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At least 937 records · Page 52

Compressive Neural Representations of Volumetric Scalar Fields

Here, we present an approach for compressing volumetric scalar fields using implicit neural representations. Our approach represents a scalar field as a learned function, wherein a neural network maps a point in the domain to an output scalar value. By setting the number of weights of the neural network to be smaller than the input size, we achieve compressed representations of scalar fields, thus framing compression as a type of function approximation. Combined with carefully quantizing network weights, we show that this approach yields highly compact representations that outperform state-of-the-art volume compression approaches. The conceptual simplicity of our approach enables a number of benefits, such as support for time-varying scalar fields, optimizing to preserve spatial gradients, and random-access field evaluation. We study the impact of network design choices on compression performance, highlighting how simple network architectures are effective for a broad range of volumes.

97 MATHEMATICS AND COMPUTING↗

Depth-resolved sagebrush root metabolomics, rhizosphere microbial communities, and geochemistry at the East River Watershed

This data set consists of results from soil nutrient profile, untargeted metabolomics, mass spec imaging, and amplicon sequencing. Data for soil nutrient profile includes common cations (Ca, Mg, Na, and K etc.) extracted from 3 digesting steps – ammonia acetate (for exchangeable cations), nitric acid (for acid dissolved fraction), and hydrofluoric acid/perchloric acid (HF/HClO4) for whole soil digestion. It also includes concentration of organic carbon, inorganic nitrogen (ammonia and nitrate) and phosphorus (Bray-1 P and nitric acid extract), and total nitrogen and phosphorus. Data for untargeted metabolomics includes metabolomic profile for root exudate/tissues and soil extracts from depths at surface soil to saprolite, that were measured using gas chromatography – mass spectrometry (GC-MS), and liquid chromatography – tandem mass spectrometry (LC-MS/MS). Data for mass spec imaging includes spatial distribution of metabolites that were detected and annotated with Fourier transformation ion cyclotron resonance mass spectrometer (FTICR-MS). Data for amplicon sequencing includes the base paired 16S and ITS ribosomal RNA sequences from Miseq Illumina sequencing. All samples were collected from 2 sampling campaign October 2022 and June 2023. Collectively, these datasets enable a mechanistic evaluation of how nutrient acquisition, especially nitrogen and phosphorus, differs between shallow roots operating in soil and deep roots functioning within the fractured bedrock zone. All files are provided as comma-separated values (CSV) fies (.csv) and (GZIP) file (.gz). The compressed .gz FASTQ files can be read directly in R using the dada2 package as part of the amplicon sequence analysis workflow. This work was supported by the Watershed Function Science Focus Area at Lawrence Berkeley National Laboratory funded by the US Department of Energy, Office of Science, Biological and Environmental Research under Contract No. DE-AC02-05CH11231. This research was performed on a project award 60563 (https://dx.doi.org/10.46936/expl.proj.2022.60563/60008727) from the Environmental Molecular Sciences Laboratory, a DOE Office of Science User Facility sponsored by the Biological and Environmental Research program under Contract No. DE-AC05-76RL01830.

EARTH SCIENCE > AGRICULTURE > SOILS > CARBON↗

Heterogeneity in M. tuberculosis β-lactamase inhibition by Sulbactam

Abstract For decades, researchers have elucidated essential enzymatic functions on the atomic length scale by tracing atomic positions in real-time. Our work builds on possibilities unleashed by mix-and-inject serial crystallography (MISC) at X-ray free electron laser facilities. In this approach, enzymatic reactions are triggered by mixing substrate or ligand solutions with enzyme microcrystals. Here, we report in atomic detail (between 2.2 and 2.7 Å resolution) by room-temperature, time-resolved crystallography with millisecond time-resolution (with timepoints between 3 ms and 700 ms) how the Mycobacterium tuberculosis enzyme BlaC is inhibited by sulbactam (SUB). Our results reveal ligand binding heterogeneity, ligand gating, cooperativity, induced fit, and conformational selection all from the same set of MISC data, detailing how SUB approaches the catalytic clefts and binds to the enzyme noncovalently before reacting to a trans- enamine. This was made possible in part by the application of singular value decomposition to the MISC data using a program that remains functional even if unit cell parameters change up to 3 Å during the reaction.

74 ATOMIC AND MOLECULAR PHYSICS↗

Modified Calcium Manganites for Thermochemical Energy Storage Applications

CaAl 0.2 Mn 0.8 O 3-δ (CAM28) and CaTi 0.2 Mn 0.8 O 3-δ (CTM28) are perovskite metal oxides developed for high-temperature thermochemical energy storage (TCES) applications, e.g., in support of air Brayton power generation. Previous reports for these compounds focus on the equilibrium non-stoichiometry (δ) as a function of temperature and oxygen partial pressure (pO 2 ) and the endotherm (or exotherm) accompanying changes in δ resulting from thermal reduction (or re-oxidation). Herein, we report results for elemental substitution and doping (Al, Co, Fe, La, Sr, Ti, Y, Zn, and Zr) of calcium manganites (CM) that establish the preference for CAM28 and CTM28. Techniques employed include conventional (screening and equilibrium) and ballistically heated multi-cycle thermogravimetric analysis (TGA), conventional and high temperature ( in-situ ) X-ray diffraction (XRD), and differential scanning calorimetry (DSC). Forward-looking results for A-site Y-doped materials, e.g., Ca 0.9 Y 0.1 MnO 3-δ (CYM910), establish a route to increasing the reduction enthalpy relative to CAM28 and CTM28, albeit at the expense of increased reduction temperatures and raw materials costs. A thermodynamic model presented for CAM28, but extendable to related materials, provides values for the reaction enthalpy and extent of reduction as a function of temperature and oxygen partial pressure for use in design efforts. Taken as a whole, the results support the choice of Al-doped CaMnO 3-δ as a low-cost material for TCES in a high temperature air Brayton application, but point the way to achieving higher stored energy densities that could lead to overall cost savings.

Miller, James E.↗

Biogeographic classification of streams using fish community– and trait–environment relationships

Abstract Aim Present a hybrid biogeographic and environmentally constrained clustering approach to classify ~853,000 stream reaches in the eastern United States. Examine the frequency of stream typologies in the landscape relative to anthropogenic stressors to identify potential stream conservation needs. Location Eastern United States. Methods Fish communities at 956 least‐disturbed sampling reaches were characterized using taxonomic and functional composition of native species. Environmental variables summarized within stream reaches included stream discharge, channel gradient, hydrologic regime, summer water temperature and boundaries of freshwater ecoregions. Multivariate regression trees were used to relate environmental variables to fish communities while simultaneously developing taxa‐ and trait‐specific biogeographic classifications. We then overlaid stream classifications with indices of anthropogenic disturbances to evaluate rarity and risk of complete loss of natural representation of stream types. Results Taxonomically based classes represented a combination of ecoregional boundaries and environmental gradients, whereas temperature gradients were most important in differentiating functional composition. An optimal taxonomy‐based classification contained 13 classes and explained 26.4% of community variation, and the optimal trait‐based classification contained 6 classes, explaining 25.2% of community variation. Overlaying class maps with an anthropogenic disturbance index revealed substantial variation in the severity of degradation among classes relative to their abundance in the landscape, especially rare classes (i.e., large rivers and cold headwater systems). Main conclusions We demonstrate the value of integrating local, regional and historical biogeographic factors with taxonomic and functional characteristics of freshwater biota to classify ecosystems based on mechanistic biota–environment relationships. This approach is important to addressing the challenge of developing stream classifications that reconcile the environmental drivers of community trait composition with the constraints of biogeographic regionality at large spatial scales. Furthermore, the spatially explicit and high‐resolution maps disseminated here can uniquely inform management decisions regarding anthropogenic threats to the biodiverse freshwaters of the eastern United States.

Troia, Matthew J.↗

3-[4-Bromo-α(R*)-methoxybenzyl]-6-chloro-3(S*),4(S*)-dihydroxychroman: X-ray and DFT Studies

Sodium borohydride reduction of E-3-benzylidenechromanone epoxides in dry methanol has afforded 3(S*), 4(S*)-dihydroxy-3-[α(R*)-methoxybenzyl]chromans as an interesting class of products, the structures of which have been assigned mainly from spectral data and consideration of the mechanistic aspects. X-ray diffraction study of one of them, 3-[4-bromo-α(R*)-methoxybenzyl]-6-chloro-3(S*),4(S*)- dihydroxychroman, is performed. The title compound crystallizes in the monoclinic sp. gr. P2{sub 1}/n, with a = 13.336(6) Å, b = 10.866(5) Å, c = 27.166(11) Å, β = 95.193(6)°, V = 3920(3) Å{sup 3}, and Z = 8. Supramolecular construction of the compound involves O–H···O intermolecular hydrogen bonds as well as three other types of non-covalent interactions which are responsible for crystal packing. Density functional theory was applied for geometry optimization, molecular orbital calculations, and prediction of UV spectral features. The geometric parameters (bond lengths, bond angles, and dihedral angles) for the representative compound obtained from density functional theory with B3LY6-31G basis set were in good agreement with experimental values.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Medium- and heavy-duty value of technology improvement

Improvements in vehicle technology impact the purchase price of a vehicle and its operating cost. In this study, the monetary benefit of a technology improvement includes the potential reduction in vehicle price from using cheaper or smaller components, as well as the discounted value of the fuel cost savings. As technology progresses over time, the value and benefit of improving technology varies as well. In this study, the value of improving a few selected technologies (battery energy density, electric drive efficiency, tire rolling resistance, aerodynamics, light weighting) is studied and the value of the associated cost saving is quantified. The change in saving as a function of time, powertrain selection and vehicle type is also quantified. For example, a 10% reduction in aerodynamic losses is worth $24,222 today but only $8,810 in 2030 in an electric long haul truck. The decrease in value is primarily due to expected battery cost reduction over time. The same loss reduction in a 2030 conventional long haul truck is worth $5,117 and is primarily driven by a reduction in diesel expenditure. For conventional vehicles, the value of technology improvement is likely to increase over time as diesel price is expected to increase over the next decades while for electric vehicles, the value of technology improvement is likely to decrease as battery energy density increases and cost decreases. The study focuses on medium- and heavy-duty applications where cost of driving is of paramount importance. The savings realized from each technology improvement serve as an upper limit for how much can be spent to acquire that improvement in technology.

Freyermuth, Vincent↗

Numerical similarity solution for a variable coefficient K(m, n) equation

A technique for finding numerical similarity solutions to an initial boundary value problem (IBVP) for generalized K(m, n) equations is described. The equation under consideration is nonlinear and has variable coefficients. The original problem is transformed with the aid of Lie symmetries to an initial value problem (IVP) for a nonlinear third-order ordinary differential equation. The existence and uniqueness of the solution are examined, and the problem is consequently solved with the aid of a finite-difference scheme for various values of the governing parameters. In lieu of an exact symbolic solution, the scheme is validated by comparing the numerical solutions with the approximate analytic solutions obtained with the aid of the method of successive approximations in their region of validity. The accuracy, efficiency, and consistency of the scheme are demonstrated. Numerical solutions to the original initial boundary value problem are constructed for selected parameter values with the aid of the transforms. The qualitative behavior of the solutions as a function of the governing parameters is analyzed, and it is found that the examined IBVPs for generalized K(m, n) equations with variable coefficients that are functions of time, do not admit solitary wave or compacton solutions.

97 MATHEMATICS AND COMPUTING↗

Heptagon functions and seven-gluon amplitudes in multi-Regge kinematics

We compute all 2 → 5 gluon scattering amplitudes in planar $ \mathcal{N} $ N = 4 super-Yang-Mills theory in the multi-Regge limit that is sensitive to the non-trivial (“long”) Regge cut. We provide the amplitudes through four loops and to all logarithmic accuracy at leading power, in terms of single-valued multiple polylogarithms of two variables. To obtain these results, we leverage the function-level results for the amplitudes in the Steinmann cluster bootstrap. To high powers in the series expansion in the two variables, our results agree with the recently conjectured all-order central emission vertex used in the Fourier-Mellin representation of amplitudes in multi-Regge kinematics. Our results therefore provide a resummation of the Fourier-Mellin residues into single-valued polylogarithms, and constitute an important cross-check between the bootstrap approach and the all-orders multi-Regge proposal.

1/N expansion↗

Workflow for High-throughput Screening of Enzyme Mutant Libraries Using Matrix-assisted Laser Desorption/Ionization Mass Spectrometry Analysis of Escherichia coli Colonies

High-throughput molecular screening of microbial colonies and DNA libraries are critical procedures that enable applications such as directed evolution, functional genomics, microbial identification, and creation of engineered microbial strains to produce high-value molecules. A promising chemical screening approach is the measurement of products directly from microbial colonies via optically guided matrix-assisted laser desorption/ionization mass spectrometry (MALDI-MS). Measuring the compounds from microbial colonies bypasses liquid culture with a screen that takes approximately 5 s per sample. We describe a protocol combining a dedicated informatics pipeline and sample preparation method that can prepare up to 3,000 colonies in under 3 h. The screening protocol starts from colonies grown on Petri dishes and then transferred onto MALDI plates via imprinting. The target plate with the colonies is imaged by a flatbed scanner and the colonies are located via custom software. The target plate is coated with MALDI matrix, MALDI-MS analyzes the colony locations, and data analysis enables the determination of colonies with the desired biochemical properties. This workflow screens thousands of colonies per day without requiring additional automation. The wide chemical coverage and the high sensitivity of MALDI-MS enable diverse screening projects such as modifying enzymes and functional genomics surveys of gene activation/inhibition libraries.

Choe, Kisurb↗

Polarized Raman Scattering in Silicon Layers on Sapphire

The intensities of polarized components of Raman light scattering are measured for different crystallographic directions in epitaxial layers of silicon on sapphire. The experiment shows that the scattered radiation has a strong depolarized component, which is directly related to the occurrence of defects in the epitaxial layer. A model of an ensemble of crystallites is proposed to describe a defect crystal silicon layer on sapphire. It is shown that the characteristic value of disordering of crystalline domains in the epitaxial layer can be determined from the ratio between the intensities of the polarized and depolarized components. From measurements of the Raman scattering intensity as a function of the crystallographic direction, the anisotropy of the Raman scattering tensor is determined. Numerical values for two samples are obtained.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗

Time Dilated Bundt Cake Analysis of PV Output [Poster]

We present a novel method for modeling time-dependent statistics in the power signal generated by a photovoltaic (PV) system. Our white-box machine learning method is interpretable and auditable, based on principles of multiperiodic basis functions and convex optimization. Our proposed method of time dilating the daily signal to remove night time values results in a novel representation of PV power signals, evocative of a ‘Bundt cake’. The proposed model describes the marginal distribution of power output as a function of date and time. The resulting probabilistic model of a PV system can be used to perform a variety of tasks, and here, we demonstrate the application of clear sky detection.

14 SOLAR ENERGY↗

Position-space renormalization schemes for four-quark operators in HQET

Abstract X-space schemes are gauge-invariant, regulator-independent renormalization schemes that are defined by requiring position-space correlation functions of gauge-invariant operators to be equal to their noninteracting values at particular kinematic points. These schemes can be used to nonperturbatively renormalize composite operators in Lattice Quantum Chromodynamics (LQCD), and by computing matching coefficients between theX-space scheme and$$ \overline{\textrm{MS}} $$ MS ¯ in the dimensionally-regulated continuum, matrix elements calculated with LQCD can be converted to$$ \overline{\textrm{MS}} $$ MS ¯ -renormalized matrix elements. UsingX-space schemes for Heavy Quark Effective Theory (HQET) operators has the additional benefit that appropriate ratios of position-space correlation functions cancel the power-divergent static-quark self-energy of Lattice HQET nonperturbatively. This work presents theO(α S ) matching coefficients betweenX-space renormalized four-quark flavor-nonsinglet HQET operators relevant for the lifetimes of charm- and bottom-hadrons, and four-quark HQET operators relevant for mixing between neutral mesons containing a heavy quark, such asB−$$ \overline{B} $$ B ¯ mixing.

Physics↗

α decay of the T = 1 , 2 + state in B 10 and isospin symmetry breaking in the A = 10 triplet

Here, the rate of the T =1, 2+ to T =1, 0 + transition in 10 B ( T =1, T z =0) is compared to the analog transitions in 10 Be ( T =1, T z =–1) and 10 C ( T =1, T z =+1) to provide constraints on ab initio calculations using realistic nuclear forces. The relevant state in 10 B, at E x =5.164 MeV, is particle unbound. Therefore, a determination of the B ( E 2) electromagnetic transition rate requires a precise and accurate determination of the width of the state, as well as the α-particle and γ-ray branching ratios. Previous measurements of the α-particle branching ratio are just barely in agreement. We report on a new study of the α-particle branch by studying the 10 B(p,p') 10 B* reaction in inverse kinematics with the HELIOS spectrometer. The α-particle branching ratio that we observe, 0.144±0.027, is in good agreement with the evaluated value and improves the associated uncertainty. The resulting experimental B ( E 2) value is 7.0±2.2 e 2 fm 4 and is more consistent with a flat trend across the A=10 triplet than previously reported. This is inconsistent with Green's function Monte Carlo predictions using realistic three-nucleon Hamiltonians, which overpredict the B ( E 2) value in 10 C and 10 B.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

AI-Batt (Autonomous Identification of Battery Life Models) [SWR 21-36]

Autonomous Identification of Battery Life Models (AI-Batt) AI-Batt is a MATLAB code base for developing lifetime models for batteries from accelerated aging data. The code base provides many functions for processing, visualizing, and modeling battery aging data, making the data processing, exploration, and modeling workflow substantially faster. These tools are tailored for working with battery aging data sets, which usually consist of many separate time-series for each cell, with many test conditions and possible replicates at each condition, which makes it difficult to simply process or visualize the data set. Complex modeling tasks, such as cross-validation, sensitivity analysis, and uncertainty quantification have been implemented to enable thorough statistical investigation of model predictions. Additionally, several machine-learning algorithms are implemented to autonomously identify suitable models via symbolic regression. Data processing functions automatically cast data from the struct data type, which is commonly used to store experimental data, but is not an acceptable input for most algorithms, to the table data type, which can be easily used as input to any optimization algorithm. Also, the data can be separated into time-invariant and time-variant data tables, which is helpful for exploring the data set as well as developing separate models for time-variant and time-invariant aging mechanisms. For example, in aging tests with constant temperature, temperature is a time-invariant experimental condition. Visualization tools enable plotting of data, model fits, and model simulations possible with single-line function calls, empowering data exploration of complex data sets with both time-varying and time-invariant trends. Plots can be automatically generated for the whole data set, or separated by data group (groups of test replicates) or individual data series. Data points or data series can be automatically colored by the value of a variable with a variety of color maps, and model predictions can also be colored by the value of a fit statistic. Comparisons between data sets and the predictions/simulations of different models on the same data set can be easily plotted as well. Distributions of parameter values from bootstrap resampling can be plotted to visualize the reliability of parameter estimation, or determine any correlations between parameters. Modeling tools handle the complex task of creating and parsing symbolic equations for modeling battery lifetime. Equations are parsed to grab relevant data variables, parameter values, or specified sub-models for input into optimization, evaluation, or simulation functions. Models can be optimized locally (one set of parameters for each data series), bi-level (some parameters shared across the data set), or globally (single set of parameters for all data). Functions implementing symbolic regression algorithms help users to discover effective model equations, even in poorly sampled, high-dimensional data.

Smith, Kandler↗

Hybrid optimization and Bayesian inference techniques for a non-smooth radiation detection problem

In this paper, we propose several algorithms to recover the location and intensity of a radiation source located in a simulated 250 × 180 m block of an urban center based on synthetic measurements. Radioactive decay and detection are Poisson random processes, so we employ likelihood functions based on this distribution. Owing to the domain geometry and the proposed response model, the negative logarithm of the likelihood is only piecewise continuous differentiable, and it has multiple local minima. To address these difficulties, we investigate three hybrid algorithms composed of mixed optimization techniques. For global optimization, we consider simulated annealing, particle swarm, and genetic algorithm, which rely solely on objective function evaluations; that is, they do not evaluate the gradient in the objective function. By employing early stopping criteria for the global optimization methods, a pseudo-optimum point is obtained. This is subsequently utilized as the initial value by the deterministic implicit filtering method, which is able to find local extrema in non-smooth functions, to finish the search in a narrow domain. These new hybrid techniques, combining global optimization and implicit filtering address, difficulties associated with the non-smooth response, and their performances, are shown to significantly decrease the computational time over the global optimization methods. To quantify uncertainties associated with the source location and intensity, we employ the delayed rejection adaptive Metropolis and DiffeRential Evolution Adaptive Metropolis algorithms. Finally, marginal densities of the source properties are obtained, and the means of the chains compare accurately with the estimates produced by the hybrid algorithms.

42 ENGINEERING↗

The Effects of Assumed Source Depth and Shear-Wave Velocity on Moment Tensors Estimated for Small, Contained Chemical Explosions in Granite

ABSTRACT The Source Phenomenology Experiment (SPE-Arizona) included of a series of chemical explosions detonated within a copper mine in Arizona. This study focuses on ground motions from detonations in the copper mine, which are analyzed to assess the uniqueness of the resulting source representation when the source region propagation characteristics have a range of possible models. P-wave velocities are well constrained by refraction data with less constraint of the S-wave velocities. The effects of explosion source depth and VS are assessed with Green’s functions for a range of models in which VP is held constant. Propagation models with a Poisson’s value of 0.25 and a source depth 30–60 m most accurately replicate the data. The explosion was detonated at a centroid depth of 30 m, so trade-offs in depth are demonstrated. The compensated linear vector dipole and explosion components of the Green’s functions convolved with a Mueller–Murphy source function are compared. Both produce significant energy in the 2–12 Hz band, due to surface-wave contributions with no clear depth dependencies above 20 Hz. The range of propagation models is used with the observational data to invert for the frequency-domain moment tensor. Fits to the data from these inversions have cross-correlation values of 0.64, demonstrating effectiveness in replicating the observations with the assumed propagation path effects and resulting source function. Inversions produce horizontal dipoles (Mxx and Myy), roughly half the maximum amplitude of Mzz, consistent with a compensated linear vector dipole source, which is frequency dependent. Denny and Johnson, Mueller–Murphy, Walter and Ford, and the revised Mueller–Murphy source models, parameterized for granite, are compared to the moment tensors. Despite a nonisotropic moment tensor source, the revised Mueller–Murphy isotropic source model best replicates the long-period moments, overshoot, and corner frequency.

Geochemistry & Geophysics↗