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At least 865 records · Page 48
All sourcesNASA NTRSDOE OSTI
DOE OSTI2021

How lipidomics can transform our understanding of virus infections

Traditionally, lipids have been thought of as molecules that provide structure and energy, but their functional relevance in disease mechanisms is increasingly clear, and with advancements in mass spectrometry technologies, lipidomics analyses is a tool gaining recognition. Beyond the utility of lipoprotein and fatty acid profiles in clinical diagnosis and chemotaxonomic identifications, respectively, lipidomics analysis that combines knowledge across disciplines and can resolve exact lipid structures has the potential to advance clinical diagnoses and associated treatment, differentiate pathogen types (e.g., virus vs. bacterial vs. fungal), detect natural vs lab-grown viruses, and perhaps distinguish a pathogen from a benign biological agent (i.e., threat potential). As new viruses emerge and localized outbreaks expand, lipidomics will accelerate our understanding of viral infections and aid in maximizing the discovery of novel biomarkers of pathogenicity and host response.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2026

Reviving sub-keV warm dark matter: a UVLF-based analysis

Thermal warm dark matter (WDM) particles with m WDM ≤ 1 keV are ruled out at more than 4σ by multiple observational probes, owing to the strong suppression of small-scale structure induced by early-time free-streaming. Recently, it was highlighted that a small admixture of ∼ 1% (f CDM ∼ 0.01) cold dark matter (CDM) endowed with a blue-tilted isocurvature spectrum could offset the WDM-induced suppression and relax the WDM mass bound by a factor of 𝒪(10). If viable, this “warm + cold-isocurvature” scenario would allow sub-keV WDM particles to constitute nearly the full dark matter abundance while potentially alleviating some small-scale tensions. In this work, we test this mechanism by constraining the WDM mass mWDM while marginalizing over CDM isocurvature parameters. We combine ultraviolet luminosity function measurements from the Hubble Space Telescope and James Webb Space Telescope over redshift 4 ≤ z ≤ 11 with CMB, BAO, and SNe data. For a pure WDM model, our joint analysis yields a lower bound m WDM > 1.8 keV (95% credible intervals). When CDM isocurvature is introduced at f CDM = 0.01, the limit relaxes to m WDM > 0.27 keV (95% credible intervals), reflecting a shallow degeneracy in which blue-tilted isocurvature fluctuations partially compensate for WDM suppression. These results provide new constraints on thermal WDM in the presence of CDM isocurvature fluctuations and quantify the extent to which such fluctuations can mask the small-scale signatures of light relics.

cosmological parameters from CMBR↗
DOE OSTI2022

Radiative Width of K*(892) from Lattice Quantum Chromodynamics

In this dissertation, we use lattice quantum chromodynamics to explore the radiative transitions of ?K to K, to calculate the radiative-width of the resonant K?(892) which appears in the P-wave ?K ? ?K transition amplitude. The matrix elements are extracted from three-point functions calculated in a finite-volume discretized lattice with a pion mass of 284 MeV. The finite-volume amplitudes, which are constrained over a large number of ?K energy-points and four-momentum transfers, are mapped to the infinite volume transition amplitude by using the Lellouch-Lüscher formalism. The radiative width is determined to be ? = 35 ± 8 keV by analytically continuing the amplitude into the complex energy plane and calculating the residue at the K? pole.

Radhakrishnan, Archana↗
DOE OSTI2020

Plateau de Bure High-z Blue Sequence Survey 2 (PHIBSS2): Search for Secondary Sources, CO Luminosity Functions in the Field, and the Evolution of Molecular Gas Density through Cosmic Time

We report on the results of a search for serendipitous sources in CO emission in 110 cubes targeting CO(2 − 1), CO(3 − 2), and CO(6 − 5) at z ∼ 1–2 from the second Plateau de Bure High-z Blue Sequence Survey (PHIBSS2). The PHIBSS2 observations were part of a 4 yr legacy program at the IRAM Plateau de Bure Interferometer aimed at studying early galaxy evolution from the perspective of molecular gas reservoirs. We present a catalog of 67 candidate secondary sources from this search, with 45 of the 110 data cubes showing sources in addition to the primary target that appear to be field detections, unrelated to the central sources. This catalog includes redshifts, line widths, and fluxes, as well as an estimation of their reliability based on their false-positive probability. We perform a search in the 3D Hubble Space Telescope/CANDELS catalogs for the secondary CO detections and tentatively find that ∼64% of these have optical counterparts, which we use to constrain their redshifts. Finally, we use our catalog of candidate CO detections to derive the CO(2 − 1), CO(3 − 2), CO(4 − 3), CO(5 − 4), and CO(6 − 5) luminosity functions over a range of redshifts, as well as the molecular gas mass density evolution. Despite the different methodology, these results are in very good agreement with previous observational constraints derived from blind searches in deep fields. They provide an example of the type of “deep-field” science that can be carried out with targeted observations.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2025

Mapping the Outcomes of Stellar Evolution in the Disks of Active Galactic Nuclei

The disks of active galactic nuclei (AGNs) are expected to be populated by numerous stars, either formed in the outer regions of the disk via gravitational instability or captured from the nearby nuclear star cluster. Regardless of their formation mechanism, these stars experience altered evolutionary paths, mostly shaped by the accretion of dense disk material. In this study, through the comparison of different timescales, we chart the evolutionary outcomes of these AGN stars as a function of disk radius and across a range of supermassive black hole masses, spanning from 10 6 to 10 9 M ⊙ , for two popular AGN disk models. We find that in the outer regions of the disk, stars evolve similarly to those in the interstellar medium, but in the inner and denser regions, accretion quickly turns low-mass stars into massive stars, and their fate depends on just how quickly they accrete. If accretion occurs at a faster rate than nuclear burning, they can reach a quasi-steady "immortal" state. If stars accrete faster than they can thermally adjust, runaway accretion occurs, potentially preventing a quasi-steady state and altering the disk structure. During the AGN lifetime, in the regions of the disk that produce massive stars, supernovae (SNe) and gamma-ray bursts (GRBs) may occur within the disk over a wide range of optical depths and ambient densities. Subsequently, in the final phase of the AGN, as the disk becomes depleted, formerly immortal stars will be unable to replenish their fuel, leading to additional SNe and GRBs.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2023

Simulating Hydrodynamics in Cosmology with CRK-HACC

Abstract We introduce CRK-HACC, an extension of the Hardware/Hybrid Accelerated Cosmology Code (HACC), to resolve gas hydrodynamics in large-scale structure formation simulations of the universe. The new framework couples the HACC gravitational N -body solver with a modern smoothed-particle hydrodynamics (SPH) approach called conservative reproducing kernel SPH (CRKSPH). CRKSPH utilizes smoothing functions that exactly interpolate linear fields while manifestly preserving conservation laws (momentum, mass, and energy). The CRKSPH method has been incorporated to accurately model baryonic effects in cosmology simulations—an important addition targeting the generation of precise synthetic sky predictions for upcoming observational surveys. CRK-HACC inherits the codesign strategies of the HACC solver and is built to run on modern GPU-accelerated supercomputers. In this work, we summarize the primary solver components and present a number of standard validation tests to demonstrate code accuracy, including idealized hydrodynamic and cosmological setups, as well as self-similarity measurements.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2024

gcxgclab: Two Dimensional Gas Chromatography Preprocessing and Analysis

The goal of gcxgclab is to provide a comprehensive program for preprocessing and analysis of two dimensional gas chromatography data. It is equipped with functions for baseline correction, smoothing, peak identification, peak alignment, identification of EICs, Mass Spectra, targeted analysis, compound identification with NIST and non-targeted analysis, plus plotting and data visualization.

GAMBLE, STEPHANIE↗
DOE OSTI2024

3D Printing of Functional Hydrogel Devices for Screenings of Membrane Permeability and Selectivity

Developing a fundamental understanding of the effects of varying ligand chemistries on mass transport rates is key to designing membranes with solute-specific selectivity. While permeation cells offer a robust method to characterize membrane performance, they are limited to assessing a single membrane chemistry or salt solution per test. As a result, investigating the effects of varying ligand chemistries on membrane performance can be a tedious process, involving both the preparation of multiple samples and numerous, time-consuming permeation tests. This study uses digital light processing (DLP) 3D printing to fabricate a millifluidic flow-based permeation device made from a hydrogel active ester network that can be easily functionalized with ion-selective ligands. Without the need for bonding or assembly steps, ligands can be introduced and tested in the permeation device by simply injecting a small volume of a ligand solution. Various salt concentrations and molecular species can be cycled through a single device by switching the solution feeding into the salt reservoir, thereby reducing the number of samples needed for permeability and selectivity screenings. This research sets the groundwork for formulation development and postprocessing methods to 3D-print functional millifluidic devices capable of assessing solute selectivity in membranes and polymer adsorbents for aqueous separations. In this work, comparable salt permeability trends were observed with both 3D-printed devices and traditional assays. Devices were functionalized with an imidazole ligand to investigate salt permeability and selectivity of monovalent and divalent salts. Measurements showed increasing permeability for monovalent salts (NaCl) relative to divalent salts (MgCl 2 , CuCl 2 ) in functionalized membranes, with higher monovalent/divalent selectivity at increasing imidazole grafting densities. Here, the methods and findings described here represent a step toward developing higher-throughput methods with 3D-printed devices for screening the effects of ligand chemistry on mass transport rates in membrane materials.

36 MATERIALS SCIENCE↗
DOE OSTI2025

Massive νs through the CNN lens: interpreting the field-level neutrino mass information in weak lensing

Modern cosmological surveys probe the Universe deep into the nonlinear regime, where massive neutrinos suppress cosmic structure. Traditional cosmological analyses, which use the 2-point correlation function to extract information, are no longer optimal in the nonlinear regime, and there is thus much interest in extracting beyond-2-point information to improve constraints on neutrino mass. Quantifying and interpreting the beyond-2-point information is thus a pressing task. We study the field-level information in weak lensing convergence maps using convolution neural networks. We find that the network performance increases as higher source redshifts and smaller scales are considered — investigating up to a source redshift of 2.5 and ℓ max ≃ 10 4 — verifying that massive neutrinos leave a distinct effect on weak lensing. However, the performance of the network significantly drops after scaling out the 2-point information from the maps, implying that most of the field-level information can be found in the 2-point correlation function alone. We quantify these findings in terms of the likelihood ratio and also use Integrated Gradient saliency maps to interpret which parts of the map the network is learning the most from. We find that, in the absence of noise, the network extracts a similar amount of information from the most overdense and underdense regions. However, upon adding noise, the information in underdense regions is distorted as noise disproportionately washes out void-like structures.

Golshan, Malika [University of California, Berkele↗
DOE OSTI2021

Leaf Trait Plasticity Alters Competitive Ability and Functioning of Simulated Tropical Trees in Response to Elevated Carbon Dioxide

The response of tropical ecosystems to elevated carbon dioxide (CO 2 ) remains a critical uncertainty in projections of future climate. Here, we investigate how leaf trait plasticity in response to elevated CO 2 alters projections of tropical forest competitive dynamics and functioning. We use vegetation demographic model simulations to quantify how plasticity in leaf mass per area and leaf carbon to nitrogen ratio alter the responses of carbon uptake, evapotranspiration, and competitive ability to a doubling of CO 2 in a tropical forest. Observationally constrained leaf trait plasticity in response to CO 2 fertilization reduces the degree to which tropical tree carbon uptake is affected by a doubling of CO 2 (up to -14.7% as compared to a case with no plasticity; 95% confidence interval [CI95%] -14.4 to -15.0). It also diminishes evapotranspiration (up to -7.0%, CI95% -6.4 to -7.7), and lowers competitive ability in comparison to a tree with no plasticity. Consideration of leaf trait plasticity to elevated CO 2 lowers tropical ecosystem carbon uptake and evapotranspirative cooling in the absence of changes in plant-type abundance. However, “plastic” responses to high CO 2 which maintain higher levels of plant productivity, many of which fall outside of the observed range of response, are potentially more competitively advantageous, thus, including changes in plant type abundance may mitigate these decreases in ecosystem functioning. Models that explicitly represent competition between plants with alternative leaf trait plasticity in response to elevated CO 2 are needed to capture these influences on tropical forest functioning and large-scale climate.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2023

What Sets the Star Formation Rate of Molecular Clouds? The Density Distribution as a Fingerprint of Compression and Expansion Rates

We use a suite of 3D simulations of star-forming molecular clouds, with and without stellar feedback, magnetic fields, and driven turbulence, to study the compression and expansion rates of the gas as functions of density. We show that, around the mean density, supersonic turbulence promotes rough equilibrium between the amounts of compressing and expanding gas, consistent with continuous gas cycling between high- and low-density states. We find that the inclusion of protostellar jets produces rapidly expanding and compressing low-density gas. We find that the gas mass flux peaks at the transition between the lognormal and power-law forms of the density probability distribution function (PDF). This is consistent with the transition density tracking the post-shock density, which promotes an enhancement of mass at this density (i.e., shock compression and filament formation). At high densities, the gas dynamics are dominated by self-gravity: the compression rate in all of our runs matches the rate of the run with only gravity, suggesting that processes other than self-gravity have little effect at these densities. The net gas mass flux becomes constant at a density below the sink formation threshold, where it equals the star formation rate. The density at which the net gas mass flux equals the star formation rate is one order of magnitude lower than our sink threshold density, corresponds to the formation of the second power-law tail in the density PDF, and sets the overall star formation rates of these simulations.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2025

Elucidating Gas Reduction Effects of Organosilicon Additives in Lithium-Ion Batteries

Lithium-ion batteries (LIBs) with nonaqueous liquid electrolytes are prone to gas generation at elevated voltages and temperatures, degrading battery performance and posing serious safety risks. Organosilicon (OS) additives are an emerging candidate solution for gassing problems in LIBs, but a detailed understanding of their functional mechanisms remains elusive. In this work, we present a combined computational and experimental study to elucidate the gasreducing effects of OS additives. Cell volume measurements and gas chromatography–mass spectrometry reveal that OS additives can substantially reduce gas evolution in LIBs, particularly CO 2 regardless of source. Through density functional theory calculations, we identify multiple plausible pathways for CO 2 evolution, including (1) nucleophile-induced ring-opening of ethylene carbonate (EC) and the subsequent electro-oxidation and (2) direct electro-oxidation of lithium carbonate (Li 2 CO 3 ). Correspondingly, we find that OS additives function via two primary mechanisms: (1) scavenging of nucleophiles such as superoxide (O 2 •– ), peroxide (O 2 2– ), and carbonate ion (CO 3 2– ); (2) oligomerization with ethylene carbonate oxide ion and ethylene dicarbonate ion. Moreover, we discover that OS additives possess strong lithium coordination affinity, which helps further reduce the nucleophilic reaction energies and hence increases their nucleophile-scavenging efficiency. Finally, we provide a mechanistic interpretation for the enhanced gasreduction effects observed with fluorinated OS compounds, corroborated by surface analysis results from X-ray photoelectron spectroscopy. Our study offers the first molecular-level insights into how OS additives contribute to reduced gas formation in LIBs, paving the way for improved safety and performance of LIBs.

25 ENERGY STORAGE↗
DOE OSTI2025

Role of the chiral anomaly in polarized deeply inelastic scattering. III. Wess-Zumino-Witten contributions and chiral Ward identities for finite quark mass

We extend our prior results on the worldline computation of the axial vector-vector-vector (AVV) triangle anomaly in polarized deeply inelastic scattering (DIS) to the finite mass case by computing in addition the pseudoscalar-vector-vector (PVV) triangle graph. For the well-studied QED case, we show explicitly how the off-forward AVV pole exactly cancels an identical PVV pole. We then demonstrate the dramatic difference in QCD due to the chiral condensate, which qualitatively modifies anomalous Ward identities. As in the massless case, the anomaly pole in QCD is canceled by the dynamics of a primordial isosinglet pseudoscalar η ¯ -meson, whose Wess-Zumino-Witten coupling to the topological charge density shifts the pole to the physical η ′ mass, with the finite quark mass contribution differing by O ( 10 % ) from the Witten-Veneziano formula. We obtain a compact analytic expression for the finite mass corrections to Shore and Veneziano’s result that the proton’s net quark helicity Δ Σ ∝ χ QCD ′ | m = 0 ( 0 ) , the forward slope of the topological susceptibility in the chiral limit, and show they are of the order of a few percentages. Our prior prediction that the polarized DIS structure function g 1 is quenched by sphaleronlike topological transitions at small x is unaffected by quark mass effects. Our results illustrate how worldline computations of anomalous processes, in synergy with lattice computations and nonet chiral perturbation theory, can uncover novel nonperturbative features of QCD at the Electron-Ion Collider. Published by the American Physical Society 2025

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗
DOE OSTI2024

Multimodal fission from self-consistent calculations

When multiple fission modes coexist in a given nucleus, distinct fragment yield distributions appear. Multimodal fission has been observed in a number of fissioning nuclei spanning the nuclear chart, and this phenomenon is expected to affect the nuclear abundances synthesized during the rapid neutron-capture process (𝑟-process). In this study, we generalize the previously proposed hybrid model for fission-fragment yield distributions to predict competing fission modes and estimate the resulting yield distributions. Here, our framework allows for a comprehensive large-scale calculation of fission-fragment yields suited for 𝑟-process nuclear network studies. Nuclear density functional theory is employed to obtain the potential energy and collective inertia tensor on a multidimensional collective space defined by mass multipole moments. Fission pathways and their relative probabilities are determined using the nudged elastic band method. Based on this information, mass and charge fission yields are predicted using the recently developed hybrid model. Fission properties of fermium isotopes are calculated in the axial quadrupole-octupole collective space for three energy density functionals (EDFs). Disagreement between the EDFs appears when multiple fission modes are present. Within our framework, the UNEDF⁢1 HFB EDF agrees best with experimental data. Calculations in the axial quadrupole-octupole-hexadecapole collective space improve the agreement with the experiment for SkM*. We also discuss the sensitivity of fission predictions on the choice of EDF for several superheavy nuclei. Fission-fragment yield predictions for nuclei with multiple fission modes are sensitive to the underlying EDF. For large-scale calculations in which a minimal number of collective coordinates is considered, UNEDF⁢1 HFB provides the best description of experimental data, though the sensitivity motivates robust quantification of the uncertainties of the theoretical model.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗
DOE OSTI2022

A numerical approach for detecting switch-like bistability in mass action chemical reaction networks with conservation laws

Theoretical analysis of signaling pathways can provide a substantial amount of insight into their function. One particular area of research considers signaling pathways capable of assuming two or more stable states given the same amount of signaling ligand. This phenomenon of bistability can give rise to switch-like behavior, a mechanism that governs cellular decision making. Investigation of whether or not a signaling pathway can confer bistability and switch-like behavior, without knowledge of specific kinetic rate constant values, is a mathematically challenging problem. Recently a technique based on optimization has been introduced, which is capable of finding example parameter values that confer switch-like behavior for a given pathway. Although this approach has made it possible to analyze moderately sized pathways, it is limited to reaction networks that presume a uniterminal structure. It is this limited structure we address by developing a general technique that applies to any mass action reaction network with conservation laws. In this paper we developed a generalized method for detecting switch-like bistable behavior in any mass action reaction network with conservation laws. The method involves (1) construction of a constrained optimization problem using the determinant of the Jacobian of the underlying rate equations, (2) minimization of the objective function to search for conditions resulting in a zero eigenvalue, (3) computation of a confidence level that describes if the global minimum has been found and (4) evaluation of optimization values, using either numerical continuation or directly simulating the ODE system, to verify that a bistability region exists. The generalized method has been tested on three motifs known to be capable of bistability. We have developed a variation of an optimization-based method for the discovery of bistability, which is not limited to uniterminal chemical reaction networks. Successful completion of the method provides an S-shaped bifurcation diagram, which indicates that the network acts as a bistable switch for the given optimization parameters.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2025

Spatial top-down proteomics for the functional characterization of human kidney

Background: The Human Proteome Project has credibly detected nearly 93% of the roughly 20,000 proteins which are predicted by the human genome. However, the proteome is enigmatic, where alterations in amino acid sequences from polymorphisms and alternative splicing, errors in translation, and post-translational modifications result in a proteome depth estimated at several million unique proteoforms. Recently mass spectrometry has been demonstrated in several landmark efforts mapping the human proteoform landscape in bulk analyses. Herein, we developed an integrated workflow for characterizing proteoforms from human tissue in a spatially resolved manner by coupling laser capture microdissection, nanoliter-scale sample preparation, and mass spectrometry imaging. Results: Using healthy human kidney sections as the case study, we focused our analyses on the major functional tissue units including glomeruli, tubules, and medullary rays. After laser capture microdissection, these isolated functional tissue units were processed with microPOTS (microdroplet processing in one-pot for trace samples) for sensitive top-down proteomics measurement. This provided a quantitative database of 616 proteoforms that was further leveraged as a library for mass spectrometry imaging with near-cellular spatial resolution over the entire section. Notably, several mitochondrial proteoforms were found to be differentially abundant between glomeruli and convoluted tubules, and further spatial contextualization was provided by mass spectrometry imaging confirming unique differences identified by microPOTS, and further expanding the field-of-view for unique distributions such as enhanced abundance of a truncated form (1-74) of ubiquitin within cortical regions. Conclusions: We developed an integrated workflow to directly identify proteoforms and reveal their spatial distributions. Where of the 20 differentially abundant proteoforms identified as discriminate between tubules and glomeruli by microPOTS, the vast majority of tubular proteoforms were of mitochondrial origin (8 of 10) where discriminate proteoforms in glomeruli were primarily hemoglobin subunits (9 of 10). These trends were also identified within ion images demonstrating spatially resolved characterization of proteoforms that has the potential to reshape discovery-based proteomics because the proteoforms are the ultimate effector of cellular functions. Applications of this technology have the potential to unravel etiology and pathophysiology of disease states, informing on biologically active proteoforms, which remodel the proteomic landscape in chronic and acute disorders.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2024

Search for light long-lived neutral particles from Higgs boson decays via vector-boson-fusion production from pp collisions at $\sqrt{s}=13$ TeV with the ATLAS detector

A search is reported for long-lived dark photons with masses between 0.1 GeV and 15 GeV, from exotic decays of Higgs bosons produced via vector-boson-fusion. Events that contain displaced collimated Standard Model fermions reconstructed in the calorimeter or muon spectrometer are probed. This search uses the full LHC Run 2 (2015–2018) data sample collected in proton–proton collisions at $\sqrt{s}=13$ TeV, corresponding to an integrated luminosity of 139 fb –1 . Dominant backgrounds from Standard Model processes and non-collision sources are estimated using data-driven techniques. The observed event yields in the signal regions are consistent with the expected background. Upper limits on the Higgs boson to dark photon branching fraction are reported as a function of the dark photon mean proper decay length or of the dark photon mass and the coupling between the Standard Model and the potential dark sector. This search is combined with previous ATLAS searches obtained in the gluon–gluon fusion and WH production modes. A branching fraction above 10% is excluded at 95% CL for a 125 GeV Higgs boson decaying into two dark photons for dark photon mean proper decay lengths between 173 and 1296 mm and mass of 10 GeV.

Aad, G. (ORCID:0000000266654934)↗