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DOE OSTI2022

A tipping point in cancer epidemiology: embracing a life course exposomic framework

In this work, we show how the pathogenesis of multifactorial malignant diseases, with variable onset, severity, and natural history, reflects development-specific exposures and individual responses to these exposures influenced by underlying genetic predisposition. Embedded in life course theory, exposomics provides a framework to more fully elucidate how environmental factors alter cancer risk, disease course, and response to treatment across the lifespan.

60 APPLIED LIFE SCIENCES↗

DOE OSTI2021

Mixture Model Framework for Traumatic Brain Injury Prognosis Using Heterogeneous Clinical and Outcome Data

Prognoses of Traumatic Brain Injury (TBI) outcomes are neither easily nor accurately determined from clinical indicators. This is due in part to the heterogeneity of damage inflicted to the brain, ultimately resulting in diverse and complex outcomes. Using a data-driven approach on many distinct data elements may be necessary to describe this large set of outcomes and thereby robustly depict the nuanced differences among TBI patients’ recovery. In this work, we develop a method for modeling large heterogeneous data types relevant to TBI. Our approach is geared toward the probabilistic representation of mixed continuous and discrete variables with missing values. The model is trained on a dataset encompassing a variety of data types, including demographics, blood-based biomarkers, and imaging findings. In addition, it includes a set of clinical outcome assessments at 3, 6, and 12 months post-injury. The model is used to stratify patients into distinct groups in an unsupervised learning setting. We use the model to infer outcomes using input data, and show that the collection of input data reduces uncertainty of outcomes over a baseline approach. In addition, we quantify the performance of a likelihood scoring technique that can be used to self-evaluate the extrapolation risk of prognosis on unseen patients.

97 MATHEMATICS AND COMPUTING↗

DOE OSTI2021

Construction, characterization and crystal structure of a fluorescent single-chain Fv chimera

In vitro display technologies based on phage and yeast have a successful history of selecting single-chain variable fragment (scFv) antibodies against various targets. However, single-chain antibodies are often unstable and poorly expressed in Escherichia coli. Here, we explore the feasibility of converting scFv antibodies to an intrinsically fluorescent format by inserting the monomeric, stable fluorescent protein named thermal green, between the light- and heavy-chain variable regions. Our results show that the scTGP format maintains the affinity and specificity of the antibodies, improves expression levels, allows one-step fluorescent assay for detection of binding and is a suitable reagent for epitope binning. We also report the crystal structure of an scTGP construct that recognizes phosphorylated tyrosine on FcεR1 receptor of the allergy pathway.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2020

Late Holocene history of Tokotan Lake (Kuril Archipelago, Russian Far East): The use of lacustrine records for paleoclimatic reconstructions from geologically dynamic settings

A high-resolution, multiproxy analysis of a core from Tokotan Lake, Urup Island, illustrates the complex paleoenvironmental signals that can be preserved in sedimentary deposits from geologically active areas, such as the Kuril Archipelago. Diatom and geochemical analyses of the Tokotan core suggest a shallowing and lessening of the lake area over the last ~3450 cal BP. Without other proxies, the record could be interpreted as showing a general decrease in precipitation over the Late Holocene. However, palynological data indicate no change in vegetation, thereby implying no significant climatic variation. Neither of these paleoclimatic interpretations agrees with Late Holocene reconstructions from the Kuril Archipelago or the Russian mainland. Paleomagnetic data imply variable sediment sources during the lake's history, indicating alterations within the Tokotan catchment (e.g., shifts in gradients or sediment loads in the inflowing streams). Such changes would be particularly important in the Shabalina River, which today has formed a partial dam across the lake's outlet. Here, the results of the Tokotan study indicate that other factors (e.g., volcanism, seismic activity, sea-level changes) rather than climate were more probable determinants of the Late Holocene lake record. Given the geologic dynamism of the region, it is perhaps not surprising that paleo-records from the Kuril Islands display an inconsistency in the numbers and/or duration of proposed Holocene climatic oscillations, underscoring the importance of multiproxy investigations in areas that are or have been geologically dynamic.

58 GEOSCIENCES↗

DOE OSTI2025

Phase-field modeling and experiments of dynamic fracture in single crystal quartz

Predicting the onset and characteristics of brittle fracture is important for a wide range of engineering and geological material applications. In this paper, we study important aspects of brittle fracture in α-quartz by phase-field modeling and experiments using a top-down approach. In the modeling framework, the work term in the Griffith energy balance is replaced with internal energy contributions that represent surface energy, thermal energy, and elastic strain energy stored in defects. This allows parametrization of individual energy contributions in terms of internal state variables and keeps track of energy partitioning after the onset of fracture. The path and history dependence of fracture is included in evolution laws for internal state variables, e.g., entropy evolution, while the energy remains a true potential. In the experimental part, dynamic compression experiments coupled with X-ray phase contrast imaging are performed on cube-like samples with a hole. In the top-down analysis, dynamic compression and three point bending experiments from the literature are simulated with the developed phase-field damage model. In conclusion, the fitted model highlights the strain rate, size, and stress state dependence of damage nucleation and evolution in single crystal α-quartz.

36 MATERIALS SCIENCE↗

DOE OSTI2024

HiFiPDV2 v. 2

SAND2024-01061O The HiFiPDV-2 software is similar to other photonic Doppler velocimetry (PDV) analysis codes in that it converts signals from intensity-time space to frequency-time space using a short-time Fourier transform (STFT). It then analyzes peaks of the resulting power spectral density information to extract the velocity-time history. The unique aspects of HiFiPDV and HiFiPDV-2 are that this reduction process is repeated for an array of reasonable STFT input variables. The resulting population distribution of output velocity-time histories is evaluated to determine the most likely velocity history and its associated uncertainty. This uncertainty is defined as the systematic uncertainty of the PDV signal as it is a function of input values to the reduction process. The HiFiPDV-2 program brings new functionality and efficiency to these calculations—most notably significant reductions in memory usage and calculation times, the ability to evaluate frequency-shifted signals, and the ability to filter out baseline signals. Developers recommend that users have at least 2 GB of RAM per CPU core in their system. Sandia National Laboratories is a multimission laboratory managed and operated by National Technology & Engineering Solutions of Sandia, LLC, a wholly owned subsidiary of Honeywell International Inc., for the U.S. Department of Energy’s National Nuclear Security Administration under contract DE-NA0003525.

Voorhees, Travis↗

DOE OSTI2023

Identifying quenched jets in heavy ion collisions with machine learning

Measurements of jet substructure in ultra-relativistic heavy ion collisions suggest that the jet showering process is modified by the interaction with the quark-gluon plasma. Modifications of the hard substructure of jets can be explored with modern data-driven techniques. In this study, a machine learning approach to the identification of quenched jets is designed. Jet showering processes are simulated with a jet quenching model JEWEL and a non-quenching model PYTHIA 8. Sequential substructure variables are extracted from the jet clustering history following an angular-ordered sequence and are used in the training of a neural network built on top of a long short-term memory network. We show that this approach successfully identifies the quenching effect in the presence of the large uncorrelated background of soft particles created in heavy-ion collisions.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

DOE OSTI2025

A tale of two planets: Disparate evolutionary models for Mars inferred from radiogenic isotope compositions of Martian meteorites

The radiogenic isotopic compositions of basaltic Martian meteorites (shergottites) and clinopyroxene/olivine cumulate meteorites (nakhlite/chassignites) are used to define the global evolution of Mars. However, the two main groups of meteorites demonstrate that their sources underwent divergent styles of magmatic evolution. The shergottites portray a planet that differentiated ~4.52 billion years ago via solidification of a magma ocean, producing incompatible element-depleted and -enriched reservoirs that remained isolated until melt production. In contrast, the reservoir from which the nakhlite/chassignites derive may have formed earlier, produced melts that fractionated Sm/Nd and Hf/W differently, was compositionally less variable, and experienced a significantly more complex history following primordial differentiation than the shergottite sources. The disparate histories recorded by these two groups of meteorites elucidate important questions that could be addressed by acquiring additional samples. Obtaining samples that shared the isotopic systematics of the shergottites would provide confidence that extrapolating the primordial differentiation history of Mars from shergottite radiogenic isotope systematics is reasonable. Returned samples from Mars will also constrain the physical locations of the meteorite source regions, providing insights into the general structure of the Martian mantle. In addition, they will help constrain the phases present in the martian mantle during melting and the conditions under which they are stable. Finally, identifying an evolved lithology that satisfies the geochemical and isotopic constraints placed on the incompatible element-enriched endmember observed in the shergottites would define the nature of magmatic evolution on Mars and whether it is more akin to processes on the Earth or the Moon.

Mars↗

DOE OSTI2026

Predictive Model for Starlink Maritime Performance Using Multi-Horizon RandomForest

Low Earth orbit (LEO) satellite systems have become a crucial enabler of broadband access for maritime industries, where traditional networks are unavailable. However, the high mobility of LEO constellations and constantly changing weather conditions result in unpredictable link fluctuations, limiting the ability of maritime platforms to plan bandwidth usage proactively. To the best of our knowledge, no prior work has developed a short-term predictive model for maritime LEO connectivity using real experimental field measurements. This paper proposes a data-driven forecasting model that predicts future downlink throughput using multi-horizon RandomForest regression. The model is trained using real experimental coastal measurement data incorporating recent throughput history, network-layer indicators, and environmental variables. The proposed approach reduces mean absolute error by approximately 31% compared to a persistence baseline for 15-minute horizons. It maintains a measurable improvement at 30 minutes, despite increased stochasticity. These findings confirm that proactive bandwidth awareness is feasible on maritime platforms and can effectively support operational decisions such as adaptive streaming, routing, and resource scheduling. The performance gap between forecasting horizons also highlights the need for expanded offshore datasets to improve prediction robustness under harsher maritime environments.

97 MATHEMATICS AND COMPUTING↗

DOE OSTI2023

The influence of natural variability on extreme monsoons in Pakistan

The monsoons in Pakistan have been exceptionally harsh in recent decades, resulting in extraordinary drought conditions and record flooding events. The changing characteristics of extreme events are widely attributed to climate change. However, given this region’s long history of floods and droughts, the role of natural climate variability cannot be rejected without a careful diagnosis. Here, we examine how oceanic and atmospheric variability has contributed to unusual precipitation distributions in West South Asia. Variations in sea surface temperatures in the tropical Pacific and northern Arabian Sea, and internal atmospheric variability related to the circumglobal teleconnection pattern and the subtropical westerly jet stream, explain more than 70% of monthly summer precipitation variability in the 21st century. Several of these forcings have co-occurred with record strength during episodes of extreme monsoons, which have exacerbated the overall effect. Climate change may have contributed to increased variability and the in-phase co-occurrences of the identified mechanisms, but further research is required to confirm any such connection.

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2025

Emergence of Intermediate Range Order in Jammed Packings

We perform a structural analysis of large scale jammed packings of monodisperse, frictionless and frictional spheres to elucidate structural signatures of the static structure factor in the low-to-intermediate wave number region. We employ discrete element method simulations containing up to 8×10^{7} particles, in which the particle friction coefficient(s), including sliding, rolling, and twisting interactions, are varied. At intermediate wave number values, corresponding to length scales that lie between that of the nearest neighbor primary peak and the system size, we find the emergence of a prepeak-a signature of intermediate range order-that grows with increasing friction. We correlate the emergence of this peak to real space fluctuations in the local particle coordination number, which exhibits a grainy fluctuating field throughout the packing process that is retained in the final, mechanically stable state. While the formation of the prepeak shows varying degrees of robustness to packing protocol changes, our results suggest that preparation history may be used to construct packings with variable large length scale structural properties.

Monti, Joseph M↗

DOE OSTI2025

Improving the Transportability of a Deep Learning Denoising Model Using Transfer Learning Techniques

The adoption of machine learning techniques in the seismology community has led to great performance improvements in several areas, including signal processing. Specifically, the development of deep learning–based seismic waveform denoising models has the potential to yield improvements in signal detection capabilities for networks operating in particularly noisy environments. Recent advancements in the design of these deep learning denoising models have included the incorporation of continuous and discrete wavelet transform functions into the network architecture to improve the learning capabilities and efficiency of said models. These wavelet transform–based seismic denoising models have shown improved denoising capabilities in regions where there is good agreement between the data features present in the training and evaluation datasets. However, questions remain about the overall transportability of these models to other monitoring regions. Here, in this study, we will determine the baseline transportability of a newly developed multilevel wavelet‐transform convolutional neural network (MWCNN) seismic denoising model. We accomplish this by taking a version of the MWCNN denoising model trained on data collected from the Utah region and evaluating its denoising performance on datasets collected from the neighboring Nevada region, which differ with regard to monitoring sensor types and event histories. We find that there is a notable variability in denoising performance related to the degree of similarity between the initial and new target datasets. The most notable difference in denoising performance is the ability of the denoising model to preserve accurate amplitude information associated with the signal energy present in the waveform data. Finally, we evaluate the ability of transfer learning techniques to improve the transportability of the MWCNN denoising model. We find that although there is still a performance gap present in the denoising results of the MWCNN model, transfer learning did yield improved results.

Quinones, Louis [Sandia National Laboratories (SNL↗

DOE OSTI2020

Empirical Study of Focus-Plus-Context and Aggregation Techniques for the Visualization of Streaming Data

Analysis of streaming data often involves both real-time monitoring of incoming data as well as contextual awareness of data history. A focus-plus-context approach can support both goals, with variable levels of visual aggregation making it possible to provide a high level of detail for incoming and recent data while providing contextual information about recent history. Visual aggregation reduces data resolution in order to show the context of data over large periods of time within a limited display space. With a controlled experiment, we evaluated the effectiveness of different types of aggregation for four types of stream-analysis tasks. Overall, the results show that a focus-plus-context design has little negative impact on the ability to successfully monitor and analyze streaming data, making it possible to show longer periods of time than other approaches. However, visual aggregation can be problematic for trend recognition tasks. This research demonstrates how the effectiveness of the visualization depends on the specifics of the analysis task.

Ragan, Eric↗

DOE OSTI2022

Forest structure and solar-induced fluorescence across intact and degraded forests in the Amazon

Tropical forest degradation (e.g., anthropogenic disturbances such as selective logging and fires) alters forest structure and function and influences the forest's carbon sink. In this study, we explored structure-function relationships across a variety of degradation levels in the southern Brazilian Amazon by 1) investigating how forest structural properties vary as a function of degradation history using airborne lidar data; 2) assessing the effects of degradation on solar-induced chlorophyll fluorescence (SIF) seasonality using TROPOMI data; and 3) quantifying the contribution of structural variables to SIF using multiple regression models with stepwise selection of lidar metrics. Forest degradation history was obtained through Landsat time-series classification. We found that fire, logging, and time since disturbance were major determinants of forest structure, and that forests affected by fires experienced larger variability in leaf area index (LAI), canopy height and vertical structure relative to logged and intact forests. Moreover, only recently burned forests showed significantly depressed SIF during the dry season compared to intact forests. Canopy height and the vertical distribution of foliage were the best predictors of SIF. Unexpectedly, we found that wet-season SIF was higher in active regenerating forests (~ 4 years after fires or logging) compared with intact forests, despite lower LAI. Furthermore, our findings help to elucidate the mechanisms of carbon accumulation in anthropogenically disturbed tropical forests and indicate that they can capture large amounts of carbon while recovering.

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2025

Unsupervised Process Anomaly Detection and Identification Using the Leave-One-Variable-Out Approach

Automated anomaly detection and identification can signal equipment issues and pinpoint causes in large-scale industrial systems. For systems with limited failure history, unsupervised machine learning methods can be utilized as they do not require past failures. This study introduces the leave-one-variable-out (LOVO) model, which masks one variable at a time to predict the others, learning underlying process correlations. Detection performance was assessed with synthetic and experimental data, while identification performance used only synthetic data due to its ability to generate labeled anomaly types. For detection using synthetic data, the LOVO model generally outperformed comparative models; while using experimental data, the comparative methods outperformed the LOVO model. However, the comparative methods required selecting a latent size, and these conclusions pertain to using the optimal size. In practice, it would not be feasible to always select the optimal value, and incorrect selections impacted performance. In contrast, the LOVO model does not require a latent space. For identification using synthetic data, the LOVO model was slightly outperformed in interpretability and repeatability but still demonstrated impressive results. These outcomes suggest that the LOVO model is an effective model and may be more easily implemented without the challenging tuning process of selecting a latent size.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

DOE OSTI2022

Identifications of RR Lyrae Stars and Quasars from the Simulated Data of Mephisto-W Survey

We have investigated the feasibilities and accuracies of the identifications of RR Lyrae stars and quasars from the simulated data of the Multi-channel Photometric Survey Telescope (Mephisto) W Survey. Based on the variable sources light curve libraries from the Sloan Digital Sky Survey (SDSS) Stripe 82 data and the observation history simulation from the Mephisto-W Survey Scheduler, we have simulated the uvgriz multi-band light curves of RR Lyrae stars, quasars and other variable sources for the first-year observation of Mephisto W Survey. We have applied the ensemble machine learning algorithm Random Forest Classifier (RFC) to identify RR Lyrae stars and quasars, respectively. We build training and test samples and extract ~150 features from the simulated light curves and train two RFCs respectively for the RR Lyrae star and quasar classification. We find that, our RFCs are able to select the RR Lyrae stars and quasars with remarkably high precision and completeness, with purity = 95.4% and completeness = 96.9% for the RR Lyrae RFC and purity = 91.4% and completeness = 90.2% for the quasar RFC. In conclusion, we have also derived relative importances of the extracted features utilized to classify RR Lyrae stars and quasars.

(galaxies:) quasars: general↗

DOE OSTI2021

Altered ß-cell Prohormone Processing and Secretion in Type 1 Diabetes

Analysis of data from clinical cohorts and more recently from human pancreatic tissue, indicate that defects in prohormone processing are an early and persistent component of type 1 diabetes pathogenesis. In this Perspectives article, we review the current state of knowledge of alterations in islet prohormone expression and processing in type 1 diabetes, and consider the clinical impact of these findings. Lingering questions, including pathologic etiologies and consequences of altered prohormone expression and secretion in type 1 diabetes, and the natural history of circulating prohormone production in health and disease are considered. Finally, key steps required to move forward in this area are outlined, including longitudinal testing of relevant clinical populations, studies that probe the genetics of altered prohormone processing, the need for combined functional and histologic testing of human pancreatic tissues, continued interrogation of the intersection between prohormone processing and autoimmunity, and optimal assays or approaches for analysis. Successful resolution of these questions may offer the potential to use altered prohormone processing as a pathogenic anchor that can be used to cluster different endotypes enveloping a large set of variables, and inform therapeutic strategies aimed at personalized intervention in the natural history of type 1 diabetes.

Islets, Insulin, Proinsulin, Islet Amyloid Polypep↗

DOE OSTI2023

Machine learning surrogate of physics-based building-stock simulator for end-use load forecasting

Building energy models are used to simulate heat and mass transfer and estimate end-use load in buildings. With the proliferation of solar photovoltaics on residential and commercial buildings, increasingly, buildings are expected to provide grid services, for which accurate and computationally efficient building energy simulations and end-use load prediction are imperative. Existing building energy simulation tools, however, have significant computational overhead that make them less practical in real-time deployment for optimization, design, uncertainty quantification and control in building energy management systems. Here this article presents a data-driven machine learning model based on light gradient boosting method (LightGBM) as a surrogate for a physics-based simulator for residential buildings to predict end-use load. The machine learning based surrogate model accounts for time-series related variables, seasonality and trend component of end-use load, and history of end-use load. The accuracy of the surrogate model is assessed on the prediction of the load profiles of 100 different houses in Cook County, Illinois, USA. The LightGBM surrogate model is shown to reduce the root-mean-squared error by 53% relative to a reference decision tree (DT) based model reported previously in the literature. Moreover, the model predicts the load spikes and high-ramp rate events throughout the year which are often the Achilles heel of other models in the literature. The machine learning based surrogate model is demonstrated to be computationally efficient, with a ten-fold reduction in the computational time compared to a physics-based building energy simulation, and suitable for uncertainty analysis and real-time control of building characteristics in response to uncertainty.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗