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At least 1,495 records · Page 83

Computer-aided pulmonary image analysis in small animal models

Purpose: To develop an automated pulmonary image analysis framework for infectious lung diseases in small animal models. Methods: The authors describe a novel pathological lung and airway segmentation method for small animals. The proposed framework includes identification of abnormal imaging patterns pertaining to infectious lung diseases. First, the authors’ system estimates an expected lung volume by utilizing a regression function between total lung capacity and approximated rib cage volume. A significant difference between the expected lung volume and the initial lung segmentation indicates the presence of severe pathology, and invokes a machine learning based abnormal imaging pattern detection system next. The final stage of the proposed framework is the automatic extraction of airway tree for which new affinity relationships within the fuzzy connectedness image segmentation framework are proposed by combining Hessian and gray-scale morphological reconstruction filters. Results: 133 CT scans were collected from four different studies encompassing a wide spectrum of pulmonary abnormalities pertaining to two commonly used small animal models (ferret and rabbit). Sensitivity and specificity were greater than 90% for pathological lung segmentation (average dice similarity coefficient > 0.9). While qualitative visual assessments of airway tree extraction were performed by the participating expert radiologists, for quantitative evaluation the authors validated the proposed airway extraction method by using publicly available EXACT’09 data set. Conclusions: The authors developed a comprehensive computer-aided pulmonary image analysis framework for preclinical research applications. The proposed framework consists of automatic pathological lung segmentation and accurate airway tree extraction. The framework has high sensitivity and specificity; therefore, it can contribute advances in preclinical research in pulmonary diseases.

60 APPLIED LIFE SCIENCES↗

Fluctuation approach to description of nonideal plasma. I: Equilibrium plasma

The structure of an electron energy spectrum in nonideal plasmas is described using the method of molecular dynamics. Pairing fluctuations are distinguished. Transformation of pairing fluctuations into excited atoms in the limit of a weakly nonideal plasma is considered. Domains of existence of excited atoms and pairing fluctuations are estimated. The nature of limitation of the atomic partition function in a nonideal plasma is revealed. Indications pointing to the existence of a soft gap in the energy spectrum of plasma electrons are obtained.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

Constraining the $\overline{K}$N coupled channel dynamics using femtoscopic correlations at the LHC

The interaction of K – with protons is characterised by the presence of several coupled channels, systems like $\overline{K}$ 0 n and πΣ with a similar mass and the same quantum numbers as the K – p state. The strengths of these couplings to the K – p system are of crucial importance for the understanding of the nature of the Λ(1405) resonance and of the attractive K – p strong interaction. In this article, we present measurements of the K – p correlation functions in relative momentum space obtained in pp collisions at $\sqrt{s}$=13 Te, in p–Pb collisions at $\sqrt{s_{NN}}$= 5.02 Te, and (semi)peripheral Pb–Pb collisions at $\sqrt{s_{NN}}$= 5.02 Te. The emitting source size, composed of a core radius anchored to the K + p correlation and of a resonance halo specific to each particle pair, varies between 1 and 2 fm in these collision systems. The strength and the effects of the $\overline{K}$ 0 n and πΣ inelastic channels on the measured K – p correlation function are investigated in the different colliding systems by comparing the data with state-of-the-art models of chiral potentials. A novel approach to determine the conversion weights ω, necessary to quantify the amount of produced inelastic channels in the correlation function, is presented. In this method, particle yields are estimated from thermal model predictions, and their kinematic distribution from blast-wave fits to measured data. The comparison of chiral potentials to the measured K – p interaction indicates that, while the πΣ –K – p dynamics is well reproduced by the model, the coupling to the $\overline{K}$ 0 n channel in the model is currently underestimated.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Disproportionate impacts of COVID-19 in a large US city

COVID-19 has disproportionately impacted individuals depending on where they live and work, and based on their race, ethnicity, and socioeconomic status. Studies have documented catastrophic disparities at critical points throughout the pandemic, but have not yet systematically tracked their severity through time. Using anonymized hospitalization data from March 11, 2020 to June 1, 2021 and fine-grain infection hospitalization rates, we estimate the time-varying burden of COVID-19 by age group and ZIP code in Austin, Texas. During this 15-month period, we estimate an overall 23.7% (95% CrI: 22.5–24.8%) infection rate and 29.4% (95% CrI: 28.0–31.0%) case reporting rate. Individuals over 65 were less likely to be infected than younger age groups (11.2% [95% CrI: 10.3–12.0%] vs 25.1% [95% CrI: 23.7–26.4%]), but more likely to be hospitalized (1,965 per 100,000 vs 376 per 100,000) and have their infections reported (53% [95% CrI: 49–57%] vs 28% [95% CrI: 27–30%]). We used a mixed effect poisson regression model to estimate disparities in infection and reporting rates as a function of social vulnerability. We compared ZIP codes ranking in the 75th percentile of vulnerability to those in the 25th percentile, and found that the more vulnerable communities had 2.5 (95% CrI: 2.0–3.0) times the infection rate and only 70% (95% CrI: 60%-82%) the reporting rate compared to the less vulnerable communities. Inequality persisted but declined significantly over the 15-month study period. Our results suggest that further public health efforts are needed to mitigate local COVID-19 disparities and that the CDC’s social vulnerability index may serve as a reliable predictor of risk on a local scale when surveillance data are limited.

60 APPLIED LIFE SCIENCES↗

Differentiable Predictions for Large Scale Structure with SHAMNet

In simulation-based models of the galaxy-halo connection, theoretical predictions for galaxy clustering and lensing are typically made based on Monte Carlo realizations of a mock universe. In this paper, we use Subhalo Abundance Matching (SHAM) as a toy model to introduce an alternative to stochastic predictions based on mock population, demonstrating how to make simulation-based predictions for clustering and lensing that are both exact and differentiable with respect to the parameters of the model. Conventional implementations of SHAM are based on iterative algorithms such as Richardson-Lucy deconvolution; here we use the JAX library for automatic differentiation to train SHAMNet, a neural network that accurately approximates the stellar-to-halo mass relation (SMHM) defined by abundance matching. In our approach to making differentiable predictions of large-scale structure, we map parameterized PDFs onto each simulated halo, and calculate gradients of summary statistics of the galaxy distribution by using autodiff to propagate the gradients of the SMHM through the statistical estimators used to measure one- and two-point functions. Our techniques are quite general, and we conclude with an overview of how they can be applied in tandem with more complex, higher-dimensional models, creating the capability to make differentiable predictions for the multi-wavelength universe of galaxies.

79 ASTRONOMY AND ASTROPHYSICS↗

Study of a multi-beam accelerator driven thorium reactor

The primary advantages that accelerator driven systems have over critical reactors are: (1) Greater flexibility regarding the composition and placement of fissile, fertile, or fission product waste within the blanket surrounding the target, and (2) Potentially enhanced safety brought about by operating at a sufficiently low value of the multiplication factor to preclude reactivity induced events. The control of the power production can be achieved by vary the accelerator beam current. Furthermore, once the beam is shut off the system shuts down. The primary difference between the operation of an accelerator driven system and a critical system is the issue of beam interruptions of the accelerator. These beam interruptions impose thermo-mechanical loads on the fuel and mechanical components not found in critical systems. Studies have been performed to estimate an acceptable number of trips, and the value is significantly less stringent than had been previously estimated. The number of acceptable beam interruptions is a function of the length of the interruption and the mission of the system. Thus, for demonstration type systems and interruption durations of 1sec < t < 5mins, and t > 5mins 2500/yr and 50/yr are deemed acceptable. However, for industrial scale power generation without energy storage type systems and interruption durations of t < 1sec., 1sec < t < 10secs., 10secs < t < 5mins, and t > 5mins, the acceptable number of interruptions are 25000, 2500, 250, and 3 respectively. However, it has also been concluded that further development is required to reduce the number of trips. It is with this in mind that the following study was undertaken. The primary focus of this study will be the merit of a multi-beam target system, which allows for multiple spallation sources within the target/blanket assembly. In this manner it is possible to ameliorate the effects of sudden accelerator beam interruption on the surrounding reactor, since the remaining beams will still be supplying source neutrons. The proton beam will be assumed to have an energy of 1 GeV, and the target material will be natural lead, which will also be the coolant for the reactor assembly. Three proton beam arrangements will be considered, first a single beam (the traditional arrangement) with an entry at the assembly center, two more options will consist of three and six entry locations. The reactor fuel assembly parameters will be based on those of the S-PRISM fast reactor proposed by GE, and the fuel composition and type will be based on that proposed by Aker Solutions for use in their accelerator driven thorium reactor. The following table summarizes the parameters to be used in this study. The isotopic composition of the fertile material is 100% Th-232, and the plutonium isotopic distribution corresponds to that characteristic of the discharge from a typical LWR, following five years of decay. Thus, the isotopic distribution for the plutonium is; Pu-238 2.5%, Pu-239 53.3%, Pu-240 25.1%, Pu-241 11.8%, and Pu-242 7.3%.

11 NUCLEAR FUEL CYCLE AND FUEL MATERIALS↗

Small Break Air Ingress Experiment

The small break air-ingress experiment, described in this report, is designed to investigate air-ingress phenomena postulated to occur in pipes in a very high temperature gas-cooled reactor (VHTRs). During this experiment, air-ingress rates were measured for various flow and break conditions through small holes drilled into a pipe of the experimental apparatus. The holes were drilled at right angles to the pipe wall such that a direction vector drawn from the pipe centerline to the center of each hole was at right angles with respect to the pipe centerline. Thus the orientation of each hole was obtained by measuring the included angle between the direction vector of each hole with respect to a reference line anchored on the pipe centerline and pointing in the direction of the gravitational force. Using this reference system, the influence of several important parameters on the air ingress flow rate were measured including break orientation, break size, and flow velocity . The approach used to study the influence of these parameters on air ingress is based on measuring the changes in oxygen concentrations at various locations in the helium flow circulation system as a function of time using oxygen sensors (or detectors) to estimate the air-ingress rates through the holes. The test-section is constructed of a stainless steel pipe which had small holes drilled at the desired locations.

11 NUCLEAR FUEL CYCLE AND FUEL MATERIALS↗

Particle Rate and Host Accelerator Beam Loss on the MICE Experiment

A study is presented of particle rates in the MICE Muon Beamline and their relationship to beam loss produced in ISIS. A brief overview of neutrino physics is presented, together with a discussion on the Neutrino Factory as a motivation for MICE. An overview of MICE itself is then presented, highlighting the need for a systematic understanding of the relationship between the MICE target parameters, ISIS beam loss, and MICE particle rate. The variation of beam loss with target depth is examined and observed to be non-linear. The variation of beam loss with respect to the target dip time in the ISIS cycle is examined and observed to be approximately linear for dip times between 11.1 ms and 12.6 ms after ISIS injection, before tailing at earlier dip times. The variation of beam loss with particle rate is also observed to follow an approximately linear relationship from 0.05 V.ms to 4.7 V.ms beam loss, with a further strong indication that this continues up to 7.1 V.ms. Particle identification using time-of-flight data is used to give an insight into the relative abundances of each particle species present in the MICE beam. Estimates of muon rate are then produced as a function of beam loss. At a level of 2 V.ms beam loss ~10.9 muons per spill for a 3.2 ms spill with negative π → μ optics, and ~31.1 muons per 1 ms spill with positive π → μ optics are observed. Simulations using the ORBIT particle tracking code of the beam loss distributions around the ISIS ring, caused by the MICE target, are also presented and the implications for MICE running discussed.

43 PARTICLE ACCELERATORS↗

Proton Dynamics Scenarios in the Integrable Optics Test Accelerator (IOTA) at Fermilab

The Integrable Optics Test Accelerator (IOTA) at Fermilab provides a versatile platform for studying the interplay of space-charge, impedance, and non-linear optics in high-intensity hadron beams within synchrotrons and storage rings. This report examines the parameters and dynamics of 2.5~MeV proton beam operations in two configurations of the bare IOTA lattice: one for demonstrating Non-linear Integrable Optics with the Danilov-Nagaitsev magnet, and the other for use with electron cooling. We offer order-of-magnitude estimates of the transverse emittance growth rate as a function of beam intensity, highlighting contributions from residual gas scattering, intra-beam scattering, and space-charge effects. Under nominal conditions, the beam lifetime is projected to be less than 7~minutes at low intensity with the current vacuum quality, and fewer than 100,000~turns at high intensity due to strong space-charge effects. The calculations presented here will guide strategies to mitigate emittance growth and inform future IOTA experiments.

43 PARTICLE ACCELERATORS↗

Reinforcement Learning Control for Enhancing Marine Hydrokinetic Turbine Energy Generation

This paper proposes a reinforcement learning-based method to maximize power generation for a direct-drive marine hydrokinetic turbine. A high levelized cost of energy (LCOE) is preventative in the widespread adoption of many marine energy conversion technologies. A straightforward way to reduce LCOE is to increase conversion efficiency and ensure maximum energy generation. The proposed method utilizes a damping control methodology, varying applied generator torque via a linear relationship between the applied damping coefficient and rotor speed. A state-action-reward-state-action (SARSA) algorithm has been used to learn the optimal control action for a given flow velocity. The proposed SARSA methodology uses Gaussian radial basis functions to create a three-dimensional surface to estimate the relationship between damping coefficient, incoming flow velocity, and coefficient of power (C p ). Here, the SARSA algorithm was compared against a baseline optimal tip speed ratio controller over a year-long flow velocity case profile while considering the effects of biofouling on the turbine system, where the proposed RL method generated 0.92% more energy than the baseline.

Damp↗

Genome-Wide Identification of Evolutionarily Conserved Alternative Splicing Events in Flowering Plants

Alternative splicing (AS) plays important roles in many plant functions, but its conservation across the plant kingdom is not known. We describe a methodology to identify AS events and identify conserved AS events across large phylogenetic distances using RNASeq datasets. We applied this methodology to transcriptome data from nine angiosperms including Amborella, the single sister species to all other extant flowering plants. AS events within 40–70% of the expressed multi-exonic genes per species were found, 27,120 of which are conserved among two or more of the taxa studied. While many events are species specific, many others are shared across long evolutionary distances suggesting they have functional significance. Conservation of AS event data provides an estimate of the number of ancestral AS events present at each node of the tree representing the nine species studied. Furthermore, the presence or absence of AS isoforms between species with different whole genome duplication (WGD) histories provides the opportunity to examine the impact of WDG on AS potential. Examining AS in gene families identifies those with high rates of AS, and conservation can distinguish ancient events vs. recent or species specific adaptations. The MADS-box and SR protein families are found to represent families with low and high occurrences of AS, respectively, yet their AS events were likely present in the MRCA of angiosperms.

54 ENVIRONMENTAL SCIENCES↗

Enhanced Monte Carlo Simulations for Electron Energy Loss Mitigation in Real-Space Nanoimaging of Thick Biological Samples and Microchips

High-resolution imaging using Transmission Electron Microscopy (TEM) is essential for applications such as grain boundary analysis, microchip defect characterization, and biological imaging. However, TEM images are often compromised by electron energy spread and other factors. In TEM mode, where the objective and projector lenses are positioned downstream of the sample, electron–sample interactions cause energy loss, which adversely impacts image quality and resolution. This study introduces a simulation tool to estimate the electron energy loss spectrum (EELS) as a function of sample thickness, covering electron beam energies from 300 keV to 3 MeV. Leveraging recent advances in MeV-TEM/STEM technology, which includes a state-of-the-art electron source with 2-picometer emittance, an energy spread of 3 × 10 -5 , and optimized beam characteristics, we aim to minimize energy spread. By integrating EELS capabilities into the BNL Monte Carlo (MC) simulation code for thicker samples, we evaluate electron beam parameters to mitigate energy spread resulting from electron–sample interactions. Based on our simulations, we propose an experimental procedure for quantitively distinguishing between elastic and inelastic scattering. The findings will guide the selection of optimal beam settings, thereby enhancing resolution for nanoimaging of thick biological samples and microchips.

36 MATERIALS SCIENCE↗

MEASURING HIGH-PRECISION ASTROMETRY WITH THE INFRARED ARRAY CAMERA ON THE SPITZER SPACE TELESCOPE

The Infrared Array Camera (IRAC) on the Spitzer Space Telescope currently offers the greatest potential for high-precision astrometry of faint mid-IR sources across arcminute-scale fields, which would be especially valuable for measuring parallaxes of cold brown dwarfs in the solar neighborhood and proper motions of obscured members of nearby star-forming regions. To more fully realize IRAC's astrometric capabilities, we have sought to minimize the largest sources of uncertainty in astrometry with its 3.6 and 4.5 μm bands. By comparing different routines that estimate stellar positions, we have found that Point Response Function (PRF) fitting with the Spitzer Science Center's Astronomical Point Source Extractor produces both the smallest systematic errors from varying intra-pixel sensitivity and the greatest precision in measurements of positions. In addition, self-calibration has been used to derive new 7th and 8th order distortion corrections for the 3.6 and 4.5 μm arrays of IRAC, respectively. These corrections are suitable for data throughout the mission of Spitzer when a time-dependent scale factor is applied to the corrections. To illustrate the astrometric accuracy that can be achieved by combining PRF fitting with our new distortion corrections, we have applied them to archival data for a nearby star-forming region, arriving at total astrometric errors of ∼20 and 70 mas at signal to noise ratios of 100 and 10, respectively.

79 ASTRONOMY AND ASTROPHYSICS↗

Time and Phase Resolved Optical Spectra of Potentially Hazardous Asteroid 2014 JO25

The asteroid 2014 JO25, considered to be potentially hazardous by the Minor Planet Center, was spectroscopically followed during its close-Earth encounter on 2017 April 19 and 20. The spectra of the asteroid were taken with the low-resolution spectrograph (LISA), mounted on the 1.2 m telescope at the Mount Abu Infrared Observatory, India. Coming from a region close to the Hungaria population of asteroids, this asteroid follows a comet-like orbit with a relatively high inclination and large eccentricity. Hence, we carried out optical spectroscopic observations of the asteroid to look for comet-like molecular emissions or outbursts. However, the asteroid showed a featureless spectrum, devoid of any comet-like features. The light curve of the asteroid was analyzed using V-band magnitudes derived from the spectra and the most likely solution for the rotation of the asteroid was obtained. The absolute magnitude H and the slope parameter G were determined for the asteroid in the V filter band using the IAU accepted standard two-parameter H–G model. A peculiar, rarely found result from these observations is its phase bluing trend. The relative B–V color index seems to decrease with increasing phase angle, which indicates a phase bluing trend. Such trends have seldom been reported in the literature. However, phase reddening in asteroids is very common. The asymmetry parameter g and the single-scattering albedo w were estimated for the asteroid by fitting the Hapke phase function to the observed data. The asteroid shows a relatively large value for the single-scattering albedo and a highly back-scattering surface.

79 ASTRONOMY AND ASTROPHYSICS↗

Eta Fragmentation Functions Revisited

We revisit the extraction of parton-to-eta meson fragmentation functions at next-to-leading order accuracy in QCD in the light of the recent hadroproduction measurements in proton-proton collisions obtained by the PHENIX, LHCb, and ALICE collaborations. In addition to an increased precision, the data explore complementary rapidity ranges and center-of-mass system energies. The analysis exploits the theoretical scale dependence to ease tensions among the data sets at different energies that are potentially caused by QCD corrections beyond the next-to-leading order. The resulting set of fragmentation functions yields a consistent description of all available data. Estimates of uncertainties are obtained with the Monte Carlo replica method.

FOS: Physical sciences↗

Towards an improved understanding of the influence of subpixel vegetation structure on pixel-level spectra: a simulation approach

The planned NASA Hyperspectral Infrared Imager (HyspIRI) mission, equipped with an imaging spectrometer that has the capability of monitoring ecosystems globally, will provide an unprecedented opportunity to address scientific challenges related to ecosystem function and change. However, uncertainty remains around the impact of subpixel vegetation structure, in combination with the point spread function, on pixel-level imaging spectroscopy data. We estimated structural parameters, e.g., leaf area index (LAI), canopy cover, and tree location, from HyspIRI spectral data, with the goal of assessing how subpixel variation in these parameters impact pixel-level imaging spectroscopy data. The fine-scale variability of real vegetation structure makes this a challenging endeavor. Therefore, we utilized a simulation-based approach to counter the time-consuming and often destructive sampling needs of vegetation structural analysis and to simultaneously generate synthetic HyspIRI data pre-launch. Three virtual scenes were constructed, corresponding to the actual vegetation structure in the National Ecological Observatory Network’s (NEON) Pacific Southwest Domain (Fresno, CA). These included an oak savanna, a dense coniferous forest, and a conifer-manzanita-mixed forest. Simulated spectroscopy data for these scenes were then generated using the Digital Imaging and Remote Sensing Image Generation (DIRSIG) model. Simulations first were used to verify the physical model, virtual scene geometrical information, and simulation parameters. This was followed by simulations of HyspIRI data, where within-pixel structural variability was introduced, e.g., by iteratively changing per-pixel canopy cover and tree placement, tree clustering, leaf area index (LAI), etc., between simulation runs for the virtual scenes. Finally, narrow-band vegetation indices (VIs) were extracted from the data in an attempt to describe the variability of the subpixel structural parameters; this was done in order to assess VI robustness to changes in structural “levels”, as well as placement of trees/canopies within the instrument’s instantaneous field-of-view (IFOV). Our ultimate goal is not only to better understand how such subpixel variability influence imaging spectroscopy outputs, but also to better estimate vegetation structural parameters using spectra. We constructed regression models for LAI (R2 = 0.92) and canopy cover (R2 = 0.97) with narrow-band VIs via this simulation approach. Our models ultimately are intended to improve the HyspIRI mission’s ability to monitor global vegetation structure.

Van Aardt, Jan↗

Uncertainty and Sensitivity Analysis of TREAT Transient Test #15

The U.S. Department of Energy (DOE) is preparing for the resumption of transient testing using the Transient Reactor Test Facility (TREAT) located at the Idaho National Laboratory (INL). In order to support the analysis of TREAT operation and experiment planning, the MAMMOTH reactor physics team has recently begun development of uncertainty and sensitivity analysis for the TREAT core simulated via MAMMOTH. MAMMOTH is a high-fidelity three-dimensional transient multi-physics code developed at INL under the DOE-NE Advanced Modeling and Simulation program (NEAMS) [1]. This research is part of the development presenting some initial uncertainty and sensitivity analysis of TREAT Transient Test #15 [2]. In this summary, we employ the Sobol sampling strategy implemented in RAVEN [3] to efficiently perform the sensitivity and uncertainty analysis. The idea is using Sobol functional decomposition with generalized polynomial chaos (gPC) expansions to estimate the responses of interest [4]. The gPC coefficients are then computed via the spectral projection method with sparse grid approach. In addition, this strategy includes evaluation of the second or higher order sensitivity indices, allowing the study of interactions between several input variables. The principal focus of this analysis is to quantify the uncertainties in the total power and maximum fuel temperatures with respect to uncertainties in the initial transient conditions, such as rated power, fuel temperature, graphite fuel density and control rod boron concentration. In addition, both the first order and second order time-dependent sensitivity indices are computed and analyzed. The results show that the interactions between initial control rod boron concentration and the rated power will contribute at most 1% to the total uncertainty of the power peak.

22 GENERAL STUDIES OF NUCLEAR REACTORS↗

Apparatus and method for optimizing quantifiable behavior in configurable devices and systems

An apparatus and method are provided to perform constrained optimization of a constrained property of an apparatus, which is complex due to having several components, and these components are configurable in real-time. The optimization is achieved by detecting values of the constrained property and a plurality of other properties of the apparatus when the apparatus is configured in a first subset of the plurality of configurations. A model is learned using the detected values of the constrained property. The model represents the constrained property and can also represent other properties as a function of the configurations. The model can also include estimated uncertainties of the constrained property in the model. Then, using the d model and the estimated uncertainties, the optimal configuration can be selected to minimize an error value (e.g., the difference between a desired value and an observed value of the at least one constrained property).

Hoffmann, Henry↗