of linear programming (LP) to obtain flux balance analysis (FBA) solutions in every time step and spatial grid. To address this challenge, we propose a new simulation method where we train and validate artificial neural networks (ANNs) using randomly sampled FBA solutions and incorporate the resulting surrogate FBA model (represented as algebraic equations) into RTMs as source/sink terms. We demonstrate the efficiency of our method via a case study of Shewanella oneidensis MR-1. During aerobic growth on lactate, S. oneidensis produces metabolic byproducts (such as pyruvate and acetate), which are subsequently consumed as alternative carbon sources when the preferred nutrients are depleted. To effectively simulate these complex dynamics, we used a cybernetic approach that models metabolic switches as the outcome of dynamic competition among multiple growth options. In both zero-dimensional batch and one-dimensional column configurations, the ANN-based surrogate models achieved substantial reduction of computational time by several orders of magnitude compared to the original LP-based FBA models. Moreover, the ANN models produced robust solutions without any special measures to prevent numerical instability. These developments significantly promote our ability to utilize genome-scale networks in complex, multi-physics, and multi-dimensional ecosystem modeling.

59 BASIC BIOLOGICAL SCIENCES↗

Photovoltaic Hosting Capacity of Feeders with Reactive Power Control and Tap Changers

This paper proposes an algorithm to determine photovoltaic (PV) hosting capacity of power distribution networks as a function of number of PV injection nodes, reactive power support from the PVs, and the sub-station load tap changers (LTCs). In the proposed method, several minute by minute simulations are run based on randomly chosen PV injection nodes, daily PV output profiles, and daily load profiles from a pool of high-resolution realistic data set. The simulation setup is built using OpenDSS and MATLAB. The performance of the proposed method is investigated in the IEEE 123-node distribution feeder for multiple scenarios. The case studies are performed particularly for one, two, five and ten PV injection nodes, and looking at the maximum voltage deviations. Case studies show that the PV hosting capacity of the 123-node feeder greatly differs with the number of PV injection nodes. We have also observed that the PV hosting capacity increases with reactive power support and higher tap position of sub-station LTC.

14 SOLAR ENERGY↗

Using intrusive approaches as a step towards accounting for stochasticity in wind turbine design

Current wind turbine design methods require tens of thousands of time-domain simulations and use different random seeds to account for the stochasticity of the environmental conditions. The account of stochasticity is nonintrusive because the sampling method calls a deterministic model multiple times without changing its underlying equations. In this work, we investigate and demonstrate using simple proof of concepts how intrusive approaches can be used to directly account for stochasticity in the equations representing a mechanical system. Our long term goal is to apply such methodology to the design of wind turbines without requiring an excessive number of simulations. Intrusive methods manipulate stochastic variables directly to provide the probability density functions (PDFs) of the states and outputs at any time as functions of the PDFs of the inputs. We illustrate how different methods can be used with a reduced-order model of a wind turbine with one degree of freedom and for linear and nonlinear models. We discuss how the methods can be extended and what it will take to apply them to a level of fidelity similar to current state-of-the-art wind turbine design tools.

17 WIND ENERGY↗

Effect of the Inhomogeneity of Ice Crystals on Retrieving Ice Cloud Optical Thickness and Effective Particle Size

Spherical or spheroidal air bubbles are generally trapped in the formation of rapidly growing ice crystals. In this study the single-scattering properties of inhomogeneous ice crystals containing air bubbles are investigated. Specifically, a computational model based on an improved geometric-optics method (IGOM) has been developed to simulate the scattering of light by randomly oriented hexagonal ice crystals containing spherical or spheroidal air bubbles. A combination of the ray-tracing technique and the Monte Carlo method is used. The effect of the air bubbles within ice crystals is to smooth the phase functions, diminish the 22deg and 46deg halo peaks, and substantially reduce the backscatter relative to bubble-free particles. These features vary with the number, sizes, locations and shapes of the air bubbles within ice crystals. Moreover, the asymmetry factors of inhomogeneous ice crystals decrease as the volume of air bubbles increases. Cloud reflectance lookup tables were generated at wavelengths 0.65 m and 2.13 m with different air-bubble conditions to examine the impact of the bubbles on retrieving ice cloud optical thickness and effective particle size. The reflectances simulated for inhomogeneous ice crystals are slightly larger than those computed for homogenous ice crystals at a wavelength of 0.65 microns. Thus, the retrieved cloud optical thicknesses are reduced by employing inhomogeneous ice cloud models. At a wavelength of 2.13 microns, including air bubbles in ice cloud models may also increase the reflectance. This effect implies that the retrieved effective particle sizes for inhomogeneous ice crystals are larger than those retrieved for homogeneous ice crystals, particularly, in the case of large air bubbles.

Xie, Yu↗

Two datasets are better than one: method of double moments for 3D reconstruction in cryo-EM

Cryo-electron microscopy is a powerful imaging technique for reconstructing three-dimensional molecular structures from noisy tomographic projection images of randomly oriented particles. We introduce a new data fusion framework, termed the method of double moments, which reconstructs molecular structures from two instances of the second-order moment of projection images obtained under distinct orientation distributions: one uniform, the other non-uniform and unknown. We prove that these moments generically uniquely determine the underlying structure, up to a global rotation and reflection, and we develop a convex-relaxation-based algorithm that achieves accurate recovery using only second-order statistics. Our results demonstrate the advantage of collecting and modeling multiple datasets under different experimental conditions, illustrating that leveraging dataset diversity can substantially enhance reconstruction quality in computational imaging tasks.

Kam’s method↗