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At least 127 records · Page 7
All sourcesNASA NTRSDOE OSTI
DOE OSTI2023

Towards resolving protein structures at the atomic scale using atom probe tomography

In the field of Structural Biology, Atom Probe Tomography (APT) is in the nascent stages of development wherein coarse-grained visuals of proteins have been captured. The characterization of organic samples or biomolecules through the technique is currently limited to the detection of a few dominant signatures. The problem of indecipherable characterization can inherently be traced back to multiple forms of technique-specific responses to organic samples and consequent triggers leading to organic-sample and sample-medium interactions. While it is possible for captured manifestations of protein reconstructions to seemingly appear intact from a basic visual purview, the parameter-protein associative responses throughout the structure as a direct consequence of the inherent workings of the technique (until harmonized with organic sample complexity and behavior) and field evaporation-based factors make non-aberrative atomic associations infeasible. The work focused on identifying and theorizing the (above stated and other) fundamental mechanisms that stronghold the study of intricate atomic to higher order associations in proteins through APT. Attempts at structure elucidation of the cryogenic sample under study, through indirect associations (and methods) based on other imaging techniques, further revealed the distinct and highly distortive nature at the atomic scale deterring structural tunability and thus characterization of APT based cryogenic samples under analysis. As a direct counter to the atomic scale characterization problem, by taking the experiment-specific uncertainties, and probable APT-centric organic sample-based variabilities into account, a basic result is extracted and presented. Through mass-spectrometric and computational analysis, specific individual amino acids (Sulfur-containing protein-bound amino acids) in proteins and aspects of protein structure (probable backbone fragments, partial sequence - partial backbone portions) have been identified and characterized. Under analysis considerations, a few of the simplest known and easily inferable segments that favor structural deteriorations in the reconstructions are stated. Additionally, to overcome technique-specific deterrents to the characterization of biomolecules in cryogenic sample medium, the development of a protein-labeling strategy tailored to APT is suggested.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2018

Automated defect detection in spent nuclear fuel using combine Cerenkov and Gamma Emission Tomography data

Spent fuel monitoring and characterization has been a pillar of safeguards and nuclear facility monitoring for many years. The Digital Cerenkov Viewing Device (DCVD) has been used since the 1980s as a method of defect detection in spent fuel. In recent years, the accounting of large quantities of spent fuel before storage has renewed interest in this relatively quick and inexpensive method. This has an impact not only in safeguards, but also in for nuclear power facilities, as accounting can be a long and arduous process. Additionally, the DCVD demonstrates limited accuracy in more complex cases such as substitution of a fuel rod with steel, or a partial defect detection. A second method, Gamma Emission Tomography (GET) has been explored as an improved defect detection method, but is much more expensive and invasive than DCVD. This work identifies deficiencies in both methods, and proposes a combination of data gathered from each method to address these deficiencies for improved spent fuel characterization. Initial results are promising, showing 97% detection of a single missing fuel rod when the data types are combined, versus approximately 50% and 70%respectively for DCVD and GET data on their own. Finally, these classification results are obtained with algorithms derived from facial recognition and applied to this problem, yielding unique accuracy in near real-time while also maintaining the information barrier between output and measurement desired in safeguards.

11 NUCLEAR FUEL CYCLE AND FUEL MATERIALS↗
DOE OSTI2018

Three-Dimensional Reconstruction and Analysis of All-Solid Li-Ion Battery Electrode Using Synchrotron Transmission X-ray Microscopy Tomography

A synchrotron transmission X-ray microscopy tomography system with a spatial resolution of 58.2 nm at the Advanced Photon Source was employed to obtain three-dimensional morphological data of all-solid Li-ion battery electrodes. The three-phase electrode was fabricated from a 47:47:6 (wt %) mixture of Li(Ni 1/3 Mn 1/3 Co 1/3 )O 2 as active material, Li 1.3 Ti 1.7 Al 0.3 (PO 4 ) 3 as Li-ion conductor, and Super-P carbon as electron conductor. Furthermore, the geometric analysis show that particle-based all-solid Li-ion battery has serious contact interface problem which significantly impact the Li-ion transport and intercalation reaction in the electrode, leading to low capacity, poor rate capability and cycle life.

25 ENERGY STORAGE↗
NASA NTRS2002

Total Internal Reflection Tomography (TIRT) for Three-Dimensional Sub-Wavelength Imaging

We will present a novel new form of near-field microscopy known as total internal reflection tomography (TIRT), which allows for true three-dimensional sub-wavelength imaging. It is based on recent theoretical advances regarding the fundamental interaction of light with sub-wavelength structures, as well as stable algorithms for the near-field inverse problem. We will discuss its theoretical underpinnings, as well describe current efforts at the NASA Glenn Research Center to implement a TIRT system for biofluid research.

Fischer, David G.↗
DOE OSTI2023

DOLCE: A Model-Based Probabilistic Diffusion Framework for Limited-Angle CT Reconstruction

Limited-Angle Computed Tomography (LACT) is a non-destructive evaluation technique used in a variety of applications ranging from security to medicine. The limited angle coverage in LACT is often a dominant source of severe artifacts in the reconstructed images, making it a challenging inverse problem. We present DOLCE, a new deep model-based framework for LACT that uses a conditional diffusion model as an image prior. Diffusion models are a recent class of deep generative models that are relatively easy to train due to their implementation as image denoisers. DOLCE can form high-quality images from severely under-sampled data by integrating data-consistency updates with the sampling updates of a diffusion model, which is conditioned on the transformed limited-angle data. We show through extensive experimentation on several challenging real LACT datasets that, the same pre-trained DOLCE model achieves the SOTA performance on drastically different types of images. Additionally, we show that, unlike standard LACT reconstruction methods, DOLCE naturally enables the quantification of the reconstruction uncertainty by generating multiple samples consistent with the measured data.

Kim, Hyojin↗
DOE OSTI2019

Ru supported on micro and mesoporous carbons as catalysts for biomass-derived molecules hydrogenation

Supported ruthenium based materials are active for the catalytic hydrogenation of biomass-derived molecules. However, such catalysts still have problems regarding deactivation coming from Ru leaching and particles aggregation. In this work we demonstrate that spatial restriction on metal nanoparticles limits aggregation and eliminates performance losses upon subsequent testing. We synthesized and compared Ru supported on activated (Ru/AC) or mesoporous carbon (Ru/MC). Electron tomography characterization showed preferential Ru location depending on the material porosity; Ru nanoparticles were located inside mesoporous carbon pores and showed narrower size distribution. In catalytic reactions, Ru/MC reached the complete conversion of levulinic acid with the 96% selectivity to γ-valerolactone while it converted 74% of glycerol compared to the 34% showed by Ru/AC. Furthermore, we find that the Ru/AC materials deactivated after 1 catalytic cycle, however the Ru/MC maintained constant activity for multiple catalytic cycles.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2022

Deep-learning-based workflow for boundary and small target segmentation in digital rock images using UNet++ and IK-EBM

We report three-dimensional (3D) X-ray micro-computed tomography (μCT) has been widely used in petroleum engineering because it can provide detailed pore structural information for a reservoir rock, which can be imported into a pore-scale numerical model to simulate the transport and distribution of multiple fluids in the pore space. The partial volume blurring (PVB) problem is a major challenge in segmenting raw μCT images of rock samples, which impacts boundaries and small targets near the resolution limit. We developed a deep-learning (DL)-based workflow for accurate and fast partial volume segmentation. The DL model's performance depends primarily on the training data quality and model architecture. This study employed the entropy-based-masking indicator kriging (IK-EBM) to segment 3D Berea sandstone images as training datasets. The comparison between IK-EBM and manual segmentation using a 3D synthetic sphere pack, which had a known ground truth, showed that IK-EBM had higher accuracy on partial volume segmentation. We then trained and tested the UNet++ model, a state-of-the-art supervised encoder-decoder model, for binary (i.e., void and solid) and four-class segmentation. We compared the UNet++ with the commonly used U-Net and wide U-Net models and showed that the UNet++ had the best performance in terms of pixel-wise and physics-based evaluation metrics. Specifically, boundary-scaled accuracy demonstrated that the UNet++ architecture outperformed the regular U-Net architecture in the segmentation of pixels near boundaries and small targets, which were subjected to the PVB effect. Feature map visualization illustrated that the UNet++ bridged the semantic gaps between the feature maps extracted at different depths of the network, thereby enabling faster convergence and more accurate extraction of fine-scale features. The developed workflow significantly enhances the performance of supervised encoder-decoder models in partial volume segmentation, which has extensive applications in fundamental studies of subsurface energy, water, and environmental systems.

02 PETROLEUM↗
DOE OSTI2019

Practical and reliable error bars for quantum process tomography

Current techniques in quantum process tomography typically return a single point estimate of an unknown process based on a finite albeit large amount of measurement data. Due to statistical fluctuations, however, other processes close to the point estimate can also produce the observed data with near certainty. Unless appropriate error bars can be constructed, the point estimate does not carry any sound operational interpretation. Here, we provide a solution to this problem by constructing a confidence region estimator for quantum processes. Our method enables reliable estimation of essentially any figure of merit for quantum processes on few qubits, including the diamond distance to a specific noise model, the entanglement fidelity, and the worst-case entanglement fidelity, by identifying error regions which contain the true state with high probability. We also provide a software package, QPtomographer, implementing our estimator for the diamond norm and the worst-case entanglement fidelity. We illustrate its usage and performance with several simulated examples. Furthermore, our tools can be used to reliably certify the performance of, e.g., error correction codes, implementations of unitary gates, or more generally any noise process affecting a quantum system.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗
DOE OSTI2025

Iterative Reconstruction for Multimodal Neutron Tomography

Here, we describe a unified framework for model-based iterative 3-D reconstruction of multimodal neutron transmission, hydrogen-scatter, and induced-fission images from low resolution data recorded using 14.1-MeV neutrons and the associated-particle imaging (API) technique. The framework, which was developed to facilitate use in challenging field-deployment scenarios, is centered around physics-based system models and a total variation (TV) constrained implementation of the simultaneous iterative reconstruction technique (SIRT). Modified to solve a statistically weighted least squares (WLS) problem, the SIRT algorithm is accelerated using ordered subsets and Nesterov’s momentum for which we derive a near-optimal value of the governing Lipschitz constant. The approach enables the reconstruction of images that are high resolution compared to the acquired data and is robust to both limited statistics and a limited number of projection angles. Moreover, the framework is fast enough to be practical. Example images are provided that demonstrate both the ability to perform fast-neutron imaging of high-atomic-number materials with low radiation dose and the benefit of multimodal neutron imaging to identify key materials.

Hydrogen scatter↗
DOE OSTI2024

Graph-learning approach to combine multiresolution seismic velocity models

SUMMARY The resolution of velocity models obtained by tomography varies due to multiple factors and variables, such as the inversion approach, ray coverage, data quality, etc. Combining velocity models with different resolutions can enable more accurate ground motion simulations. Toward this goal, we present a novel methodology to fuse multiresolution seismic velocity maps with probabilistic graphical models (PGMs). The PGMs provide segmentation results, corresponding to various velocity intervals, in seismic velocity models with different resolutions. Further, by considering physical information (such as ray path density), we introduce physics-informed probabilistic graphical models (PIPGMs). These models provide data-driven relations between subdomains with low (LR) and high (HR) resolutions. Transferring (segmented) distribution information from the HR regions enhances the details in the LR regions by solving a maximum likelihood problem with prior knowledge from HR models. When updating areas bordering HR and LR regions, a patch-scanning policy is adopted to consider local patterns and avoid sharp boundaries. To evaluate the efficacy of the proposed PGM fusion method, we tested the fusion approach on both a synthetic checkerboard model and a fault zone structure imaged from the 2019 Ridgecrest, CA, earthquake sequence. The Ridgecrest fault zone image consists of a shallow (top 1 km) high-resolution shear-wave velocity model obtained from ambient noise tomography, which is embedded into the coarser Statewide California Earthquake Center Community Velocity Model version S4.26-M01. The model efficacy is underscored by the deviation between observed and calculated traveltimes along the boundaries between HR and LR regions, 38 per cent less than obtained by conventional Gaussian interpolation. The proposed PGM fusion method can merge any gridded multiresolution velocity model, a valuable tool for computational seismology and ground motion estimation.

Geochemistry & Geophysics↗
NASA NTRS2006

Noninvasive 3D Visualization of Defects and Crack Propagation in Layered Foam Structures by Phase Contrast Microimaging

Applications of polymeric foams in our modern society continue to grow because of their light weight, high strength, excellent thermal and mechanical insulation, and the ease of engineering. Among others, closed-cell foam has been structurally used for thermally insulating the shuttle external tank. However, internal defects of the foams were difficult to observe non-invasively due to limited sensitivity to the low-density structures possessed by traditional imaging tools such as computed X-ray tomography By combining phase contrast X-ray imaging with pressure loading, we succeeded in precisely mapping intact cellular structure and defects inside the bulk of layered foam and visualizing its subsequent response to the pressure in three-dimensional space. The work demonstrated a powerfir1 approach for yielding insight into underlying problems in lightweight cellular materials otherwise unobtainable.

Hu, Z. W.↗
DOE OSTI2019

Simulation of unsteady blood flows in a patient-specific compliant pulmonary artery with a highly parallel monolithically coupled fluid-structure interaction algorithm

Computational fluid dynamics (CFD) is increasingly used to study blood flows in patient-specific arteries for understanding certain cardiovascular diseases. The techniques work quite well for relatively simple problems, but need improvements when the problems become harder in the case when (1) the geometry becomes complex (from a few branches to a full pulmonary artery), (2) the model becomes more complex (from fluid-only calculation to coupled fluid-structure interaction calculation), (3) both the fluid and wall models become highly nonlinear, and (4) the computer on which we run the simulation is a supercomputer with tens of thousands of processor cores. To push the limit of CFD in all four fronts, in this paper, we develop and study a highly parallel algorithm for solving a monolithically coupled fluid-structure system for the modeling of the interaction of the blood flow and the arterial wall. As a case study, we consider a patient-specific, full size pulmonary artery obtained from CT (Computed Tomography) images, with an artificially added layer of wall with a fixed thickness. The fluid is modeled with a system of incompressible Navier-Stokes equations and the wall is modeled by a geometrically nonlinear elasticity equation. As far as we know this is the first time the unsteady blood flow in a full pulmonary artery is simulated without assuming a rigid wall. We report the proposed numerical algorithm and software scale well beyond 10,000 processor cores on a supercomputer for solving the fluid-structure interaction problem discretized with a stabilized finite element method in space and an implicit scheme in time involving hundreds of millions of unknowns.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2024

HamPerf: A Hamiltonian-Oriented Approach to Quantum Benchmarking

Quantum computing technologies are undergoing rapid development. The different qubit modalities being considered for quantum computing each have their strengths and weaknesses, making it challenging to compare their performance relative to each other and the state-of-the-art in classical high-performance computing. To better understand the utility of a given quantum processor and to assess when and how it will be able to advance the frontiers of computational science, researchers need a robust approach to quantum benchmarking. A variety of approaches have been proposed, many of which characterize the presence of noise in current quantum devices. These efforts include component-level performance metrics, such as randomized benchmarking and gate set tomography; high-level application-dependent metrics; and devicelevel metrics, such as the Quantum Volume. However, it remains unclear how low-level metrics, such as fidelities and decoherence times, and global device metrics, such as Quantum Volume, relate to the computational utility and practical limitations of quantum processors to solve useful problems. In this paper, we describe our Hamiltonian-oriented approach to quantum benchmarking called HamPerf. Where previous application-dependent approaches specify a suite of benchmarking circuits inspired by applications, we place the problem Hamiltonian at the center. Our strategy allows us to probe the computational performance of a quantum processor on standardized and relevant problem sets, agnostic of the algorithms and hardware used to solve them; it also provides fundamental insights into how device characteristics correlate with computational utility.

Butko, Anastasiia↗
DOE OSTI2024

Universal framework for simultaneous tomography of quantum states and SPAM noise

We present a general denoising algorithm for performing simultaneous tomography of quantum states and measurement noise. This algorithm allows us to fully characterize state preparation and measurement (SPAM) errors present in any quantum system. Our method is based on the analysis of the properties of the linear operator space induced by unitary operations. Given any quantum system with a noisy measurement apparatus, our method can output the quantum state and the noise matrix of the detector up to a single gauge degree of freedom. We show that this gauge freedom is unavoidable in the general case, but this degeneracy can be generally broken using prior knowledge on the state or noise properties, thus fixing the gauge for several types of state-noise combinations with no assumptions about noise strength. Such combinations include pure quantum states with arbitrarily correlated errors, and arbitrary states with block independent errors. This framework can further use available prior information about the setting to systematically reduce the number of observations and measurements required for state and noise detection. Our method effectively generalizes existing approaches to the problem, and includes as special cases common settings considered in the literature requiring an uncorrelated or invertible noise matrix, or specific probe states.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗
NASA NTRS1999

Modeling of polychromatic attenuation using computed tomography reconstructed images

This paper presents a procedure for estimating an accurate model of the CT imaging process including spectral effects. As raw projection data are typically unavailable to the end-user, we adopt a post-processing approach that utilizes the reconstructed images themselves. This approach includes errors from x-ray scatter and the nonidealities of the built-in soft tissue correction into the beam characteristics, which is crucial to beam hardening correction algorithms that are designed to be applied directly to CT reconstructed images. We formulate this approach as a quadratic programming problem and propose two different methods, dimension reduction and regularization, to overcome ill conditioning in the model. For the regularization method we use a statistical procedure, Cross Validation, to select the regularization parameter. We have constructed step-wedge phantoms to estimate the effective beam spectrum of a GE CT-I scanner. Using the derived spectrum, we computed the attenuation ratios for the wedge phantoms and found that the worst case modeling error is less than 3% of the corresponding attenuation ratio. We have also built two test (hybrid) phantoms to evaluate the effective spectrum. Based on these test phantoms, we have shown that the effective beam spectrum provides an accurate model for the CT imaging process. Last, we used a simple beam hardening correction experiment to demonstrate the effectiveness of the estimated beam profile for removing beam hardening artifacts. We hope that this estimation procedure will encourage more independent research on beam hardening corrections and will lead to the development of application-specific beam hardening correction algorithms.

NASA Discipline Musculoskeletal↗
DOE OSTI2020

Measuring the evolution of intergalactic gas from z = 0 to 5 using the kinematic Sunyaev–Zel’dovich effect

ABSTRACT A complete census of baryons in the late Universe is a long-standing challenge due to the intermediate temperate and rarefied character of the majority of cosmic gas. To gain insight into this problem, we extract measurements of the kinematic Sunyaev–Zel’dovich (kSZ) effect from the cross-correlation of angular redshift fluctuations maps, which contain precise information about the cosmic density and velocity fields, and cosmic microwave background maps high-pass filtered using aperture photometry; we refer to this technique as angular redshift fluctuations (ARF)–kSZ tomography. Remarkably, we detect significant cross-correlation for a wide range of redshifts and filter apertures using 6dF galaxies, BOSS galaxies, and SDSS quasars as tracers, yielding a 11σ detection of the kSZ effect. We then leverage these measurements to set constraints on the location, density, and abundance of gas inducing the kSZ effect, finding that this gas resides outside dark matter haloes, presents densities ranging from 10 to 250 times the cosmic average, and comprises half of cosmic baryons. Taken together, these findings indicate that ARF–kSZ tomography provides a nearly complete census of intergalactic gas from z = 0 to 5.

Chaves-Montero, Jonás↗
NASA NTRS1991

Advanced Computed Tomography Inspection System (ACTIS): An overview of the technology and its application

The Advanced Computed Tomography Inspection System (ACTIS) was developed by NASA Marshall to support solid propulsion test programs. ACTIS represents a significant advance in state-of-the-art inspection systems. Its flexibility and superior technical performance have made ACTIS very popular, both within and outside the aerospace community. Through technology utilization efforts, ACTIS has been applied to inspection problems in commercial aerospace, lumber, automotive, and nuclear waste disposal industries. ACTIS has been used to inspect items of historical interest. ACTIS has consistently produced valuable results, providing information which was unattainable through conventional inspection methods. Although many successes have already been shown, the full potential of ACTIS has not yet been realized. It is currently being applied in the commercial aerospace industry by Boeing. Smaller systems, based on ACTIS technology, are becoming increasingly available. This technology has much to offer the small business and industry, especially in identifying design and process problems early in the product development cycle to prevent defects. Several options are available to businesses interested in this technology.

Hediger, Lisa H.↗
DOE OSTI2022

Data-centric machine learning in quantum information science

Abstract We propose a series of data-centric heuristics for improving the performance of machine learning systems when applied to problems in quantum information science. In particular, we consider how systematic engineering of training sets can significantly enhance the accuracy of pre-trained neural networks used for quantum state reconstruction without altering the underlying architecture. We find that it is not always optimal to engineer training sets to exactly match the expected distribution of a target scenario, and instead, performance can be further improved by biasing the training set to be slightly more mixed than the target. This is due to the heterogeneity in the number of free variables required to describe states of different purity, and as a result, overall accuracy of the network improves when training sets of a fixed size focus on states with the least constrained free variables. For further clarity, we also include a ‘toy model’ demonstration of how spurious correlations can inadvertently enter synthetic data sets used for training, how the performance of systems trained with these correlations can degrade dramatically, and how the inclusion of even relatively few counterexamples can effectively remedy such problems.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗