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At least 145 records · Page 8

Combining physics-based and data-driven models for quantitatively accurate plasma profile prediction that extrapolates well; with application to DIII-D, AUG, and ITER tokamaks

For design, scenario planning, and control, ITER and all other envisioned tokamaks rely on a variety of statistical and physics-based models to extrapolate to unseen regimes; most notably from low plasma current to high. A 'meta-learning' methodology for combining the accuracy of data-driven models with the generalizability of physics-based models is described and tested, yielding a 5–10 percent improvement in performance beyond either alone for the task of extrapolating time-dependent plasma profile prediction from low- to high- plasma current DIII-D tokamak discharges. Meanwhile, it is shown that both machine learning models extrapolated far-distribution and state-of-the-art 'physics-based' profile predictors fare worse than merely assuming plasma profiles do not change from their initial values. Finally, a variety of other mechanisms for helping data-driven models generalize—transfer learning, adding contextual information from physics simulators, and adding data from the ASDEX Upgrade tokamak—are attempted for similar extrapolation tasks but, in the methodology used in this paper, yield no significant improvement beyond simple data-driven models. Results are summarized in figures 15 and 16.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

A quantitative comparison between velocity dependent SIDM cross-sections constrained by the gravothermal and isothermal models

One necessary step for probing the nature of self-interacting dark matter (SIDM) particles with astrophysical observations is to pin down any possible velocity dependence in the SIDM cross-section. Major challenges for achieving this goal include eliminating, or mitigating, the impact of the baryonic components and tidal effects within the dark matter halos of interest – the effects of these processes can be highly degenerate with those of dark matter self-interactions at small scales. In this work, we select 9 isolated galaxies and brightest cluster galaxies (BCGs) with baryonic components small enough such that the baryonic gravitational potentials do not significantly influence the halo gravothermal evolution processes. We then constrain the parameters of Rutherford and Møller scattering cross-section models with the measured rotation curves and stellar kinematics through the gravothermal fluid formalism and isothermal method. Cross-sections constrained by the two methods are consistent at $1\sigma$ confidence level, but the isothermal method prefers cross-sections greater than the gravothermal approach constraints by a factor of ~ 3.

79 ASTRONOMY AND ASTROPHYSICS↗

Quantitative proteomics reveals extensive lysine ubiquitination and transcription factor stability states in Arabidopsis

Abstract Protein activity, abundance, and stability can be regulated by post-translational modification including ubiquitination. Ubiquitination is conserved among eukaryotes and plays a central role in modulating cellular function; yet, we lack comprehensive catalogs of proteins that are modified by ubiquitin in plants. In this study, we describe an antibody-based approach to enrich ubiquitinated peptides coupled with isobaric labeling to enable quantification of up to 18-multiplexed samples. This approach identified 17,940 ubiquitinated lysine sites arising from 6,453 proteins from Arabidopsis (Arabidopsis thaliana) primary roots, seedlings, and rosette leaves. Gene ontology analysis indicated that ubiquitinated proteins are associated with numerous biological processes including hormone signaling, plant defense, protein homeostasis, and metabolism. We determined ubiquitinated lysine residues that directly regulate the stability of three transcription factors, CRYPTOCHROME-INTERACTING BASIC-HELIX-LOOP-HELIX 1 (CIB1), CIB1 LIKE PROTEIN 2 (CIL2), and SENSITIVE TO PROTON RHIZOTOXICITY1 (STOP1) using in vivo degradation assays. Furthermore, codon mutation of CIB1 to create a K166R conversion to prevent ubiquitination, via CRISPR/Cas9-derived adenosine base editing, led to an early flowering phenotype and increased expression of FLOWERING LOCUS T (FT). These comprehensive site-level ubiquitinome profiles provide a wealth of data for future functional studies related to modulation of biological processes mediated by this post-translational modification in plants.

Biochemistry & Molecular Biology↗

Quantitative analysis of zonal flow influence on turbulent plasmas driven by trapped electrons

The role of zonal flow (ZF) in the turbulence saturation of trapped electron modes (TEM) in magnetically confined plasmas is revisited. Here, in this study, we examine ZF excitation and saturation mechanisms in TEM turbulence using detailed free-energy transfer diagnostics from nonlinear gyrokinetic simulations. When the ion channel becomes subdominant, electrons shift to transferring energy to the zonal component, which results in zonal flows always playing a significant though subdominant role, in the case of the temperature gradient driven TEM. The velocity-space structure of energy transfer reveals that trapped electrons directly couple to ZF. Regarding the saturation physics, the zonal flow advection, drift-wave–drift-wave interactions, and stable modes at the pump waves are compared. When ZF saturation is weak, drift-wave–drift-wave interactions play a larger role in maintaining turbulence saturation. The findings elucidate the roles of nonzonal to zonal flow coupling, stable modes, and nonzonal wave-wave interactions, and provide a basis for improving reduced models of turbulent transport.

Song, Jiheon [Hanyang University, Seoul (Korea, Re↗

Primordial black hole dark matter: A quantitative parameter sensitivity comparison across formation mechanisms and particle candidates

Primordial black holes (PBHs) in the asteroid-mass window ( 10 17 – 10 22 g ) can account for all of the dark matter without violating any observational constraint, yet are routinely dismissed as fine-tuned. I put that dismissal to the test by applying three complementary sensitivity measures uniformly across a broad landscape: three noninflationary PBH production mechanisms, six classes of inflationary PBH models, and seven particle dark matter benchmarks, all evaluated against the same observable target. Three distinct naturalness universality classes emerge, determined entirely by the analytic structure of the abundance map rather than by the nature of the dark matter candidate. Biased-domain-wall PBHs, in their least model-dependent (free- V b ) form, have the same low sensitivity, Δ = 4.5 , as off-resonance weakly interacting massive particles and freeze-in particles ( Δ = 2 ), a sensitivity that, because it is constant over the entire parameter space of the construction, also coincides trivially with its own Wilson-normalized average within that parameter space (Section Definition and conventions), an equivalence that concerns only the space over which Δ is computed and is not a naturalness statement about the construction as a whole; a further reduction to Δ = 2 is possible only under the additional, independently motivated but not required, assumption that the domain-wall bias is generated by Planck-suppressed operators; early matter-domination PBHs occupy an intermediate tier alongside coannihilating weakly interacting massive particles (WIMPs), unified by a structural identity in which the sensitivity measure equals the logarithm of the ratio of the formation scale to the matter–radiation equality scale; first-order phase transition PBHs, once the more accurate super-exponential collapse probability is used in place of the single-exponential approximation, instead belong to the same highly sensitive tier as resonant WIMP annihilation and single-field inflationary collapse, for a structurally distinct reason; single-field ultraslow-roll inflationary collapse is severely tuned for a distinct reason: a double exponential in which the power spectrum amplitude is itself exponentially sensitive to the inflaton potential coefficients, on top of the exponential collapse sensitivity of the abundance map. My main conclusion is that the claim that PBH dark matter is generically fine-tuned conflates the worst case with a landscape spanning every naturalness tier. The Barbieri-Giudice sensitivity computed here and the Wilson-normalized measure of Iovino and Riotto answer distinct and mutually consistent questions about the same construction, a distinction I clarify within the two-layer decomposition.

Profumo, Stefano [University of California, Santa ↗

Quantitative approaches for multiscale structural analysis with atomic resolution electron microscopy

Atomic-resolution imaging with scanning transmission electron microscopy is a powerful tool for characterizing the nanoscale structure of materials, in particular features such as defects, local strains, and symmetry-breaking distortions. In addition to advanced instrumentation, the effectiveness of the technique depends on computational image analysis to extract meaningful features from complex datasets recorded in experiments, which can be complicated by the presence of noise and artifacts, small or overlapping features, and the need to scale analysis over large representative areas. Here, we present image analysis approaches which synergize real and reciprocal space information to efficiently and reliably obtain meaningful structural information with picometer scale precision across hundreds of nanometers of material from atomic-resolution electron microscope images. Damping superstructure peaks in reciprocal space allows symmetry-breaking structural distortions to be disentangled from other sources of inhomogeneity and measured with high precision. Real-space fitting of the wavelike signals resulting from Fourier filtering enables absolute quantification of lattice parameter variations and strain, as well as the uncertainty associated with these measurements. Implementations of these algorithms are made available as an open source python package.

36 MATERIALS SCIENCE↗

Quantitative Trade-Off in Distributed Secondary Control for Autonomous AC Microgrids

In this paper, we propose to quantify the trade-off between voltage regulation and reactive power sharing in autonomous AC microgrids with distributed secondary control. It is known that voltage regulation and reactive power sharing in droop-controlled autonomous AC microgrids are two conflicting control objectives that present a natural trade-off between voltage regulation towards the voltage magnitude reference and reactive power sharing accuracy. This trade-off is commonly shown qualitatively without sufficient quantification. In this work, to quantify the trade-off between the two objectives, we focus on distributed secondary control and utilize regression and polynomial surface fitting to identify the requisite parameter area to satisfy the predefined error bands for voltage magnitude regulation and reactive power sharing. Extensive case studies are presented to validate the proposed method.

autonomous AC microgrids↗

Quantitative phase imaging around water vapor microbubbles under pulsed laser illumination

We measured water temperature around a self-oscillating water vapor-rich bubble using diffraction phase microscopy equipped with a pulsed laser. The water vapor-rich bubble, which causes a strong water flow around it, was generated by locally heating degassed water through the photothermal conversion properties of an FeSi2 thin film. The generation of the flow is related to the self-oscillation of the bubble at sub-MHz frequencies and the temperature distribution around it. Here, the refractive index of the surrounding water was measured using a pulsed laser with a 3.5-ns pulse duration, which guarantees a time resolution of less than 1/200 of the oscillation cycle of the bubble. The temperature distribution around the bubble was calculated from the measured refractive index.

Narihira, Kyoshiro [Kyoto University, Japan]↗

Methods for Quantitative Thermal Analysis of Lithium Solid-State and Beyond Battery Safety

The use of differential scanning calorimetry (DSC) to measure the thermal behavior of individual components and electrolyte/electrode combinations is common. However, here we focus on DSC tests on an anode, cathode, and electrolyte (ACE) component combination over a temperature range that includes many of the phase transitions and key reactions (i.e., to 500 °C) that contribute to thermal runaway. This method can help quantify the complex reaction network in a full cell, thereby informing potential safety issues. Here, we used DSC heat flow data from a solid-state Li 0.43 CoO 2 +C+PVDF | LLZO | Li metal ACE sample and its components to quantify key factors affecting results. We focused on three areas: (1) ACE sample preparation and assembly in DSC pans, (2) DSC measurement parameters, and (3) heat flow analysis. Key points include the choice of component ratios (e.g., commercially relevant N:P capacity ratio), the importance of conductive carbon and binder, type of pan used, DSC ramp rate, and integration method used when dealing with broad and overlapping exothermic peaks. This work deepens the scientific basis and best practices for obtaining heat flow data from ACE samples for early-stage evaluation of solid-state and beyond battery safety.

25 ENERGY STORAGE↗

Quantitative Correction of Ohmic Effects on Square Wave Voltammetry for High-Concentration Soluble-Soluble Redox Reactions in Molten Salts

Molten salts are of particular interest for a variety of industrial applications. As such, accurate characterization of species’ concentrations within the molten salt media is critical to ensure a well-controlled unit operation. Although electroanalytical tools are properly suited for precise in situ monitoring in these systems, uncompensated ohmic resistance R Ω can lead to erroneous, technique-dependent results. Using numerical simulations applied to a model system, this work will first illustrate then quantify the extent to which R Ω attenuates square wave voltammograms. This approach allows for post-experiment correction that leads to converging results across voltammetric techniques and facilitates accurate predictions of species’ concentrations.

Shaheen, Nora A. [Argonne National Laboratory (ANL↗

Quantitative Voltammetry Measurements of High-Concentration Actinides in Molten Chloride Fuel Salts

Molten chloride mixtures containing high concentrations of UCl 3 (i.e., >70 wt%) are candidates for next-generation molten salt reactor (MSR) fuel salts that enable new plant optimization and fuel cycle strategies. MSR licensing, however, is contingent on the development of effective material control and accounting (MC&A) practices for these salts. To close this gap, we have developed an electroanalytical approach that enables accurate in situ measurements of uranium concentrations in these highly loaded fuel salts. This methodology uses a multielectrode array voltammetry sensor combined with digital simulations that account for non-idealities such as uncompensated resistance effects. The theory-based numerical simulations of voltammetry responses yielded correction factors that are agnostic of electrochemical cell geometry and produced consistent voltammetry peak current results when correcting for varying amounts of ohmic resistance. In doing so, we have demonstrated accurate concentration measurements for UCl 3 in LiCl-KCl-UCl 3 across a range of mass fractions between 55 and 72.3 wt% at 550 °C.

11 NUCLEAR FUEL CYCLE AND FUEL MATERIALS↗

Quantitative phenotyping of crop roots with spectral electrical impedance tomography: a rhizotron study with optimized measurement design

Background: Root systems are key contributors to plant health, resilience, and, ultimately, yield of agricultural crops. To optimize plant performance, phenotyping trials are conducted to breed plants with diverse root traits. However, traditional analysis methods are often labour-intensive and invasive to the root system, therefore limiting high-throughput phenotyping. Spectral electrical impedance tomography (sEIT) could help as a non-invasive and cost-efficient alternative to optical root analysis, potentially providing 2D or 3D spatio-temporal information on root development and activity. Although impedance measurements have been shown to be sensitive to root biomass, nutrient status, and diurnal activity, only few attempts have been made to employ tomographic algorithms to recover spatially resolved information on root systems. In this study, we aim to establish relationships between tomographic electrical polarization signatures and root traits of different fine root systems (maize, pinto bean, black bean, and soy bean) under hydroponic conditions. Results: Our results show that, with the use of an optimized data acquisition scheme, sEIT is capable of providing spatially resolved information on root biomass and root surface area for all investigated root systems. We found strong correlations between the total polarization strength and the root biomass (R 2 = 0.82) and root surface area (R 2 = 0.8). Our findings suggest that the captured polarization signature is dominated by cell-scale polarization processes. Additionally, we demonstrate that the resolution characteristics of the measurement scheme can have a significant impact on the tomographic reconstruction of root traits. Conclusion: Our findings showcase that sEIT is a promising tool for the tomographic reconstruction of root traits in high-throughput root phenotyping trials and should be evaluated as a substitute for traditional, often time-consuming, root characterization methods.

59 BASIC BIOLOGICAL SCIENCES↗

A simple and highly efficient protocol for 13 C-labeling of plant cell wall for structural and quantitative analyses via solid-state nuclear magnetic resonance

Plant cell walls are made of a complex network of interacting polymers that play a critical role in plant development and responses to environmental changes. Thus, improving plant biomass and fitness requires the elucidation of the structural organization of plant cell walls in their native environment. The 13 C-based multi-dimensional solid-state nuclear magnetic resonance (ssNMR) has been instrumental in revealing the structural information of plant cell walls through 2D and 3D correlation spectral analyses. However, the requirement of enriching plants with 13 C limits the applicability of this method. To our knowledge, there is only a very limited set of methods currently available that achieve high levels of 13 C-labeling of plant materials using 13 CO 2 , and most of them require large amounts of 13 CO 2 in larger growth chambers. In this study, a simplified protocol for 13C-labeling of plant materials is introduced that allows ca 60% labeling of the cell walls, as quantified by comparison with commercially labeled samples. This level of 13 C-enrichment is sufficient for all conventional 2D and 3D correlation ssNMR experiments for detailed analysis of plant cell wall structure. The protocol is based on a convenient and easy setup to supply both 13 C-labeled glucose and 13 CO 2 using a vacuum-desiccator. The protocol does not require large amounts of 13 CO 2 . This study shows that our 13 C-labeling of plant materials can make the accessibility to ssNMR technique easy and affordable. The derived high-resolution 2D and 3D correlation spectra are used to extract structural information of plant cell walls. This helps to better understand the influence of polysaccharide-polysaccharide interaction on plant performance and allows for a more precise parametrization of plant cell wall models.

09 BIOMASS FUELS↗

Dataset for Top Model Decision Tree: Selecting Segmentation Models for Reliable Quantitative Analysis in Low- and Ultralow-Dose CryoEM

Motivation Multiple deep learning model architectures can be used to segment bacterial membranes in cryoEM images. However, an AI-based tool advancement is often presented with only a single segmentation model for broad use, and this single model may show inconsistent results across datasets from different users. Here, we present the Top Model Decision Tree, a model screening framework to screen for the best model to generate bacterial inner and outer membrane masks based on user priorities. We use pre-trained segmentation models from YOLOv11, YOLO26, U-Net, Detectron2 and SAM3 fine-tuned on bacterial inner and outer membranes imaged with cryoEM. Run the Framework This notebook must be opened in Google Colab. Mount Google Drive and run with a GPU-based runtime. Open the notebook and follow steps to git clone in folders and files within this repository. There will be a repeating top_model_decision_tree.ipynb (notebook clone) that will not be used. Save your .png binary mask files and .csv table outputs within your Google Drive or download before closing the notebook. The models and all analysis/training scripts are available at [GitHub: https://github.com/Lynnicia/CryoEM_membranes_top_model_decision_tree and https://github.com/Sireesiru/Semantic-Segmentation-of-bacterial-cell-envelope-using-U-Nets.

59 BASIC BIOLOGICAL SCIENCES↗

Quantitative infrared spectroscopy of aerosols: Mie theory modeling with experimental validation

Infrared spectroscopy is a well-established method for identifying solid, liquid, and gas-phase chemicals. Accurate infrared spectroscopic analysis requires reference libraries where library endmembers reflect all optical phenomena contributing to the observed spectra. Traditional spectral libraries most often contain molecular-based absorption spectra, but these do not account for the complex scattering effects that become significant when measuring aerosols. In this work, we combine the laboratory-derived, wavelength-dependent complex optical vectors ( n / k ) of liquid dioctyl sebacate (DOS) with Mie scattering theory and the Beer–Lambert law to generate synthetic infrared transmission spectra of aerosolized DOS. Additionally, we record experimental infrared transmission spectra using an FTIR spectrometer coupled to a simple aerosol chamber filled with a quantified number size distribution of aerosolized DOS. The modeled and measured spectra show strong agreement, with Mie scattering effects clearly altering the overall spectral shape as well as the positions and profiles of absorption features. The results demonstrate that synthetic spectra generated from n / k values can reliably capture aerosol-specific spectral behavior and thus serve as a foundation for building scalable, physics-based aerosol reference libraries to enable infrared spectroscopic detection of aerosols.

Salcido, Jessica M. O. [Pacific Northwest National↗