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At least 37 records · Page 2

Protein folding from heterogeneous unfolded state revealed by time-resolved X-ray solution scattering

One of the most challenging tasks in biological science is to understand how a protein folds. In theoretical studies, the hypothesis adopting a funnel-like free-energy landscape has been recognized as a prominent scheme for explaining protein folding in views of both internal energy and conformational heterogeneity of a protein. Despite numerous experimental efforts, however, comprehensively studying protein folding with respect to its global conformational changes in conjunction with the heterogeneity has been elusive. Here we investigate the redox-coupled folding dynamics of equine heart cytochrome c (cyt-c) induced by external electron injection by using time-resolved X-ray solution scattering. A systematic kinetic analysis unveils a kinetic model for its folding with a stretched exponential behavior during the transition toward the folded state. With the aid of the ensemble optimization method combined with molecular dynamics simulations, we found that during the folding the heterogeneously populated ensemble of the unfolded state is converted to a narrowly populated ensemble of folded conformations. These observations obtained from the kinetic and the structural analyses of X-ray scattering data reveal that the folding dynamics of cyt-c accompanies many parallel pathways associated with the heterogeneously populated ensemble of unfolded conformations, resulting in the stretched exponential kinetics at room temperature. This finding provides direct evidence with a view to microscopic protein conformations that the cyt-c folding initiates from a highly heterogeneous unfolded state, passes through still diverse intermediate structures, and reaches structural homogeneity by arriving at the folded state.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Tensor decompositions for count data that leverage stochastic and deterministic optimization

There is growing interest to extend low-rank matrix decompositions to multi-way arrays, or tensors. One fundamental low-rank tensor decomposition is the canonical polyadic decomposition (CPD). The challenge of fitting a low-rank, nonnegative CPD model to Poisson-distributed count data is of particular interest. Several popular algorithms use local search methods to approximate the maximum likelihood estimator (MLE) of the Poisson CPD model. Here, this work presents two new algorithms that extend state-of-the-art local methods for Poisson CPD. Hybrid GCP-CPAPR combines Generalized Canonical Decomposition (GCP) with stochastic optimization and CP Alternating Poisson Regression (CPAPR), a deterministic algorithm, to increase the probability of converging to the MLE over either method used alone. Restarted CPAPR with SVDrop uses a heuristic based on the singular values of the CPD model unfoldings to identify convergence toward optimizers that are not the MLE and restarts within the feasible domain of the optimization problem, thus reducing overall computational cost when using a multi-start strategy. We provide empirical evidence that indicates our approaches outperform existing methods with respect to converging to the Poisson CPD MLE.

CPAPR↗

Generative unfolding with distribution mapping

Machine learning enables unbinned, highly-differential cross section measurements. A recent idea uses generative models to morph a starting simulation into the unfolded data. We show how to extend two morphing techniques, Schrödinger Bridges and Direct Diffusion, in order to ensure that the models learn the correct conditional probabilities. This brings distribution mapping (DM) to a similar level of accuracy as the state-of-the-art conditional generative unfolding methods. Numerical results are presented with a standard benchmark dataset of single jet substructure as well as for a new dataset describing a 22-dimensional phase space of Z+2 -jets.

Butter, Anja↗

Characterizing and Mitigating Intraday Variability: Reconstructing Source Structure in Accreting Black Holes with mm-VLBI

The extraordinary physical resolution afforded by the Event Horizon Telescope has opened a window onto the astrophysical phenomena unfolding on horizon scales in two known black holes, M87* and Sgr A*. However, with this leap in resolution has come a new set of practical complications. Sgr A* exhibits intraday variability that violates the assumptions underlying Earth aperture synthesis, limiting traditional image reconstruction methods to short timescales and data sets with very sparse (u, v) coverage. We present a new set of tools to detect and mitigate this variability. We develop a data-driven, model-agnostic procedure to detect and characterize the spatial structure of intraday variability. This method is calibrated against a large set of mock data sets, producing an empirical estimator of the spatial power spectrum of the brightness fluctuations. We present a novel Bayesian noise modeling algorithm that simultaneously reconstructs an average image and statistical measure of the fluctuations about it using a parameterized form for the excess variance in the complex visibilities not otherwise explained by the statistical errors. These methods are validated using a variety of simulated data, including general relativistic magnetohydrodynamic simulations appropriate for Sgr A* and M87*. We find that the reconstructed source structure and variability are robust to changes in the underlying image model. We apply these methods to the 2017 EHT observations of M87*, finding evidence for variability across the EHT observing campaign. The variability mitigation strategies presented are widely applicable to very long baseline interferometry observations of variable sources generally, for which they provide a data-informed averaging procedure and natural characterization of inter-epoch image consistency.

79 ASTRONOMY AND ASTROPHYSICS↗

Moment extraction using an unfolding protocol without binning

Deconvolving (“unfolding”) detector distortions is a critical step in the comparison of cross-section measurements with theoretical predictions in particle and nuclear physics. However, most existing approaches require histogram binning while many theoretical predictions are at the level of statistical moments. We develop a new approach to directly unfold distribution moments as a function of another observable without having to first discretize the data. Our moment unfolding technique uses machine learning and is inspired by Boltzmann weight factors and generative adversarial networks (GANs). We demonstrate the performance of this approach using jet substructure measurements in collider physics. With this illustrative example, we find that our moment unfolding protocol is more precise than bin-based approaches and is as or more precise than completely unbinned methods.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

, Experimental Investigation of Electrically Charged Water Droplets Two-Phase Cross-Flow Interactions with Humid

Electrically charged water droplets can capture water vapor molecules in surrounding moist air and promote vapor condensation. This concept unfolds an alternative to mechanical cooling-based air dehumidification systems that separate sensible and latent cooling loads in HVAC applications. The effect of dielectrophoresis, electro-hydrodynamic, and micro-diffusive flows due to highly electrically charged water droplets traveling through moist air were investigated as new methods to reduce the air’s water vapor content. This paper presents new experimental data on humidification and power consumption for a system consisting of highly energized electrosprays in combination with mist eliminators. Electrosprays produced highly charged water spray cones crossing the air perpendicularly and upwardly. The moist air stream was circulated in a horizontal duct at 22C, 80% relative humidity, and 0.24 ms-1 airspeed. Mist eliminators made of stainless wire clothes of 36 and 25 μm pore diameter were used to screen the droplets growing during their flight trajectory. The mist eliminators blocked some of the largest diameter droplets. Still, they could not prevent re-evaporation of the droplets into the bulk air from the droplets deposited on their wire clothes. The equilibrium between the dielectrophoresis condensation from the electrosprays and the droplets’ re-evaporation phenomena resulted in reduced humidification when compared to conventional-type spray evaporative cooling systems. However, to dehumidify the air, the droplets injected by the electrosprays must be separated entirely and promptly removed from the bulk airflow at the end of their flight trajectory.

Electrostatic droplets, Electrospray, humidificati↗

Machine learning assisted unfolding for neutrino cross-section measurements with the OmniFold technique

The choice of unfolding method for a cross-section measurement is tightly coupled to the model dependence of the efficiency correction and the overall impact of cross-section modeling uncertainties in the analysis. A key issue is the dimensionality used in unfolding, as the kinematics of all outgoing particles in an event typically affect the reconstruction performance in a neutrino detector. OmniFold is an unfolding method that iteratively reweights a simulated dataset, using machine learning to utilize arbitrarily high-dimensional information, that has previously been applied to proton-proton and proton-electron datasets. This paper demonstrates OmniFold’s application to a neutrino cross-section measurement for the first time using a public T2K near detector simulated dataset, comparing its performance with traditional approaches using a mock data study.

Machine learning↗

Improving generative model-based unfolding with Schrödinger bridges

Machine learning-based unfolding has enabled unbinned and high-dimensional differential cross section measurements. Two main approaches have emerged in this research area; one based on discriminative models and one based on generative models. The main advantage of discriminative models is that they learn a small correction to a starting simulation while generative models scale better to regions of phase space with little data. We propose to use Schrödinger bridges and diffusion models to create , an unfolding approach that combines the strengths of both discriminative and generative models. The key feature of is that its generative model maps one set of events into another without having to go through a known probability density as is the case for normalizing flows and standard diffusion models. We show that achieves excellent performance compared to state of the art methods on a synthetic Z + jets dataset. Published by the American Physical Society 2024

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Barriers and Opportunities for Energy Technology Adoption in Juneau, Alaska

This report presents findings from a qualitative study examining barriers and opportunities for air source heat pump (ASHP) and electric vehicle (EV) adoption in Juneau, Alaska, with a particular focus on manufactured and multifamily housing. The analysis draws on community insights from end users and middle actors to better understand how technology adoption unfolds in contexts with distinct logistical, infrastructural, and housing constraints. The report is organized according to key barriers and opportunities identified through stakeholder input, providing a structured understanding of adoption dynamics across technologies and housing types. These insights are intended to inform program design and support more effective electrification strategies tailored to local conditions. The study team employed qualitative methods to capture both in-depth and high-level perspectives on technology adoption. Data collection included: 1) two 2-hour focus groups with a total of five end users and seven middle actors, enabling detailed and structured discussion and 2) ten semistructured interviews with manufactured home owners, multifamily landlords, and one tenant, providing complementary insights across housing contexts. Focus groups captured accounts of shared challenges and opportunities while interviews offered more concise reflections on individual experiences. Together, these methods enabled a more comprehensive understanding of both systemic barriers and lived experiences with ASHPs and EVs. The findings reveal that adoption of electrification technologies is shaped by a combination of economic, logistical, and informational factors that vary across housing types, technology characteristics, user groups, and other demographic factors. Addressing these factors requires tailored strategies that reflect local conditions and user experiences. The insights in this report can provide a foundation for organizations such as AEL&P to refine program design, support more effective outreach, and anticipate shifts in energy demand associated with increased electrification. More broadly, the study highlights the importance of incorporating community perspectives when developing electrification initiatives to ensure they are both practical and responsive to real-world constraints.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗

Real-time tracking of protein unfolding with time-resolved x-ray solution scattering

The correct folding of proteins is of paramount importance for their function, and protein misfolding is believed to be the primary cause of a wide range of diseases. Protein folding has been investigated with time-averaged methods and time-resolved spectroscopy, but observing the structural dynamics of the unfolding process in real-time is challenging. Here, we demonstrate an approach to directly reveal the structural changes in the unfolding reaction. We use nano- to millisecond time-resolved x-ray solution scattering to probe the unfolding of apomyoglobin. The unfolding reaction was triggered using a temperature jump, which was induced by a nanosecond laser pulse. We demonstrate a new strategy to interpret time-resolved x-ray solution scattering data, which evaluates ensembles of structures obtained from molecular dynamics simulations. We find that apomyoglobin passes three states when unfolding, which we characterize as native, molten globule, and unfolded. The molten globule dominates the population under the conditions investigated herein, whereas native and unfolded structures primarily contribute before the laser jump and 30 μs after it, respectively. The molten globule retains much of the native structure but shows a dynamic pattern of inter-residue contacts. Our study demonstrates a new strategy to directly observe structural changes over the cause of the unfolding reaction, providing time- and spatially resolved atomic details of the folding mechanism of globular proteins.

59 BASIC BIOLOGICAL SCIENCES↗

Results from the last DD and DT JET campaigns in the framework of the EUROfusion Tokamak Exploitation Work Package activity

JET, the only tokamak capable of operating with deuterium–tritium (D–T) fuel (since TFTR was shutdown in 1999), has provided essential experimental data to support ITER and DEMO design and operation. Within the EUROfusion Tokamak Exploitation Work Package, JET completed its final campaigns (2022–2023), culminating in the third D–T campaign (DTE3). These experiments addressed key challenges in plasma scenarios, exhaust control, and tritium management under reactor-relevant conditions. Significant progress was achieved in demonstrating ITER-like integrated scenarios with impurity seeding, achieving partial divertor detachment and high confinement ($H_{98}(y,2)$ ≈ 0.85) at 3 MA in D–T plasmas. Advanced exhaust regimes such as quasi-continuous exhaust (QCE) and X-point radiator (XPR) were successfully achieved first in D–D and then extended to D–T operation, confirming their relevance for mixed isotope operation. Operational milestones included a new world record of 69 MJ fusion energy in tritium-rich hybrid plasmas and long-pulse H-mode operation up to 60 s, contributing with unique data to the CICLOP database. Physics studies focused on peeling-limited pedestals in support of ITER and improved understanding of edge stability and impurity screening in metallic environments. Extensive usage of the shattered pellet injector (SPI) on JET provided critical information for the design of the ITER disruption mitigation system (DMS). Real-time control systems for D/T ratio control and plasma exhaust were deployed and demonstrated in D–D and D–T, while energetic particle physics investigations unfolded the role of fast ions in turbulence suppression mechanisms. Comprehensive tritium retention studies using gas balance method, post-mortem analysis, and ITER-relevant laser induced desorption spectroscopy (LIDS) diagnostics provided essential input for tritium accountancy strategies. These results are validating the ITER operational concepts, inform DEMO design, and deliver critical experience in nuclear operation and scenario integration.

disruptions↗

Meas. K+ -Ar Total Inelastic Cross Section at ProtoDUNE-SP

ProtoDUNE-SP is a single-phase liquid argon time projection chamber that took hadron test beam data in 2018. The test beam included positively charged kaons with test beam momenta of 6 GeV/c and 7 GeV/c, providing a sample to study kaons to benefit future DUNE proton decay and neutrino interaction studies with kaons in the final state. The total inelastic cross section of a positively charged kaon was measured at these test beam settings using the LArIAT thin-slice method of dividing the wires of the time projection chamber into target slices for calculating the cross section, which leverages the monolithic quality of liquid argon detectors. A Bayesian-like unfolding method using RooUnfold was applied to both the incident and interacting slice distributions to measure the cross sections at both test beam momenta. The talk will discuss the method of unfolding, optimization studies for unfolding, and applying systematic uncertainties using a LArIAT-style hadronic cross section using unfolding to extract a kaon total inelastic cross section.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Spatially Resolved Mass Spectrometry at the Single Cell: Recent Innovations in Proteomics and Metabolomics

Biological systems are composed of heterogeneous populations of cells that intercommunicate to form a functional living tissue. Biological function varies greatly across populations of cells, as each single cell has a unique transcriptome, proteome, and metabolome that translates to functional differences within single species and across kingdoms. Over the past decade, substantial advancements in our ability to characterize omic profiles on a single cell level have occurred, including in multiple spectroscopic and mass spectrometry (MS)-based techniques. Of these technologies, spatially resolved mass spectrometry approaches, including mass spectrometry imaging (MSI), have shown the most progress for single cell proteomics and metabolomics. For example, reporter-based methods using heavy metal tags have allowed for targeted MS investigation of the proteome at the subcellular level, and development of technologies such as laser ablation electrospray ionization mass spectrometry (LAESI-MS) now mean that dynamic metabolomics can be performed in situ. In this Perspective, we showcase advancements in single cell spatial metabolomics and proteomics over the past decade and highlight important aspects related to high-throughput screening, data analysis, and more which are vital to the success of achieving proteomic and metabolomic profiling at the single cell scale. Finally, using this broad literature summary, we provide a perspective on how the next decade may unfold in the area of single cell MS-based proteomics and metabolomics.

59 BASIC BIOLOGICAL SCIENCES↗

Neutron Leakage Spectra Sensitivities for ICSBEP Benchmarks

Neutron leakage spectra have been measured, simulated, and investigated by many groups. These spectra have many uses, including determining shielding requirements and calculating dose for radiation protection purposes, validating nuclear data, and determining material composition. It has even been proposed to use measurements of neutron leakage spectra to determine the soil composition of Mars. As part of the Los Alamos National Laboratory (LANL) Experiments Underpinned by Computational Learning for Improvements in nuclear Data (EUCLID) Laboratory Directed Research Development (LDRD) project, the authors are working on developing methods to calculate sensitivities to neutron leakage spectra. This may allow nuclear data evaluators to better use neutron leakage spectra data to constrain or adjust nuclear data. This may also be particularly useful as many neutron leakage spectra measurements do not require fissile material and can be performed with well characterized neutron sources. Neutron leakage spectra measurements are usually performed by placing a detector at the outside of a nuclear system. This may be a reactor, a neutron generator, or a neutron source. Certain detection systems can use pulse height data to infer neutron energies, other detector systems rely on other ways of determining neutron energy (for example, a Bonner sphere with multiple moderator thicknesses can be used to measure neutron spectrum). These measurements typically rely on some unfolding of the measured results. For pulsed systems like the "Livermore Pulsed Spheres," time-of-flight information can also help to constrain the neutron energy spectra data.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

Data Augmentation for Neutron Spectrum Unfolding with Neural Networks

Neural networks require a large quantity of training spectra and detector responses in order to learn to solve the inverse problem of neutron spectrum unfolding. In addition, due to the under-determined nature of unfolding, non-physical spectra which would not be encountered in usage should not be included in the training set. While physically realistic training spectra are commonly determined experimentally or generated through Monte Carlo simulation, this can become prohibitively expensive when considering the quantity of spectra needed to effectively train an unfolding network. In this paper, we present three algorithms for the generation of large quantities of realistic and physically motivated neutron energy spectra. Using an IAEA compendium of 251 spectra, we compare the unfolding performance of neural networks trained on spectra from these algorithms, when unfolding real-world spectra, to two baselines. We also investigate general methods for evaluating the performance of and optimizing feature engineering algorithms.

McGreivy, James (ORCID:0000000321723411)↗

Inclusive search for highly boosted Higgs bosons decaying to bottom quark-antiquark pairs in proton-proton collisions at $\sqrt{s} =$ 13 TeV

A search for standard model Higgs bosons (H) produced with transverse momentum (p$_{T}$) greater than 450 GeV and decaying to bottom quark-antiquark pairs ($ \mathrm{b}\overline{\mathrm{b}} $) is performed using proton-proton collision data collected by the CMS experiment at the LHC at $ \sqrt{s} $ = 13 TeV. The data sample corresponds to an integrated luminosity of 137 fb$^{−1}$. The search is inclusive in the Higgs boson production mode. Highly Lorentz-boosted Higgs bosons decaying to $ \mathrm{b}\overline{\mathrm{b}} $ are reconstructed as single large-radius jets, and are identified using jet substructure and a dedicated b tagging technique based on a deep neural network. The method is validated with Z →$ \mathrm{b}\overline{\mathrm{b}} $ decays. For a Higgs boson mass of 125 GeV, an excess of events above the background assuming no Higgs boson production is observed with a local significance of 2.5 standard deviations (σ), while the expectation is 0.7. The corresponding signal strength and local significance with respect to the standard model expectation are μ$_{H}$ = 3.7 ± 1.2(stat)$ {}_{-0.7}^{+0.8} $(syst)$ {}_{-0.5}^{+0.8} $(theo) and 1.9 σ. Additionally, an unfolded differential cross section as a function of Higgs boson p$_{T}$ for the gluon fusion production mode is presented, assuming the other production modes occur at the expected rates.[graphic not available: see fulltext]

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Robust Group Subspace Recovery: A New Approach for Multi-Modality Data Fusion

Robust Subspace Recovery (RoSuRe) algorithm was recently introduced as a principled and numerically efficient algorithm that unfolds underlying Unions of Subspaces (UoS) structure, present in the data. The union of Subspaces (UoS) is capable of identifying more complex trends in data sets than simple linear models. In this work, we build on and extend RoSuRe to prospect the structure of different data modalities individually. We propose a novel multi-modal data fusion approach based on group sparsity which we refer to as Robust Group Subspace Recovery (RoGSuRe). Relying on a bi-sparsity pursuit paradigm and non-smooth optimization techniques, the introduced framework learns a new joint representation of the time series from different data modalities, respecting an underlying UoS model. We subsequently integrate the obtained structures to form a unified subspace structure. The proposed approach exploits the structural dependencies between the different modalities data to cluster the associated target objects. The resulting fusion of the unlabeled sensors’ data from experiments on audio and magnetic data has shown that our method is competitive with other state of the art subspace clustering methods. The resulting UoS structure is employed to classify newly observed data points, highlighting the abstraction capacity of the proposed method.

47 OTHER INSTRUMENTATION↗

Measurement of photonuclear jet production in ultraperipheral Pb + Pb collisions at $\sqrt{s_{NN}}$ = 5.02 TeV with the ATLAS detector

In ultrarelativistic heavy ion collisions at the LHC, each nucleus acts a sources of high-energy real photons that can scatter off the opposing nucleus in ultraperipheral photonuclear (𝛾 + 𝐴) collisions. Hard scattering processes initiated by the photons in such collisions provide a novel method for probing nuclear parton distributions in a kinematic region not easily accessible to other measurements. ATLAS has measured production of dijet and multijet final states in ultraperipheral Pb + Pb collisions at $\sqrt{s_{NN}}$ = 5.02 TeV using a dataset recorded in 2018 with an integrated luminosity of 1.72 nb −1 . Photonuclear final states are selected by requiring a rapidity gap in the photon direction; this selects events where one of the outgoing nuclei remains intact. Jets are reconstructed using the anti-𝑘 t algorithm with radius parameter, 𝑅 = 0.4. Triple-differential cross sections, unfolded for detector response, are measured and presented using two sets of kinematic variables. The first set consists of the total transverse momentum (𝐻 T ), rapidity, and mass of the jet system. The second set uses 𝐻 T and particle-level nuclear and photon parton momentum fractions, 𝑥 A and 𝑧 𝛾 , respectively. The results are compared with leading-order perturbative QCD calculations of photonuclear jet production cross sections, where all leading order predictions using existing fits fall below the data in the shadowing region. More detailed theoretical comparisons will allow these results to strongly constrain nuclear parton distributions, and these data provide results from the LHC directly comparable to early physics results at the planned Electron-Ion Collider.

Parton distribution functions↗