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At least 1,585 records · Page 88

SANE: strategic autonomous non-smooth exploration for multiple optima discovery in multi-modal and non-differentiable black-box functions

Both computational and experimental material discovery bring forth the challenge of exploring multidimensional and multimodal parameter spaces, such as phase diagrams of Hamiltonians with multiple interactions, composition spaces of combinatorial libraries, material structure image spaces, and molecular embedding spaces. Often these systems are black-boxes and time-consuming to evaluate, which resulted in strong interest towards active learning methods such as Bayesian optimization (BO). However, these systems are often noisy which make the black box function severely multi-modal and non-differentiable, where a vanilla BO can get overly focused near a single or faux optimum, deviating from the broader goal of scientific discovery. To address these limitations, here we developed Strategic Autonomous Non-Smooth Exploration (SANE) to facilitate an intelligent Bayesian optimized navigation with a proposed cost-driven probabilistic acquisition function to find multiple global and local optimal regions, avoiding the tendency to becoming trapped in a single optimum. To distinguish between a true and false optimal region due to noisy experimental measurements, a human (domain) knowledge driven dynamic surrogate gate is integrated with SANE. We implemented the gate-SANE into pre-acquired piezoresponse spectroscopy data of a ferroelectric combinatorial library with high noise levels in specific regions, and piezoresponse force microscopy (PFM) hyperspectral data. SANE demonstrated better performance than classical BO to facilitate the exploration of multiple optimal regions and thereby prioritized learning with higher coverage of scientific values in autonomous experiments. Our work showcases the potential application of this method to real-world experiments, where such combined strategic and human intervening approaches can be critical to unlocking new discoveries in autonomous research.

Biswas, Arpan [University of Tennessee, Knoxville,↗

Cyber Threat Assessment Methodology for Autonomous and Remote Operations for Advanced Reactors (Conference Presentation)

The next generation of Advanced Reactors include planned capabilities for both Autonomous (operating without human interaction for a set period-of-time) and Remote (operating with human interaction from a separate physical location) Operations. Existing Nuclear Reactor architectures include a set of safety and security constraints tightly coupled with personnel policies and procedures. As Advanced Reactors are fielded with these new Autonomous and Remote operational capabilities, the architectures and associated infrastructure services and components will perceivably expand the overall attack surface and risk calculations with regards to safe and secure operations. This paper is part of an FY21 work program focused on ensuring Advanced Reactor designs are informed with threat-based guidance on design and operation of Secure Architectures with a specific focus on the deployment of Autonomous Systems in support of Advanced Reactor Operations. The next phase of this research program is to complement produce a methodology for assessment of the cyber threat against these architectures as well as a catalogue of Use Cases to support the Advanced Reactor community in their implementation of Autonomous and Remote Operations.

97 MATHEMATICS AND COMPUTING↗

Modelling Nuclear Thermal Propulsion Reactor Startup Transients

The National Aeronautics and Space Administration (NASA) has set the goal of a manned mission to Mars by the year 2030 [1] and charged the national academy of sci- ences "to identify primary technical and programmatic chal- lenges, merits, and risks for maturing space nuclear propulsion technologies of interest to a future human Mars exploration mission" [2]. One relevant technology, nuclear thermal propul- sion (NTP), has notable advantages over traditional chemical rockets; most important among them is the ability to produce larger specific impulse on the order of 900s. The reduction of mission time is crucial for a manned mission to Mars to reduce the risk for the crew. Due to its higher specific impulse, NTP satisfies this need and is pursued as one technology to get humans to Mars [3, 4]. The construction of an NTP sys- tem has to negotiate several challenges laid out in Ref. [2]; one of these challenges is the need to startup the NTP sys- tem from essentially cold conditions to full power within one minute. This paper focuses on studying the neutronics and thermal-hydraulics behavior of a simplified NTP model dur- ing prescribed reactivity insertions and mass flow rate (MFR) ramps. It is the goal of this paper to investigate startup, peak material temperatures, and average specific impulse for a low enriched Uranium (LEU), ceramic and metal material (CER- MET) NTP system when varying reactivity insertion and MFR ramps.

33 ADVANCED PROPULSION SYSTEMS↗

Visualization of conformational changes and membrane remodeling leading to genome delivery by viral class-II fusion machinery

Chikungunya virus (CHIKV) is a human pathogen that delivers its genome to the host cell cytoplasm through endocytic low pH-activated membrane fusion mediated by class-II fusion proteins. Though structures of prefusion, icosahedral CHIKV are available, structural characterization of virion interaction with membranes has been limited. Here, we have used cryo-electron tomography to visualize CHIKV’s complete membrane fusion pathway, identifying key intermediary glycoprotein conformations coupled to membrane remodeling events. Using sub-tomogram averaging, we elucidate features of the low pH-exposed virion, nucleocapsid and full-length E1-glycoprotein’s post-fusion structure. Contrary to class-I fusion systems, CHIKV achieves membrane apposition by protrusion of extended E1-glycoprotein homotrimers into the target membrane. The fusion process also features a large hemifusion diaphragm that transitions to a wide pore for intact nucleocapsid delivery. Our analyses provide comprehensive ultrastructural insights into the class-II virus fusion system function and direct mechanistic characterization of the fundamental process of protein-mediated membrane fusion.

59 BASIC BIOLOGICAL SCIENCES↗

Skin-like low-noise elastomeric organic photodiodes

Stretchable optoelectronics made of elastomeric semiconductors could enable the integration of intelligent systems with soft materials, such as those of the biological world. Organic semiconductors and photodiodes have been engineered to be elastomeric; however, for photodetector applications, it remains a challenge to identify an elastomeric bulk heterojunction (e-BHJ) photoactive layer that combines a low Young’s modulus and a high strain at break that yields organic photodiodes with low electronic noise values and high photodetector performance. Here, a blend of an elastomer, a donor-like polymer, and an acceptor-like molecule yields a skin-like e-BHJ with a Young’s modulus of a few megapascals, comparable to values of human tissues, and a high strain at break of 189%. Elastomeric organic photodiodes based on e-BHJ photoactive layers maintain low electronic noise current values in the tens of femtoamperes range and noise equivalent power values in the tens of picowatts range under at least 60% strain.

42 ENGINEERING↗

COMPASS-FME Terrestrial Ecosystem Manipulation to Probe the Effects of Storm Treatments (TEMPEST) Experiment Tree Inventory

This is the tree inventory (diameter, species, and live/dead status) data from the Terrestrial Ecosystem Manipulation to Probe the Effects of Storm Treatments (TEMPEST) experimental site. This manipulative, ecosystem-scale TEMPEST experiment is part of the COMPASS-FME (Coastal Observations, Mechanisms, and Predictions Across Systems and Scales: Field Measurements and Experiments; see https://compass.pnnl.gov/FME/COMPASSFME) project. It addresses the potential for freshwater and estuarine-water disturbance events to alter tree function, species composition, and ecosystem processes in a deciduous coastal forest in eastern Maryland, USA. The experiment uses a large-unit (2000 m2), un-replicated experimental design, with three 50 m × 40 m plots serving as control, freshwater, and estuarine-water treatments.This dataset includes:- An overall dataset README file.- The tree inventory data in both "wide" and "long" forms. These contain the same information but are structured differently, with the former more useful for human viewers and the latter more amenable for programmatic analyses.- A key to the species/genus codes used, which follow the U.S. Department of Agriculture's PLANTS schema (https://plants.usda.gov/).- A copy of the R code used to generate the wide- and long-form data files.All files are comma-separated value (CSV) and no special software is required to read them.

54 ENVIRONMENTAL SCIENCES↗

An extended focused assessment with sonography in trauma ultrasound tissue-mimicking phantom for developing automated diagnostic technologies

Medical imaging-based triage is critical for ensuring medical treatment is timely and prioritized. However, without proper image collection and interpretation, triage decisions can be hard to make. While automation approaches can enhance these triage applications, tissue phantoms must be developed to train and mature these novel technologies. Here, we have developed a tissue phantom modeling the ultrasound views imaged during the enhanced focused assessment with sonography in trauma exam (eFAST). The tissue phantom utilized synthetic clear ballistic gel with carveouts in the abdomen and rib cage corresponding to the various eFAST scan points. Various approaches were taken to simulate proper physiology without injuries present or to mimic pneumothorax, hemothorax, or abdominal hemorrhage at multiple locations in the torso. Multiple ultrasound imaging systems were used to acquire ultrasound scans with or without injury present and were used to train deep learning image classification predictive models. Performance of the artificial intelligent (AI) models trained in this study achieved over 97% accuracy for each eFAST scan site. We used a previously trained AI model for pneumothorax which achieved 74% accuracy in blind predictions for images collected with the novel eFAST tissue phantom. Grad-CAM heat map overlays for the predictions identified that the AI models were tracking the area of interest for each scan point in the tissue phantom. Overall, the eFAST tissue phantom ultrasound scans resembled human images and were successful in training AI models. Tissue phantoms are critical first steps in troubleshooting and developing medical imaging automation technologies for this application that can accelerate the widespread use of ultrasound imaging for emergency triage.

60 APPLIED LIFE SCIENCES↗

Volatiles from the necrophagous fly Cochliomyia macellaria (Diptera: Calliphoridae) as indicators of Salmonella exposure

Blow flies (Diptera: Calliphoridae) are crucial in forensic investigations due to their association with both living and dead humans and other animals. Additionally, their interactions with various resources and potential as vectors of pathogens of humans and other animals, thus, make them potential tools for biosurveillance. This study investigated the potential of monitoring volatile organic compounds (VOCs) emitted by blow flies exposed to Salmonella as a method for pathogen surveillance. Adult blow flies ( Cochliomyia macellaria ) were exposed, or not, to Salmonella enterica . Following exposure, VOCs released by the blow flies were collected and analyzed using gas chromatography-mass spectrometry (GC-MS). Results indicate a treatment by time interaction (P < 0.01). Indicator species analysis identified a single compound significantly associated with S. enterica exposure (P = 0.02), Nonane, 2,2,4,4,6,8,8-heptamethyl, potentially indicating an immune system response. Given a compound indicating exposure was detected, future research should determine if more replicates could detect more differences after Salmonella ingestion. This research highlights the potential of blow flies as biosurveillance tools and the potential value of volatiles for assessing their exposure to pathogens.

59 BASIC BIOLOGICAL SCIENCES↗

Earth's water reservoirs in a changing climate

Progress towards achieving a quantitative understanding of the exchanges of water between Earth's main water reservoirs is reviewed with emphasis on advances accrued from the latest advances in Earth Observation from space. These exchanges of water between the reservoirs are a result of processes that are at the core of important physical Earth-system feedbacks, which fundamentally control the response of Earth's climate to the greenhouse gas forcing it is now experiencing, and are therefore vital to understanding the future evolution of Earth's climate. The changing nature of global mean sea level (GMSL) is the context for discussion of these exchanges. Different sources of satellite observations that are used to quantify ice mass loss and water storage over continents, how water can be tracked to its source using water isotope information and how the waters in different reservoirs influence the fluxes of water between reservoirs are described. The profound influence of Earth's hydrological cycle, including human influences on it, on the rate of GMSL rise is emphasized. The many intricate ways water cycle processes influence water exchanges between reservoirs and thus sea-level rise, including disproportionate influences by the tiniest water reservoirs, are emphasized.

54 ENVIRONMENTAL SCIENCES↗

Decode the Workload: Training Deep Learning Models for Efficient Compute Cluster Representation

Monitoring the status of a high throughput computing cluster running computationally intensive production jobs is a crucial yet challenging system administration task due to the complexity of such systems. To this end, we train autoencoders using the Linux kernel CPU metrics of the cluster. Additionally, we explore assisting these models with graph neural networks to share information across threads within a compute node. The models are compared in terms of their ability to: 1) Produce a compressed latent representation that captures the salient features of the input, 2) Detect anomalous activity, and 3) Make distinction between different kinds of jobs run at Jefferson Lab. The goal is to have a robust encoder whose compressed embeddings are used for several downstream tasks. We extend this study further by deploying these models in a human-in-the-loop production-based setting for the anomaly detection task and discuss the associated implementation aspects such as continual learning and the criterion to generate alarms. This study represents a first step in the endeavor towards building self-supervised large-scale foundation models for computing centers.

Mohammed, Ahmed↗

Oxide– and Silicate–Water Interfaces and Their Roles in Technology and the Environment

Interfacial reactions drive all elemental cycling on Earth and play pivotal roles in human activities such as agriculture, water purification, energy production and storage, environmental contaminant remediation, and nuclear waste repository management. The onset of the 21st century marked the beginning of a more detailed understanding of mineral aqueous interfaces enabled by advances in techniques that use tunable high-flux focused ultrafast laser and X-ray sources to provide near-atomic measurement resolution, as well as by nanofabrication approaches that enable transmission electron microscopy in a liquid cell. This leap into atomic- and nanometer-scale measurements has uncovered scale-dependent phenomena whose reaction thermodynamics, kinetics, and pathways deviate from previous observations made on larger systems. A second key advance is new experimental evidence for what scientists hypothesized but could not test previously, namely, interfacial chemical reactions are frequently driven by “anomalies” or “non-idealities” such as defects, nanoconfinement, and other nontypical chemical structures. Third, progress in computational chemistry has yielded new insights that allow a move beyond simple schematics, leading to a molecular model of these complex interfaces. In combination with surface-sensitive measurements, we have gained knowledge of the interfacial structure and dynamics, including the underlying solid surface and the immediately adjacent water and aqueous ions, enabling a better definition of what constitutes the oxide– and silicate–water interfaces. This critical review discusses how science progresses from understanding ideal solid–water interfaces to more realistic systems, focusing on accomplishments in the last 20 years and identifying challenges and future opportunities for the community to address. Further, we anticipate that the next 20 years will focus on understanding and predicting dynamic transient and reactive structures over greater spatial and temporal ranges as well as systems of greater structural and chemical complexity. Closer collaborations of theoretical and experimental experts across disciplines will continue to be critical to achieving this great aspiration.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Skin-integrated stretchable actuators toward skin-compatible haptic feedback and closed-loop human-machine interactions

Abstract Skin-integrated haptic interfaces that can relay a wealth of information from the machine to the human are of great interest. However, existing haptic devices are not yet able to produce haptic cues that are compatible with the skin. In this work, we present the stretchable soft actuators for haptic feedback, which can match the perception range, spatial resolution, and stretchability of the skin. Pressure-amplification structures are fabricated using a scalable self-assembly process to ensure an output pressure beyond the skin perception threshold. Due to the minimized device size, the actuator array can be fabricated with a sufficiently high spatial resolution, which makes the haptic device applicable for skin locations with the highest spatial acuity. A haptic feedback system is demonstrated by employing the developed soft actuators and highly sensitive pressure sensors. Two proof-of-concept applications are developed to illustrate the capability of transferring information related to surface textures and object shapes acquired at the robot side to the user side.

Chen, Si↗

Regional Medium-Term Hourly Electricity Demand Forecasting Based on LSTM

This paper aims to forecast high-resolution (hourly) aggregated load for a certain region in the medium term (a few days to over a year). One region is defined as some places with similar climate characteristics because the climate influences people's daily lifestyles and hence the electric usage. We decom- pose the electric usage records into two parts: base load and seasonal load. Considering both temperature and time factors, different deep learning methods are adopted to characterize them. The first goal of our approach is to predict the peak load which is critical for power system planning. Furthermore, our proposed forecast method can provide the depiction of the hourly load profile to provide customized load curves for high- level real-time applications. The proposed method is tested on real-world historical data collected by CAISO, BPA, and PACW. The experimental results show that trained by three years of data, our method could reduce the prediction error for one-year lead hourly load below 5% MAPE, and predict the occurrence of the peak load for next year in CAISO with an error within three days. Furthermore, as a byproduct, an interesting observation on the impact of COVID-19 on human life was made and discussed based on these case studies.

deep learning↗

Long-range current-induced spin accumulation in chiral crystals

Abstract Chiral materials, similarly to human hands, have distinguishable right-handed and left-handed enantiomers which may behave differently in response to external stimuli. Here, we use for the first time an approach based on the density functional theory (DFT)+PAOFLOW calculations to quantitatively estimate the so-called collinear Rashba–Edelstein effect (REE) that generates spin accumulation parallel to charge current and can manifest as chirality-dependent charge-to-spin conversion in chiral crystals. Importantly, we reveal that the spin accumulation induced in the bulk by an electric current is intrinsically protected by the quasi-persistent spin helix arising from the crystal symmetries present in chiral systems with the Weyl spin–orbit coupling. In contrast to conventional REE, spin transport can be preserved over large distances, in agreement with the recent observations for some chiral materials. This allows, for example, the generation of spin currents from spin accumulation, opening novel routes for the design of solid-state spintronics devices.

Roy, Arunesh↗

The algae revolution 2.0: the potential of algae for the production of food, feed, fuel and bioproducts – why we need it now

Algae made our world possible, and it can help us make the future more sustainable; but we need to change the way we live and adopt new more efficient production systems, and we need to do that now. When the world was new, the atmosphere was mainly carbon dioxide, and no animal life was possible. Along came algae with the process of photosynthesis, and things began to change. Ancient cyanobacteria algae turned carbon dioxide into enormous sums of lipids, proteins and carbohydrates, while they secreted oxygen into the atmosphere. Over a billion years, as oxygen filled the air and algae filled the seas, animal life became possible. Eventually all that algae biomass became petroleum and natural gas, which for eons sat undisturbed in vast underground reservoirs, holding enormous sums of untapped energy. Less than 200 years ago humans learned to tap these energy reserves to create the world we know today, but in so doing, we have released millions of years of stored CO 2 back into the atmosphere. Algae can again help make the world a better place, but this will require new thinking and new ways of producing our food, feed and fuels. We need an algae revolution 2.0.

59 BASIC BIOLOGICAL SCIENCES↗

Automatic detection of ship-induced cloud features in satellite imagery

Ships crossing the ocean are known to produce long, curvilinear features called ship tracks visible in satellite imagery via the Twomey effect; however, there has been little exploitation of satellite imagery for broad atmospheric studies or global monitoring of ship emissions due to the difficulty of automated ship track detection. Prior studies are either proof-of-concept, qualitatively assessed, or restricted to a certain time of day. We propose a statistical method for the automated identification of ship tracks and demonstrate using GOES-West ABI data. We first present a human-assisted segmentation method, which we use to generate a ground truth data set of 529 annotated ship tracks in GOES-West ABI products. We then describe a two-stage automated approach comprising a detection stage to generate ship track proposals and a classification stage to reduce false positives. For detection, we present a novel pipeline based around a z-score filtering technique, and for classification, we demonstrate several classifiers from literature. In a final experiment, we quantitatively tune the detection parameters and train the classifier using the ground truth dataset, then test on a sequestered set of images; the detect-then-classify system had an overall Pd of 0.68 and 0.80 for daytime and nighttime data, respectively, and the classifier reduced false positive detections by 67% and 75%.

47 OTHER INSTRUMENTATION↗

A Preprocessing Tool for Enhanced Ion Mobility–Mass Spectrometry-Based Omics Workflows

The ability to improve the data quality of ion mobility–mass spectrometry (IM-MS) measurements is of great importance for enabling modular and efficient computational workflows and gaining better qualitative and quantitative insights from complex biological and environmental samples. We developed the PNNL PreProcessor, a standalone and user-friendly software housing various algorithmic implementations to generate new MS-files with enhanced signal quality and in the same instrument format. Different experimental approaches are supported for IM-MS based on Drift-Tube (DT) and Structures for Lossless Ion Manipulations (SLIM), including liquid chromatography (LC) and infusion analyses. The algorithms extend the dynamic range of the detection system, while reducing file sizes for faster and memory-efficient downstream processing. Specifically, multidimensional smoothing improves peak shapes of poorly defined low-abundance signals, and saturation repair reconstructs the intensity profile of high-abundance peaks from various analyte types. Further, other functionalities are data compression and interpolation, IM demultiplexing, noise filtering by low intensity threshold and spike removal, and exporting of acquisition metadata. Several advantages of the tool are illustrated, including an increase of 19.4% in lipid annotations and a two-times faster processing of LC-DT IM-MS data-independent acquisition spectra from a complex lipid extract of a standard human plasma sample. The software is freely available at https://omics.pnl.gov/software/pnnl-preprocessor.

59 BASIC BIOLOGICAL SCIENCES↗

Sequence similarity between SARS-CoV-2 nucleocapsid and multiple sclerosis-associated proteins provides insight into viral neuropathogenesis following infection

Abstract The novel coronavirus SARS-CoV-2 continues to cause death and disease throughout the world, underscoring the necessity of understanding the virus and host immune response. From the start of the pandemic, a prominent pattern of central nervous system (CNS) pathologies, including demyelination, has emerged, suggesting an underlying mechanism of viral mimicry to CNS proteins. We hypothesized that immunodominant epitopes of SARS-CoV-2 share homology with proteins associated with multiple sclerosis (MS). Using PEPMatch, a newly developed bioinformatics package which predicts peptide similarity within specific amino acid mismatching parameters consistent with published MHC binding capacity, we discovered that nucleocapsid protein shares significant overlap with 22 MS-associated proteins, including myelin proteolipid protein (PLP). Further computational evaluation demonstrated that this overlap may have critical implications for T cell responses in MS patients and is likely unique to SARS-CoV-2 among the major human coronaviruses. Our findings substantiate the hypothesis of viral molecular mimicry in the pathogenesis of MS and warrant further experimental exploration.

60 APPLIED LIFE SCIENCES↗