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At least 505 records · Page 28

Machine Reading at Scale: A Search Engine for Scientific and Academic Research

The Internet, much like our universe, is ever-expanding. Information, in the most varied formats, is continuously added to the point of information overload. Consequently, the ability to navigate this ocean of data is crucial in our day-to-day lives, with familiar tools such as search engines carving a path through this unknown. In the research world, articles on a myriad of topics with distinct complexity levels are published daily, requiring specialized tools to facilitate the access and assessment of the information within. Recent endeavors in artificial intelligence, and in natural language processing in particular, can be seen as potential solutions for breaking information overload and provide enhanced search mechanisms by means of advanced algorithms. As the advent of transformer-based language models contributed to a more comprehensive analysis of both text-encoded intents and true document semantic meaning, there is simultaneously a need for additional computational resources. Information retrieval methods can act as low-complexity, yet reliable, filters to feed heavier algorithms, thus reducing computational requirements substantially. In this work, a new search engine is proposed, addressing machine reading at scale in the context of scientific and academic research. It combines state-of-the-art algorithms for information retrieval and reading comprehension tasks to extract meaningful answers from a corpus of scientific documents. The solution is then tested on two current and relevant topics, cybersecurity and energy, proving that the system is able to perform under distinct knowledge domains while achieving competent performance.

Sousa, Norberto (ORCID:0000000329194817)↗

A Low-Enriched Uranium (LEU) option for the conversion of FRM II

The Forschungs-Neutronenquelle Heinz Maier-Leibnitz (FRM II) is Germany’s most powerful research reactor and uses Highly Enriched Uranium (HEU) fuel enriched at 93 %. The Technical University of Munich (TUM) operates the reactor and has been mandated to convert the FRM II to a lower-enrichment fuel. In preparation for the lower-enrichment fuel downselection, planned for 2023, TUM is evaluating multiple conversion scenarios. In this paper, it is demonstrated that a conversion of FRM II to Low-Enriched Uranium (LEU) is scientifically possible when using the novel monolithic U-10Mo fuel system, which is currently in the qualification process. As a research reactor, safety criteria, neutron flux distribution and cycle length are key metrics. To begin, neutronic and thermal-hydraulic models were created based on current technical drawings and relevant material properties. Specifically tailored computational methods and coupling schemes have also been developed to properly evaluate all relevant characteristics for the conversion of the FRM II reactor. Using these models and methods, a systematic parameter study was performed to explore the defined design space. The results of that study indicate that many LEU designs using monolithic U-10Mo appear to be viable to convert FRM II to LEU. One example of an LEU solution for the FRM II reactor that fulfills the stated safety, compatibility and scientific performance requirements is discussed in more detail.

11 NUCLEAR FUEL CYCLE AND FUEL MATERIALS↗

Model-driven prediction for accelerator magnet diagnostics to improve operation reliability

Reliability is one of the most critical metrics for accelerator operation, especially in user facilities. To reduce costly facility downtime and provide an operational environment where system performance can be reliably predicted in support of scientific studies, we are developing a model-driven approach for prediction and anomaly detection. Here, in this study, we present the application of a model-driven method that employs a linear regression model to predict the future temperature, in real time, of accelerator magnets at the NSLS-II light source. This approach enables proactive identification of magnet-heating issues, facilitating magnet flushing prior to the occurrence of permanent damage without interrupting machine operation. The implementation of this method in the NSLS-II control room is described and the analysis of the online results is presented. The results demonstrate the model’s effectiveness in providing early alerts to engineers and improving the reliability of accelerator operations.

36 MATERIALS SCIENCE↗

Emulating climate extreme indices

We use simple pattern scaling and time-shift to emulate changes in a set of climate extreme indices under future scenarios, and evaluate the emulators' accuracy. We propose a metric for the error in emulation in the context of initial condition ensembles, to specifically characterize the role of internal variability in the emulation performance. Our metric separates systematic emulation errors from unavoidable discrepancies between emulated and target values due to internal variability. We compute the metricis at grid-point scale, and we show geographically resolved results, or aggregate them at global scale. We demonstrate the use of our error metric in the emulation of a suite of temperature and precipitation extreme indices. We test and compare simple pattern scaling and time-shift using a range of trajectories spanning targets inspired by the Paris agreement -- warming to 1.5C and 2.0C from the pre-industrial baseline -- and two of the longer-established trajectories, RCP4.5 and RCP8.5. With this suite of scenarios we can test the effects on the performance of the size of the temperature gap between emulation origin and target. We find that for most indices emulation the dominant source of discrepancy is internal variability. For at least one index, however, counting exceedances of a high temperature threshold, significant portions of the globally aggregated discrepancy and its regional pattern originate from the systematic emulation error. This error exceeds internal variability of both the target and the emulated quantities in large coherent regions at low latitudes, and the explanation can be found in the differential behavior of temperature distributions across latitudes. The metric also highlights a fundamental difference in the two methods related to the simulation of internal variability, which is dampened significantly by simple pattern scaling. This aspect is of consequence when using these methods for specific applications, where preserving variability for uncertainty quantification is deemed important. With this study we offer our metric as a diagnostic tool, facilitating the formulation of scientific hypotheses on the reasons for the error. In the meantime, we show that for many impact relevant indices by now traditional emulation techniques can be accurate within the variations unavoidably introduced by internal variability, establishing the fundamental condition for using their emulation in impact modeling.

54 ENVIRONMENTAL SCIENCES↗

Machine Learning and Data Science to Advance Laboratory Earthquake Prediction and Illuminate the Mechanics of Precursors to Failure

Earthquakes represent one of our greatest natural hazards and in recent years human induced seismicity is adding to the threat. Even a modest improvement in the ability to forecast devastating large earthquakes or smaller shallow events associated with fluid injection could save thousands of lives and billions of dollars. Current efforts to forecast earthquakes are limited by knowledge of earthquake physics and hampered by a lack of reliable lab or field observations. However, recent work has provided a critical opportunity for advancement. We have found: 1) clear and consistent precursors prior to earthquake-like failure in the laboratory and 2) that lab earthquakes can be predicted using machine learning (ML). These works show that stick-slip failure events –the lab equivalent of earthquakes– are preceded by a cascade of micro-failure events that radiate elastic energy in a manner that foretells catastrophic failure. Remarkably, ML predicts the fault zone stress state, the failure time and in some cases the magnitude of lab earthquakes. In addition, the observations include clear precursors to failure in the form of changes in fault zone properties prior to lab earthquakes. Precursors have been observed in previous laboratory studies but their origin is poorly understood and their possible connection to ML based earthquake prediction is unknown. The work conducted under our project has dramatically expanded these efforts. We have developed an integrated data science approach to illuminate the physics of earthquake precursors and lab earthquake prediction. Our work has accelerated the development of ML, artificial intelligence (AI), and related data science approaches by providing massive data sets that are tightly connected to critical scientific problems and by bringing together leading subject matter experts and data scientists. Earthquake physics involves phenomena that are far from equilibrium. Our work has leveraged data science methods to illuminate these phenomena and investigate how they relate to earthquake prediction. In addition to a large database with many types of labeled events that is available to everyone, our work has advanced the fundamental understanding of seismic forecasting, earthquake physics, and fault rheology

58 GEOSCIENCES↗

UPDATES FROM THE INVOLUTE WORKING GROUP

The HFIR, RHF, and FRM II reactors represent a particular class of Research and Test Reactors that provide some of the most intense and continuous neutron fluxes for science, industry, and medical applications. These high-performance reactors have achieved compact cores by operating with Highly Enriched Uranium fuel (HEU, 235U/U ≥ 20 wt. %) and utilizing fuel plates curved as an involute. Due to the proliferation risks, the international community aims to reduce or eliminate, when possible, the use of HEU fuel in civilian facilities by converting them to a Low-Enriched Uranium fuel (LEU, 235U/U < 20 wt. %). Conversion of these reactors without significantly compromising their performance or safety is a challenging endeavor that can tremendously benefit from advanced computational tools and thus, eliminate unnecessary conservatism to ensure sufficient thermal margins. Therefore, models are being developed using modern Computational Fluid Dynamics (CFD) and Computational Structural Mechanics (CSM) software to evaluate the steady-state safety margins of various LEU designs instead of being reliant on the more traditional, conservative methods. To gain the confidence and acceptance of high-fidelity modeling by the nuclear regulators, Argonne National Laboratory (ANL) and the involute reactors have formed an informal scientific group, the Involute Working Group (IWG). The IWG facilitates inter-organizational collaboration on experimental benchmarking, code-to-code comparisons, and Verification and Validation (V&V). This paper describes some of the recent IWG efforts in validating software against the existing experimental data, as well as code-to-code comparisons of different software used by the IWG members.

Bergeron, Aurelien↗

MAS-CCD: New technique for measuring low-level charge content based on the multiple amplifier architecture

Low-noise detectors are a key technology for the next generation of astronomical instruments aimed at spectroscopy of faint objects and the search for exoplanets. In this context, the multiple-amplifier sensing charge-coupled device (MAS-CCD) emerges as a promising technology for future scientific instruments. A critical parameter affecting the performance of these devices is spurious charge, produced by the clocking of the gates. Its measurement is typically challenging with existing methods. In practice, the optimization of this parameter often relies on empirical procedures that require significant time and careful consideration of the trade-off with full-well capacity. In this work, we present a new technique to estimate spurious charge based on covariance analysis of the output amplifiers of the MAS-CCD, which measures the same charge packet in different amplifiers at different times. The method enables fast and precise measurements of spurious charge under operating conditions where conventional approaches are difficult to apply. We develop the theoretical framework of the method and validate the model through simulations. The results demonstrate the feasibility of this approach and suggest that it could serve as a basis for reliable large-scale characterization of sensor performance.

Gamero, Miqueas E. [Buenos Aires, CONICET; Fermila↗

The moving target of visualization software for an increasingly complex world

Visualization has evolved into a mature scientific field and it has also become widely accepted as a standard approach in diverse fields, including physics, life sciences, and business intelligence. However, despite its successful development, there are still many open research questions that require customized implementations in order to explore and establish concepts, and to perform experiments and take measurements. Many methods and tools have been developed and published but most are stand-alone prototypes and have not reached a mature state that can be used in a reliable manner by collaborating domain scientists or a wider audience. In this study, we discuss the challenges, solutions, and open research questions that affect the development of sophisticated, relevant, and novel scientific visualization solutions with minimum overheads. Furthermore, we summarize and discuss the results of a recent National Institute of Informatics Shonan seminar on these topics.

97 MATHEMATICS AND COMPUTING↗

Investigating User Experiences with Data Abstractions on High Performance Computing Systems

Scientific exploration generates expanding volumes of data that commonly require High Performance Computing (HPC) systems to facilitate research. HPC systems are complex ecosystems of hardware and software that frequently are not user friendly. The Usable Data Abstractions (UDA) project set out to build usable software for scientific workflows in HPC environments by undertaking multiple rounds of qualitative user research. Qualitative research investigates how individuals accomplish their work and our interview-based study surfaced a variety of insights about the experiences of working in and with HPC ecosystems. This report examines multiple facets to the experiences of scientists and developers using and supporting HPC systems. We discuss how stakeholders grasp the design and configuration of these systems, the impacts of abstraction layers on their ability to successfully do work, and the varied perceptions of time that shape this work. Examining the adoption of the Cori HPC at NERSC we explore the anticipations and lived experiences of users interacting with this system’s novel storage feature, the Burst Buffer. We present lessons learned from across these insights to illustrate just some of the challenges HPC facilities and their stakeholders need to account for when procuring and supporting these essential scientific resources to ensure their usability and utility to a variety of scientific practices.

97 MATHEMATICS AND COMPUTING↗

Assessment of Methods to Control Invasive Reed Canarygrass (Phalaris arundinacea) in Tidal Freshwater Wetlands

Controlling non-native invasive species is a significant challenge facing natural area managers in North America and around the world. Reed canarygrass (Phalaris arundinacea), is invasive in temperate freshwater wetlands throughout the United States and Canada. While methods for the prevention or elimination of reed canarygrass are generally well established, methods suitable for the unique conditions in tidal wetlands remain poorly understood. Namely, prolonged inundation of tidal wetlands for control purposes may only be accomplished with a concomitant loss of habitat connectivity and other functions. Restoration practitioners aiming to design self-sustaining wetlands in the lower Columbia River and estuary, on the northwestern Pacific Coast, have found that reed canarygrass is widespread and quick to establish throughout the 176-river-kilometer tidal freshwater floodplain. Here we report the results of a comprehensive effort to develop the knowledge base for control in tidal wetlands, through systematic review of the scientific literature, interviews with experienced practitioners, and field observations at nine Pacific Northwest sites. The review framework incorporated practical considerations and key environmental conditions: elevation related to hydrologic regime, salinity, shade, and nutrient availability. The results support implementation of multiple methods for a minimum of five years, on the largest possible area, ideally the watershed scale. Applicable methods include control in advance of restoration, topographic modification such as scrape-downs and mounds; establishing strong native competitors; and periodic, targeted control. Formal field experiments are needed to evaluate factors that influence control. Developing science-based, effective, practicable approaches to control reed canarygrass should improve restoration outcomes in natural areas.

intertidal, invasive, Phalaris arundinacea, reed c↗

Deep Hierarchical Super Resolution for Scientific Data

We present a novel technique for hierarchical super resolution (SR) with neural networks (NNs), which upscales volumetric data represented with an octree data structure to a high-resolution uniform gridwith minimal seam artifacts on octree node boundaries. Our method uses existing state-of-the-art SR models and adds flexibility to upscale input data with varying levels of detail across the domain, instead of only uniform grid data that are supported in previous approaches.The key is to use a hierarchy of SR NNs, each trained to perform 2x SR between two levels of detail, with a hierarchical SR algorithm that minimizes seam artifacts by starting from the coarsest level of detail and working up.We show that our hierarchical approach outperforms baseline interpolation and hierarchical upscaling methods, and demonstrate the usefulness of our proposed approach across three use cases including data reduction using hierarchical downsampling+SR instead of uniform downsampling+SR, computation savings for hierarchical finite-time Lyapunov exponent field calculation, and super-resolving low-resolution simulation results for a high-resolution approximation visualization.

97 MATHEMATICS AND COMPUTING↗

DaYu: Optimizing Distributed Scientific Workflows by Decoding Dataflow Semantics and Dynamics

The combination of ever-growing scientific datasets and distributed workflow complexity creates I/O performance bottlenecks due to data volume, velocity, and variety. Although the increasing use of descriptive data formats (e.g., HDF5, netCDF) helps organize these datasets, it also creates obscure bottlenecks due to the need to translate high level operations into file addresses and then into low-level I/O operations. To address this challenge, we introduce DaYu, a method and toolset for analyzing (a) semantic relationships between logical datasets and file addresses, (b) how dataset operations translate into I/O, and (c) the combination across entire workflows. DaYu's analysis and visualization enables identification of critical bottlenecks and reasoning about remediation. We describe our methodology and propose optimization guidelines. Evaluation on scientific workflows demonstrates up to 3.7x performance improvements in I/O time for obscure bottlenecks. The time and storage overhead for DaYu's time-ordered data is typically under 0.2% of runtime and 0.25% of data volume, respectively.

Tang, Meng↗

Review on Perovskite Solar Cells: From Single‐Junction Devices to Tandem Deployment in Space

Perovskite solar cells (PSCs) have emerged as a transformative photovoltaic technology, offering high power conversion efficiency (PCE) and the potential for cost-effective manufacturing. However, stability and large-scale manufacturing remain critical challenges that must be addressed for widespread adoption. This review provides a roadmap from single-junction perovskite solar cells to tandem deployment in space. First, material-level innovations are discussed, including mixed-cation and low-dimensional perovskites, transport materials, and additives that improve thermal and structural stability while enhancing efficiency. Then, we examine both established industrial standards and emerging scientific protocols aimed at stabilizing PSCs under operational conditions, including tandem cell integration strategies and encapsulation techniques to mitigate performance degradation. Manufacturing scalability is a focal point, where deposition methods and green solvents are explored to improve large-area film uniformity and reduce environmental impact. Additionally, the increasing viability of PSCs in extraterrestrial environments is assessed, with emphasis on their performance in space applications, radiation resistance, and flexible lamination methods for deployment in extreme conditions. Progress across materials innovation, device architectures, stability testing protocols, and both terrestrial and extraterrestrial applications collectively drives perovskite photovoltaics toward higher efficiency, stability, and cost-effectiveness.

flexible PSCs↗

Smart connected worker edge platform for smart manufacturing: Part 2—Implementation and on‐site deployment case study

Abstract In this paper, we describe specific deployments of the Smart Connected Worker (SCW) Edge Platform for Smart Manufacturing through implementation of four instructive real‐world use cases that illustrate the role of people in a Smart Manufacturing paradigm through which affordable, scalable, accessible, and portable (ASAP) information technology (IT) acquires and contextualizes data into information for transmission to operation technologies (OT). For case one, the platform captures the relationships between energy consumption and human workflows for improved energy productivity while workers interact with machines during semiconductor manufacturing. The platform utilizes human cognition to identify anomalous machine behavior for root cause analysis of system faults via neural network (NN) that recognize alarm postures of workers with cameras. For case two, a smart assembly line is demonstrated for state monitoring and fault detection. Machine learning (ML) models are used to recognize system states and identify fault scenarios with human intervention. For case three, the platform monitors human–machine interactions to classify manufacturing machine states for proper operations and energy productivity. Internal energy states of individual or collections of manufacturing equipment are determined via NN based algorithms that disaggregate signals associated with smart metering typically deployed at manufacturing facilities. These methods predict the real time energy profile of each machine from the total energy profile of a manufacturing site. For case four, a software defined sensor system built with scientific workflow engines is demonstrated for contextualizing data from laser surface refraction for characterization, and diagnostics in the processing of additively manufactured titanium alloy.

Donovan, Richard P.↗

Behavioral and neuroinflammatory changes caused by glyphosate: Base herbicide in mice offspring

Abstract Background Glyphosate is a pesticide considered of low toxicity, but scientific evidences show it can be harmful to health. This study aimed to evaluate the toxicity in mice offspring exposed to glyphosate‐based herbicide (GBH) during the intrauterine period. Methods Female matrices received glyphosate 0.3 mg/kg daily per oral throughout the gestational period, which was variable between 18 and 22 days. From the 25th until the 28th days post‐birth, mice offspring were subjected to behavioral tests, and the prefrontal cortex was processed for immunohistochemical analysis. Results Two significant behavioral changes were observed: anxiety in the GLIF0.3 group, increase in the behavior burying marbles in the marble‐burying test and hyperactivity, expressed by the significant increase of the crossing number in the open field test. The increased microglia, TNF‐alpha, and astrocyte expression were also observed in the prefrontal cortex of offspring treated with GLIF0.3. Conclusion Exposure to GBH during mice intrauterine development induces hyperactive and anxious behavior, evidencing neuroinflammation.

de Castro Vieira Carneiro, Carla Larissa↗

Restoration and Modification of Magnetosome Biosynthesis by Internal Gene Acquisition in a Magnetotactic Bacterium

We report that the Integration of a large-sized DNA fragment into a chromosome is an important strategy for characterization of cellular functions in microorganisms. Magnetotactic bacteria synthesize intracellular organelles comprising membrane-bound single crystalline magnetite, also referred to as magnetosomes. Magnetosomes have gained interest in both scientific and engineering sectors as they can be utilized as a material for biomedical and nanotechnological applications. Although genetic engineering of magnetosome biosynthesis mechanism has been investigated, the current method requires cumbersome gene preparation processes. Here, the chromosomal integration of a plasmid containing ≈27 magnetosome genes (≈26 kbp region) in a non-magnetic mutant of Magnetospirillum magneticum AMB-1 using a broad-host-range plasmid is shown. The genome sequencing of gene-complemented strains reveals the chromosomal integration of the plasmid with magnetosome genes at a specific site, most likely by catalysis of an endogenous transposase. Magnetosome production is successfully enhanced by integrating a variation of magnetosome gene operons in the chromosome. This chromosomal integration mechanism will allow the design of functional magnetosomes de novo and M. magneticum AMB-1 may be used as a chassis for the designed magnetosome production.

59 BASIC BIOLOGICAL SCIENCES↗

Simulating low-energy neutrino interactions with MARLEY

Monte Carlo event generators are a critical tool for the interpretation of data obtained by neutrino experiments. Several modern event generators are available which are well-suited to the GeV energy scale used in studies of accelerator neutrinos. However, theoretical modeling differences make their immediate application to lower energies difficult. In this paper, I present a new event generator, MARLEY, which is designed to better address the simulation needs of the low-energy (tens of MeV and below) neutrino community. The code is written in C++14 with an optional interface to the popular ROOT data analysis framework. The current release of MARLEY (version 1.2.0) emphasizes simulations of the reaction 40 Ar ( ν e , e − ) 40 K ⁎ but is extensible to other channels with suitable user input. This paper provides detailed documentation of MARLEY's implementation and usage, including guidance on how generated events may be analyzed and how MARLEY may be interfaced with external codes such as Geant4. Further information about MARLEY is available on the official website at http://www.marleygen.org. Program title:MARLEY 1.2.0 CPC Library link to program files:https://doi.org/10.17632/4v7zxnc8j3.1 Developer's respository link:http://github.com/MARLEY-MC/marley Code Ocean capsule:https://codeocean.com/capsule/9868179 Licensing provisions: GNU General Public License 3.0 Programming language: C++14 External routines/libraries used: GNU Scientific Library [1,2] (required), ROOT [3,4] (optional) Nature of problem: Simulation of neutrino-nucleus scattering events at energies of tens-of-MeV and below Solution method: Initial two-to-two scattering kinematics are sampled using the allowed approximation differential cross section and tables of precomputed nuclear matrix elements. Subsequent de-excitations of the remnant nucleus are simulated using a Monte Carlo implementation of the Hauser-Feshbach statistical model and tabulated γ-ray decay schemes for discrete nuclear levels. Additional comments including restrictions and unusual features: Input data are provided with the code that are suitable for producing simulations of the charged-current reaction 40 Ar ( ν e , e − ) 40 K ⁎ , coherent elastic neutrino-nucleus scattering on spin-zero target nuclei, and neutrino-electron elastic scattering on any atomic target. Preparation of new reaction input files (whose format is documented in Appendix B) would enable other reaction channels and nuclear targets to be handled by the existing code framework. Although there is no maximum neutrino energy enforced by the code itself, realistic neutrino-nucleus scattering events may be generated up to roughly 50 MeV. Above this energy, the effects of forbidden nuclear transitions, which are neglected in the current treatment of the cross sections (see section 2.1), become increasingly important.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

Maize specialized metabolome networks reveal organ-preferential mixed glycosides

Despite the scientific and economic importance of maize, little is known about its specialized metabolism. Here, five maize organs were profiled using different reversed-phase liquid chromatography-mass spectrometry methods. The resulting spectral metadata, combined with candidate substrate-product pair (CSPP) networks, allowed the structural characterization of 427 of the 5,420 profiled compounds, including phenylpropanoids, flavonoids, benzoxazinoids, and auxin-related compounds, among others. Only 75 of the 427 compounds were already described in maize. Analysis of the CSPP networks showed that phenylpropanoids are present in all organs, whereas other metabolic classes are rather organ-enriched. Frequently occurring CSPP mass differences often corresponded with glycosyl- and acyltransferase reactions. The interplay of glycosylations and acylations yields a wide variety of mixed glycosides, bearing substructures corresponding to the different biochemical classes. For example, in the tassel, many phenylpropanoid and flavonoid-bearing glycosides also contain auxin-derived moieties. The characterized compounds and mass differences are an important step forward in metabolic pathway discovery and systems biology research.

59 BASIC BIOLOGICAL SCIENCES↗