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At least 1,063 records · Page 59

In Silico Guidance for In Vitro Androgen and Glucocorticoid Receptor ToxCast Assays

Molecular initiating events (MIEs) are key events in adverse outcome pathways (AOPs) that link molecular chemistry to target biology. As they are based in chemistry, these interactions are excellent targets for computational chemistry approaches to in silico modelling. In this work, we aim to link ligand chemical structure to MIEs for androgen receptor (AR) and glucocorticoid receptor (GR) binding using ToxCast data. This has been done using an automated computational algorithm to perform maximal common substructure searches on chemical binders for each target from the ToxCast dataset. The models developed show a high level of accuracy, correctly assigning 87.20% of AR binders and 96.81% of GR binders in a 25% test set using holdout cross-validation. The 2D structural alerts developed can be used as in silico models to predict these MIEs, and as guidance for in vitro ToxCast assays to confirm hits. These models can target such experimental work, reducing the number of assays to be performed to gain required toxicological insight. Development of these models has also allowed some structural alerts to be identified as predictors for agonist or antagonist behavior at the receptor target. This work represents a first step in using computational methods to guide and target experimental approaches.

Allen, Timothy H.↗

Scenario Discovery Analysis of Drivers of Solar and Wind Energy Transitions Through 2050

Deep human-Earth system uncertainties and strong multi-sector dynamics make it difficult to anticipate which conditions are most likely to lead to higher or lower adoption of renewable energy, and models project a broad range of future solar and wind energy shares across future scenarios. To elucidate these dynamics, we explore a large data set of scenarios simulated from the Global Change Analysis Model (GCAM) and use scenario discovery to identify the most significant factors affecting solar and wind adoption by mid-century. We generated a data set of over 4,000 scenarios from GCAM by varying 12 different socioeconomic factors at high and low levels, including assumptions about future energy demand, resource costs, and fossil fuel emissions paths, as well as specific technology assumptions including wind and solar backup requirements and storage costs. Using scenario discovery, we assess the most important factors globally and regionally in creating high fractions of solar and wind energy and explore interconnected effects on other systems including water and non-CO 2 emissions. Globally and regionally, we found that solar and wind-related technology costs were the primary drivers of high wind and solar energy adoption, though a few regions depend heavily on other parameters like carbon capture and storage costs, population and gross domestic product trajectories, and fossil fuel costs. We also identify four key paths to high solar and wind energy by mid-century and discuss their tradeoffs in terms of other outcomes.

14 SOLAR ENERGY↗

The many-body electronic interactions of Fe(II)–porphyrin

Fe(II)–porphyrin complexes exhibit a diverse range of electronic interactions between the metal and macrocycle. Herein, the incremental full configuration interaction method is applied to the entire space of valence orbitals of a Fe(II)–porphyrin model using a modest basis set. A novel visualization framework is proposed to analyze individual many-body contributions to the correlation energy, providing detailed maps of this complex’s highly correlated electronic structure. Furthermore, this technique is used to parse the numerous interactions of two low-lying triplet states ( 3 A 2 g and 3 E g ) and to show that strong metal d–d and macrocycle π–π orbital interactions preferentially stabilize the 3 A 2 g state. d–π interactions, on the other hand, preferentially stabilize the 3 E g state and primarily appear when correlating six electrons at a time. Ultimately, the Fe(II)–porphyrin model’s full set of 88 valence electrons are correlated in 275 orbitals, showing the interactions up to the 4-body level, which covers the great majority of correlations in this system.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Improved bound on nonlinear quantum mechanics using a cryogenic radio frequency experiment

There are strong arguments that quantum mechanics may be nonlinear in its dynamics. A discovery of nonlinearity would hint at a novel understanding of the interplay between gravity and quantum field theory, for example. As such, experiments searching for potential nonlinear effects in the electromagnetic sector are important. Here, in this study, we outline such an experiment, consisting of a stream of random bits (which were generated using Rigetti’s Aspen-M-3 chip) as input to an rf signal generator coupled to a cryogenic detector. Projective measurements of the qubit state, which is originally prepared in an equal superposition, serve as the random binary output of a signal generator. Thereafter, spectral analysis of the rf detector would yield a detectable excess signal predicted to arise from such a nonlinear effect. A comparison between the projective measurements of the quantum bits vs the classical baseline showed no power excess. This sets a new limit on the electromagnetic nonlinearity parameter |ε| ⪅ 1.15 x 10 -12 , at a 90.0% confidence level. This is the most stringent limit on nonlinear quantum mechanics thus far and an improvement by nearly a factor of 50 over the previous experimental limit.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Search for baryon and lepton number violating decays D → p ℓ

We search for the baryon and lepton number violating charm decays, D → p ℓ , where D is either a D 0 or a D ¯ 0 and ℓ is a muon or an electron, using a data sample of 921 fb − 1 collected by the Belle detector at the KEKB asymmetric energy e + e − collider. In the absence of significant signals, we set upper limits on the branching fractions in the range ( 5 – 8 ) × 10 − 7 at a 90% confidence level, depending on the decay mode. Published by the American Physical Society 2024

Astronomy & Astrophysics↗

Experimental Limit on Nonlinear State-Dependent Terms in Quantum Theory

Linear time evolution is one of the fundamental postulates of quantum theory. Past theoretical attempts to introduce nonlinearity into quantum evolution have violated causality. However, a recent theory has introduced nonlinear state-dependent terms in quantum field theory, preserving causality [D. E. Kaplan and S. Rajendran, Phys. Rev. D 105, 055002 (2022)]. We report the results of an experiment that searches for such terms. Our approach, inspired by the Everett many-worlds interpretation of quantum theory, correlates a binary macroscopic classical voltage with the outcome of a projective measurement of a quantum bit, prepared in a coherent superposition state. Measurement results are recorded in a bit string, which is used to control a voltage switch. Presence of a nonzero voltage reading in cases of no applied voltage is the experimental signature of a nonlinear state-dependent shift of the electromagnetic field operator. We implement blinded measurement and data analysis with three control bit strings. Control of systematic effects is realized by producing one of the control bit strings with a classical random-bit generator. The other two bit strings are generated by measurements performed on a superconducting qubit in an IBM Quantum processor and on a N 15 nuclear spin in a nitrogen-vacancy center in diamond. Our measurements find no evidence for electromagnetic quantum state-dependent nonlinearity. We set a bound on the parameter that quantifies this nonlinearity | ε γ | < 4.7 × 10 - 11 , at 90% confidence level.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

The Human Proteoform Project: Defining the human proteome

Proteins are the primary effectors of function in biology, and thus, complete knowledge of their structure and properties is fundamental to deciphering function in basic and translational research. The chemical diversity of proteins is expressed in their many proteoforms, which result from combinations of genetic polymorphisms, RNA splice variants, and posttranslational modifications. This knowledge is foundational for the biological complexes and networks that control biology yet remains largely unknown. We propose here an ambitious initiative to define the human proteome, that is, to generate a definitive reference set of the proteoforms produced from the genome. Several examples of the power and importance of proteoform-level knowledge in disease-based research are presented along with a call for improved technologies in a two-pronged strategy to the Human Proteoform Project.

59 BASIC BIOLOGICAL SCIENCES↗

SFAI and Related Technologies

Researchers at Los Alamos have developed Swept-Frequency Acoustic Interferometry (SFAI) a technology that enables businesses to have greater control over their industrial processes, allowing for significantly improved efficiency by giving operators vital composition and flow rate information in real-time. This technology fills the information gap by providing this data non-invasively and at a fraction of the cost of traditional composition meters. SFAI uses engineered ultrasound and advanced signal processing to characterize multiphase flow (e.g., liquids, gasses, multi-phase mixtures) and other flows inside sealed containers and flow pipes. By being both low-cost and non-invasive, this technology is set to disrupt the current oil field monitoring state-of-the-art by providing individual well-level composition data, compared to the multi-well macroscopic information that is currently available. We are seeking a commercialization partner to license the technology or fund us through a Cooperative Research and Development Agreement (CRADA) to a further develop a usable product for commercial purposes.

03 NATURAL GAS↗

High-dimensional Data-driven Energy optimization for Multi-Modal Transit Agencies (HD-EMMA) (Final Technical Report)

Public bus transit services in the U.S. are responsible for at least 19.7 million metric tons of CO 2 emission annually. Electric vehicles (EVs) can have a much lower environmental impact than comparable internal combustion engine vehicles (ICEVs), especially in urban areas. Unfortunately, EVs are also much more expensive than ICEVs. As a result, many public transit agencies can afford only mixed fleets of transit vehicles, consisting of EVs, hybrids (HEVs), and ICEVs. Transit agencies that operate such mixed fleets of vehicles face a challenging optimization problem: these agencies need to decide which vehicles are assigned to serving which transit trips. Since the advantage of EVs over ICEVs varies depending on the route and time of day (e.g., the benefit of EVs is higher in slower traffic with frequent stops and lower on highways), the assignment can have a significant effect on energy use and, hence, environmental impact. Through this project, we have developed reference data about energy collections and constructed a set of machine learning models that can accurately predict the energy consumption for the whole fleet at the level of each trip. We have used these models to develop a scheduling and assignment strategy that can rotate the different vehicle types across the transit agencies’ routes. The optimization algorithm ensures that the vehicles are matched to trips considering weather patterns, expected congestion, and road gradients to minimize the overall energy usage. We list the key observations from our project for other practitioners below. Details are available in the report, and the list of source code and our publications are included in the appendix. 1. We have demonstrated the feasibility of collecting, merging and analyzing large volumes of high-resolution real-world telemetry data from a mixed vehicle fleet. To mitigate the inherent noise of the recorded GPS points, the team developed an algorithm that filters data and maps the points onto a street. The algorithm considers previous and subsequent location measurements and different characteristics of nearby streets to determine how likely the vehicle travels on them. Then, the team segmented the time series into disjoint contiguous samples based on adjacent road segments and repeated the outlier detection and removal. For each data point, the team added features corresponding to elevation changes within the samples, weather features, such as temperature, and traffic data, such as speed ratio between actual speed and free-flow speed. 2. We have developed two forms of machine learning models that be used to understand and analyze the energy operations of a mixed vehicle transit fleet. The micro prediction model provides estimates of instantaneous energy prediction for all types of buses (diesel, hybrid, and electric). Such a model is important in evaluating the energy impacts of real-time bus operation strategies, but it is challenging due to diversified driving cycles of transit buses. The model can help the drivers understand the impact of their driving behaviors and short-term congestions. The macro prediction models estimate average energy consumption across the whole trip considering the features: distance traveled, various road-type features, elevation change, day of the week, time of day, various weather features (temperature, humidity, etc.), and traffic features (speed ratio and jam factor). 3. We have demonstrated that it is possible to transfer the machine learning models we have developed in this project to other teams and cities by using inductive transfer learning. We also showed that the performance of the macro energy prediction models can be improved using a multi-task learning approach where the learning parameters are shared between the models being developed for different vehicle types. The advantage of this approach is improved learning performance as the models can exploit common spatio-temporal and environmental characteristics. 4. Finally, we have developed trip and vehicle assignment and scheduling algorithms that use the energy prediction models and develop a trip to vehicle type (diesel, electric, hybrid) assignment for the whole operation to reduce overall emissions and cost. We have shown through simulations that the proposed algorithms can save $\$$ 48,910 in energy costs and 175 metric tons of CO 2 emission annually for CARTA.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗

High-Burnup BWR LOCA Burst Analysis Using High-Fidelity Multiphysics Simulations

The US nuclear industry is looking to improve on the operating economics of the current fleet of light-water reactors (LWRs). One way of achieving this is by operating fuel to higher burnup. In pressurized water reactors (PWRs), relaxing the current burnup limit will allow for cycle length extensions and power uprates; in boiling water reactors (BWRs) it may allow for improved fuel utilization and reduced feed assemblies, as well as more efficient power uprates and increased capacity factors that will support the Administration’s Executive Order to facilitate 5 GW of power uprates at existing nuclear facilities. However, one of the key limitations to operating fuel to higher burnup is the risk of fuel fragmentation, relocation, and dispersal (FFRD). Recognizing the high interest in extending burnup limits, the US Nuclear Regulatory Commission (NRC) has issued Draft Regulatory Guide DG-1434, which defines an approach that would be acceptable to the NRC for addressing FFRD risk. The approach defined will require better understanding of the phenomena leading to FFRD as well as best-estimate simulation methods to understand FFRD risk in high-burnup cores. The Nuclear Energy Advanced Modeling and Simulation program is supporting the FFRD industry challenge problem through development of state-of-the-art, high-fidelity modeling and simulation LWR analysis capabilities; namely, the BISON fuel performance code and the VERA core simulator software. These tools, along with the US NRC TRACE system analysis code, have been utilized for analysis of FFRD risk in both PWR and BWR cores in recent years. The work documented in this report addresses the lack of high-fidelity research for BWRs and builds on a previous activity where the framework has been applied to Cycles 16 through 18 of Limerick Unit 1, a BWR/4, with introduction of 8 high-burnup lead use assemblies (HBLUAs) that were representative of the 8 HBLUAs loaded into Limerick Unit 2 in 2021. VERA was used in this previous activity to model rod-by-rod depletion in these cycles, and its solution was used to initialize a TRACE simulation of a large-break loss-of-coolant accident (LBLOCA) at the end of Cycle 18. In the work documented in this report, the TRACE model was improved by refining the core mesh and utilizing a new feature that allows for capturing the full 3D VERA power distribution in the model. This allows for a more detailed solution for setting BISON boundary conditions. Furthermore, the solutions from VERA and TRACE were used to set up and perform BISON simulations of about 1,000 rods sampled from the core, including all burnup levels. Utilizing two cladding burst models, it was shown that no fuel rods were predicted to burst during the postulated LBLOCA transient. Additionally, a sensitivity study was performed by artificially increasing linear heat rate during the postulated LBLOCA to identify parameters that correlate with rod burst susceptibility. Burnup, fission gas release, and hoop strain were all found to be positively correlated with rod burst susceptibility. Small-break loss-of-coolant accident (SBLOCA) analyses were also performed; these analyses predicted cladding temperature increases that were bounded by the LBLOCA cladding temperatures for all small break sizes studied for this plant. However, future refinements to the plant response assumptions during the SBLOCA could impact the predicted cladding response. Finally, a benchmark study was performed between CTF and TRACE for LOCA conditions to better qualify CTF for BWR LOCA modeling.

22 GENERAL STUDIES OF NUCLEAR REACTORS↗

Towards a New μ→eγ Search with the MEG II Experiment: From Design to Commissioning

The MEG experiment represents the state of the art in the search for the Charged Lepton Flavour Violating μ + →e + γ decay. With its first phase of operations at the Paul Scherrer Institut (PSI), MEG set the most stringent upper limit on the BR (μ + →e + γ) ≤ 4.2×10 –13 at 90% confidence level, imposing one of the tightest constraints on models predicting LFV-enhancements through new physics beyond the Standard Model. An upgrade of the MEG experiment, MEG II, was designed and it is presently in the commissioning phase, aiming at a sensitivity level of 6×10 –14 . The MEG II experiment relies on a series of upgrades, which include an improvement of the photon detector resolutions, brand new detectors on the positron side with better acceptance, efficiency and performances and new and optimized trigger and DAQ electronics to exploit a muon beam intensity twice as high as that of MEG (7×10 7 μ + /s). This paper presents a complete overview of the MEG II experimental apparatus and the current status of the detector commissioning in view of the physics data taking in the upcoming three years.

79 ASTRONOMY AND ASTROPHYSICS↗

Threshold progressions in covering and packing contexts

Here, using standard methods (due to Janson, Stein–Chen, and Talagrand) from probabilistic combinatorics, we explore the following general theme: As one progresses from each member of a family of objects $\mathcal{A}$ being “covered” by at most one object in a random collection $\mathcal{C}$, to being covered at most λ times, to being covered at least once, to being covered at least λ times, a hierarchy of thresholds emerge. We will use examples from extremal set theory, combinatorics, and additive number theory to see how these results vary according to the context, and level of dependence introduced.

97 MATHEMATICS AND COMPUTING↗

Quantum simulation of $\phi^4$ theories in qudit systems

We discuss the implementation of quantum algorithms for lattice $\Phi^4$ theory on circuit quantum electrodynamics (cQED) system. The field is represented on qudits in a discretized field amplitude basis. The main advantage of qudit systems is that its multi-level characteristic allows the field interaction to be implemented only with diagonal single-qudit gates. Considering the set of universal gates formed by the single-qudit phase gate and the displacement gate, we address initial state preparation and single-qudit gate synthesis with variational methods.

Kurkcuoglu, Doga Murat↗

Relativistic configuration-interaction and many-body-perturbation-theory calculations of U i hyperfine constants

Neutral uranium (U i) is a very difficult atom for theoretical calculations due to a large number (six) of valence electrons, strong valence-valence and valence-core correlations, high density of states, and relativistic effects. Configuration-interaction many-body perturbation theory (CI-MBPT) can efficiently treat valence-core correlations and relativistic effects, but because the formalism was developed for a Dirac-Hartree-Fock (DHF) starting potential that does not contain valence electrons, quite large CI space is needed to compensate for the + 6 charge of such a potential. Much more efficient is the relativistic configuration-interaction (RCI) approach, which uses a relatively accurate starting DHF potential that includes some valence electrons to make the valence-electron Hamiltonian diagonally dominated for some states. Here we report calculations of U i hyperfine constants of several low-energy states using the RCI method with the starting potential that includes four f valence electrons. With this starting potential, it is possible to use the single-configuration approximation or small basis sets to obtain quite accurate results for hyperfine-structure constants. In fact, by scaling the nuclear magnetic moment, the agreement for five levels was within 5% and a new magnetic moment can be recommended, 0.43(2). When two states are mixed, it is difficult to predict the exact mixing fractions, so in this case we proposed a method in which the mixing fraction is found by optimization of one parameter in the MBPT correction to obtain correct g factors. The resulting hyperfine constants are significantly improved. Finally, the CI-MBPT approach was also tested, with some success for low-energy states, with the limited basis set. The methods investigated here can be further developed to include more extensive data sets to improve accuracy and can be applied to other atoms and for calculations of other properties, for example, relevant to fundamental symmetry tests.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

Optimal Client Sampling in Federated Learning with Client-level Heterogeneous Differential Privacy

Federated Learning with client-level differential privacy (DP) provides a promising framework for collaboratively training models while rigorously protecting clients’ privacy. However, classic approaches like DP-FedAvg struggle when clients have heterogeneous privacy requirements, as they must uniformly enforce the strictest privacy level across all clients, leading to excessive DP noise and significant degradation in model utility. Existing methods to improve the model utility in such heterogeneous privacy settings often assume a trusted server and are largely heuristic, resulting in suboptimal performance and lacking strong theoretical foundations. Here, in this work, we address these challenges under a practical attack model where both clients and the server are honest-but-curious. We propose GDPFed, which partitions clients into groups based on their privacy budgets and achieves client-level DP within each group to reduce the privacy budget waste and hence improve the model utility. Based on the privacy and convergence analysis of GDPFed, we find that the magnitude of DP noise depends on both model dimensionality and the per-group client sampling ratios. To further improve the performance of GDPFed, we introduce GDPFed+, which integrates model sparsification to eliminate unnecessary noise and optimizes per-group client sampling ratios to minimize convergence error. Extensive empirical evaluations on multiple benchmark datasets demonstrate the effectiveness of GDPFed+, showing substantial performance gains compared with state-of-the-art methods.

Xu, Jiahao [Univ. of Nevada, Reno, NV (United Stat↗

Non-Gaussian estimates of tensions in cosmological parameters

We discuss how to efficiently and reliably estimate the level of agreement and disagreement on parameter determinations from different experiments, fully taking into account non-Gaussianities in the parameter posteriors. We develop two families of scalable algorithms that allow us to perform this type of calculations in increasing number of dimensions and for different levels of tensions. One family of algorithms rely on kernel density estimates of posterior distributions while the other relies on machine learning modeling of the posterior distribution with normalizing flows. We showcase their effectiveness and accuracy with a set of benchmark examples and find both methods agree with each other and the true tension within 0.5σ in difficult cases and generally to 0.2σ or better. This allows us to study the level of internal agreement between different measurements of the clustering of cosmological structures from the Dark Energy Survey and their agreement with measurements of the Cosmic Microwave Background from the Planck satellite.

79 ASTRONOMY AND ASTROPHYSICS↗

Transfer Learning using Denoising Auto-Encoders for Cellular-Level Annotation of Tumor in Pathology Slides

Adversarial examples can produce altered classifications using only seemingly innocuous, imperceptible perturbations to the original image. The imperceptibility of adversarial perturbations suggests that the corresponding classifiers use decision criteria different than those of a human. In a medical setting, inexplicable decision criteria confound a pathologist’s willingness to trust machine-generated annotations. Here, we analyze denoising tumor detection models to see if they are robust to imperceptible adversarial perturbations. Moreover, to be more fully trusted by pathologists, we require tumor detectors that generate interpretable annotations which segment pathology slides into tumorous and normal regions at the cellular level. We therefore compare transfer learning based on two different autoencoder architectures, one derived from a deep denoising bottleneck autoencoder and one from an over-complete sparse autoencoder. Both autoencoders were first trained in an unsupervised manner on a set of pathology slides drawn from the Camelyon16 dataset. The latent representations produced by each autoencoder were then passed to separate neural networks that were trained in a supervised manner on binary tumor-normal masks generated by pathologists at cellular resolution. Both tumor detectors supported better than 90% AUC PR as measured by the area under the precision/recall curve on a held-out pathology slide. To assess the underlying decision criteria used by both tumor detectors, we constructed imperceptible adversarial examples which reduced the AUC PR of both models to less than 70%. Random noise of the same amplitude had almost no effect on the AUC PR of either model. Additionally, each tumor detector was resistant to adversarial “transfer” attacks targeting the other. The adversarial perturbations showed strong characteristic differences: the deep denoising models perturbations were a very diffuse, seemingly unrecognizable pattern while the sparse coding models perturbations showed traces of tissue cells.

47 OTHER INSTRUMENTATION↗

The Challenges of Air Monitoring at a Soil Remediation Project in a Suburban Setting - 20448

Air monitoring during soil excavation at a chemically and radiologically impacted site in a suburban setting presents unique challenges. Site activities were conducted in a manner that minimized the release of airborne particulates of concern, principally radionuclides of concern (ROC). Dust and air monitoring were performed to ensure the public was not being exposed to the soil contaminants. The project team collected representative air and dust data while being mindful to not impose on the lives of residents in the area. Due to the close proximity to the public, there was a high level of oversight from the client and regulatory agencies. The challenges involved with air sampling at this soil remediation site located in a suburban setting included the number of contaminants, the ranges of risks and hazards presented by the contaminants and the method of remediation, the concerns of the regulators and the public, and the perception of risk from the public. (authors)

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗