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At least 847 records · Page 47
All sourcesNASA NTRSDOE OSTI
DOE OSTI2025

Theoretical description of proton-deuteron interactions using exact two-body dynamics of the femtoscopic correlation method

Modeling proton-deuteron interactions is particularly challenging. Due the deuteron's large size, the interaction can extend over several femtometers. The degree to which it can be modeled as a two-body problem might also be questioned. One way to study these interactions is through femtoscopic correlation measurements of particle pairs, extracting information using available theoretical models. In this work, we examine two approaches for describing proton-deuteron correlations: the Lednický-Lyuboshits formalism and full numerical solutions of the Schrödinger equation. Here, our results show that the differences between these methods are significant. Furthermore, we demonstrate that incorporating higher-order partial waves—particularly the p wave—is essential for accurately capturing the dynamics of proton–deuteron interactions and the full potential of the strong force.

Nucleon induced nuclear reactions↗
DOE OSTI2024

The Ghent Hybrid model in NuWro: a new neutrino single-pion production model in the GeV regime

Neutrino-induced single-pion production constitutes an essential interaction channel in modern neutrino oscillation experiments, with its products building up a significant fraction of the observable hadronic final states. Frameworks of oscillation analyses strongly rely on Monte Carlo neutrino event generators, which provide theoretical predictions of neutrino interactions on nuclear targets. Thus, it is crucial to integrate state-of-the-art single-pion production models with Monte Carlo simulations to prepare for the upcoming systematics-dominated landscape of neutrino measurements. In this work, we present the implementation of the Ghent Hybrid model for neutrino-induced single-pion production in the NuWro Monte Carlo event generator. The interaction dynamics includes coherently-added contributions from nucleon resonances and a non-resonant background, merged into the pythia branching predictions in the deep-inelastic regime, as instrumented by NuWro. This neutrino-nucleon interaction model is fully incorporated into the nuclear framework of the generator, allowing it to account for the influence of both initial- and final-state nuclear medium effects. We compare the predictions of this integrated implementation with recent pion production data from accelerator-based neutrino experiments. The results of the novel model show improved agreement of the generator predictions with the data and point to the significance of the refined treatment of the description of pion-production processes beyond the ∆ region.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗
DOE OSTI2024

HumoNet: A Framework for Realistic Modeling and Simulation of Human Mobility Network

Understanding, analyzing, and predicting human mobility and dynamics are valuable to solving pressing problems, developing effective plans, and prescribing timely remedies. As a computational approach, realistic human mobility simulations allow us to understand, analyze, and predict complex systems, including human societies. Accurate simulations rely on (1) the model that captures interactions and behaviors of myriad entities in our society and (2) the mapping of model instances to real-world entities. Taking this into account, this paper introduces the Human Mobility Network simulation framework (HumoNet), an integrated patterns of life (POL) simulation framework that leverages real-world data layers including transportation networks, points of interest, populations, popularity, and human trajectories. HumoNet is a data informed model in which agents are equipped with activities, locomotion, and planning capabilities. To simulate realistic kinematic maneuvers of individuals in transportation networks, HumoNet harnesses a microscopic traffic simulator that provides interaction among vehicles and traffic objects. In this paper, we describe the framework, outline our methodologies, and discuss the data processing and challenges of each data layer. Through experiments, we demonstrate that our simulations capture key features of human mobility by comparing them to the literature and real data using standard measures of human mobility (i.e., the radius of gyration, number of locations visited, level of exploration) and metrics scoring (i.e., Jensen-Shannon divergence). We envision that the synthetic data produced by HumoNet will serve as a benchmark for analyzing epidemics, deploying EV charging networks, and validating AI/ML tasks such as location prediction.

Kim, Joon-Seok↗
DOE OSTI2020

An Assessment of the Drag Models in the Case of a Shock Interacting With a Fixed Bed of Point Particles

Abstract In this work, three-dimensional Euler–Lagrange (EL) point-particle simulations of a shock wave interacting with a fixed bed of particles are carried out. The results from the particle-resolved (PR) simulations are used to assess the performance of the point-particle drag models during short time scales. We demonstrate that in a one-way coupled regime, the point-particle simulations recover the dominant gas dynamic features of the flow and are in a good agreement with the exact Riemann solution of a shock traveling through a sudden area contraction. Although the PR simulations are inviscid, we show that a dissipative drag is necessary to predict the mean behavior of the gas. As a model for the inviscid shock-induced (SI) drag two different models are presented in lieu of the quasi-steady drag. Finally, two-way coupled simulations are performed at four different particle volume fractions {0.10, 0.15, 0.20, 0.25} and three different incident shock Mach numbers {1.22, 1.66, 3.0} and compared against the data from PR inviscid simulations. At a lower Mach number (1.22), averaged flow quantities from the two-way coupled simulations agree well with the PR simulations. As the Mach number increases, we observe that the discrepancies between the point-particle and the PR simulations grow. A sensitivity analysis of the drag models involved reveals a strong influence of the inviscid-unsteady force on the gas quantities especially in the case of a strong shock interacting with a dense bed of particles. The use of Mach correlation beyond the subcritical regime coupled with the model for volume fraction correction is identified as a probable cause for the additional drag.

Engineering↗
DOE OSTI2026

Localized Interactions in Neutrino Simulations

The Deep Underground Neutrino Experiment (DUNE) requires precise modeling of neutrino--nucleus interactions to achieve its neutrino-oscillation measurement goals. GENIE, the Monte Carlo event generator used by DUNE, exhibits a known discrepancy with MicroBooNE measurements of transverse kinematic imbalance (TKI): the data display a larger high-TKI tail while maintaining a peak similar to that predicted by the baseline GENIE model. Previous variations of final-state interaction (FSI) strength affected both the peak and the tail and therefore did not resolve the discrepancy. This work investigates whether inconsistencies between local and global treatments of intranuclear physics contribute to the observed mismodeling. The GENIE FSI routines were modified to use the particle position when generating nucleons, thereby introducing a local-density treatment in the hA and hN intranuclear models for their 2018 and 2025 implementations. Meson-exchange-current (MEC) localization was also tested for the hN 2018 model. Comparisons of the intranuclear scattering-center momentum and its radial dependence confirm that the localization was implemented as intended. Localization produces modest changes in the proton momentum spectrum, primarily at low momentum, but only a small change in the TKI distribution between approximately \SI{0.25}{\giga\electronvolt} and \SI{0.40}{\giga\electronvolt}. These changes are insufficient to account for the discrepancy with MicroBooNE data. Although a localized treatment improves the internal consistency of the GENIE model, the origin of the TKI discrepancy remains unresolved.

Bulla, Braden [Unlisted, US, IL]↗
DOE OSTI2022

A Case Study of the Glycoside Hydrolase Enzyme Mechanism Using an Automated QM-Cluster Model Building Toolkit

Glycoside hydrolase enzymes are important for hydrolyzing the β-1,4 glycosidic bond in polysaccharides for deconstruction of carbohydrates. The two-step retaining reaction mechanism of Glycoside Hydrolase Family 7 (GH7) was explored with different sized QM-cluster models built by the Residue Interaction Network ResidUe Selector (RINRUS) software using both the wild-type protein and its E217Q mutant. The first step is the glycosylation, in which the acidic residue 217 donates a proton to the glycosidic oxygen leading to bond cleavage. In the subsequent deglycosylation step, one water molecule migrates into the active site and attacks the anomeric carbon. Residue interaction-based QM-cluster models lead to reliable structural and energetic results for proposed glycoside hydrolase mechanisms. The free energies of activation for glycosylation in the largest QM-cluster models were predicted to be 19.5 and 31.4 kcal mol −1 for the wild-type protein and its E217Q mutant, which agree with experimental trends that mutation of the acidic residue Glu217 to Gln will slow down the reaction; and are higher in free energy than the deglycosylation transition states (13.8 and 25.5 kcal mol −1 for the wild-type protein and its mutant, respectively). For the mutated protein, glycosylation led to a low-energy product. This thermodynamic sink may correspond to the intermediate state which was isolated in the X-ray crystal structure. Hence, the glycosylation is validated to be the rate-limiting step in both the wild-type and mutated enzyme.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2020

Microscopic Theory of Plasmons in Substrate-Supported Borophene

Here, we compute the dielectric properties of freestanding and metal-supported borophene from first-principles time-dependent density functional theory. We find that both the low- and high-energy plasmons of borophene are fully quenched by the presence of a metallic substrate at borophene–metal distances smaller than ≃9 Å. Based on these findings, we derive an electrodynamic model of the interacting, momentum-dependent polarizability for a two-dimensional metal on a model metallic substrate, which quantitatively captures the evolution of the dielectric properties of borophene as a function of metal–borophene distance. Applying this model to a series of metallic substrates, we show that maximizing the plasmon energy detuning between borophene and substrate is the key material descriptor for plasmonic performance.

77 NANOSCIENCE AND NANOTECHNOLOGY↗
DOE OSTI2025

A theoretical kinetic study of ĊH 3 + ṄH 2 : From electronic structure to NH 3 /CH 4 combustion modelling implications

Carbon–nitrogen interaction reactions play an important role in governing the reactivity of ammonia blended fuels. However, there remains uncertainties regarding their detailed reaction pathways and rate constants, hampering the development of high-fidelity chemical kinetic models. In this study, the kinetics of ĊH 3 + ṄH 2 , a key C–N interaction reaction in ammonia/methane blend combustion have been investigated. The potential energy surface has been explored using the high-level ANL0F method, yielding highly accurate stationary point energies that agree with ATcT values within 0.1 kcal mol –1 . Variable reaction coordinate transition state theory is used to treat the barrierless association and decomposition reaction channels, based on directly sampled radical-radical interaction energies at the CASPT2-F12(2e,2o)/cc-pVTZ-F12 level of theory. The minimum transitional mode numbers of states obtained are then coupled with the RRKM/master equation to calculate temperature- and pressure-dependent rate constants. Our a priori calculations capture available experimental measurements from the literature very well. The calculated rate constants have been incorporated into an NH 3 /CH 4 chemical kinetic model currently under development at the University of Galway. The effect of the updated kinetic data for ĊH 3 + ṄH 2 on model predicted NH 3 /CH 4 fuel reactivity is elucidated.

ab initio↗
DOE OSTI2026

Higher symmetry breaking and nonreciprocity in a driven-dissipative Dicke model

Higher symmetries in interacting many-body systems often give rise to new phases and unexpected dynamical behavior. Here, we theoretically investigate a variant of the Dicke model with higher-order discrete symmetry, resulting from complex-valued coupling coefficients between quantum emitters and a bosonic mode. We propose a driven-dissipative realization of this model focusing on optomechanical response of a driven atom tweezer array comprised of 𝑛 subensembles and placed within an optical cavity, with the phase of the driving field advancing stepwise between subensembles. Examining stationary points and their dynamical stability, we identify a phase diagram for 𝑛≥3 with three distinctive features: a ℤ 𝑛 (ℤ 2⁢𝑛 ) symmetry-breaking superradiant phase for even (odd) 𝑛, a normal unbroken-symmetry phase that is dynamically unstable due to nonreciprocal forces between emitters, and a first-order phase transition separating these phases. This 𝑛-phase Dicke model may be equivalently realized in a variety of optomechanical or optomagnonic settings, where it can serve as a test bed for studying high-order symmetry breaking and nonreciprocal interactions in open systems.

Non-reciprocal propagation↗
DOE OSTI2023

Latent Dirichlet Allocation modeling of environmental microbiomes

Interactions between stressed organisms and their microbiome environments may provide new routes for understanding and controlling biological systems. However, microbiomes are a form of high-dimensional data, with thousands of taxa present in any given sample, which makes untangling the interaction between an organism and its microbial environment a challenge. Here we apply Latent Dirichlet Allocation (LDA), a technique for language modeling, which decomposes the microbial communities into a set of topics (non-mutually-exclusive sub-communities) that compactly represent the distribution of full communities. LDA provides a lens into the microbiome at broad and fine-grained taxonomic levels, which we show on two datasets. In the first dataset, from the literature, we show how LDA topics succinctly recapitulate many results from a previous study on diseased coral species. We then apply LDA to a new dataset of maize soil microbiomes under drought, and find a large number of significant associations between the microbiome topics and plant traits as well as associations between the microbiome and the experimental factors, e.g. watering level. This yields new information on the plant-microbial interactions in maize and shows that LDA technique is useful for studying the coupling between microbiomes and stressed organisms.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2021

Bounds on Velocity-dependent Dark Matter–Proton Scattering from Milky Way Satellite Abundance

We use the latest measurements of the Milky Way satellite population from the Dark Energy Survey and Pan-STARRS1 to infer the most stringent astrophysical bound to date on velocity-dependent interactions between dark matter particles and protons. We model the momentum-transfer cross section as a power law of the relative particle velocity v with a free normalizing amplitude, σ MT = σ 0 v n , to broadly capture the interactions arising within the nonrelativistic effective theory of dark matter–proton scattering. The scattering leads to a momentum and heat transfer between the baryon and dark matter fluids in the early universe, ultimately erasing structure on small physical scales and reducing the abundance of low-mass halos that host dwarf galaxies today. From the consistency of observations with the cold collisionless dark matter paradigm, using a new method that relies on the most robust predictions of the linear perturbation theory, we infer an upper limit on σ0 of 1.4 × 10 -23 , 2.1 × 10 -19 , and 1.0 × 10 -12 cm 2 , for interaction models with n = 2, 4, and 6, respectively, for a dark matter particle mass of 10 MeV. These results improve observational limits on dark matter–proton scattering by orders of magnitude and thus provide an important guide for viable sub-GeV dark matter candidates.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2023

Enhancements in Cloud Condensation Nuclei Activity From Turbulent Fluctuations in Supersaturation

Abstract The effect of aerosols on the properties of clouds is a large source of uncertainty in predictions of weather and climate. These aerosol‐cloud interactions depend critically on the ability of aerosol particles to form cloud droplets. A challenge in modeling aerosol‐cloud interactions is the representation of interactions between turbulence and cloud microphysics. Turbulent mixing leads to small‐scale fluctuations in water vapor and temperature that are unresolved in large‐scale atmospheric models. To quantify the impact of turbulent fluctuations on cloud condensation nuclei (CCN) activation, we used a high‐resolution Large Eddy Simulation of a convective cloud chamber to drive particle‐based cloud microphysics simulations. We show small‐scale fluctuations strongly impact CCN activity. Once activated, the relatively long timescales of evaporation compared to fluctuations causes droplets to persist in subsaturated regions, which further increases droplet concentrations.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2023

Data from: Arctic ice-ocean interactions in an 8-to-2 kilometer resolution global model

This data collection represents all UH8to2 model data used for the publication "Arctic ice-ocean interactions in an 8-to-2 kilometer resolution global model." This includes ocean and sea ice characteristics from the 2017-2020 UH8to2 model run. Further details about the model setup, forcing, and our interpretation of these data can be found in the publication.

58 GEOSCIENCES↗
DOE OSTI2026

Bounded-Confidence Models of Multidimensional Opinions with Topic-Weighted Discordance

People’s opinions on a wide range of topics often evolve over time through their interactions with others. Models of opinion dynamics primarily focus on one-dimensional opinions, which represent opinions on one topic. However, opinions on various topics are rarely isolated; instead, they can be interdependent and correlated. In a bounded-confidence model (BCM) of opinion dynamics, agents are receptive to each other only if their opinions are sufficiently similar. Here, we extend classical agent-based BCMs—namely, the Hegselmann–Krause BCM, which has synchronous interactions, and the Deffuant–Weisbuch BCM, which has asynchronous interactions—to a multidimensional setting, in which the opinions are multidimensional vectors representing opinions of different topics and opinions on different topics are interdependent. To measure opinion differences between agents, we introduce topic-weighted discordance functions that account for opinion differences in all topics. We define regions of receptiveness for our models, and we use them to characterize the steady-state opinion clusters and provide an analytical approach to compute these regions. In addition, we numerically simulate our models on various networks with initial opinions drawn from a variety of distributions. When initial opinions are correlated across different topics, our topic-weighted BCMs yield significantly different results in both transient and steady states compared to baseline models, where the dynamics of each opinion topic are independent.

Mathematics and Computing↗
DOE OSTI2022

Structure-function studies reveal ComEA contains an oligomerization domain essential for transformation in gram-positive bacteria

An essential step in bacterial transformation is the uptake of DNA into the periplasm, across the thick peptidoglycan cell wall of Gram-positive bacteria, or the outer membrane and thin peptidoglycan layer of Gram-negative bacteria. ComEA, a DNA-binding protein widely conserved in transformable bacteria, is required for this uptake step. Here we determine X-ray crystal structures of ComEA from two Gram-positive species, Bacillus subtilis and Geobacillus stearothermophilus, identifying a domain that is absent in Gram-negative bacteria. X-ray crystallographic, genetic, and analytical ultracentrifugation (AUC) analyses reveal that this domain drives ComEA oligomerization, which we show is required for transformation. We use multi-wavelength AUC (MW-AUC) to characterize the interaction between DNA and the ComEA DNA-binding domain. Finally, we present a model for the interaction of the ComEA DNA-binding domain with DNA, suggesting that ComEA oligomerization may provide a pulling force that drives DNA uptake across the thick cell walls of Gram-positive bacteria.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2023

Model simulations of Plum Island Ecosystems LTER low marsh site using ELM-PFLOTRAN

Model simulations using the E3SM Land Model (ELM) coupled to the PFLOTRAN reactive transport model via the Alquimia interface. The simulations were conducted for a tidal salt marsh at the Plum Island Ecosystems LTER near Rowley, Massachusetts, USA. Model simulations were forced using site-specific tidal cycles and salinity, and the simulations used a biogeochemical reaction network including aerobic decomposition, sulfate reduction, iron reduction, and methanogenesis. Model outputs include simulated carbon stocks, carbon dioxide and methane fluxes, and porewater concentrations of key solutes related to sulfur, iron, and carbon cycling. The model simulations included a saline simulation (with tidal sulfate inputs), a fresh simulation (with low salinity and low sulfate inputs), and a saline simulation with lower vegetation productivity to represent the effect of salinity on vegetation. These simulations were conducted to demonstrate that a new model framework incorporating subsurface redox and biogeochemical interactions into a land surface model could reproduce measured surface greenhouse gas fluxes and biogeochemical dynamics in tidal marsh ecosystems, and to test whether including redox interactions in a land surface model would allow the model to resolve contrasts in biogeochemical cycling and greenhouse gas production between saline and freshwater wetlands.The data package includes gzipped tar archives (which can be expanded using standard tar and gzip utilities) of model outputs from three model configurations: saline subsurface and reduced vegetation productivity related to salinity; saline subsurface with vegetation productivity not reduced; and freshwater. Also included are code for the modified E3SM model, Alquimia interface, and PFLOTRAN reactive transport simulator in gzipped tar format; plain text parameter and configuration files; python code files for visualizing model output and defining model configurations; and model output, tide and salinity forcing, and configuration files in netCDF format. See the README.md file in the data package for a detailed description of all files contained in the package. All files are in netCDF (.nc), gzipped tar archive (.tar.gz or .tgz), or text (all other files).Updated: May 13, 2024. Model output, E3SM code, PFLOTRAN input files, and python codes for visualizing results were updated to reflect changes made for the manuscript revision. The updated archive reflects the code and model output from the final accepted manuscript. Changes included updated reaction parameters reflecting improved parameterization and additional comparisons with field measurements. E3SM code changes included better support for multiple grid cells and improved flow and transport parameterization.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2025

Interacting mesons as degrees of freedom in a chiral model

Here, we study the equation of state of hot and dense hadronic matter using an extended chiral mean field (CMF) model framework where the addition is the inclusion of interactions of thermally excited mesons. This is implemented by calculating the in-medium masses of pseudoscalar and vector mesons, obtained through the explicit chiral symmetry-breaking and vector-interaction terms in the Lagrangian, respectively, prior to applying the mean-field approximation. As a result, the in-medium meson contributions generate a feedback term to the CMF’s equations of motion, which then modifies the equation of state. With this improvement, we quantify the effect on the equation of state of strongly interacting matter through comparisons with state-of-the-art lattice QCD results and other hadronic models like the hadron resonance gas model. We find that the results of the updated hadronic CMF model with an improved meson description (mCMF) provide a better agreement with lattice-QCD data for thermodynamic state variables across a wide range of temperatures and baryon chemical potentials.

phenomenology↗
DOE OSTI2021

Inverse design of equilibrium cluster fluids applied to a physically informed model

Inverse design strategies have proven highly useful for the discovery of interaction potentials that prompt self-assembly of a variety of interesting structures. However, often the optimized particle interactions do not have a direct relationship to experimental systems. In this work, we show that Relative Entropy minimization is able to discover physically meaningful parameter sets for a model interaction built from depletion attraction and electrostatic repulsion that yield self-assembly of size-specific clusters. Here, we then explore the sensitivity of the optimized interaction potentials with respect to deviations in the underlying physical quantities, showing that clustering behavior is largely preserved even as the optimized parameters are perturbed.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗