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DOE OSTI2022

Improving Peptide-Level Mass Spectrometry Analysis via Double Competition

A critical statistical task in the analysis of shotgun proteomics data involves controlling the false discovery rate (FDR) among the reported set of discoveries. This task is most commonly solved at the peptide-spectrum match (PSM) level by using target-decoy competition (TDC), in which a set of observed spectra are searched against a database containing a mixture of real (target) and decoy peptides. The PSM-level procedure can be adapted to the peptide level by selecting the top-scoring PSM per peptide prior to FDR estimation. Here, we investigate both PSM-level and peptide-level FDR control methods and come to two conclusions. First, although the TDC procedure is provably correct under certain assumptions, we observe that one of these assumptions - that incorrect PSMs are independent of one another - is frequently violated. Hence, we empirically demonstrate that TDC-based PSM-level FDR estimates can be liberally biased. Further, we propose that researchers avoid PSM-level results and instead focus on peptide-level analysis. Second, we investigate three ways to carry out peptide level TDC and show that the most common method ("PSM-only") offers the lowest statistical power in practice. The most powerful method, peptide-level FDR with PSM competition ("PSM-and-peptide"), carries out competition first at the PSM level and then again at the peptide level. In our experiments, this approach yields an average increase of 17% more discovered peptides at a1% FDR threshold relative to the PSM-only method.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2022

A fusion relevant data-driven engineering void swelling model for 9Cr tempered martensitic steels

The UCSB database on cavity evolution in 9-12Cr tempered martensitic steels (TMS), includes the results for both dual heavy and helium ion (DII), and High Flux Isotope Reactor (HFIR) in situ helium injection (ISHI) neutron irradiations at 500°C. These results were combined with literature single ion and fission neutron irradiation data to derive a model for the void volume fraction, f v , as a function of displacements per atom (dpa) and transmutant helium concentrations in atomic parts per million (appm). The scientific foundation for the paper is described in a companion paper entitled “Cavity Evolution and Void Swelling in Dual Ion Irradiated Tempered Martensitic Steels”. Here, in this study, we show that f v (dpa, He/dpa) is described by the incubation dose, dpa i , for the onset of void growth, and the post-incubation growth rate, f v ’(%/dpa). Both dpa i and f v ’ decrease with increasing He/dpa at > ~ 5. The dpa i is also lower for the ISHI neutron irradiations at the same He/dpa. Single heavy ion and fission reactor neutron irradiations, with low He/dpa ratios, have a much larger dpa i . Based on a combined analysis of DII, single ion, ISHI and fission neutron data, we further show that the post-incubation f v data analyzed here have a common empirical curve shape, with f v ’ reaching up to ~ 0.2%/dpa at very high dpa. We also show that f v ’ can be predicted based on a physical model of defect partitioning between evolving sinks. At 500°C and fusion relevant He/dpa ≈ 10, the best-fit model predicts nominal swelling, S = f v /(1-f v ), of ~ 1.1, 4.9 and 16% at 50, 100 and 200 dpa, respectively. The physically motivated, data-driven model includes estimated uncertainties for both dpa i and f v ’.

36 MATERIALS SCIENCE↗

DOE OSTI2024

Enhanced read resolution in reconfigurable memristive synapses for Spiking Neural Networks

Abstract The synapse is a key element circuit in any memristor-based neuromorphic computing system. A memristor is a two-terminal analog memory device. Memristive synapses suffer from various challenges including high voltage, SET or RESET failure, and READ margin issues that can degrade the distinguishability of stored weights. Enhancing READ resolution is very important to improving the reliability of memristive synapses. Usually, the READ resolution is very small for a memristive synapse with a 4-bit data precision. This work considers a step-by-step analysis to enhance the READ current resolution or the read current difference between two resistance levels for a current-controlled memristor-based synapse. An empirical model is used to characterize the $${\hbox {HfO}}_{2}$$ HfO 2 based memristive device. $$1\textrm{st}$$ 1 st and $$2\textrm{nd}$$ 2 nd stage device of our proposed synapse design can be scaled to enhance the READ current margin up to $$\sim$$ ∼ 4.3 $$\times$$ × and $$\sim$$ ∼ 21%, respectively. Moreover, READ current resolution can be enhanced with run-time adaptation techniques such as READ voltage scaling and body biasing. The READ voltage scaling and body biasing can improve the READ current resolution by about 46% and 15%, respectively. TENNLab’s neuromorphic computing framework is leveraged to evaluate the effect of READ current resolution on classification, control, and reservoir computing applications. Higher READ current resolution shows better accuracy than lower resolution even when facing different levels of read noise.

97 MATHEMATICS AND COMPUTING↗

DOE OSTI2023

Designing Nuclear Fuels with a Multi-Principal Element Alloying Approach

Previous research has shown that multi-principal element alloys (MPEAs) using chromium, molybdenum, niobium, tantalum, titanium, vanadium, and zirconium can form stable body-centered-cubic (BCC) structures across a large temperature region (25°C to 1000°C). This is the same crystal structure as γ-uranium (U), which has shown desirable thermal and irradiation behavior in previous alloy fuel research. It is hypothesized then that the MPEA alloying approach can be used to produce a stable BCC uranium-bearing alloy and to retain its stability throughout anticipated operating regimes of power-producing reactors. Candidate elements were assessed using Monte Carlo N-Particle (MCNP) analysis to determine uranium densities necessary to make the alloy an economically viable fuel compared to conventional fuel forms. Following neutronic considerations, materials property databases and empirical predictors were used to determine the compositions with a high potential to form a BCC solid solution alloy. The final four alloys were MoNbTaU 2 , MoNbTiU 2 , NbTaTiU 2 , and NbTaVU 2 , which were cast using arc melting of raw elemental foils and chunks. Characterization of the fabricated alloys included scanning electron microscopy, X-ray diffraction, energy dispersive X-ray spectroscopy, and transmission electron microscopy. The results showed a two-phase system with a U-rich matrix phase surrounding the refractory precipitates. The U phase was found to contain varying concentrations of the alloying elements and was a BCC γ-U phase. These results warrant further research to identify ideal compositions for use as an advanced alloy fuel.

11 NUCLEAR FUEL CYCLE AND FUEL MATERIALS↗

DOE OSTI2021

Characterizing Signatures of Geothermal Exploration Data with Machine Learning Techniques: An Application to the Nevada Play Fairway Analysis

We are introducing machine learning methods to the play fairway analysis to generate geothermal potential maps to support the evaluation of geothermal resource potential and the exploration for undiscovered blind geothermal systems in the Nevada Great Basin region. Our project aims to identify new ways to combine the play fairway data and empirically organize relationships between feature weights and labels in an improved workflow. As a means of doing this, we introduce machine learning methods to evaluate the influence of certain geological and geophysical features/feature sets in predicting geothermal favorability. This report highlights promising approaches based on supervised and unsupervised learning methods. First, we demonstrate a filter method applied to supervised classification modeling. The supervised filter method is based on permutation analysis to evaluate every possible feature combination/drop out scenario and rank feature influence based on the performance variance of supervised classification models. Additionally, we present an unsupervised factor analysis based on principal component analysis coupled with a semi-supervised kmeans clustering algorithm. This analysis allows us to identify the optimal number of groups/clusters for training sites and structural settings to identify feature patterns including correlation, variance, and latent and dominant feature relationships. The results from these methods offer a promising avenue for identifying favorable sources of predictive information to identify the locations of blind geothermal systems and furthering our understanding of complex geothermal feature and label relationships in the Great Basin region and beyond.

15 GEOTHERMAL ENERGY↗

DOE OSTI2020

A new waveform analysis technique to extract good energy and position resolution from a dual-axis duo-lateral position-sensitive detector

The dual-axis duo-lateral position-sensitive silicon detector was developed to detect charged particles with high quality position and energy resolution. When these detectors were used with conventional signal processing electronics, an empirically determined correction was used to improve energy resolution. In this work, the waveforms from the detector after preamplification are studied in detail to investigate position information contained in the waveforms. A 7.22 MeV/nucleon alpha particle beam was impinged directly on a masked dual-axis duo-lateral detector. Data obtained using a 228 Th alpha particle source was also used. Here, by studying the waveform characteristics that give rise to the position-dependent distortions, a new summed trigger analysis method has been developed to significantly improve linearity in position reconstruction without sacrificing energy resolution.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

DOE OSTI2020

A machine learning approach to fracture mechanics problems

Analytical and empirical solutions to engineering problems are usually preferred because of their convenience in applications. However, they are not always accessible in complex problems. A new class of solutions, based on machine learning (ML) models such as regression trees and neural networks (NNs), are proposed and their feasibility and value are demonstrated through the analysis of fracture toughness measurements. It is found that both solutions based on regression trees and NNs can provide accurate results for the specific problem, but NN-based solutions outperform regression-tree-based solutions in terms of their simplicity. Here this example demonstrates that ML solutions are a major improvement over analytical and empirical solutions in terms of both reliable functionality and rapid deployment. When analytical solutions are not available, the use of ML solutions can overcome the limitations of empirical solutions and substantially change the way that engineering problems are solved.

36 MATERIALS SCIENCE↗

DOE OSTI2023

Reevaluating Contour Visualizations for Power Systems Data

Effective visual analytics tools are needed now more than ever as emerging energy systems data and models are rapidly growing in scale and complexity. Here we examined the suitability of colored contour maps to visually represent bus values in two different power system models: a dense 24k-bus distribution system and a 240-bus transmission system. In a quantitative analysis, we found that contour maps misrepresent power systems data, changing the statistical dispersion of the bus values, including the loss of extreme values. In a controlled empirical study with thirty professional power system research engineers, we found that these distortions significantly impact excursion identification tasks. Additionally, the engineers were less confident in their assessments using contour-based visualizations than glyph-based visualizations.

24 POWER TRANSMISSION AND DISTRIBUTION↗

DOE OSTI2021

Air separation via a two-step solar thermochemical cycle based on (Ba,La) x Sr 1-x FeO 3-δ : Thermodynamic analysis

A two-step solar thermochemical cycle was considered for air separation to produce N2 based on (Ba,La) x Sr 1-x FeO 3-δ perovskite reduction/oxidation (redox) reactions for A-site fractions of 0 ≤ x ≤ 0.2. The cycle steps encompassed (1) thermal reduction and O 2 release via concentrated solar input and (2) re-oxidation with air to uptake O 2 and produce high-purity N 2 . Thermogravimetry at temperatures between 400 and 1100 °C in atmospheres of 0.005 to 90% O 2 /Ar at 1 bar was performed to measure equilibrium nonstoichiometries. The compound energy formalism was applied to model redox thermodynamics for both Ba 2+ and La 3+ substitution. Non-linear regression was used to determine the empirical parameters based on the thermogravimetric measurements. The model was used to define partial molar reaction enthalpies and entropies and predicted equilibrium oxygen nonstoichiometry as functions of oxide stoichiometry, site fraction, temperature, and O 2 partial pressure. The thermodynamic analysis showed the materials are appealing for air separation at temperatures below 800 °C.

42 ENGINEERING↗

DOE OSTI2020

AFIP6-MkII and RERTR-12 Porosity Data Collection and Analysis for Modeling and Simulation

Gathering data for the improvement of nuclear fuel modeling and simulation efforts is the primary driver for this work. Mechanistic models allow for a better understanding of the material on a micro- and macrostructural level while saving time and money over traditional experiment efforts. Historically, summarized data and correlations are the inputs for empirical material models and model validation. When improving these models for nuclear fuels with experimental results, there is a lack of reliable data readily available. Experiments - RERTR-12 and AFIP6-MkII - were conducted to understand the irradiation behavior of metallic U-10Mo monolithic fuels for use in extreme reactor environments such as research reactors like the Advanced Test Reactor (ATR) or the High Flux Isotope Reactor (HFIR). Microstructural characteristics of fission gas pores (FGP) in each experiment are collected using an automated image analysis technique developed at the University of Florida and presented here. A series of statistical tests are performed to explore the reliability of the results, as well as understand where the data is lacking and what future data collection is necessary to provide sufficient information to assist modeling efforts. The focus is on the porosity, pore size, and eccentricity of FGPs formed during irradiation in three AFIP6-MkII samples and one RERTR-12 sample. From the analysis, it is clear there are substantial impacts of fission density on the pore structure, but there also exist also underlying connections between each sample and the behavior observed in the pores. Further analyses of the pre- and post-irradiation microstructure are needed to improve the understanding of these connections. An early method for microstructural data analysis is presented within and is currently being expanded to include other microstructure data.

11 NUCLEAR FUEL CYCLE AND FUEL MATERIALS↗

DOE OSTI2021

Hole formation effect on surface morphological response of plasma-facing tungsten

We report simulation results on the effect of helium (He) bubble bursting-mediated surface hole formation on the surface morphological response of tungsten plasma-facing components (PFCs) in nuclear fusion devices. Our analysis is based on an atomistically informed, continuum-scale model, which is capable of accessing the spatiotemporal scales relevant to the fuzz nanostructure formation process on the surface of PFC tungsten. Our simulations account, in an empirical fashion, for two types of subsurface bubble dynamical phenomena in the nanobubble region of PFC tungsten during He plasma irradiation, involving bubble bursting and surface crater formation. We demonstrate that the hole formation effect on the PFC tungsten surface accelerates the growth rate of nanotendrils and the onset of fuzz formation. As a result, the predicted incubation time for surface nanotendril growth is shortened, in agreement with experimental data of incubation fluence at comparable plasma exposure conditions. We also explore systematically the dependence of the PFC surface morphological response on the areal density of holes introduced at regular time intervals onto the He-implanted tungsten surface, a parameter in our analysis that serves as a proxy for the rate of He bubble bursting. More importantly, our simulations capture fine surface features in the PFC tungsten surface morphology and predict that the average spacing between nanotendrils is on the order of 100 nm, consistent with the experimental findings.

Chen, Chao-Shou (ORCID:0000000307910042)↗

DOE OSTI2022

Evaluating the location capabilities of a regional infrasonic network in Utah, US, using both ray tracing-derived and empirical-derived celerity-range and backazimuth models

SUMMARY More realistic models for infrasound signal propagation across a region can be used to improve the precision and accuracy of spatial and temporal source localization estimates. Motivated by incomplete infrasound event bulletins in the Western US, the location capabilities of a regional infrasonic network of stations located between 84–458 km from the Utah Test and Training Range, Utah, USA, is assessed using a series of near-surface explosive events with complementary ground truth (GT) information. Signal arrival times and backazimuth estimates are determined with an automatic F-statistic based signal detector and manually refined by an analyst. This study represents the first application of three distinct celerity-range and backazimuth models to an extensive suite of realistic signal detections for event location purposes. A singular celerity and backazimuth deviation model was previously constructed using ray tracing analysis based on an extensive archive of historical atmospheric specifications and is applied within this study to test location capabilities. Similarly, a set of multivariate, season and location specific models for celerity and backazimuth are compared to an empirical model that depends on the observations across the infrasound network and the GT events, which accounts for atmospheric propagation variations from source to receiver. Discrepancies between observed and predicted signal celerities result in locations with poor accuracy. Application of the empirical model improves both spatial localization precision and accuracy; all but one location estimates retain the true GT location within the 90 per cent confidence bounds. Average mislocation of the events is 15.49 km and average 90 per cent error ellipse areas are 4141 km2. The empirical model additionally reduces origin time residuals; origin time residuals from the other location models are in excess of 160 s while residuals produced with the empirical model are within 30 s of the true origin time. We demonstrate that event location accuracy is driven by a combination of signal propagation model and the azimuthal gap of detecting stations. A direct relationship between mislocation, error ellipse area and increased station azimuthal gaps indicate that for sparse networks, detection backazimuths may drive location biases over traveltime estimates.

58 GEOSCIENCES↗

DOE OSTI2023

Effects of transient fission gas release on rod balloon burst behavior during a loss-of-coolant accident

The US nuclear energy industry is investigating strategies to increase the reactor operating cycle to 24 months, which would result in rod average burnups exceeding the current limit of 62 GWd/tU. To support this goal, multiphysics simulations tools and methodologies are being developed to predict the effects of this change during transient events such as loss-of-coolant accidents (LOCAs). In this work, two cladding burst correlations were used to predict cladding failure. Here, these were coupled with three transient fission gas release (tFGR) models and were implemented in the BISON fuel performance code to quantify any changes in cladding burst behavior during a large-break LOCA. First, a simple linear model was used to perform a sensitivity analysis of a single fuel rod. Second, a tFGR model available in BISON was applied to 281 fuel rods throughout the core. The third model examined was an empirical correlation based on data from the literature.

22 GENERAL STUDIES OF NUCLEAR REACTORS↗

DOE OSTI2026

Overview of the physics basis for the ARC fusion power plant

Commonwealth Fusion Systems plans to build ARC as the first fusion power plant at a site in Chesterfield County, Virginia, USA by the early 2030s. We present an overview of analysis comprising the physics basis of the ARC V3A design, a high-magnetic-field tokamak with 𝐵 0 =11.4 T, 𝐼 𝑝 =12.0 MA, 𝑅 0 =4.62 m, 𝑎 =1.18 m. ARC V3A is designed to produce 𝑃 𝑓⁡𝑢⁢𝑠 ≈1.13 GW DT fusion power and deliver ⩾400 MW net electric power to the grid. This overview includes quantitative analysis of fundamental issues for design of and operational plasma scenarios for a tokamak power plant, and lays out the design targets and strategic choices for ARC, including empirical fusion performance projections, assessment of H-mode access, ion cyclotron resonance heating simulations, alpha particle physics and time-dependent full-pulse simulations. This is complemented by topical papers on fusion performance and transport, disruption physics, boundary physics and magnetohydrodynamic stability. Critically, these studies identify key model uncertainties and physics risks to be retired through SPARC operation. Due to the modular nature of ARC, early results from SPARC can be incorporated into the design of the first ARC as well as subsequent replacements of the ARC vacuum vessel.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

DOE OSTI2025

A Numerical Modeling Framework for Flocculation and Cohesive Sediment Transport in the Wave Bottom Boundary Layer

Flocculation, a critical process in coastal and estuarine systems, plays a significant role in sediment transport, nutrient cycling, and ecological health. This study develops a cohesive sediment transport modeling framework tailored to the wave bottom boundary layer under dilute and equilibrium conditions, explicitly incorporating flocculation effects via a Population Balance Equation (PBE). Using Direct Numerical Simulation, six baseline cases, each with a distinct sediment concentration profile resulting from a constant settling velocity and critical erosion shear stress, are generated to drive the PBE flocculation model for given floc yield strength and stickiness. Results reveal that flocculation significantly influences sediment concentration profiles promoting three distinct stages, well‐mixed, transition to lutocline, and well‐developed lutocline. At low concentrations with well‐mixed profiles, cohesive floc properties are less significant, and turbulence is a main flocculation driver. In contrast, as concentration increases, cohesive floc properties become crucial, facilitating lutocline formation. Here, the analysis also highlights limitations of depth‐averaged settling velocity as a parameterization. It is suitable for well‐mixed and transitional profiles but fails in well‐developed lutoclines, where empirical formulations that explicitly incorporate turbulent shear rate and sediment concentration better capture variability. This study underscores the necessity of incorporating flocculation effects into sediment transport models to enhance predictions of sediment dynamics in wave bottom boundary layers.

Penaloza‐Giraldo, Jorge A. [Oak Ridge National Lab↗

DOE OSTI2025

Chlorophyll- a dynamics in the lower Amazon River: insights from in situ and hyperspectral remote sensing using OCI-PACE

Chlorophyll-a concentration (Chla) is a key indicator of phytoplankton biomass and aquatic trophic status. However, satellite-derived Chla in sediment-rich waters, such as those found in the Lower Amazon River, remains challenging. The present study characterizes in situ Chla levels and their relationships with geographic, physical, and biogeochemical parameters in the Lower Amazon. Data collected between 2014 and 2017 across four hydrological seasons included measurements of Chla, remote sensing reflectance, and water quality parameters such as total suspended sediment, conductivity, water surface temperature, dissolved oxygen, pH, dissolved organic carbon and coloured dissolved organic matter. An empirical model was developed to estimate Chla using simulated hyperspectral bands from NASA’s PACE mission, achieving high performance (R 2 = 0.76; RMSE = 0.11 μg·L −1 ). Red bands proved particularly effective for Chla retrieval, while the addition of ultraviolet bands further enhanced model accuracy. The application of the developed model to satellite imagery yielded results consistent with in situ observations for the same hydrologic season. Seasonal variation and geographic location were major factors influencing Chla dynamics. This study provides a novel contribution to Chla estimation in optically complex, highly turbid waters and highlights the potential of the PACE mission to enhance global aquatic ecosystem monitoring. In conclusion, by offering freely available hyperspectral data with high radiometric resolution, PACE represents a significant advancement in the realm of remote sensing of aquatic environments.

Amazon River↗

DOE OSTI2025

Validation and moisture content sensitivity analysis of cross-laminated timber wall assemblies in EnergyPlus

Cross-laminated timber buildings are becoming more common in North America, with many numerical studies showing potential energy savings. However, no studies have validated any EnergyPlus heat transfer algorithms or quantified their accuracy in simulating CLT in building envelopes. This study empirically validates the heat flux predictions for each of EnergyPlus's heat transfer algorithms (Conduction Transfer Functions (CTF), Effective Moisture Penetration Depth (EMPD), Conduction Finite Difference (CondFD), and Heat and Moisture Transfer (HAMT)) for two different CLT ply thicknesses with both summer and winter boundary conditions measured in controlled lab experiments. It also evaluates the model sensitivity of heat flux and heating and cooling loads to moisture content. The 1D validation shows that the HAMT model is the most accurate among all algorithms. All EnergyPlus's heat flux predictions are accurate independent of CLT plate thickness for summer conditions. However, the three constant property algorithms (CTF, EMPD, and CondFD) underpredict heat flux throughout the whole day during winter conditions. The 1D sensitivity analysis indicates that elevated moisture content can increase peak heat fluxes through the material by up to 20 %. Finally, the whole building model sensitivity analysis shows increased heating load and slight cooling load variation due to increased moisture content when using constant property models. The analysis shows significantly lower peak thermal demand (7 % lower heating and 6 % lower cooling) and monthly thermal load (8 % less cooling and 6 % less heating) predictions when using HAMT vs a constant property model.

42 ENGINEERING↗

DOE OSTI2021

Challenging Practices of Algebraic Battery Life Models through Statistical Validation and Model Identification via Machine-Learning

Various modeling techniques are used to predict the capacity fade of Li-ion batteries. Algebraic reduced-order models, which are inherently interpretable and computationally fast, are ideal for use in battery controllers, technoeconomic models, and multi-objective optimizations. For Li-ion batteries with graphite anodes, solid-electrolyte-interphase (SEI) growth on the graphite surface dominates fade. This fade is often modeled using physically informed equations, such as square-root of time for predicting solvent-diffusion limited SEI growth, and Arrhenius and Tafel-like equations predicting the temperature and state-of-charge rate dependencies. In some cases, completely empirical relationships are proposed. However, statistical validation is rarely conducted to evaluate model optimality, and only a handful of possible models are usually investigated. This article demonstrates a novel procedure for automatically identifying reduced-order degradation models from millions of algorithmically generated equations via bi-level optimization and symbolic regression. Identified models are statistically validated using cross-validation, sensitivity analysis, and uncertainty quantification via bootstrapping. On a LiFePO 4 /Graphite cell calendar aging data set, automatically identified models utilizing square-root, power law, stretched exponential, and sigmoidal functions result in greater accuracy and lower uncertainty than models identified by human experts, and demonstrate that previously known physical relationships can be empirically "rediscovered" using machine learning.

25 ENERGY STORAGE↗