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At least 1,099 records · Page 61

Hierarchical Model for the Analysis of Scattering Data of Complex Materials

Interpreting the results of scattering data for complex materials with a hierarchical structure in which at least one phase is amorphous presents a significant challenge. Often the interpretation relies on the use of large-scale molecular dynamics (MD) simulations, in which a structure is hypothesized and from which a radial distribution function (RDF) can be extracted and directly compared against an experimental RDF. This computationally intensive approach presents a bottleneck in the efficient characterization of the atomic structure of new materials. Here, we propose and demonstrate an approach for a hierarchical decomposition of the RDF in which MD simulations are replaced by a combination of tractable models and theory at the atomic scale and the mesoscale, which when combined yield the RDF. We apply the procedure to a carbon composite, in which graphitic nanocrystallites are distributed in an amorphous domain. We compare the model with the RDF from both MD simulation and neutron scattering data. Ultimately, this procedure is applicable for understanding the fundamental processing-structure-property relationships in complex magnetic materials.

36 MATERIALS SCIENCE↗

Uranium Isotopic Fractionation Induced by U(VI) Adsorption onto Common Aquifer Minerals

Uranium groundwater contamination due to U mining and processing affects numerous sites globally. Bioreduction of soluble, mobile U(VI) to U(IV)-bearing solids is potentially a very effective remediation strategy. Uranium isotopes ( 238 U/ 235 U) have been utilized to track the progress of microbial reduction, with laboratory and field studies finding a ~1‰ isotopic fractionation, with the U(IV) product enriched in 238 U. However, the isotopic fractionation produced by adsorption may complicate the use of 238 U/ 235 U to trace microbial reduction. A previous study found that adsorption of U(VI) onto Mn oxides produced a -0.2‰ fractionation with the adsorbed U(VI) depleted in 238 U. In this paper, adsorption to quartz, goethite, birnessite, illite, and aquifer sediments induced an average isotopic fractionation of -0.15‰ with the adsorbed U(VI) isotopically lighter than coexisting aqueous U(VI). In bicarbonate-bearing matrices, the fractionation depended little on the nature of the sorbent, with only birnessite producing an atypically large fractionation. In the case of solutions with ionic strengths much lower than those of typical groundwater, less isotopic fractionation was produced than U(VI) solutions with greater ionic strength. Finally, studies using U isotope data to assess U(VI) reduction must consider adsorption as a lesser, but significant isotope fractionation process.

54 ENVIRONMENTAL SCIENCES↗

Automated TEM Reveals Intercrystalline Correlations of Conjugated Polymers

Transmission electron microscopy (TEM) continues to transform polymer science by revealing key aspects of chain packing, phase separation and nanoscale structure. The development of instrumentation and data analyses tools is driving the field forward and enabling new experiments. Here, we use automated high-resolution TEM (HRTEM) and image processing to identify the structure of a conjugated polymer used in organic electronics. Analysis of more than 600 HRTEM images reveals lattice parameters and orientation correlations between crystals, including the preferred alignment of neighboring crystals along the same crystallographic direction that is likely the result of liquid crystalline order.

Fair, Ryan A. [Pennsylvania State University, Univ↗

Additively manufacturable micro-mechanical logic gates

Early examples of computers were almost exclusively based on mechanical devices. Although electronic computers became dominant in the past 60 years, recent advancements in three-dimensional micro-additive manufacturing technology provide new fabrication techniques for complex microstructures which have rekindled research interest in mechanical computations. Here we propose a new digital mechanical computation approach based on additively-manufacturable micro-mechanical logic gates. The proposed mechanical logic gates (i.e., NOT, AND, OR, NAND, and NOR gates) utilize multi-stable micro-flexures that buckle to perform Boolean computations based purely on mechanical forces and displacements with no electronic components. A key benefit of the proposed approach is that such systems can be additively fabricated as embedded parts of microarchitected metamaterials that are capable of interacting mechanically with their surrounding environment while processing and storing digital data internally without requiring electric power.

36 MATERIALS SCIENCE↗

Integrated fluorescence light microscopy-guided cryo-focused ion beam-milling for in situ montage cryo-ET

Cryogenic-electron tomography (cryo-ET) permits the in situ visualization of biological macromolecules at the molecular level. Owing to the variable thickness of cells, tissues and organisms, frozen specimens may need to be thinned by cryo-focused ion beam (FIB) milling to produce thin (<500 nm) cryo-lamellae suitable for cryo-ET. Locating regions of interest remains a challenge because untargeted milling can lead to inadvertent ablation and removal of regions of interest. Correlative light and electron microscopy, combined with cryo-FIB milling, can guide the identification of labeled targets in the cellular milieu. Multiple transfers between cryo-imaging instruments, cumbersome correlation algorithms, limited accuracy and low throughput have hindered the routine adoption of cryo-FIB milling within a multimodal correlative workflow for in situ structural biology. Here, in this study, we present a workflow for 3D correlative cryo-fluorescence light microscopy-FIB-ET that streamlines fluorescence light microscopy-guided FIB milling, improving throughput while preserving both structural and contextual information. The complete integration of hardware and software described here minimizes sample contamination from cross-platform exchanges and greatly enhances the efficiency of 3D targeting in cryo-milling. We then describe procedures for implementing montage parallel array cryo-ET (MPACT), which can be easily adapted to any modern life-science transmission electron microscope. MPACT supports high-throughput cryo-ET acquisitions (10 tilt series in 1.5 h) for structure determination and comprehensive contextual understanding of macromolecules within their native surroundings. A complete session from sample preparation to MPACT data processing takes 5−7 d for an individual experienced in both cryo-EM and cryo-FIB milling.

Yang, Jie E. [Univ. of Wisconsin, Madison, WI (Uni↗

Statistical Modeling and Analysis of k -Layer Coverage of Two-Dimensional Materials in Inkjet Printing Processes

Two-dimensional layered materials/flakes, also known as crystalline atom-thick layer nanosheets, have recently been receiving great attention in electronics fabrication due to their unique and intriguing properties. The k-layer coverage area (i.e., the area covered by k number of overlapping layers) of the printed flake pattern significantly impacts on the properties of the printed electronics. In this work, we constructed a statistical model to describe the k-layer coverage of randomly distributed two-dimensional materials. A series of results are obtained to provide not only the expectation but also the variance of the coverage area. The boundary effects on the random flakes coverage are also studied. In addition, an approximated statistical testing approach is also developed in this work to detect abnormal coverage patterns. Furthermore, the case studies based on simulated data and real flakes images obtained from the inkjet printing process demonstrate the accuracy and effectiveness of the proposed model and analysis methods.

36 MATERIALS SCIENCE↗

The three-MM ultimate Mopra Milky Way Survey. I. Survey overview, Initial data releases, and first results

We describe a new mm-wave molecular-line mapping survey of the southern Galactic Plane and its first data releases. The Three-mm Ultimate Mopra Milky Way Survey (ThrUMMS) maps a 60° × 2° sector of our Galaxy’s fourth quadrant, using a combination of fast mapping techniques with the Mopra radio telescope, simultaneously in the J=1→0 lines of {sup 12}CO, {sup 13}CO, C{sup 18}O, and CN near 112 GHz at ∼arcminute and ∼0.3 km s{sup −1} resolution, with ∼2 K channel{sup −1} sensitivity for {sup 12}CO and ∼1 K channel{sup −1} for the other transitions. The calibrated data cubes from these observations are made available to the community after processing through our pipeline. Here, we describe the motivation for ThrUMMS, the development of new observing techniques for Mopra, and how these techniques were optimized to the objectives of the survey. We showcase some sample data products and describe the first science results on CO-isotopologue line ratios. These vary dramatically across the Galactic Plane, indicating a very wide range of optical depth and excitation conditions, from warm and translucent to cold and opaque. The population of cold clouds in particular have optical depths for {sup 12}CO easily exceeding 100. We derive a new, nonlinear conversion law from {sup 12}CO integrated intensity to column density, N{sub CO}∝I{sub CO}{sup 1.38}, which suggests that the molecular mass traced by CO in the Galactic disk may have been substantially underestimated. This further suggests that some global relationships in disk galaxies, such as star formation laws, may need to be recalibrated. The large ThrUMMS team is proceeding with several other science investigations.

79 ASTRONOMY AND ASTROPHYSICS↗

Optimizing training trajectories in variational autoencoders via latent Bayesian optimization approach *

Unsupervised and semi-supervised ML methods such as variational autoencoders (VAE) have become widely adopted across multiple areas of physics, chemistry, and materials sciences due to their capability in disentangling representations and ability to find latent manifolds for classification and/or regression of complex experimental data. Like other ML problems, VAEs require hyperparameter tuning, e.g. balancing the Kullback–Leibler and reconstruction terms. However, the training process and resulting manifold topology and connectivity depend not only on hyperparameters, but also their evolution during training. Because of the inefficiency of exhaustive search in a high-dimensional hyperparameter space for the expensive-to-train models, here we have explored a latent Bayesian optimization (zBO) approach for the hyperparameter trajectory optimization for the unsupervised and semi-supervised ML and demonstrated for joint-VAE with rotational invariances. We have demonstrated an application of this method for finding joint discrete and continuous rotationally invariant representations for modified national institute of standards and technology database (MNIST) and experimental data of a plasmonic nanoparticles material system. The performance of the proposed approach has been discussed extensively, where it allows for any high dimensional hyperparameter trajectory optimization of other ML models.

42 ENGINEERING↗

Petascale Application of a Coupled CPU-GPU Algorithm for Simulation and Analysis of Multiphase Flow Solutions in Porous Medium Systems, In: 2014 IEEE 28th International Parallel and Distributed Processing Symposium

Large-scale simulation can provide a wide range of information needed to develop and validate theoretical models for multiphase flow in porous medium systems. In this paper, we consider a coupled solution in which a multiphase flow simulator is coupled to an analysis approach used to extract the interfacial geometries as the flow evolves. This has been implemented using MPI to target heterogeneous nodes equipped with GPUs. The GPUs evolve the multiphase flow solution using the lattice Boltzmann method while the CPUs compute up scaled measures of the morphology and topology of the phase distributions and their rate of evolution. Our approach is demonstrated to scale to 4,096 GPUs and 65,536 CPU cores to achieve a maximum performance of 244,754 million-lattice-node updates per second (MLUPS) in double precision execution on Titan. In turn, this approach increases the size of systems that can be considered by an order of magnitude compared with previous work and enables detailed in situ tracking of averaged flow quantities at temporal resolutions that were previously impossible. Furthermore, it virtually eliminates the need for post-processing and intensive I/O and mitigates the potential loss of data associated with node failures.

Computer Science↗

WE-G-9A-01: Radiation Oncology Outcomes Informatics

The construction of databases and support software to enable routine and systematic aggregation, analysis and reporting of patient outcomes data is emerging as an important area. “How have results for our patients been affected by the improvements we have made in our practice and in the technologies we use?” To answer this type of fundamental question about the overall pattern of efficacy observed, it is necessary to systematically gather and analyze data on all patients treated within a clinic. Clinical trials answer, in great depth and detail, questions about outcomes for the subsets of patients enrolled in a given trial. However, routine aggregation and analysis of key treatment parameter data and outcomes information for all patients is necessary to recognize emergent patterns that would be of interest from a public health or practice perspective and could better inform design of clinical trials or the evolution of best practice principals. To address these questions, Radiation Oncology outcomes databases need to be constructed to enable combination essential data from a broad group of data types including: diagnosis and staging, dose volume histogram metrics, patient reported outcomes, toxicity metrics, performance status, treatment plan parameters, demographics, DICOM data and demographics. Developing viable solutions to automate aggregation and analysis of this data requires multidisciplinary efforts to define nomenclatures, modify clinical processes and develop software and database tools requires detailed understanding of both clinical and technical issues. This session will cover the developing area of Radiation Oncology Outcomes Informatics. Learning Objectives: Audience will be able to speak to the technical requirements (software, database, web services) which must be considered in designing an outcomes database. Audience will be able to understand the content and the role of patient reported outcomes as compared to traditional toxicity measures. Audience will be understand approaches, clinical process changes, consensus building efforts and standardizations which must be addressed to succeed in a multi-disciplinary effort to aggregate data for all patients. Audience will be able to discuss technical and process issues related to pooling data among institutions in the context of collaborative studies among the presenting institutions.

60 APPLIED LIFE SCIENCES↗

Evaluation of Visual Analytics Environments: The Road to the Visual Analytics Science and Technology Challenge Evaluation Methodology

The evaluation of visual analytics environments was a topic in Illuminating the Path [Thomas 2005] as a critical aspect of moving research into practice. For a thorough understanding of the utility of the systems available, evaluation not only involves assessing the visualizations, interactions or data processing algorithms themselves, but also the complex processes that a tool is meant to support (such as exploratory data analysis and reasoning, communication through visualization, or collaborative data analysis [Lam 2012; Carpendale 2007]). Researchers and practitioners in the field have long identified many of the challenges faced when planning, conducting, and executing an evaluation of a visualization tool or system [Plaisant 2004]. Evaluation is needed to verify that algorithms and software systems work correctly and that they represent improvements over the current infrastructure. Additionally to effectively transfer new software into a working environment, it is necessary to ensure that the software has utility for the end-users and that the software can be incorporated into the end-user’s infrastructure and work practices. Evaluation test beds require datasets, tasks, metrics and evaluation methodologies. As noted in [Thomas 2005] it is difficult and expensive for any one researcher to setup an evaluation test bed so in many cases evaluation is setup for communities of researchers or for various research projects or programs. Examples of successful community evaluations can be found [Chinchor 1993; Voorhees 2007; FRGC 2012]. As visual analytics environments are intended to facilitate the work of human analysts, one aspect of evaluation needs to focus on the utility of the software to the end-user. This requires representative users, representative tasks, and metrics that measure the utility to the end-user. This is even more difficult as now one aspect of the test methodology is access to representative end-users to participate in the evaluation. In many cases the sensitive nature of data and tasks and difficult access to busy analysts puts even more of a burden on researchers to complete this type of evaluation. User-centered design goes beyond evaluation and starts with the user [Beyer 1997, Shneiderman 2009]. Having some knowledge of the type of data, tasks, and work practices helps researchers and developers know the correct paths to pursue in their work. When access to the end-users is problematic at best and impossible at worst, user-centered design becomes difficult. Researchers are unlikely to go to work on the type of problems faced by inaccessible users. Commercial vendors have difficulties evaluating and improving their products when they cannot observe real users working with their products. In well-established fields such as web site design or office software design, user-interface guidelines have been developed based on the results of empirical studies or the experience of experts. Guidelines can speed up the design process and replace some of the need for observation of actual users [heuristics review references]. In 2006 when the visual analytics community was initially getting organized, no such guidelines existed. Therefore, we were faced with the problem of developing an evaluation framework for the field of visual analytics that would provide representative situations and datasets, representative tasks and utility metrics, and finally a test methodology which would include a surrogate for representative users, increase interest in conducting research in the field, and provide sufficient feedback to the researchers so that they could improve their systems.

evaluation↗

Global gross primary production simulated by three terrestrial biosphere models to analyse smoothing of limiting rates

Processed global terrestrial gross primary production (GPP) from three terrestrial biosphere models (TBMs). Two simulations were run with each model, one that selects the rate limiting process of photosynthesis based on the minimum of the potential rates (following Farquhar et al. 1980) and the other that uses quadratic smoothing between the potential rates (following Collatz et al. 1991). The three TBMs are: 1) the Energy Exascale Earth System Model (E3SM) land model (ELM) (release: v1.1.0) (Burrows et al., 2020), a coupled carbon, nitrogen, and phosphorus model with sun/shade big-leaf canopy photosynthesis scaling. 2) The Functionally Assembled Terrestrial Ecosystem Simulator (FATES, tag: sci.1.30.0_api.8.0.0) (Koven et al., 2019), coupled with the Community Land Model (CLM, version 5; Lawrence et al., 2019), a carbon-only vegetation demography model with multi-leaf and multi-canopy layers for scaling photosynthesis, and with a leaf area index (LAI) optimisation scheme. 3) The Sheffield Dynamic Global Vegetation Model (SDGVM, tag: Walkeretal2020_GCB), a carbon-only model with multi-leaf-layer canopy photosynthesis scaling and also with an LAI optimisation scheme (Walker et al., 2017; Woodward & Lomas, 2004). These data were generated to evaluate the effect of Collatz smoothing of limiting rates on simulated GPP across a range of terrestrial biosphere models. Analysis of results can be found in Walker et al. (2020). This dataset is comprised of R scripts to process data and produce figures and .RDS files, a binary format specific to R and read with the 'readRDS' function.

54 ENVIRONMENTAL SCIENCES↗

Fission Meter Information Barrier Attribute Measurement System: FY2018 Office of Nuclear Verification FNI/UKC Task 2 Documentation Package

The ORTEC Fission Meter is a neutron multiplicity detector developed by Oak Ridge, TN based Advanced Measurement Technology (AMETEK), ORTEC Division. Data analysis techniques developed for neutron multiplicity detectors allows determination of mass and multiplication of unknown objects of special nuclear material (SNM). This can be done based on the physics of fission neutrons with little or no a priori information about the object. The articulating panel design and “5-Mode Counter” neutron multiplicity data-acquisition hardware were licensed to ORTEC by Lawrence Livermore National Laboratory in 2005 based on a 2004 prototype. The “5-Mode Counter” development started in 2000 in order to produce a compact neutron multiplicity file containing the full neutron count timing distribution. Development of this hardware along with the prototype detector design continued through 2004. Photographs of the Fission Meter are shown in Figure 1. In 2011, the Lawrence Livermore National Laboratory developed a software-based information barrier (IB) for the Fission Meter to control transmission of some for potential use in treaty applications. This IB was extended over the next several years to include improvements to the algorithms, more automated processing, and list mode data acquisition and processing. This report provides design and operational documentation for the Fission Meter and the Information Barrier additions.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

Review of In Situ Sensing for Directed Energy Deposition for Industrial Part Quality Assessment

As the use additive manufacturing (AM) processes continues to grow in critical industries, improved quality assurance methods are becoming increasingly sought after for qualification and certification of AM components. Traditional nondestructive evaluation of printed components is often unable to supply the required confidence in print quality to justify qualification and certification, but the layer-by-layer nature of AM provides unprecedented opportunities for in situ quality inspection. This document summarizes recent developments in process monitoring research specifically related to Directed Energy Deposition (DED). Particular attention is given to three aspects of the highlighted manuscripts: (1) the type of sensors used, (2) features extracted from each sensor modality, and (3) analysis of extracted features for AM quality assessment. Based on the review of the state-of-the-art, several observations have been made. First, none of the reviewed works have applied their trained models to real part geometries, with many of the works relying on single track experiments, thin-walled structures, and cubes. Similarly, there have not been any works demonstrating model generalizability, i.e., a model trained on data from one build allows for fruitful analysis of data from another build. Many works used machine learning techniques to distinguish different process regimes (i.e., normal, keyholing, lack-of-fusion), but very few papers have investigated stochastic variation in an already “optimized” process. Sensor fusion approaches are also limited in the DED sensing literature, but the few works that have employed such techniques have demonstrated the benefits. Finally, registration of in situ data to the build coordinate system is of paramount importance to producing industrially relevant in situ monitoring systems. Data registration allows direct correlations between process anomalies detected in the process monitoring data to localized departures in part quality, but such techniques are generally lacking in the current literature.

36 MATERIALS SCIENCE↗

Adroit Materials Final Scientific/Technical Report kV-class GaN-based Junction Barrier Schottky diodes using ion implantation

The primary aim of this research was to develop GaN-based Junction Barrier Schottky (JBS) diodes using an innovative ion implantation process previously established in ARPA-E funded projects. The central focus of our proposed technology revolves around selective area p-type doping, accomplished through the implantation of Mg ions. This approach builds upon our successes in the ARPA-E PNDIODES program, advancing towards commercial device integration. Selective area p-doping plays a pivotal role in realizing the next generation of GaN-based power devices, capable of significantly reducing the carbon footprint in the United States by several million tons. While ion implantation is a well-established technique for achieving selective area doping in SiC and Si materials, its feasibility in GaN had not been demonstrated until now. To fabricate high voltage GaN JBS diodes, we initially created thick n-type drift layers with high carrier concentrations ranging from 5×1015 cm-3 to 2×1016 cm-3 and very high mobilities. Subsequently, Mg ions were selectively implanted to form p-type islands within the n-type drift layer. To reduce electric field crowding at the edge of the diode and to achieve high breakdown voltage, junction edge termination (JTE) and floating field rings (FFRs) were formed using Mg implantation. A high temperature, high-pressure post-implantation annealing process was carried out to activate the implanted Mg ions. As a result, we were able to demonstrate GaN JBS diodes with a breakdown voltage of 915 V and an on-resistance of 0.6 mΩ·cm2. These diodes exhibited a forward bias current density of 1 kA/cm2 at 1.5 V. Subsequently, we achieved GaN JBS diodes with a remarkable breakdown voltage of 1900 V and an on-resistance of 1.9 mΩ·cm2, capable of sustaining a forward bias current density of 0.5 kA/cm2 at 1.5 V. Importantly, the ON and OFF state performance of these GaN JBS diodes surpassed that of Si and SiC-based power diodes reported in existing literature. Lastly, we successfully grew 60 μm thick GaN:Si layers using HVPE with a carrier concentration of approximately 3 to 5×1015 cm-3. Based on simulation and empirical data these devices represent 5 kV GaN JBS power diodes, leveraging the developed processes in this project.

36 MATERIALS SCIENCE↗

Human Host Cellular Response to HCoV-229E Infection Proteomics (ACS-JM-DP2)

The purpose of this experiment was to evaluate the human host cellular response to wild-type Human coronavirus strain 229E (HCoV-229E) infection. Sample data was obtained for mock and infected immortalized human lung epithelial cells (A549) (MOI 5) nuclear extracts, immortalized human lung fibroblasts cells (MRC5) (MOI5) nuclear extracts, and primary human airway epithelial (HAE) (MOI 3) cells from lung tissue and processed for proteome analysis. Processed datasets are openly accessible from the download button and contain secondary processed proteomic results files and supporting metadata materials. Experimental proteomics samples were prepared using Limited Proteolysis (LiP) methods for Label-free quantification (LFQ) and global proteomic evaluation. Sample data was acquired using a Q-Exactive HF-X mass spectrometer and was processed and compiled using MaxQuant software (v.1.6.17.0). Processed proteomic data downloads include a sample naming key, processed MaxQuant results/parameters, and protein annotated relative abundance files. See corresponding primary data accessions below and Viral Experiment LiP Analysis source code supporting data transparency and reuse. Experimental transcriptomics samples were collected in parallel and processed for RNA sequencing (RNA-Seq) as summarized under ACS-DP1 (https://data.pnnl.gov/group/nodes/dataset/34069).

59 BASIC BIOLOGICAL SCIENCES↗

County-Level Hourly Renewable Capacity Factor Dataset for the ReEDS Model

This dataset contains hourly capacity factors for each renewable resource class and region (in this case, county). Technologies like large-scale utility PV (UPV), onshore wind, offshore wind, and concentrating solar power (CSP) are included. The dataset contains 7 years of hourly weather data (2007-2013) for different sites across the US and is used as one of the inputs to the ReEDS-2.0 model (see the "ReEDS 2.0 GitHub Repository" resource link below), developed by NREL. The weather profiles apply to any capacity that exists or is built in each region and class. This helps calculate the generation that can be provided using these resources. Open, reference, and limited are 3 scenarios based on land-use allowance, derived from the Renewable Energy Potential (reV) model developed by NREL, which helps generate supply curves for renewable technologies and assess the maximum potential of renewable resources in a designated area. Each zipped file in this dataset corresponds to a technology and contains the respective land-use scenario files required to run that technology in ReEDS. To use this dataset, download and place the extracted files in the locally cloned ReEDS repository inside one of the folders (inputs/variability/multi_year). After completing this copy, upon running the ReEDS model at the county-level spatial resolution for respective analysis purposes, the program will detect the presence of these files and will not fail.

Array↗