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At least 379 records · Page 21

The information content of jet quenching and machine learning assisted observable design

Jets produced in high-energy heavy-ion collisions are modified compared to those in proton-proton collisions due to their interaction with the deconfined, strongly-coupled quark-gluon plasma (QGP). In this work, we employ machine learning techniques to identify important features that distinguish jets produced in heavy-ion collisions from jets produced in proton-proton collisions. We formulate the problem using binary classification and focus on leveraging machine learning in ways that inform theoretical calculations of jet modification: (i) we quantify the information content in terms of Infrared Collinear (IRC)-safety and in terms of hard vs. soft emissions, (ii) we identify optimally discriminating observables that are in principle calculable in perturbative QCD, and (iii) we assess the information loss due to the heavy-ion underlying event and background subtraction algorithms. We illustrate our methodology using Monte Carlo event generators, where we find that important information about jet quenching is contained not only in hard splittings but also in soft emissions and IRC-unsafe physics inside the jet. This information appears to be significantly reduced by the presence of the underlying event. We discuss the implications of this for the prospect of using jet quenching to extract properties of the QGP. Since the training labels are exactly known, this methodology can be used directly on experimental data without reliance on modeling. We outline a proposal for how such an experimental analysis can be carried out, and how it can guide future measurements.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Omics-driven onboarding of the carotenoid producing red yeast Xanthophyllomyces dendrorhous CBS 6938

Transcriptomics is a powerful approach for functional genomics and systems biology, yet it can also be used for genetic part discovery. Here, we derive constitutive and light-regulated promoters directly from transcriptomics data of the basidiomycete red yeast Xanthophyllomyces dendrorhous CBS 6938 (anamorph Phaffia rhodozyma) and use these promoters with other genetic elements to create a modular synthetic biology parts collection for this organism. X. dendrorhous is currently the sole biotechnologically relevant yeast in the Tremellomycete class-it produces large amounts of astaxanthin, especially under oxidative stress and exposure to light. Thus, we performed transcriptomics on X. dendrorhous under different wavelengths of light (red, green, blue, and ultraviolet) and oxidative stress. Differential gene expression analysis (DGE) revealed that terpenoid biosynthesis was primarily upregulated by light through crtI, while oxidative stress upregulated several genes in the pathway. Further gene ontology (GO) analysis revealed a complex survival response to ultraviolet (UV) where X. dendrorhous upregulates aromatic amino acid and tetraterpenoid biosynthesis and downregulates central carbon metabolism and respiration. The DGE data was also used to identify 26 constitutive and regulated genes, and then, putative promoters for each of the 26 genes were derived from the genome. Simultaneously, a modular cloning system for X. dendrorhous was developed, including integration sites, terminators, selection markers, and reporters. Each of the 26 putative promoters were integrated into the genome and characterized by luciferase assay in the dark and under UV light. The putative constitutive promoters were constitutive in the synthetic genetic context, but so were many of the putative regulated promoters. Notably, one putative promoter, derived from a hypothetical gene, showed ninefold activation upon UV exposure. Thus, this study reveals metabolic pathway regulation and develops a genetic parts collection for X. dendrorhous from transcriptomic data. Therefore, this study demonstrates that combining systems biology and synthetic biology into an omics-to-parts workflow can simultaneously provide useful biological insight and genetic tools for nonconventional microbes, particularly those without a related model organism. This approach can enhance current efforts to engineer diverse microbes.

60 APPLIED LIFE SCIENCES↗

Ultrasound and X-ray Cross-Characterization of a Graded Impedance Impactor used for Shock-Ramp Compression Experiments

Abstract In this work we perform ultrasound measurements on an impedance graded impactor made by tape casting magnesium, copper, and tungsten. We also destructively extract small representative samples from the part for complementary characterization with x-ray computed tomography. Combining the two data sets enables direct assignment of some of the measured ultrasound features to specific material characteristics identified by x-ray tomography. Our results demonstrate how ultrasound inspection, informed by x-ray computed tomography, can be used to identify sub-millimeter material amalgamations and spatial heterogeneities in this graded material.

36 MATERIALS SCIENCE↗

Chemistry imaging and distribution analysis of rare earth elements in coal using LIBS and LA-ICP-MS instruments

Currently, demand for rare earth elements (REEs) increased significantly. Coal is actively evaluated as potential economic sources for extraction of REEs. Here, in this work, laser-induced breakdown spectroscopy (LIBS) was evaluated for rapid estimation of REEs content and their distribution in the natural coal samples. The results were compared with similar laser ablation–inductively coupled plasma–mass spectrometry (LA-ICP-MS) measurements. Thirteen coal samples (nine standard samples and five natural samples) were used in this study. Powder samples were pressed into pellets while coal chunks were directly ablated for data recording. Pellets of the powder standard samples were used to optimize the data acquisition system and then data recorded with this optimized system was used to identify the proper data acquisition and analysis models. After establishing the proper data acquisition system and analysis model using the standard samples, natural coal samples in powder form and their chunks were utilized to record LIBS and LA-ICP-MS spectra. Multivariate calibration models were developed using four of the natural samples, which were evaluated by predicting the REE content in the fifth sample. Principal component analysis was performed on the LIBS data obtained from the natural samples and it classified all the samples with high accuracy. Two-dimensional (2D) elemental mapping on coal chunk samples was also performed using both LIBS and LA-ICP-MS to study the distribution of REEs in the samples. The resulting elemental images and their correlations can be used to infer mineral distributions.

01 COAL, LIGNITE, AND PEAT↗

Understanding particle size effect on fast-charging behavior of graphite anode using ultra-thin-layer electrodes

Extreme fast charging (≤ 15 min) of lithium-ion batteries is highly desirable to accelerate mass-market adoption of electric vehicles. However, significant capacity fading, as well as safety issues due to the lithium plating caused by the fast charging rate, limit its implementation. In this study, we investigated the fast-charging capability of graphite materials with various particle sizes. To eliminate the Li + ion concentration gradient effect across the thickness of the electrode, ultra-thin-layer graphite electrodes were developed to investigate the "real" fast-charging capability of graphite at the particle level. Electrochemical assessments as well as microscopic characterizations revealed that smaller particles exhibited superior fast-charging performance, featuring enhanced capacity reversibility, faster charging rate, and less lithium plating under the same fast-charging conditions. It is shown that small-particle graphite (mean radius of 3.3 μm) could withstand a 4C charge (to 80 % state-of-charge) without plating, with minimal plating occurring at 6C. Thicker particles exhibited plating at lower C-rates. Since the experimental data could not directly explain whether intra-particle diffusion limitations or interfacial reaction limitations dominated the plating mechanism, the pseudo-2-dimensional model was used to evaluate the most likely plating mechanism. The model suggested that particle-level diffusion is the dominant mechanism contributing to plating at high rates. Finally, this work provides comprehensive insights into the particle size effects on fast-charging capability, offering a better understanding of fast-charging behavior and valuable guidance for designing optimal electrode architecture for high-rate lithium-ion batteries.

25 ENERGY STORAGE↗

Quantitative proton radiography and shadowgraphy for arbitrary intensities

Charged-particle radiography and shadowgraphy data can be directly inverted to obtain a line-integrated transverse Lorentz force or a line-integrated transverse refractive index gradient if intensity modulations due to scattering and absorption are negligible, and angular deflections are small. We develop a new direct-inversion algorithm based on plasma physics and compare it to a new Monge–Ampère code and an existing power diagram code. The measured or source intensity is represented by electrons subject to drag, and the other intensity by fixed ions. The decrease in kinetic plus electrostatic energy determines convergence. The displacement of the electrons from their initial to their equilibrium positions determines the line-integrated force or refractive index gradient. We have implemented two approaches: PIC (particle in cell) and Lagrangian fluid, in 1-D and 2-D. The PIC code works for arbitrary intensities, can work efficiently in parallel, and can make use of existing codes. The Lagrangian code requires less memory and is faster than the PIC code without massively parallel processing, but fails in 2-D for large intensity modulations. The Monge–Ampère code is by far the fastest in 2-D, without massively parallel processing, but fails for intensities with large voids, high contrast ratios and large deflections across the boundaries, and could not obtain the degree of convergence possible with the PIC code. As a result, the power diagram code was by far the slowest and most memory intensive, and failed for large peaks in the measured intensity.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Explicit physics-informed neural networks for nonlinear closure: The case of transport in tissues

In upscaling methods, closures for nonlinear problems present a well-known challenge. While a number of theoretical methods have been proposed for handling such closures, nonlinearities still remain a significant obstacle for many problems. In this work, we use a combination of formal upscaling and data-driven machine learning for explicitly closing a nonlinear transport and reaction process in multiscale tissues. The classical effectiveness factor model is used to formulate the macroscale reaction kinetics. We train a multilayer perceptron network using training data generated by direct numerical simulations over microscale examples. Once trained, the network is used in an algorithm for numerically solving the upscaled (coarse-grained) differential equation describing mass transport and reaction in two example tissues. The network is described as being explicit in the sense that the network is trained using macroscale concentrations and gradients of concentration as components of the feature space rather than incorporating them as part of a constraint in the optimization process. Network training and solutions to the macroscale transport equations were computed for two different tissues. The two tissue types (brain and liver) exhibit markedly different geometrical complexity and spatial scale (cell size and sample size). The upscaled solutions for the average concentration are compared with numerical solutions derived from the microscale concentration fields by a posteriori averaging. There are three outcomes of this work of particular note. 1) Our overall approach results in an upscaled nonlinear PDE. The PDE is closed using a neural network, and our approach results in the definition of the classical effectiveness factor for effecting closure. 2) We identify particular source terms for the closure problem that are important for representing the structure of the closure. These source terms involve macroscale concentrations and their gradients. We adopt these source terms to use as explicit features in the learning algorithm. We find the trained networks that include the macroscale source terms generate models that are able to predict the correction factor with increased fidelity over those that do not. 3) We find that the trained network exhibits good generalizability, and it is able to predict the effectiveness factor with high fidelity for realistically-structured tissues despite the significantly different scale and geometrical complexity of the two example tissue types. This latter result emphasizes our purposeful connection between conventional averaging methods with the use of machine learning for closure; this contrasts with some machine learning methods for upscaling where the exact form of the macroscale equation remains unknown.

97 MATHEMATICS AND COMPUTING↗

Towards elastic in situ analysis for high-performance computing simulations

In situ analysis and visualization have grown increasingly popular for enabling direct access to data from high-performance computing (HPC) simulations. As a simulation progresses and interesting physical phenomena emerge, however, the data produced may become increasingly complex, and users may need to dynamically change the type and scale of in situ analysis tasks being carried out and consequently adapt the amount of resources allocated to such tasks. To date, none of the production in situ analysis frameworks offer such an elasticity feature, and for good reason: the assumption that the number of processes could vary during run time would force developers to rethink software and algorithms at every level of the in situ analysis stack. In this paper we present Colza, a data staging service with elastic in situ visualization capabilities. We demonstrate the use of Colza with the Deep Water Impact and the AMR-Wind simulations, coupling them with the ParaView Catalyst and Ascent in situ libraries, and show that Colza enables dynamic rescaling of these widely-used frameworks with no interruption to the simulation or staging service. Here, we highlight the challenges of enabling such elasticity, which requires overcoming these frameworks' reliance on MPI, using distinct engineering approaches, namely dependency injection and dependency overload. To the best of our knowledge, this work is the first to enable elastic in situ visualization capabilities for HPC applications on top of existing production analysis tools.

97 MATHEMATICS AND COMPUTING↗

Texture development in magnetostrictive Fe-Ga alloys processed by laser powder bed fusion

Iron-gallium (Fe-Ga, Galfenol) alloys are promising magnetostrictive materials for actuators, sensors, and energy harvesting, but their performance is highly sensitive to microstructure and texture. Additive manufacturing by laser powder bed fusion (LPBF) offers a pathway to engineer texture and integrate functional materials into complex geometries. Here, we fabricate Fe-Ga alloys (Fe 82.2 Ga 17.8 ) by LPBF of gas-atomized powders and systematically optimize laser power and scan speed to maximize density and control texture. Nearly full-density parts (up to 99.6 %) are achieved within a narrow processing window. Electron backscatter diffraction (EBSD) reveals a strong <100> fiber texture aligned with the build direction and columnar grains up to 1 mm long. Magnetostriction measurements show saturation magnetostriction of 190 ppm in the build direction. Correlating texture data with macroscopic magnetostriction, we estimate intrinsic magnetostriction constants (λ 100 = 228 ppm, λ 111 = 12 ppm), closely matching single crystal-derived values. These results demonstrate the critical interplay between processing, texture, and functional performance in additively manufactured Fe-Ga alloys and establish LPBF as a viable route for high-performance magnetostrictive materials.

Additive manufacturing↗

The impact of detection rate changes and correlations on random-coincidence background measurements

Coincidence detection of multiple particles emitted during an experiment can yield a new depth of understanding of the underlying process under study. However, the probability of detecting particles that are generated from the same physical event within a given coincidence time window is generally much lower than that of detecting particles that appear in the same coincidence time window, but were not created from the same physical event, and are therefore detected randomly in coincidence with each other. Thus, accurate and precise methods of measuring this random-coincidence background are essential for a wide variety of fields of science. A method to determine this background directly using the data themselves without any additional experimental run time or fake signals introduced in the data was recently established (O’Donnell, 2016). This method yields a statistical uncertainty on the random-coincidence background that is orders of magnitude smaller than that of the true coincidence data, though the potential for systematic errors of backgrounds from this method was never explored. In this work, we discuss common varieties of correlated and uncorrelated changes in the detection rates of each particle detected in an experiment. Here we demonstrate here that a correlation between particle detection rates from, for example, an incident particle beam that initiates a physical process of interest, creates systematic errors in the random-coincidence background measurement. We also discuss the impact of a variety of other realistic scenarios for rate changes in experiments. Lastly, a method is introduced to correct for errors in the random-coincidence background from any source, yielding an optimization between statistical precision and eliminating potential lingering systematic errors.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

Interplaying mechanisms behind inclusive jet R and extraction of jet energy loss distributions

The observed inclusive jet suppression in heavy-ion collisions at LHC has a very weak p T dependence over a large range of p T =50–1000 GeV and is almost independent of the colliding energy, though the initial energy density of the bulk medium has increased from √s=2.76 to 5.02 TeV by about 20%. This interesting phenomenon is investigated in the linear Boltzmann transport (LBT) model for jet propagation in an event-by-event 3+1D hydro background. We show that the p T dependence of jet R AA is determined by the initial spectrum in p+p collisions and p T dependence of jet energy loss. Furthermore, jet energy loss distributions for inclusive jet and γ-jet at both LHC energies are extracted directly from experimental data through the state-of-art Bayesian analysis. Additionally, the averaged jet energy loss has a weak p T dependence and the scaled jet energy loss distributions have a large width, both of which are consistent with the LBT simulations and indicate that jet quenching is caused by only a few out-of-cone jet medium scatterings.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

Systematic exploration of the thermochemistry for a set of peroxy hydroperoxy-alkyl radicals

Here, the thermochemistry of peroxy hydroperoxy-alkyl ($\overline{O}$OQOOH) radicals has a significant influence on the reactivity of fuels and on the formation of highly oxygenated molecules (HOMs) in the atmosphere. Theoretical characterization of these radicals can be arduous due to their molecular size and complex fundamental interactions, such as hydrogen-bonding and torsional anharmonicity, and difficult to validate in the absence of any direct experimental thermochemical data. In this work, we systematically explore the thermochemistry of a set of $\overline{O}$OQOOH radicals with five increasingly affordable approaches with considerations for these interactions. In doing so, we present a novel conformer selection approach suited to predict properties at combustion temperatures. As a corollary, we also highlight the shortcomings in the standard choice of the ground conformer as the reference. The set of molecules is comprised of 149 C 2 -C 8 $\overline{O}$OQOOH radicals, selected to encompass a wide variety of branching and substitution patterns. Comparisons amongst the approaches help quantify the errors arising from various simplifying assumptions. For the largest of these radicals, and with the most affordable approach, final predictions of Gibbs energies are assigned a 2 σ uncertainty of 4 kcal mol -1 in the negative temperature coefficient region.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

The mean logarithm emerges with self-similar energy balance.

The attached eddy hypothesis of Townsend (The Structure of Turbulent Shear Flow, 1956, Cambridge University Press) states that the logarithmic mean velocity admits self-similar energy-containing eddies which scale with the distance from the wall. Over the past decade, there has been a significant amount of evidence supporting the hypothesis, placing it to be the central platform for the statistical description of the general organisation of coherent structures in wall-bounded turbulent shear flows. Nevertheless, the most fundamental question, namely why the hypothesis has to be true, has remained unanswered over many decades. Under the assumption that the integral length scale is proportional to the distance from the wall y , in the present study we analytically demonstrate that the mean velocity is a logarithmic function of y if and only if the energy balance at the integral length scale is self-similar with respect to y , providing a theoretical basis for the attached eddy hypothesis. The analysis is subsequently verified with the data from a direct numerical simulation of incompressible channel flow at the friction Reynolds number Reτ≃5200 (Lee & Moser, J. Fluid Mech., vol. 774, 2015, pp. 395–415).

42 ENGINEERING↗

Numerical validation of scaling laws for stratified turbulence

Recent theoretical progress using multiscale asymptotic analysis has revealed various possible regimes of stratified turbulence. Notably, buoyancy transport can either be dominated by advection or diffusion, depending on the effective Péclet number of the flow. Two types of asymptotic models have been proposed, which yield measurably different predictions for the characteristic vertical velocity and length scale of the turbulent eddies in both diffusive and non-diffusive regimes. The first, termed a ‘single-scale model’, is designed to describe flow structures having large horizontal and small vertical scales, while the second, termed a ‘multiscale model’, additionally incorporates flow features with small horizontal scales, and reduces to the single-scale model in their absence. By comparing predicted vertical velocity scaling laws with direct numerical simulation data, we show that the multiscale model correctly captures the properties of strongly stratified turbulence within regions dominated by small-scale isotropic motions, whose volume fraction decreases as the stratification increases. Meanwhile its single-scale reduction accurately describes the more orderly, layer-like, quiescent flow outside those regions.

Mechanics↗

Singlet Fission Driven by Anisotropic Vibronic Coupling in Single-Crystalline Pentacene

Vibronic coupling is believed to play an important role in siglet fission, wherein a photoexcited singlet exciton is converted into two triplet excitons. In the present study, we examine the role of vibronic coupling in singlet fission using polarized transient absorption microscopy and ab initio simulations on single-crystalline pentacene. It was found that singlet fission in pentacene is greatly facilitated by the vibrational coherence of a 35.0 cm(-1) phonon, where anisotropic coherence persists extensively for a few picoseconds. This coherence-preserving phonon that drives the anisotropic singlet fission is made possible by a unique cross-axial charge-transfer intermediate state. In the same fashion, this phonon was also found to predominantly drive the quantum decohence of a correlated triplet pair to form a decoupled triplet dimer. Moreover, our transient kinetic experimental data illustrates notable directional anisotropicity of the singlet fission rate in single-crystalline pentacene.

Deng, Gang-Hua↗

Evaluating efficacy of indoor non-pharmaceutical interventions against COVID-19 outbreaks with a coupled spatial-SIR agent-based simulation framework

Contagious respiratory diseases, such as COVID-19, depend on sufficiently prolonged exposures for the successful transmission of the underlying pathogen. It is important that organizations evaluate the efficacy of non-pharmaceutical interventions aimed at mitigating viral transmission among their personnel. We have developed a operational risk assessment simulation framework that couples a spatial agent-based model of movement with an agent-based SIR model to assess the relative risks of different intervention strategies. By applying our model on MIT’s Stata center, we assess the impacts of three possible dimensions of intervention: one-way vs unrestricted movement, population size allowed onsite, and frequency of leaving designated work location for breaks. We find that there is no significant impact made by one-way movement restrictions over unrestricted movement. Instead, we find that reducing the frequency at which individuals leave their workstations combined with lowering the number of individuals admitted below the current recommendations lowers the likelihood of highly connected individuals within the contact networks that emerge, which in turn lowers the overall risk of infection. We discover three classes of possible interventions based on their epidemiological effects. By assuming a direct relationship between data on secondary attack rates and transmissibility in the agent-based SIR model, we compare relative infection risk of four respiratory illnesses, MERS, SARS, COVID-19, and Measles, within the simulated area, and recommend appropriate intervention guidelines.

60 APPLIED LIFE SCIENCES↗

High-pressure neutron powder diffraction study of an arsenolite deuterium inclusion compound: structure and formation kinetics

High-pressure variable-temperature neutron powder diffraction was employed to investigate the synthesis and structural properties of arsenolite (As 4 O 6 ), a cubic arsenic( III ) oxide polymorph, and its inclusion compound with deuterium. The compound forms with the stoichiometry As 4 O 6 ·2D 2 , consistent with earlier findings. At 295 K and 1.96(2) GPa, D 2 molecules occupy the 16c site (0, 0, 0) and are aligned along the <111> direction. The diffraction data suggest that the D 2 molecules at this site become rotationally disordered upon decompression to 0.78(2) GPa at 120 K, while no occupancy is observed at the 8a position (⅛, ⅛, ⅛) under any of the studied conditions. The kinetic data of the high-pressure inclusion compound synthesis at 1.56(2) and 1.96(2) GPa were analyzed using the Avrami model. The Avrami exponent, 0.135(16), remains invariant with pressure, demonstrating that the reaction topochemistry is unaffected by compression. Similarly, the reaction rates, 0.29(3) and 0.23(3) min −0.135 at 1.56(2) and 1.96(2) GPa, respectively, exhibit negligible pressure dependence and suggest a surprisingly low activation volume of 1.6 cm 3 mol −1 for the reaction. These results provide detailed insight into the structural dynamics and kinetics of deuterium inclusion in arsenolite under high pressure.

Guńka, Piotr A. [Warsaw University of Technology (↗

Curiosity driven exploration to optimize structure–property learning in microscopy

Rapidly determining structure–property correlations in materials is an important challenge in better understanding fundamental mechanisms and greatly assists in materials design. In microscopy, imaging data provides a direct measurement of the local structure, while spectroscopic measurements provide relevant functional property information. Deep kernel active learning approaches have been utilized to rapidly map local structure to functional properties in microscopy experiments, but are computationally expensive for multi-dimensional and correlated output spaces. Here, we present an alternative lightweight curiosity algorithm which actively samples regions with unexplored structure–property relations, utilizing a deep-learning based surrogate model for error prediction. We show that the algorithm outperforms random sampling for predicting properties from structures, and provides a convenient tool for efficient mapping of structure–property relationships in materials science.

36 MATERIALS SCIENCE↗