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At least 703 records · Page 39

FPDetect: Efficient Reasoning About Stencil Programs Using Selective Direct Evaluation

We present FPDetect, a low-overhead approach for detecting logical errors and soft errors affecting stencil computations without generating false positives. We develop an offline analysis that tightly estimates the number of floating-point bits preserved across stencil applications. This estimate rigorously bounds the values expected in the data space of the computation. Violations of this bound can be attributed with certainty to errors. FPDetect helps synthesize error detectors customized for user-specified levels of accuracy and coverage. FPDetect also enables overhead reduction techniques based on deploying these detectors coarsely in space and time. Experimental evaluations demonstrate the practicality of our approach.

97 MATHEMATICS AND COMPUTING↗

Amperometric electrochemical sensors, sensor systems and detection methods

An amperometric electrochemical sensor for measuring the concentrations of one or more target gas species in a gas sample or gas stream, the sensor having at least one electrochemical cell with first and second surface electrodes, an electrolyte layer and a passive signal amplifying layer (“SAL”) comprising electrically conductive material like platinum, wherein at least a portion of the electrolyte layer is located between the surface electrodes and the SAL such that the SAL is in direct, conductive contact with the electrolyte layer but is not in direct contact with the surface electrodes. Sensor systems and detection methods are also provided.

Arkenberg, Gene B.↗

A perspective on the device physics of lead halide perovskite semiconducting detector for gamma and x-ray sensing

Metal-halide perovskites are emerging materials for radiation sensing featuring high absorption cross section, high charge mobility, and long carrier lifetime enabling superior detection efficiencies even at room temperature. Perovskite detector technologies are more complex involving different detecting modes and device architectures. Here, to elucidate the working principles, we provide a Perspective on the device structures and the operational principles of halide perovskite direct conversion detectors for radiation sensing. We will first discuss different detection modes and introduce the commonly used device architectures and their working principles. Based on our work and pioneer developments in the field, we will next compare the performances of the reported detectors. Additionally, we will summarize the single crystal detectors and polycrystalline thin film devices and discuss their advantages and disadvantages for different applications. Finally, we provide a future Perspective on the critical problems that must be addressed to commercialize this technology.

77 NANOSCIENCE AND NANOTECHNOLOGY↗

Spatially resolved absolute densities of reactive species and positive ion flux in He-O 2 RF-driven atmospheric pressure plasma jet: touching and non-touching with dielectric substrate

Atmospheric pressure plasma jets (APPJs) are operating in direct contact with dielectric substrates for many applications. Nonetheless, many studies have been focusing on free jets. In this letter, we report spatially resolved measurements of reactive species including neutral and ionic species in an He + 1% O 2 RF-driven APPJ by molecular beam mass spectrometry equipped with a dielectric sampling plate, enabling to detect species densities for APPJ operating remotely or in direct contact with a substrate. Here, the spatially resolved distribution of O, O 2 (a 1 Δ g ) and O 3 is dominated by convection and, remarkably, shows minimum differences between touching and non-touching conditions.

74 ATOMIC AND MOLECULAR PHYSICS↗

Rapid, Sensitive, Label-Free Electrical Detection of SARS-CoV-2 in Nasal Swab Samples

Rapid diagnosis of coronavirus disease 2019 (COVID-19) is key for the long-term control of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) amid renewed threats of mutated SARS-CoV-2 around the world. Here, we report on an electrical label-free detection of SARS-CoV-2 in nasopharyngeal swab samples directly collected from outpatients or in saliva-relevant conditions by using a remote floating-gate field-effect transistor (RFGFET) with a 2-dimensional reduced graphene oxide (rGO) sensing membrane. RFGFET sensors demonstrate rapid detection (<5 min), a 90.6% accuracy from 8 nasal swab samples measured by 4 different devices for each sample, and a coefficient of variation (CV) < 6%. Also, RFGFET sensors display a limit of detection (LOD) of pseudo-SARS-CoV-2 that is 10 000-fold lower than enzyme-linked immunosorbent assays, with a comparable LOD to that of reverse transcriptionpolymerase chain reaction (RT-PCR) for patient samples. To achieve this, comprehensive systematic studies were performed regarding interactions between SARS-CoV-2 and spike proteins, neutralizing antibodies, and angiotensin-converting enzyme 2, as either a biomarker (detection target) or a sensing probe (receptor) functionalized on the rGO sensing membrane. Finally, taken together, this work may have an immense effect on positioning FET bioelectronics for rapid SARS-CoV-2 diagnostics.

60 APPLIED LIFE SCIENCES↗

Constraining Mornings and Evenings on Distant Worlds: A new Semianalytical Approach and Prospects with Transmission Spectroscopy

The technique of transmission spectroscopy—the variation of a planetary radius with wavelength due to opacity sources in the planet’s terminator region—has been one of the most successful in the characterization of exoplanet atmospheres to date, providing key insights into the composition and structure of these distant worlds. A common assumption made when using this technique, however, is that the variations are the same in the entire terminator region. In reality, the morning and evening terminators might have distinct temperature, pressure, and thus compositional profiles due to the inherent 3D nature of the planet, which would, in turn, give rise to different spectra on each side of it. Constraining those might be fundamental for our understanding of not only the weather patterns in these distant worlds but also the planetary formation signatures that might only be possible to extract once these features are well understood. Motivated by this physical picture, in this work, we perform a detailed study of the observational prospects of detecting this effect. We present an open-source semianalytical framework with which this information can be extracted directly from transit light curves and perform a detailed study of the prospects of detecting the effect with current missions, such as TESS, and upcoming ones, such as JWST. Our results show that these missions show great promise for the detection of this effect. Transmission spectroscopy studies with JWST, in particular, could provide spectra of each of the limbs, allowing us to convey 3D information previously accessible only via phase curves.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

A Telomerase-Activated Magnetic Resonance Imaging Probe for Consecutively Monitoring Tumor Growth Kinetics and In Situ Screening Inhibitors

Telomerase has long been considered as a biomarker for cancer diagnosis and a therapeutic target for drug discovery. Detecting telomerase activity in vivo could provide more direct information of tumor progression and response to drug treatment, which, however, is hampered by the lack of an effective probe that can generate an output signal without a tissue penetration depth limit. Here in this study, using the principle of distance-dependent magnetic resonance tuning, we constructed a telomerase-activated magnetic resonance imaging probe (TAMP) by connecting superparamagnetic ferroferric oxide nanoparticles (SPFONs) and paramagnetic Gd-DOTA (Gd(III) 1,4,7,10- tetraazacyclododecane-1,4,7,10-tetraazacyclododecane-1,4,7,10-tet-raacetic acid) complexes via telomerase-responsive DNA motifs. Upon telomerase-catalyzed extension of the primer in TAMP, Gd-DOTA-conjugated oligonucleotides can be liberated from the surface of SPFONs through a DNA strand displacement reaction, restoring the T 1 signal of the Gd-DOTA for a direct readout of the telomerase activity. Here we show that, by tracking telomerase activity, this probe provides consistent monitoring of tumor growth kinetics during progression and in response to drug treatment and enables in situ screening of telomerase inhibitors in whole-animal models. This study provides an alternative toolkit for cancer diagnosis, treatment response assessment, and anticancer drug screening.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

193 nm Ultraviolet Photodissociation for the Characterization of Singly Charged Proteoforms Generated by MALDI

MALDI imaging allows for the near-cellular profiling of proteoforms directly from microbial, plant, and mammalian samples. Despite detecting hundreds of proteoforms, identification of unknowns with only intact mass information remains a distinct challenge, even with high mass resolving power and mass accuracy. To this end, many supplementary methods have been used to create experimental databases for accurate mass matching, including bulk or spatially resolved bottom-up and/or top-down proteomics. Herein, we describe the application of 193 nm ultraviolet photodissociation (UVPD) for fragmentation of quadrupole isolated singly charged ubiquitin (m/z 8565) by MALDI-UVPD on a UHMR HF Orbitrap. This platform permitted the high-resolution accurate mass measurement of not just terminal fragments but also large internal fragments. Finally, the outlined workflow demonstrates the feasibility of top-down analyses of isolated MALDI protein ions and the potential toward more comprehensive characterization of proteoforms in MALDI imaging applications.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Delayed coastal inundations caused by ocean dynamics post-Hurricane Matthew

Post Hurricane Abnormal Water Level (PHAWL) poses a persistent inundation threat to coastal communities, yet unresolved knowledge gaps exist regarding its spatiotemporal impacts and causal mechanisms. Using a high-resolution coastal model with a set of observations, we find that the PHAWLs are up to 50 cm higher than the normal water levels for several weeks and cause delayed inundations around residential areas of the U.S. Southeast Coast (USSC). Numerical experiments reveal that while atmospheric forcing modulates the coastal PHAWLs, ocean dynamics primarily driven by the Gulf Stream control the mean component and duration of the shelf-scale PHAWLs. Because of the large spatial impact of the post-hurricane oceanic forcing, the coastal hazards are not limited to a direct hit from a hurricane but can be detected throughout the USSC where the oceanic processes reach.

54 ENVIRONMENTAL SCIENCES↗

Localization of infrasonic sources via Bayesian back projection

SUMMARY A Bayesian framework is investigated for event-specific localization of infrasonic sources using back projection ray tracing. Direction-of-arrival information from array-based detection analysis is used to initialize a back projection ray path originating from the detecting array location and quantifying propagation characteristics from hypothetical source locations. The Fisher statistic, computed from the array’s beam coherence, is mapped into uncertainty in the launch angles of the ray path. Auxiliary parameters previously introduced for solving the Transport equation to compute geometric spreading along ray paths are used to map uncertainty in the ray launch angles into spatial and temporal uncertainties in the ray path. An atmospheric ensemble approach is applied to account for atmospheric uncertainty, and the relation between uncertainties in the atmospheric state and confidence in estimated localization are evaluated using several ensembles with specified variances. The method is evaluated using a synthetic event in the western United States constructed via forward propagation simulations as well as a single-station, multi-arrival detection from a surface explosion in the western United States. Localization results using this event-specific approach are more accurate and exhibit improved precision than existing Bayesian localization methods that leverage generalized, pre-computed propagation statistics.

58 GEOSCIENCES↗

ShadeLab/PAPER_Howe_2023_switchgrass_MetaT

The raw data (metagenomes and metatranscriptomes) for this study are available in the Joint Genomes Institute Genome Portal (https://genome.jgi.doe.gov/portal/ Project ID 503249) with projects designated by year and product type. The MAG genomes analyzed in this paper are available on NCBI, as bioproject PRJNA800073. Plants and microorganisms form beneficial associations. Understanding plant-microbe interactions will inform microbiome management to enhance crop productivity and resilience to stress. Here, we apply a genome-centric approach to identify ecologically important leaf microbiome members on field-grown switchgrass and miscanthus and to quantify their activities for switchgrass over two growing seasons. We integrate metagenome and metatranscriptome sequencing from 192 leaf samples collected over representative time points in crop phenology. We curated 40 medium- and high-quality metagenome-assembled-genomes (MAGs) and focused analysis on seasonal transcript recruitment to them. Classes represented by these focal MAGs (Actinomycetia, Alpha- and Gamma- Proteobacteria, and Bacteroidota) were active and had increases in transcripts for short-chain dehydrogenase, molybdopterin oxidoreductase, and polyketide cyclase in the late season. The majority of MAGs had activated stress-associated pathways, including trehalose metabolism, indole acetic acid degradation, betaine biosynthesis, and reactive oxygen species degradation, suggesting direct engagement with the host environment. We also detected seasonally activated biosynthetic pathways for terpenes (carotenoids and isoprenoids) and for various non-ribosomal peptide pathways that were poorly annotated. Overall, this study overcame laboratory and bioinformatic challenges associated with field-based leaf metatranscriptome analysis to inform both general and likely specialized activities of these phyllosphere populations. These activities collectively support that leaf-associated bacterial populations are seasonally dynamic, responsive to host cues, and interactively engage in feedback with the plant. This analysis represented quality filtering of metagenomes and metatranscriptomes (data-preparation folder), metagenome assemblies (metagenome-assembly folder) and metagenome-assembled genome binning, curation, refinement, annotation (mag-evaluation folder). Abundances of sequencing libraries were calculated based on reads mapped (mapping folder). Additionallly, analysis of our annotated results are also included (analysis folder).

Howe, Adina↗

Quantification of Uncoupled Spin Domains in Spin-Abundant Disordered Solids

Materials often contain minor heterogeneous phases that are difficult to characterize yet nonetheless significantly influence important properties. Here we describe a solid-state NMR strategy for quantifying minor heterogenous sample regions containing dilute, essentially uncoupled nuclei in materials where the remaining nuclei experience heteronuclear dipolar couplings. NMR signals from the coupled nuclei are dephased while NMR signals from the uncoupled nuclei can be amplified by one or two orders of magnitude using Carr-Meiboom-Purcell-Gill (CPMG) acquisition. The signal amplification by CPMG can be estimated allowing the concentration of the uncoupled spin regions to be determined even when direct observation of the uncoupled spin NMR signal in a single pulse experiment would require an impractically long duration of signal averaging. We use this method to quantify residual graphitic carbon using 13 C CPMG NMR in poly(carbon monofluoride) samples synthesized by direct fluorination of carbon from various sources. Our detection limit for graphitic carbon in these materials is better than 0.05 mol%. The accuracy of the method is discussed and comparisons to other methods are drawn.

36 MATERIALS SCIENCE↗

Evidence for Impact of Galaxy Mergers on Stellar Kinematics of Early-type Galaxies

We provide observational evidence that galaxy mergers significantly affect stellar kinematics of early-type galaxies (ETGs) such as specific stellar angular momentum within the half-light radius (${\lambda }_{{R}_{e}}$) and kinematic misalignment (ψ mis ), using MaNGA integral field unit spectroscopic data that are in the Stripe 82 region of the Sloan Digital Sky Survey. In this study, tidal features around ETGs, which are detected in deep coadded images, are used as direct evidence for mergers that occurred recently. In the case of ETGs that do not have dust lanes, ${\lambda }_{{R}_{e}}$ is lower in ETGs with tidal features than in those without tidal features (median ${\lambda }_{{R}_{e}}$: 0.21 versus 0.39) in all stellar mass and Sérsic index ranges except the most massive bin, so that the fraction of ETGs with tidal features in slow rotators is more than twice as large as that in fast rotators (42% versus 18%). Moreover, ETGs with tidal features have larger ψ mis than those without tidal features (mean ψ mis : 28° versus 15°). By contrast, ETGs with dust lanes are fast rotators, and ETGs with both dust lanes and tidal features have the highest ${\lambda }_{{R}_{e}}$ (median ${\lambda }_{{R}_{e}}$: 0.59) among all ETG categories. In addition, ETGs with dust lanes have small ψ mis regardless of the existence of tidal features (Ψ mis <7$^{°}_{.}$5). Our results can be explained if mergers with different gas fractions generate merger remnants that have different kinematic properties.

79 ASTRONOMY AND ASTROPHYSICS↗

Search for Neutrino Doublets and Triplets Using 11.4 yr of IceCube Data

We report a search for high-energy astrophysical neutrino multiplets, detections of multiple neutrino clusters in the same direction within 30 days, based on an analysis of 11.4 yr of IceCube data. A new search method optimized for transient neutrino emission with a monthly timescale is employed, providing a higher sensitivity to neutrino fluxes. This result is sensitive to neutrino transient emission, reaching per-flavor flux of approximately 10 -10 erg cm -2 s -1 from the Northern Sky in the energy range E ≳ 50 TeV. The number of doublets and triplets identified in this search is compatible with the atmospheric background hypothesis, which leads us to set limits on the nature of neutrino transient sources with emission timescales of one month.

79 ASTRONOMY AND ASTROPHYSICS↗

Status of the Spallation Neutron Source beam test facility and progress of beam dynamics studies

The Spallation Neutron Source (SNS) Beam Test Facility (BTF) supports the study of beam dynamics in the front end of a high power LINAC. The BTF combines a replica of the SNS front end, including nearly-identical ion source, RFQ and MEBT, with extensive phase space diagnostics and a FODO transport line. Diagnostic capabilities include direct measurement of 6D phase space distribution and detection of halo distributions to a sensitivity of greater than one part-per-million. The goal of on-going BTF studies is to demonstrate accurate particle-in-cell modeling of halo growth and evolution by leveraging unprecedented accuracy in the description of the initial beam distribution. This work is motivated by operational experience at the SNS, which currently operates with beam loss that cannot be described by any model. This paper summarizes progress in the BTF beam study program as well as diagnostics development and recent upgrades to the beamline configuration.

Ruisard, Kiersten↗

Novel Light Detectors for Directional MeV scale DM Detectors

The search for sub-GeV dark matter requires novel detector development due to the small expected ionization signal and large backgrounds, many of which still need to be well-modeled. For this reason, to unambiguously detect dark matter, a detector must be able to determine the directionality of the incoming particles so that the daily modulation of the rate can be used to confirm a dark matter signal. This can be accomplished by combining anisotropic scintillating crystals, such as trans-Stilbene, as a detector target, with an optically-sensitive Skipper CCD as a readout. I will present on my work over the past six months developing the first prototype of this detector, including optical testing of the trans-Stilbene and design of the detector. This work will lead to characterization of the CCDs and deployment of the first prototype later this year.

Hoch, Nora [MIT]↗

Direct observation of tRNA-chaperoned folding of a dynamic mRNA ensemble

T-box riboswitches are multi-domain noncoding RNAs that surveil individual amino acid availabilities in most Gram-positive bacteria. T-boxes directly bind specific tRNAs, query their aminoacylation status to detect starvation, and feedback control the transcription or translation of downstream amino-acid metabolic genes. Most T-boxes rapidly recruit their cognate tRNA ligands through an intricate three-way stem I-stem II-tRNA interaction, whose establishment is not understood. Using single-molecule FRET, SAXS, and time-resolved fluorescence, we find that the free T-box RNA assumes a broad distribution of open, semi-open, and closed conformations that only slowly interconvert. tRNA directly binds all three conformers with distinct kinetics, triggers nearly instantaneous collapses of the open conformations, and returns the T-box RNA to their pre-binding conformations upon dissociation. This scissors-like dynamic behavior is enabled by a hinge-like pseudoknot domain which poises the T-box for rapid tRNA-induced domain closure. This study reveals tRNA-chaperoned folding of flexible, multi-domain mRNAs through a Venus flytrap-like mechanism.

59 BASIC BIOLOGICAL SCIENCES↗

ODI notebook additive_manufacturing_video_2022

Additive Manufacturing, video dataset Two-photon lithography (TPL) is a widely used 3D nanoprinting technique that uses laser light to create objects. Challenges to large-scale adoption of this additive manufacturing method include identifying light dosage parameters and monitoring during fabrication. A research team from LLNL, Iowa State University, and Georgia Tech is applying machine learning models to tackle these challenges-i.e., accelerate the process of identifying optimal light dosage parameters and automate the detection of part quality. Funded by LLNL's Laboratory Directed Research and Development Program, the project team has curated a video dataset of TPL processes for parameters such as light dosages, photo-curable resins, and structures. Both raw and labeled versions of the datasets are available on the links in the Open Data Initiative page. The code uses the labeled dataset. Notebook compiled by Nisha Mulakken (mulakken1@llnl.gov) for LLNL Open Data Initiative, Summer 2022. Original code provided by research team. Publications: X.Y. Lee, S.K. Saha, S. Sarkar, B. Giera. "Automated detection of part quality during two-photon lithography via deep learning." Additive Manufacturing 36, December 2020: doi.org/10.1016/j.addma.2020.101444 X.Y. Lee, S.K. Saha, S. Sarkar, B. Giera. "wo Photon lithography additive manufacturing: Video dataset of parameter sweep of light dosages, photo-curable resins, and structures." Data in Brief 32, October 2020. doi.org/10.1016/j.dib.2020.106119.

Mulakken, NishaJ↗