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Assessment of BQ-9000 Biodiesel Properties for 2021

This is the fifth in a series of reports documenting the quality of biodiesel from U.S. and Canadian-based producers that participate in the BQ-9000 program, the biodiesel industry voluntary quality assurance program. Participants agreed to provide monthly data on critical quality parameters for calendar year 2021. The quality data was provided to a team of experts, who removed any identifying company information and provided anonymized and randomized data to the National Renewable Energy Laboratory (NREL) for statistical analysis. The critical quality parameters analyzed were: sodium and potassium (Na+K); calcium and magnesium (Ca+Mg); phosphorus (P); flash point and alcohol control; water and sediment; cloud point; acid number; free and total glycerin; monoglycerides; sulfur; oxidation stability; and cold soak filterability test (CSFT). The data was not weighted for production volume.

09 BIOMASS FUELS↗

Analytical Functions for 200 West Pump-and-Treat SCADA Sensor Data

Historical operations at the U.S. Department of Energy’s Hanford Site included disposal of waste fluids to the subsurface in the 200 West Area on the Hanford Central Plateau. Subsequent infiltration of fluids has resulted in groundwater contamination with carbon tetrachloride, nitrate, uranium, technetium-99, and other contaminants. A pump-and-treat (P&T) system, with an extraction/injection well network and an aboveground treatment plant, was implemented as part of interim and final remedies in the 200 West area. The HYPATIA single-page web application (part of the SOCRATES suite) is being developed to provide access to and analysis of chemistry and treatment facility sensor data for this 200 West P&T system. For the web application, analytical algorithms were developed to perform summing, differencing, smoothing, outlier detection, change-point detection, mass flow rate, and injectivity calculations on the data. Candidate algorithms were identified and tested, with the best-performing algorithms then assembled for implementation in HYPATIA. Because HYPATIA is hosted on the Amazon Web Services (AWS) cloud computing platform, algorithms were implemented in a back-end AWS Lambda function that can be called by the HYPATIA front end. The Lambda function applies the requested data processing to specified data via functions written in R, Python, and JavaScript. Development, testing, and review of the data analysis algorithms was completed under an NQA-1 quality program. This new HYPATIA functionality will provide information to support site decisions regarding P&T system performance and optimization.

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗

Effects of raster terrain representation on GIS shortest path analysis

Spatial analysis extracts meaning and insights from spatially referenced data, where the results are highly dependent on the quality of the data used and the manipulations on the data when preparing it for analysis. Users should understand the impacts that data representations may have on their results in order to prevent distortions in their outcomes. We study the consequences of two common data preparations when locating a linear feature performing shortest path analysis on raster terrain data: 1) the connectivity of the network generated by connecting raster cells to their neighbors, and 2) the range of the attribute scale for assigning costs. Such analysis is commonly used to locate transmission lines, where the results could have major implications on project cost and its environmental impact. Experiments in solving biobjective shortest paths show that results are highly dependent on the parameters of the data representations, with exceedingly variable results based on the choices made in reclassifying attributes and generating networks from the raster. Based on these outcomes, we outline recommendations for ensuring geographic information system (GIS) data representations maintain analysis results that are accurate and unbiased.

Medrano, F. Antonio (ORCID:000000025913632X)↗

Improving Data and Prediction Quality of High-Throughput Perovskite Synthesis with Model Fusion

Combinatorial fusion analysis (CFA) is an approach for combining multiple scoring systems using the rank-score characteristic function and cognitive diversity measure. One example is to combine diverse machine learning models to achieve better prediction quality. In this work, we apply CFA to the synthesis of metal halide perovskites containing organic ammonium cations via inverse temperature crystallization. Using a data set generated by high-throughput experimentation, four individual models (support vector machines, random forests, weighted logistic classifier, and gradient boosted trees) were developed. We characterize each of these scoring systems and explore 66 possible combinations of the models. When measured by the precision on predicting crystal formation, the majority of the combination models improves the individual model results. The best combination models outperform the best individual models by 3.9 percentage points in precision. In addition to improving prediction quality, we demonstrate how the fusion models can be used to identify mislabeled input data and address issues of data quality. In particular, we identify example cases where all single models and all fusion models do not give the correct prediction. Experimental replication of these syntheses reveals that these compositions are sensitive to modest temperature variations across the different locations of the heating element that can hinder or enhance the crystallization process. In summary, we demonstrate that model fusion using CFA can not only identify a previously unconsidered influence on reaction outcome but also be used as a form of quality control for high-throughput experimentation.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Availability and Performance Loss Factors for U.S. PV Fleet Systems

In the PV Fleet Performance Data Initiative, we partner with photovoltaic (PV) fleet owners to collect time-series PV production data and publish aggregated, anonymized results. This report is an update of our previous publications, specifically a FY 2021 performance index publication and a FY 2022 fleet degradation analysis. In this analysis, we have increased our data participants and system totals by around 10% to 8.5 GW and 24,000 separate inverter data channels. Four major analysis topics are considered in this report: Performance Index (PI) trends, PV system availability, soiling losses, and PV system degradation. Performance Index and inverter availability are assessed on a larger set of data from our FY 2021 report: 1,128 systems compared with 200 systems from before. The increased number of systems is due to an improved data quality methodology, as well as introducing new systems to the analysis. Overall results are similar to previously published values - overall inverter availability is low in the first six months of system performance before reaching steady-state by the end of the first year. Excluding this six-month startup period, system-level aggregated data shows a median (P50) system availability of 0.99 and a lower 10th percentile (P90) value of 0.95 (Figure ES-1). A dependence on system size is also demonstrated, with worse inverter availability results for larger PV systems. Causes of this effect are under investigation, but may be impacted by inverter size, which also show lower availability for larger inverter sizes. This report also investigates PI, correcting for degradation, soiling, snow, and availability. Following these corrections, the median system PI over its entire lifetime is 0.95. PI values reported here are approximately 3% lower than what we presented in our previous FY 2021 report. Soiling loss is assessed in a comprehensive way for the first time in this report. Results are presented using the COmbined Degradation and Soiling (CODS) method, as implemented in RdTools (v3.0.0a4). Soiling values are presented for 255 systems, which indicated irradiance-weighted soiling loss greater than 1%. The values have been published in an updated NREL soiling map at nrel.gov/pv/soiling.html. Finally, we investigated system degradation using three different data analysis techniques: conventional RdTools (year-on-year (YOY)), CODS, and Performance Loss Rate (PLR) analysis. Overall degradation results are consistent with our previous publications. Rerunning conventional RdTools on our updated fleet shows that some data partners have systematically fallen below the median system degradation rate (change over time) of -0.75 %/year. A comparison with PLR analysis, which looks at change in annual PI over time, shows that median system degradation is consistent with -0.5% to -0.75% per year change. However, at the P90 value, system degradation is substantially faster. These two results are consistent and indicate that resulting degradation statistics depend to a great degree on the population of PV systems making up the analysis cohort and whether soiling impacts the systems. The use of CODS for degradation analysis provides a different method for degradation assessment, which explicitly excludes the impact of recoverable soiling on degradation analysis. Excluding soiling effects yields an annual system degradation around -0.5% per year on average. This indicates that a portion of system performance loss may be attributed to periodic soiling that is not fully recovered. This report provides PV system owners/operators with background and methods to analyze PV system performance, give guidance for expected cohort performance, and performance loss values for use in pro-forma financial models, which guide new-build system design and bankability reports.

14 SOLAR ENERGY↗

A Co-Registered In-Situ and Ex-Situ Dataset of Electrical, Acoustic, and CT Characteristics from Wire Arc Additive Manufacturing Process

Recent progress in sensing techniques and data analytics tools have significantly accelerated the development of Wire Arc Additive Manufacturing (WAAM) systems. This data centric approach emphasizes leveraging available data throughout the production process to optimize performance. Integration of extensive data analysis provides the opportunity to improve precision, reduce waste, and enhance the quality of produced parts. This method relies on AI/ML models and optimization techniques, which are developed using the data collected from various sources, including in-situ sensors, ex-situ imaging, and manufacturing process parameters. The quality and diversity of this data, along with the alignment between different data streams (achieved through spatiotemporal registration) are critical for the successful development of AI/ML and optimization models. In this work, we present a spatiotemporally registered dataset generated during the WAAM process of deposition of a rectangular block. The dataset includes the comprehensive description of deposition process, process parameters, in-situ collected welding characteristics, acoustic data, and X-Ray Computed Tomography analysis data for the build. Dataset A Co-Registered In-Situ and Ex-Situ Dataset of Electrical, Acoustic, and CT Characteristics from Wire Arc Additive Manufacturing Process has arisen under UT-Battelle, LLC’s Prime Contract No. DE-AC05-00OR22725 with the U.S. Department of Energy (DOE) to manage and operate the Oak Ridge National Laboratory. UT-Battelle, LLC will not assert any rights under United States law or under the Prime Contract it has in the dataset against any user of the dataset, including any copyrights or patent rights. UT-Battelle, LLC requests that attribution to the dataset is provided as academically appropriate.

42 ENGINEERING↗

Sub-pilot-scale Production of High-Value Products from U.S. Coals

Investigators from the University of Utah, University of Wyoming and Marshall University pursued a program to study the conversion of raw coal to high-value products of carbon fiber and silicon carbide. Team members also developed an initial framework for a data portal that can incorporate laboratory data on coal processing and product quality, and also work with tools for machine learning for data analysis, data visualization and economic assessment. Experimental R&D efforts focused on the conversion of raw coal to coal tar and other byproducts, and the resulting tar intermediates were upgraded to form anisotropic and isotropic pitch materials. These pitch materials were produced from coal using both thermal (pyrolysis) and chemical (mild solvolysis liquefaction) decomposition of raw coal. Four different coals were studied: Utah bituminous coal (Sufco), Wyoming PRB coal (Black Thunder), Illinois bituminous coal (Illinois #6), and West Virginia bituminous coal (Flying Eagle). Both metallurgical-grade coking coals and lower-grade steam coals were investigated, and controlled secondary gas-phase reactions were used during a two-stage pyrolysis process to induce cracking and condensation reactions among the pyrolytic tar species. This approach successfully improved the performance of the lower grade coals for yielding pitch materials, with properties more consistent with a commercial-grade pitch that had previously demonstrated success for quality carbon fiber production. The use of waste plastic materials was also studied, to help improve physical and chemical characteristics of the intermediate tars and final pitch product; in particular, for lowering the pitch softening point to an acceptable level for melt spinning carbon fiber. Mild solvolysis liquefaction was also used as a method for producing pitch for carbon fiber production. As expected, significantly higher pitch yields were obtained using this approach, and waste plastic materials were also successfully used to reduce pitch softening point to an acceptable level. The plastic materials were also utilized to create a solvent for the mild solvolysis process, and this plastic-derived solvent was shown to provide results consistent with more expensive commercial chemical solvents, and could thus avoid the need for costly recovery and recycle of a liquefaction solvent. Additional experimental R&D focused on the production of silicon carbide (β-SiC) from the residual char byproduct from pitch production, and also on the production of carbon fiber from the anisotropic pitch. SiC was successfully synthesized using a mixture of residual char and sandstone at a ratio of 1:1. Reaction temperature and residence time were optimized and yielded a product purity of 81%. For carbon fiber production, the most successful pitch samples were obtained from the mild solvolysis liquefaction approach, combined with the use of a plastic (HDPE)-derived solvent. Fiber properties improved over time as laboratory fiber production methodologies improved, and final yields of carbon fiber were obtained with a diameter of 12.14 ± 1.10 um, Modulus of 173.73 ± 15.25 GPa, and Tensile Strength of 1.04 ± 0.10 GPa. A proof-of-concept Modern Community Research Data Portal (MCRDP) was developed and deployed for coal and coal-derived pitch characterization, with the full support of (i) remote web-based access, (ii) distributed analysis, (iii) interactive visualization and exploration, (iv) shared and long-term data access, (v) advanced query capabilities and (vi) real-time collaboration. The Coal to Products Data Portal “coaltoproducts.org” provides researchers with space to store and share data within a project, tools for analyzing and understanding data for scientific investigation, and the ability to publish data to the broader community for reproducibility. The portal leverages the Material Commons 2.0 (MC) platform developed by the Center for PRedictive Integrated Structural Materials Science (PRISMS) of the University of Michigan, to achieve long-term longevity of data collections and, more importantly, collaborative science. A number of data visualization tools were also assessed and implemented for interrogating the experimental and modeling data. The machine learning portion of this project analyzed datasets from two different coal conversion processes performed on a diverse set of coal samples from both the coal pyrolysis experiments and the solvent liquefaction experiments. The work was initiated by exploring standard regression models on the pyrolysis data, aiming to understand the impact of sample characteristics and processing conditions on key product metrics. Over the course of the project, the focus expanded to include a variety of machine learning tools, delving into both supervised and unsupervised learning methods. Models tested on the pyrolysis data included linear, ridge, lasso, elastic-net, Gaussian process, random forest regression, and AutoSklearn, and the approach was continually refined to enhance predictive accuracy and model interpretability. Similar techniques were applied to the liquefaction data with an additional focus on feature engineering. Along with mesophase content, additional outputs of interest were the pitch yield, softening point, and QI content. Insights derived from these analyses are crucial in determining the factors influencing the quality and yield of coal-derived products. As the work progressed, the research evolved from foundational model comparisons to analyses of random forests, decision paths, and feature importance scores. A thorough market analysis was performed to examine the prospects of coal-based carbon fibers. The best opportunities for coal come from its lower and more stable price relative to petroleum, particularly for subbituminous coals, which is the primary advantage that a coal refinery may have over a petroleum refinery. Before a commercial CTP production facility can be modeled, however, several things need to be understood regarding the nature of the would-be coal refinery. These include the technology to be deployed, the size of facility, the volume(s) of co-product(s), and the waste and emissions profile of the plant. The volume of co-products and waste may be substantial and will require separate market analysis to ensure viability. In the near-term, the importance of coal tar pitch, in the form of carbon pitch, to the aluminum and steel industries is likely to overshadow the alternative use of this material as an input for carbon fiber. The importance of steel and aluminum in building materials, and the need for carbon materials in their manufacturing, will ensure that demand for these products remains for the long run. In addition, carbon fiber may also be the best substitute for steel and aluminum well into the future. While society will eventually be able to shift production of much of its electricity needs to renewables, it will not be able to shift away from fossil fuels for production of high-strength construction and vehicular materials. Demand for carbon fiber is expected to increase quickly, but the volume of carbon fiber and the amount of coal that would be needed to produce even a sizeable share of this market may still be relatively small compared to current coal production. Thus, other coal-based products like graphene, graphite, carbon foams, resins, and carbon-based building products will play important roles in sustaining coal production as coal-fired power generation continues to decline.

01 COAL, LIGNITE, AND PEAT↗

A co-registered in-situ and ex-situ dataset from wire arc additive manufacturing process

Recent progress in sensing techniques and data analytics tools have significantly accelerated the development of Wire Arc Additive Manufacturing (WAAM) systems. This data-centric approach emphasizes leveraging sensor data available throughout the production process to optimize performance. Integration of extensive data analysis provides opportunities for improving precision, reducing waste, and enhancing the quality of produced parts. This method relies on AI/ML models and optimization techniques, which are developed using the data collected from various sources, including in-situ sensors, ex-situ imaging, and manufacturing process parameters. The quality and diversity of this data, along with the alignment between different data streams (achieved through spatiotemporal registration) are critical for the successful development of AI/ML and optimization models. In this work, we present a spatiotemporally registered dataset generated during the WAAM process of deposition of a rectangular block. The dataset includes a comprehensive description of the deposition process, process parameters, welding characteristics and acoustic data collected in-situ, and X-Ray Computed Tomography data of the build.

42 ENGINEERING↗

pmartR 2.0 : A Quality Control, Visualization, and Statistics Pipeline for Multiple Omics Datatypes

The pmartR (https://github.com/pmartR/pmartR) package was designed for the quality control (QC) and analysis of mass spectrometry (MS) data, tailored to specific characteristics of proteomic (isobaric or labelled), metabolomic, and lipidomic datasets. Since its initial release, the tool has been expanded to address the needs of its growing userbase and now includes QC and statistics for nuclear magnetic resonance (NMR) metabolomic data, and leverages the DESeq2, edgeR, and limma-voom R packages for some transcriptomic data analyses. These improvements have made progress towards a unified omics processing pipeline for ease of reporting and streamlined statistical purposes. The package’s statistics and visualization capabilities have also been expanded by adding support for paired data and by integrating pmartR with the trelliscopejs R package for the quick creation of trellis displays (https://github.com/hafen/trelliscopejs). Here, we present relevant examples of each of these enhancements to pmartR and highlight how each new feature benefits the omics community.

59 BASIC BIOLOGICAL SCIENCES↗

Updates on MURAVES Project at Mt. Vesuvius

The MUon RAdiography of VESuvius (MURAVES) project aims to employ muography imaging techniques to investigate the internal structure of the summit of Mount Vesuvius, an active volcano located near Naples, Italy. This paper reports recent advancements in data analysis and simulation tools that significantly improve the quality and reliability of the experiment’s results. A new track selection method, referred to as the Golden Selection, has been developed to identify high-quality muon tracks by applying an improved χ 2 -based criterion. This method enhances the signal-to-background ratio and improves the resolution of the resulting muographic images. Moreover, the simulation framework has been upgraded through the integration of the MULDER (MUon simuLation for DEnsity Reconstruction) library, which consolidates the functionalities of previously used libraries into a single, unified platform. MULDER enables efficient and accurate modeling of muon flux variations induced by topographical features. A good agreement is observed between the simulated and measured muon flux maps, validating the effectiveness of the new analysis and simulation approaches.

Cosmic rays↗

LSST Scheduler & Progress Monitoring

The NSF-DOE Vera C. Rubin Observatory scheduling team is providing a set of tools for monitoring the scheduler and progress on the Legacy Survey of Space and Time (LSST). These slides provide an overview of available pages and assorted figures on them: the night summary provides an overview of a completed night of observing, including maps of exposures and plots of data quality metrics; the pre-night briefing, an analysis of a simulation of an upcoming night; and a handful of figures that provide information on long-term progress toward LSST survey goals.

H.Neilsen, Eric, Jr. [Fermilab] (ORCID:00000002735↗

Automated segmentation and analysis of point clouds of pier foundations using Pier Inspection and Evaluation Report (PIER)

Pier foundations are commonly used in locations with unstable soil or where other types of foundations are unsuitable or cost prohibitive. A pier foundation consists of vertical columns to support the structure and elevate it above the ground. Common materials for pier foundations include masonry, concrete, timber, and steel. The methods for accurate placement of pier foundations have remained relatively unchanged for decades. For simple installations, construction chalk lines are used to layout the locations of piers to ensure accurate placement and elevation. For more complex installations, surveying instruments operated by trained professionals are employed to accurately locate piers and assess correct elevation before construction. After installation, another survey may need to be performed to assess the quality of the as-built foundation. However, with the advent of terrestrial laser scanners (TLS), the means now exist for contractors to conduct their own assessments of as-built foundations. The major barrier preventing contractors from performing their own assessments of as-built foundation quality is the segmentation and analysis of point cloud data, a skill that often requires a trained user. The objective of this research is to develop a software tool (PIER: Pier Inspection and Evaluation Report) to enable automated segmentation and analysis of point clouds of pier foundations. In this paper, the automated segmentation and analysis algorithms are detailed. A mockup lay out of pier foundations was built using concrete masonry units, and the algorithms were tested to evaluate performance. Limitations of the current algorithms and future research direction are discussed.

Turki, Amine [ORNL]↗

Understanding Generative AI Content with Embedding Models

The construction of high-quality numerical features is critical to any quantitative data analysis. Feature engineering has been historically addressed by carefully hand-crafting data representations based on domain expertise. This work views the internal representations of modern deep neural networks (DNNs), called embeddings, as an implicit form of traditional feature engineering. For trained DNNs, we show that these embeddings can reveal interpretable, high-level concepts in unstructured sample data. We use these embeddings in natural language and computer vision tasks to uncover both inherent heterogeneity in the underlying data and human-understandable explanations for it. In particular, we find empirical evidence that there is inherent separability between real data and those generated from AI models.

Vargas, Max↗

LDRD 226360 Final Project Report: Simulated X-ray Diffraction and Machine Learning for Optimizing Dynamic Experiment Analysis

This report is the final documentation for the one-year LDRD project 226360: Simulated X-ray Diffraction and Machine Learning for Optimizing Dynamic Experiment Analysis. As Sandia has successfully developed in-house X-ray diffraction tools for study of atomic structure in experiments, it has become increasingly important to develop computational analysis methods to support these experiments. When dynamically compressed lattices and orientations are not known a priori, the identification requires a cumbersome and sometimes intractable search of possible final states. These final states can include phase transition, deformation and mixed/evolving states. Our work consists of three parts: (1) development of an XRD simulation tool and use of traditional data science methods to match XRD patterns to experiments; (2) development of ML-based models capable of decomposing and identifying the lattice and orientation components of multicomponent experimental diffraction patterns; and (3) conducting experiments which showcase these new analysis tools in the study of phase transition mechanisms. Our target material has been cadmium sulfide, which exhibits complex orientation-dependent phase transformation mechanisms. In our current one-year LDRD, we have begun the analysis of high-quality c-axis CdS diffraction data from DCS and Thor experiments, which had until recently eluded orientation identification.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

Pavement condition and climatic data in southeast Texas: A dataset for evaluating flood impacts on pavement performance

Effective pavement maintenance is essential for economic stability, optimal network performance, and roadway safety. Achieving this requires thorough evaluation of pavement conditions, including structural integrity, surface roughness, and distress characteristics. Pavement performance indicators play a critical role in influencing vehicle safety and ride quality. Recent advances have emphasized the use of data-driven modeling to anticipate pavement behavior, with the goal of optimizing resource allocation and refining Maintenance and Rehabilitation (M&R) strategies through accurate condition assessment. A foundational requirement for these modeling efforts is the availability of standardized, high-quality datasets that can support robust and reproducible infrastructure analysis. This data article presents a comprehensive dataset assembled to facilitate pavement performance prediction, with a geographic focus on Southeast Texas, particularly the flood-vulnerable area of Beaumont. The dataset encompasses pavement and traffic attributes, meteorological records, flood simulation outputs, ground deformation measurements, and topographic indices, enabling detailed examination of both load-associated and non-load-associated degradation mechanisms. Data preprocessing was performed using ArcGIS Pro, Microsoft Excel, and Python to ensure consistency and usability in data-driven modeling applications, including machine learning workflows. Key contributions of this dataset include its utility in analyzing the climatic and environmental factors affecting pavement conditions, identifying critical predictive features, and enabling in-depth correlation analysis across diverse variables. By filling existing gaps in input variable selection resources, this dataset supports the development of predictive tools for estimating future maintenance demand and enhancing the resilience of pavement networks in flood-impacted areas. The resource highlights the importance of standardized datasets for advancing pavement management practices and provides a robust foundation for ongoing infrastructure performance modeling.

42 ENGINEERING↗

Locating Operational Events of the Cooling Tower of a Nuclear Reactor with a Very Local Seismic Network

Geolocation of emergent seismic signals is challenging at close distances. Here, we used three-component data from a seismic network and a targeted experiment at a research nuclear reactor to locate seismic sources. Utilizing known events collected during the targeted experiment, we were able to infer source locations with seismic amplitudes and polarization characteristics of the data. Although the resolution of the source location is not perfect, the seismic amplitudes and polarization analysis offer useful constraints. For the known events, the source region inferred with our analysis includes the true source locations. Synthetic tests indicate the resolution is largely due to limited data coverage and measurement uncertainties because the synthetic tests show similar results compared with the field data. We identified the source of the unknown event through spectrum cross correlation between the signals from the known events and an unknown event. Our findings were confirmed by operational staff at the facility. When the propagation medium properties (i.e., seismic velocity and quality factor for attenuation) are known, our analysis can be applied to continuous data from a seismic array to infer both source amplitude and location. If the medium properties are not known, a targeted experiment can be conducted to estimate them.

58 GEOSCIENCES↗

ProvSec: Open Cybersecurity System Provenance Analysis Benchmark Dataset with Labels

System provenance forensic analysis has been studied by a large body of research work. This area needs fine granularity data such as system calls along with event fields to track the dependencies of events. While prior work on security datasets has been proposed, we found a useful dataset of realistic attacks and details that are needed for high-quality provenance tracking is lacking. We created a new dataset of eleven vulnerable cases for system forensic analysis. It includes the full details of system calls including syscall parameters. Realistic attack scenarios with real software vulnerabilities and exploits are used. For each case, we created two sets of benign and adversary scenarios which are manually labeled for supervised machine-learning analysis. In addition, we present an algorithm to improve the data quality in the system provenance forensic analysis. We demonstrate the details of the dataset events and dependency analysis of our dataset cases.

97 MATHEMATICS AND COMPUTING↗

Deep-learning methods for contrast enhancement and artifact reduction in cryo-electron tomography: a systematic analysis of the state of the art and proposed improvements

Cryo-electron tomography (cryo-ET) has emerged as the preferred technique for visualizing the organization of macromolecular complexes in situ and resolving their structures at subnanometre resolution [Tegunov et al. (2021)View full citation, Nat. Methods, 18, 186–193]. Despite improvements in data quality as a result of advances in detector technology, microscope stability and stage precision, the analysis and interpretation of tomograms remains challenging due to a low signal-to-noise ratio and reconstruction artifacts stemming from experimental constraints in specimen tilt during data collection resulting in a missing wedge in the Fourier space. Recently, self-supervised deep-learning methods have been proposed for contrast enhancement and reduction of resolution anisotropy in reconstructed tomograms. Here, we evaluate several state-of-the-art deep-learning methods which aim to improve the interpretability of cryo-ET reconstructions, with a focus on their performance on downstream tasks of template matching, sub­tomogram averaging and segmentation. We propose new training architectures and a loss function based on Fourier shell correlation that show improved performance over the standard U-Net with L1/L2 losses. We demonstrate our analysis on four diverse experimental datasets: purified 80S ribosomes, in situ Chlamydomonas reinhardtii, immature HIV-1 virus-like particles and INS-1E cells.

contrast enhancement↗