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At least 1,333 records · Page 74

Potential-Dependent Adhesion Forces between dsDNA and Electroactive Surfaces

A promising approach to regulating the interactions between polyelectrolytes and materials is the use of electroactive surfaces that can change their charge state. However, common electroactive groups are too unstable to be practical for this purpose. Here we have performed a single molecule force spectroscopy study of the interactions between dsDNA and an 1,1'-biferrocenylene (BFD = bis(fulvalene)diiron)-terminated self-assembled monolayer surface that allows us to reversibly change the charge state. We found that the interaction force between DNA and the surface is correlated to the oxidation state of the BFD groups, which is conveniently controlled by the electrochemical potentials. We discovered that the electroactive SAM produces much stronger interaction forces than its nonelectroactive counterpart. A model based on the Grahame equation was able to quantitatively reproduce the experimentally observed relation between the applied potentials and adhesion forces. Our electroactive surface provides a model system for quantitative studies of the interactions between polyelectrolyte and charged surfaces in liquid. Furthermore, these insights may enable new opportunities for actively manipulating the binding, orientations, and conformations of polyelectrolytes for biosensing, nanomotors, and other applications.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

ExaDigiT/RAPS

ExaDigiT is a framework for developing comprehensive digital twins of liquid-cooled supercomputers, which has three main modules: (1) a python-based Resource Allocator and Power Simulator (RAPS), (2) a Modelica-based Thermo-Fluidic cooling model, and (3) a C++-based augmented reality model built on Unreal Engine 5. RAPS either simulates workloads or replays historical workloads from system telemetry, and is able to predict dynamic energy consumption, as well as interact with the cooling model to predict cooling system behavior. Such a tool can be used together with reinforcement learning algorithms to provide an end-to-end optimization tool for data centers.

Brewer, Wesley [Oak Ridge National Laboratory (ORN↗

First Measurement Of Charged-current 1 Muon 2 Proton 0 Pion Single Differential Cross-sections On Argon-40 At 0.8 Gev Average Neutrino Energy With The MicroBooNE Detector

Constraining systematic uncertainties that arise from neutrino-nucleon cross-section modeling is critical for upcoming neutrino oscillation experiments. Neutrino interactions that lead to the ejection of 2 particles from the target nucleus, leaving the nucleus with 2 holes, are one cross-section of interest. These instances, known as 2-particle 2-hole (2p2h) states, can be produced either by neutrino interaction modes or from the influence of nuclear physics on the neutrino interaction. While there are many theoretical models that attempt to describe the nature of 2p2h states, very few experimental measurements of this process exist, making it difficult to benchmark theoretical calculations. Furthermore, no high statistic cross-section measurements of 2p2h states exist on $^{40}$Ar, the target nucleus of many current and next generation neutrino oscillation experiments. This analysis aims to address this issue by providing the first high-statistic single differential cross-section me asurements of 2p2h states. Using data collected from the first 3 years of running of the MicroBooNE experiment, we select $\nu_\mu$ charged-current interaction events that produce a single muon, 2 protons, and no pions in the final state (CC1$\mu$2p0$\pi$). The single differential cross-section is then extracted as a function of a variety of physics variables and compared to theoretical predictions from several event generator model sets.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

A Novel use of Direct Simulation Monte-Carlo to Model Dynamics of COVID-19 Pandemic Spread

In this report, we evaluate a novel method for modeling the spread of COVID-19 pandemic. In this new approach we leverage methods and algorithms developed for fully-kinetic plasma physics simulations using Particle-In-Cell (PIC) Direct Simulation Monte-Carlo (DSMC) models. This approach then leverages Sandia-unique simulation capabilities, and High-Performance Computer (HPC) resources and expertise in particle-particle interactions using stochastic processes. Our hypothesis is that this approach would provide a more efficient platform with assumptions based on physical data that would then enable the user to assess the impact of mitigation strategies and forecast different phases of infection. This work addresses key scientific questions related to the assumptions this new approach must make to model the interactions of people using algorithms typically used for modeling particle interactions in physics codes (kinetic plasma, gas dynamics). The model developed uses rational/physical inputs while also providing critical insight; the results could serve as inputs to, or alternatives for, existing models. The model work presented was developed over a four-week time frame, thus far showing promising results and many ways in which this model/approach could be improved. This work is aimed at providing a proof-of-concept for this new pandemic modeling approach, which could have an immediate impact on the COVID-19 pandemic modeling, while laying a basis to model future pandemic scenarios in a manner that is timely and efficient. Additionally, this new approach provides new visualization tools to help epidemiologists comprehend and articulate the spread of this and other pandemics as well as a more general tool to determine key parameters needed in order to better predict pandemic modeling in the future. In the report we describe our model for pandemic modeling, apply this model to COVID-19 data for New York City (NYC), assess model sensitivities to different inputs and parameters and , finally, propagate the model forward under different conditions to assess the effects of mitigation and associated timing. Finally, our approach will help understand the role of asymptomatic cases, and could be extended to elucidate the role of recovered individuals in the second round of the infection, which is currently being ignored.

59 BASIC BIOLOGICAL SCIENCES↗

Effective many-body interactions in reduced-dimensionality spaces through neural network models

Accurately describing properties of challenging problems in physical sciences often requires complex mathematical models that are unmanageable to tackle head on. Therefore, developing reduced-dimensionality representations that encapsulate complex correlation effects in many-body systems is crucial to advance the understanding of these complicated problems. However, a numerical evaluation of these predictive models can still be associated with a significant computational overhead. To address this challenge, in this paper we discuss a combined framework that integrates recent advances in the development of active-space representations of coupled cluster (CC) downfolded Hamiltonians with neural network approaches. The primary objective of this effort is to train neural networks to eliminate the computationally expensive steps required for evaluating hundreds or thousands of Hugenholtz diagrams, which correspond to multidimensional tensor contractions necessary for evaluating a many-body form of downfolded effective Hamiltonians. Using small molecular systems (the H 2 O and HF molecules) as examples, we demonstrate that training neural networks employing effective Hamiltonians for a few nuclear geometries of molecules can accurately interpolate or extrapolate their forms to other geometrical configurations characterized by different intensities of correlation effects. We also discuss differences between effective interactions that define CC downfolded Hamiltonians with those of bare Hamiltonians defined by Coulomb interactions in the active spaces. Published by the American Physical Society 2024

97 MATHEMATICS AND COMPUTING↗

Beyond Energy Efficiency: A clustering approach to embed demand flexibility into building energy benchmarking

The intermittency of carbon-free renewables and the demand changes associated with the widespread push for electrifying the transportation and building sectors provides an opportunity for buildings to go beyond energy efficiency and push towards providing demand flexibility to the electricity grid. The duality of energy efficiency and demand flexibility is necessary for success in a sustainable and reliable energy transition. Current building energy benchmarking models are limited in their ability to integrate concepts of demand flexibility and/or utilize granular smart meter data. Thus, current benchmarking methods are focused annual energy usage and fail to incorporate how the time of use of energy consumption impacts emissions in a quickly changing energy grid. Without a more comprehensive view of energy usage and associated real-time emissions, current benchmarking methods are unlikely to realize the full decarbonization potential of buildings. New emerging data streams provide an opportunity to develop a new generation of benchmarking energy models that embed dimensions of energy efficiency, grid interactivity, and demand flexibility into their analysis. In this paper, we propose a four-step method for embedding grid interactivity and demand flexibility into building benchmarking models that utilizes emerging building and time-series electricity data streams. We first engineer features to produce a mix-type dataset that encompasses many attributes of grid-interactive and efficient buildings, and then we apply K-medoids using Gower's Distance to produce peer-group clusters. We apply the method to a case study of 306 primary and secondary schools in southern California, USA. The results show that the method effectively clusters buildings by attributes of demand flexibility and energy efficiency. The clustering results reveal patterns in inefficient building operations and demand inflexibility at the building peer group level. In conclusion, the interpretation of clusters can serve as an integrated energy efficiency and demand flexibility benchmarking model and inform performance-specific policy targeting for buildings that go beyond traditional efficiency measures.

24 POWER TRANSMISSION AND DISTRIBUTION↗

On hydromagnetic wave interactions in collisionless, high- β plasmas

We describe the interaction of parallel-propagating Alfvén waves with ion-acoustic waves and other Alfvén waves, in magnetized, high- β collisionless plasmas. This is accomplished through a combination of analytical theory and numerical fluid simulations of the Chew–Goldberger–Low (CGL) magnetohydrodynamic (MHD) equations closed by Landau-fluid heat fluxes. An asymptotic ordering is employed to simplify the CGL-MHD equations and derive solutions for the deformation of an Alfvén wave that results from its interaction with the pressure anisotropy generated either by an ion-acoustic wave or another, larger-amplitude Alfvén wave. The difference in time scales of acoustic and Alfvénic fluctuations at high- β means that interactions that are local in wavenumber space yield little modification to either mode within the time it takes the acoustic wave to Landau damp away. Instead, order-unity changes in the amplitude of Alfvénic fluctuations can result after interacting with frequency-matched acoustic waves. Additionally, we show that the propagation speed of an Alfvén-wave packet in an otherwise homogeneous background is a function of its self-generated pressure anisotropy. This allows for the eventual interaction of separate co-propagating Alfvén-wave packets of differing amplitudes. The results of the CGL-MHD simulations agree well with these predictions, suggesting that theoretical models relying on the interaction of these modes should be reconsidered in certain astrophysical environments. Applications of these results to weak Alfvénic turbulence and to the interaction between the compressive and Alfvénic cascades in strong, collisionless turbulence are also discussed.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

Probing catalytic activity in defect sites in transition metal oxides and sulfides using cluster models: A combined experimental and theoretical approach

Our research program has combined experimental and computational methods to study a range of cluster models for heterogeneous catalytic materials. The focus of our studies has been transition metal oxide and sulfide clusters in non-traditional oxidation states, and their chemical and physical interactions with water, to model steps in the electrocatalytic or photocatalytic hydrogen evolution reaction (HER). In the closing year of this project, we have also begun to explore addition systems in preparation for future grant proposals.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Singularity-EOS XCAP Report

Solving the Euler equations is a fundamental component of simulating many physical phenomena ranging from high explosives to astrophysics. An equation of state (EOS) is a required piece that relates any two thermodynamic quantities to all other thermodynamic values. The presence of multiple materials within a control volume further complicates the solution requiring additional equations to describe the interaction of materials at a sub-grid level. Equations of state themselves can also come in many forms ranging from simple algebraic relations to more complicated differential equation models that describe material interactions over a broad range of physical conditions. In the latter case, the EOS is often pre-computed at a given set of grid points and provided in a tabular form where additional properties can be derived from the interpolation functions.

97 MATHEMATICS AND COMPUTING↗

Anti-Coulomb ion-ion interactions: A theoretical and computational study

The free energy of ion solvation can be decomposed into enthalpic and entropic contributions. This helps one to understand the connection between the dielectric properties and the underlying forces. We present a simple linear-response model of screened charge interactions that provides an alternative understanding of solvation barriers. Moreover, it explains the “anti-Coulomb” interactions (attraction between like-charged ions and repulsion between opposite-charged ions) observed in both simulations and experiments. We show that this is a universal behavior associated to the nonlocal response function of any dielectric or metallic systems. Published by the American Physical Society 2024

Wills, Alec (ORCID:0000000280184692)↗

Bayesian Calibration of Stochastic Agent Based Model via Random Forest

Agent-based models (ABM) provide an excellent framework for modeling outbreaks and interventions in epidemiology by explicitly accounting for diverse individual interactions and environments. However, these models are usually stochastic and highly parametrized, requiring precise calibration for predictive performance. When considering realistic numbers of agents and properly accounting for stochasticity, this high-dimensional calibration can be computationally prohibitive. This paper presents a random forest-based surrogate modeling technique to accelerate the evaluation of ABMs and demonstrates its use to calibrate an epidemiological ABM named CityCOVID via Markov chain Monte Carlo (MCMC). The technique is first outlined in the context of CityCOVID's quantities of interest, namely hospitalizations and deaths, by exploring dimensionality reduction via temporal decomposition with principal component analysis (PCA) and via sensitivity analysis. The calibration problem is then presented, and samples are generated to best match COVID-19 hospitalization and death numbers in Chicago from March to June in 2020. Further, these results are compared with previous approximate Bayesian calibration (IMABC) results, and their predictive performance is analyzed, showing improved performance with a reduction in computation.

60 APPLIED LIFE SCIENCES↗

Dark matter through the quark vector current portal

We consider models of light dark matter coupled to quarks through a vector current interaction. For low energies, these models must be treated through the effective couplings to mesons, which are implemented here through the chiral Lagrangian. We find the rates of dark matter annihilation and decay to the light mesons, and find the expected photon spectrum from the decay of the hadrons. We compare to current and future observations, and show that there is a significant discovery reach for these models.

79 ASTRONOMY AND ASTROPHYSICS↗

Integrated modeling framework (FVCOM-ICM/Toxi) to simulate the fate and transport of polychlorinated biphenyls in urban estuaries–Case study for Puget Sound, WA

Puget Sound is an urban estuary that exhibits persistent polychlorinated biphenyls (PCBs) contamination despite years of remediation efforts. For robust management actions, determining the timing, location, and magnitude of PCB loading sources and transport pathways using field data alone is challenging due to complex water circulation and biogeochemical processes. Here, this study aims to develop an integrated modeling framework that couples complex estuarian circulation with biogeochemical processes and associated interactions with PCB kinetics. The model simulates PCB accumulation in the lower tropic food web, demonstrating PCB intrusion into primary producers and its biomagnification in pelagic consumers. The PCB data from a new field survey was used to calibrate/validate the new PCB modeling framework for Puget Sound. The software program of the modeling framework is available to the user community for the applications of toxic contaminants transport in marine waters.

54 ENVIRONMENTAL SCIENCES↗

Impact of Domain Knowledge on the Property Prediction of Specialized Machine Learning Models

Developing transferable machine learning models is trending in data-driven materials research. However, how to apply such models to a specific research domain remains unclear. Here, in this work, we choose high-entropy materials as a platform with a specialized data set containing 145,323 DFT-relaxed materials. This data set is used to explore the role of domain-specific knowledge in training effective models. Our tests with three representative graph neural network architectures indicate the model complexity has much smaller influence on performance than the data itself. Specifically, the consideration of low-energy atomic ordering, structures with diverse elemental coverage, and high-order interactions significantly influences the model performance. We also find that domain knowledge-driven sampling can greatly enhance unsupervised learning techniques. This research highlights that developing specialized data sets is more beneficial than further complicating deep learning architectures. Additionally, physics-inspired sampling algorithms are crucially needed for better machine learning models for a specific materials research domain.

36 MATERIALS SCIENCE↗

Field-tuned quantum renormalization of spin dynamics in the honeycomb lattice Heisenberg antiferromagnet YbCl 3

The basis for our understanding of quantum magnetism has been the study of elegantly simple model systems. However, even for the antiferromagnetic honeycomb lattice with isotropic spin interactions–one of the simplest model systems–a detailed understanding of quantum effects is still lacking. Here, using inelastic neutron scattering measurements of the honeycomb lattice material YbCl 3 , we elucidate how quantum effects renormalize the single-magnon and multimagnon excitations and how this renormalization can be tuned and ultimately driven to the classical limit by applying a magnetic field. Additionally, our work reveals that the quantum effects tuned by the magnetic field not only renormalize the magnetic excitations but also induce a distinctive sharp feature inside the multimagnon continuum. From a more general perspective, this result demonstrates that structures within magnetic continua can occur over a wide experimental parameter space and can be used as a reliable means of identifying quantum phenomena.

36 MATERIALS SCIENCE↗

Determination of the mean energy of fast electron losses and anisotropies through thick-target emission on WEST

Abstract A new method to obtain the mean energy of fast electron losses in fusion plasmas using a versatile multi-energy hard x-ray (HXR) detector is presented. The method is based on measuring the thick-target emission of tungsten in the divertor region produced by fast electron losses interacting with the target and modeling the tungsten spectra by a Monte Carlo code which simulates the interaction between a beam of electrons and a solid target. The mean energy of the fast electron losses is determined through the comparison between the experimental and synthetic emission. The results show that fast electron losses during lower hybrid current drive discharges at WEST have a mean energy of 90–140 keV and represent only 2% of the total heat flux at the target. Additionally, anisotropic HXR emission has been detected for the first time at the WEST core and edge plasma, with opposite directions. It is due to the forward-peak emission of two distinctive populations of fast electrons: co-current fast electrons in the core and counter-current fast electron losses at the inner strike point. In view of future experiments like ITER where electron cyclotron current drive will generate a fast electron population, this technique could serve as a real-time monitor of fast electron losses and eventually feed an actuator on the current drive generation.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

Framework for idealized climate simulations with spatiotemporal stochastic clouds and planetary-scale circulations

In climate predictions, clouds are the leading source of uncertainty. This is partly because, to simulate the fluid dynamics of climate over the entire globe, a large grid spacing must be used, so clouds are a subgrid-scale parametrization rather than a resolved feature. Here, a framework is investigated with finer grid spacing of O(1) or O(10)km so that some clouds are not subgrid-scale; instead, clouds evolve on the numerical grid. This cloud evolution is achieved using stochastic modeling. Hence, the framework is idealized in the sense that the full fluid dynamics of cloud circulations is still not resolved, and simplified vertical structures are used. Nevertheless, the fluid dynamics model includes evolving clouds that interactively adjust in size, shape, lifetime, and regional coverage. In addition, different cloud types are included with different roles in the climate system, including deep convective clouds and also boundary-layer clouds such as shallow cumulus and stratocumulus clouds. Other basic aspects of the idealized climate system are planetary-scale circulations (e.g., Walker circulation) and radiation. With these ingredients (evolving clouds, planetary-scale circulations, and radiation), the framework has the potential for idealized investigations of climate change with interactive cloud–radiative feedback of individual clouds. Here, the formulation of the model equations is presented, and numerical simulations are shown to illustrate the model dynamics and climate change.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Understanding early HIV-1 rebound dynamics following antiretroviral therapy interruption: The importance of effector cell expansion

Most people living with HIV-1 experience rapid viral rebound once antiretroviral therapy is interrupted; however, a small fraction remain in viral remission for an extended duration. Understanding the factors that determine whether viral rebound is likely after treatment interruption can enable the development of optimal treatment regimens and therapeutic interventions to potentially achieve a functional cure for HIV-1. We built upon the theoretical framework proposed by Conway and Perelson to construct dynamic models of virus-immune interactions to study factors that influence viral rebound dynamics. We evaluated these models using viral load data from 24 individuals following antiretroviral therapy interruption. The best-performing model accurately captures the heterogeneity of viral dynamics and highlights the importance of the effector cell expansion rate. Our results show that post-treatment controllers and non-controllers can be distinguished based on the effector cell expansion rate in our models. Furthermore, these results demonstrate the potential of using dynamic models incorporating an effector cell response to understand early viral rebound dynamics post-antiretroviral therapy interruption.

60 APPLIED LIFE SCIENCES↗