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At least 559 records · Page 31

Distributed computing strategies for processing of FT-ICR MS imaging datasets for continuous mode data visualization

High-resolution Fourier transform ion cyclotron resonance (FT-ICR) mass spectrometry imaging enables the spatial mapping and identification of biomolecules from complex surfaces. The need for long time-domain transients, and thus large raw file sizes, results in a large amount of raw data (“big data”) that must be processed efficiently and rapidly. This can be compounded by largearea imaging and/or high spatial resolution imaging. For FT-ICR, data processing and data reduction must not compromise the high mass resolution afforded by the mass spectrometer. The continuous mode “Mosaic Datacube” approach allows high mass resolution visualization (0.001 Da) of mass spectrometry imaging data, but requires additional processing as compared to featurebased processing. We describe the use of distributed computing for processing of FT-ICR MS imaging datasets with generation of continuous mode Mosaic Datacubes for high mass resolution visualization. An eight-fold improvement in processing time is demonstrated using a Dutch nationally available cloud service.

Environmental Molecular Sciences Laboratory↗

Feasibility of using computed tomography texture analysis parameters as imaging biomarkers for predicting risk grade of gastrointestinal stromal tumors: comparison with visual inspection

Purpose: To evaluate the feasibility of using computed tomography texture analysis (CTTA) parameters for predicting malignant risk grade and mitosis index of gastrointestinal stromal tumors (GISTs), compared with visual inspection. Method and materials: CTTA was performed on portal phase CT images of 145 surgically confirmed GISTs (mean size: 42.9 ± 37.5 mm), using TexRAD software. Mean, standard deviation, entropy, mean of positive pixels (MPP), skewness, and kurtosis of CTTA parameters, on spatial scaling factor (SSF), 2–6 were compared by risk grade, mitosis rate, and the presence or absence of necrosis on visual inspection. CTTA parameters were correlated with risk grade. Diagnostic performance was evaluated with receiver operating characteristic curve analysis. Enhancement pattern, necrosis, heterogeneity, calcification, growth pattern, and mucosal ulceration were subjectively evaluated by two observers. Results: Three to four parameters at different scales were significantly different according to the risk grade, mitosis rate, and the presence or absence of necrosis (p < 0.041). MPP at fine or medium scale (r = − 0.547 to − 393) and kurtosis at coarse scale (r = 0.424–0.454) correlated significantly with risk grade (p < 0.001). HG-GIST was best differentiated from LG-GIST by MPP at SSF 2 (AUC, 0.782), and kurtosis at SSF 4 (AUC, 0.779) (all p < 0.001). CT features predictive of HG-GIST were density lower than or equal to that of the erector spinae muscles on enhanced images (OR 2.1; p = 0.037; AUC, 0.59), necrosis (OR, 6.1; p < 0.001; AUC, 0.70), heterogeneity (OR, 4.3; p < 0.001; AUC, 0.67), and mucosal ulceration (OR, 3.3; p = 0.002; AUC, 0.62). Conclusion: Using TexRAD, MPP and kurtosis are feasible in predicting risk grade and mitosis index of GISTs. CTTA demonstrated meaningful accuracy in preoperative risk stratification of GISTs.

62 RADIOLOGY AND NUCLEAR MEDICINE↗

Development of a Xanthene-Based Red-Emissive Fluorescent Probe for Visualizing H{sub 2}O{sub 2} in Living Cells, Tissues and Animals

Hydrogen peroxide (H{sub 2}O{sub 2}) plays important roles in the regulation of many biological processes, and the abnormal level of H{sub 2}O{sub 2} has close relation with the initiation and progression of many diseases. Herein, we describe a novel red-emissive fluorescence probe (RhoB) for the visualization of H{sub 2}O{sub 2} in living cells, tissues and animals. RhoB was constructed on the basis of a xanthene-based red-emissive dye, and displayed nearly no fluorescence. After the treatment with H{sub 2}O{sub 2}, RhoB can exhibit red fluorescence with the emission wavelength at 638 nm. RhoB exhibited highly sensitive and selective response to H{sub 2}O{sub 2}. Density functional theory (DFT) calculations were conducted to shed light on the optical properties of RhoB, and natural bond orbital (NBO) calculations demonstrate that the boron atom shows the highest positive electricity and further support the response mechanism. RhoB was successfully applied for imaging of exogenous and endogenous H{sub 2}O{sub 2} in living cells, and also can be utilized for visualizing H{sub 2}O{sub 2} in living tissues and animals.

74 ATOMIC AND MOLECULAR PHYSICS↗

Vehicle detection based on visual attention mechanism and adaboost cascade classifier in intelligent transportation systems

Robust and efficient vehicle detection is an essential task in intelligent transportation systems (ITS). Unfortunately, due to a great diversity of vehicle profiles and outdoor illumination conditions, it is a challenge to detect vehicles effectively. This paper proposes a method for high-performance vehicle detection based on visual attention mechanism and AdaBoost cascade classifier. Our method constructs the structural Haar features and extracts the features of samples using structural Haar features and trains an AdaBoost cascade classifier. Then we use the visual attention mechanism to extract the target candidate region. At last, we generate detecting sub-windows in the candidate region and discriminate them with the cascade classifier to realize vehicle detection. We compare the performance of this method against two variants, one using MB–LBP features and another using Haar features. The experimental results demonstrate satisfactory performance for the proposed method in term of training speed, detecting speed and detecting accuracy.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Visualization of Kirkendall Voids at Cu-Au Interfaces by In Situ TEM Heating Studies

Gold-plated copper alloys are used extensively in electrical contacts where diffusional processes are known to cause contact degradation. An in situ transmission electron microscopy (TEM) heating study was carried out to provide fundamental understanding of the aging phenomena in reasonable timescales. Samples to visualize the interface in TEM were prepared by focused ion beam (FIB) microscopy and heated in situ up to 350°C while holding at intermediate temperatures to enable imaging. The grain boundaries in Au coatings, specifically the columnar boundaries, provided rapid pathways for diffusion of Cu all the way to the Au surface. This unequal diffusion created vacancies in Cu which coalesced into Kirkendall voids. This in situ technique has been applied to visualize the diffusion pathways in electroplated and sputtered Au films deposited directly on Cu, as well the role of Ni and NiP as barrier layers for mitigating Cu diffusion.

36 MATERIALS SCIENCE↗

Characterization and visualization of grain boundary disconnections

We introduce a method to visualize dislocations along grain boundaries at the atomic level. It uses an atomic-level Nye tensor, representing the dislocation density. To calculate the Nye tensor at grain boundaries, we extend the Hartley-Mishin strain gradient calculation to the displacement shift complete lattice. We show that the method is effective in visualizing disconnections and the dislocation content of grain boundary phase junctions in body-centered cubic tungsten, as well as face-centered cubic copper. In addition, we use the method to characterize the morphology of a two-dimensional grain boundary phase nucleus in a symmetric tilt grain boundary in tungsten. This method can be applied to both bulk dislocations and grain boundary disconnections, which makes it ideal for studying the interactions and reactions of bulk dislocations with grain boundaries, and grain boundary disconnections.

36 MATERIALS SCIENCE↗

High-speed X-ray visualization of dynamic crack initiation and propagation in bone

The initiation and propagation of physiological cracks in porcine cortical and cancellous bone under high rate loading were visualized using high-speed synchrotron X-ray phase-contrast imaging (PCI) to characterize their fracture behaviors under dynamic loading conditions. A modified Kolsky compression bar was used to apply dynamic three-point flexural loadings on notched specimens and images of the fracture processes were recorded using a synchronized high-speed synchrotron X-ray imaging set-up. Three-dimensional synchrotron X-ray tomography was conducted to examine the initial microstructure of the bone before high-rate experiments. The experimental results showed that the locations of fracture initiations were not significantly different between the two types of bone. However, the crack velocities in cortical bone were higher than in cancellous bone. Crack deflections at osteonal cement lines, a prime toughening mechanism in bone at low rates, were observed in the cortical bone under dynamic loading in this study. Fracture toughening mechanisms, such as untracked ligament bridging and bridging in crack wake were also observed for the two types of bone. The results also revealed that the fracture toughness of cortical bone was higher than cancellous bone. The crack was deflected to some extent at osteon cement line in cortical bone instead of comparatively penetrating straight through the microstructures in cancellous bone. Statement of Significance Fracture toughness is with great importance to study for crack risk prediction in bone. For those cracks in bone, most of them are associated with impact events, such as sport accidents. Consequently, we visualized, in real-time, the entire processes of dynamic fractures in notched cortical bone and cancellous bone specimens using synchrotron X-ray phase contrast imaging. The onset location of crack initiation was found independent on the bone type. We also found that, although the extent was diminished, crack deflections at osteon cement lines, a major toughening mechanism in transversely orientated cortical bone at quasi-static rate, were still played a role in resisting cracking in dynamically loaded specimen. Furthermore, these finding help researchers to understand the dynamic fracture behaviors in bone.

59 BASIC BIOLOGICAL SCIENCES↗

Application of reference-free natural background–oriented schlieren photography for visualizing leakage sites in building walls

Air leakage in buildings can cause health and comfort concerns for occupants and can contribute to mold growth on building materials, or in extreme conditions, rot of building materials. Unwanted air leakage through the building envelope also contributes to approximately 4 quadrillion Btu (1172 TWh) of energy consumption per year in the building sector in the United States. Locating and sealing leakage sites can improve the energy efficiency, comfort, air quality, and moisture durability of the building stock. Typical methods of finding leakage sites, such as infrared imaging and smoke tracing, rely on concurrent blower door operation, which can also measure the total leakage rate of the building. Smoke tracing can be disruptive to occupants, and infrared imaging and smoke tracing cannot measure the contribution of individual leaks to prioritize sealing efforts. Here, an optical fluid flow imaging technique, reference-free natural background–oriented schlieren imaging, was adapted to visualize air exfiltration. This is the first step in developing a method to noninvasively locate and measure exfiltration or infiltration sites so that sealing efforts can be prioritized. Experimental results of this technique are presented, demonstrating the method's applicability to visualizing exfiltration through three common building claddings in an outdoor environment. Key variables impacting the performance of this technique when applied to building leakage are also discussed.

29 ENERGY PLANNING, POLICY, AND ECONOMY↗

CIEL ∗ Ch color map for visualization and analysis of sea ice motion

The International Commission on Illumination (CIE) designed its color space to be perceptually uniform so that a given numerical change in the color code corresponds to perceived change in color. This color encoding is demon- strated to be advantageous in scientific visualization and analysis of vector fields. The specific application is analysis of ice motion in the Arctic where patterns in smooth monthly-averaged ice motion are seen. Furthermore, fractures occurring in the ice cover result in discontinuities in the ice motion. This vector jump in displacement can also be visualized. We then analyze modeled and observed fractures through the use of a metric on the color space, and image amplitude and phase metrics. Amplitude and phase met- rics arise from image registration that is accomplished by sampling images using space filling curves, thus reducing the image registration problem to the more reliable functional alignment problem. We demonstrate this through an exploration of the metrics to compare model runs to an observed ice crack.

97 MATHEMATICS AND COMPUTING↗

Internal curing of cement pastes by means of superabsorbent polymers visualized by neutron tomography

Highlights: • The kinetics of water release from SAPs were studied by neutron tomography. • The time window for internal curing was linked to the water release from SAPs. • The water release links to the SAP effectiveness to mitigate autogenous shrinkage. • One SAP type was effective while another prematurely released its stored water. Superabsorbent polymers (SAPs) are used to counteract self-desiccation in order to mitigate autogenous shrinkage, a problem in cementitious systems with a low water-to-cement ratio. The release kinetics during internal curing are of importance as not all SAP types are able to efficiently mitigate autogenous shrinkage. In this study, neutron tomography is used to study and visualize the water release kinetics over time. Per-voxel analysis of the time-attenuation curve was performed using piecewise-constant functions. Two different SAP types were studied, one being able to mitigate autogenous shrinkage and one quickly releasing its stored water after final setting. The tomography results correspond to autogenous shrinkage measurements and nuclear magnetic resonance tests. The visualization provides information on the time of water release by the SAPs after setting and the time window of internal curing. This opens additional insights towards the application of SAPs in the construction sector and provides information on the mechanism of internal curing.

36 MATERIALS SCIENCE↗

9Cr steel visualization and predictive modeling

The goals of this work were to develop tools to visualize and characterize materials information, to explore new alloy compositions and/or processing, to better predict tensile strength and other mechanical properties. The 9–12 wt% Cr (9Cr) steel test data were compiled from several sources. About 3000 records with 30 predictor variables represent 82 unique steel alloy compositions, variations of thermo-mechanical processing steps and temperatures (homogenization, normalization and tempering cycles), test conditions and outcomes. Detailed data processing steps such as visualization and exploratory analysis, including univariate and bivariate analysis, different clustering techniques used to segment the data, statistical post-hoc analysis to verify significance of the findings, feature engineering to identify predictors of importance, and predictive modeling with cross-validation were performed. The outcome of analysis at each step was reviewed in the context of the domain knowledge of this class of steel, to see if there were underlying physical mechanisms that explain statistical relationships. Data analytics techniques and their parameters were fine-tuned to facilitate interpretation of the results as aligned with the insights from domain experts. Here, the ensemble predictive modeling using Random Forest regressor and post-hoc means comparison corroborated domain knowledge on the role of Co which is known to increase strength of steel alloys through solid-solution strengthening and to affect diffusion of alloying elements and precipitates. Alloys with Co content of 0.7–8 wt% had significantly higher mean strength than the ones without (while having Cr locked within 10–11 wt% range in either group and keeping other compositional element ratios fixed). End products of the computational techniques exploration are presented as the tools that can be used in iterative workflow of materials development and testing.

36 MATERIALS SCIENCE↗

Sidewall Breach During Lithium-Ion Battery Thermal Runaway Triggered by Cell-to-Cell Propagation Visualized Using High-Speed X-Ray Imaging

With the rapid deployment of Li-ion batteries (LiBs) in a range of applications, it is crucial to ensure their safe operation. Therefore, it is necessary to investigate the rapid thermal runaway failure that LiBs can undergo if improperly operated or subjected to abuse scenarios so that hazardous events can be avoided or mitigated. Sidewall breaches or ruptures of LiBs during thermal runaway are considered the most hazardous failure scenario, resulting in hot abrasive flare from the casing of the cell that can impinge on neighbouring cells and lead to the propagation of thermal runaway throughout a battery pack. Yet, the process leading up to the sidewall breach is not well understood due to the extreme difficulty in visualizing such a failure in commercially relevant cells. With the application of a newly developed chamber for remote-controlled abuse testing of batteries coupled with simultaneous X-ray imaging, we demonstrate here for the first time an in-situ visualization of a sidewall breach. By further applying spatiotemporal mapping techniques, the internal thermal runaway events leading up to the sidewall breach can be analyzed in detail. Subsequently, the speed of the electrode layer delamination could be calculated to a speed of 0.6 m/s. These new insights bring more clarity regarding this phenomenon, that in turn can help battery designers improve battery safety.

battery safety↗

πScope: Python based scientific workbench with MDSplus data visualization tool

In this work, a newly developed python based scientific data analysis and visualization tool, πScope (http://piscope.psfc.mit.edu), is reported. The primary motivation is 1) to provide an updated tool to browse the MDSplus data beyond existing dwscope/jScope and 2) to realize a universal foundation to construct interface tools to perform computer modeling from experimental data. To visualize MDSplus data, πScope has many features including overplotting different signals and discharges, generating various plot types (line, contour, image, etc.), performing in-panel data analysis using python scripts, and producing publication quality graphics. The logic to generate multi-panel plots is designed to be backward compatible with dwscope, enabling smooth migration for users. πScope uses multi-threading in data loading, and is easy to modify and expand due to its object-oriented design. Furthermore, A user can access the data structure both from a GUI and a script, enabling relatively complex data analysis workflow built quickly on πScope.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

Contingency Analysis Post-Processing With Advanced Computing and Visualization

Contingency analysis is a critical function widely used in energy management systems to assess the impact of power system component failures. Its outputs are important for power system operation for improved situational awareness, power system planning studies, and power market operations. With the increased complexity of power system modeling and simulation caused by increased energy production and demand, the penetration of renewable energy and fast deployment of smart grid devices, and the trend of operating grids closer to their capacity for better efficiency, more and more contingencies must be executed and analyzed quickly in order to ensure grid reliability and accuracy for the power market. Currently, many researchers have proposed different techniques to accelerate the computational speed of contingency analysis, but not much work has been published on how to post-process the large amount of contingency outputs quickly. This paper proposes a parallel post-processing function that can analyze contingency analysis outputs faster and display them in a web-based visualization tool to help power engineers improve their work efficiency by fast information digestion. Case studies using an ESCA-60 bus system and a WECC planning system are presented to demonstrate the functionality of the parallel post-processing technique and the web-based visualization tool.

Chen, Yousu↗

Temporal Evolution and Dose-Volume Histogram Predictors of Visual Acuity After Proton Beam Radiation Therapy of Uveal Melanoma

Purpose: To perform an in-depth temporal analysis of visual acuity (VA) outcomes after proton beam radiation therapy (PBRT) in a large, uniformly treated cohort of uveal melanoma (UM) patients, to determine trends in VA evolution depending on pretreatment and temporally defined posttreatment VA measurements; and to investigate the relevance of specific patient, tumor and dose-volume parameters to posttreatment vision loss. Methods and Materials: Uveal melanoma patients receiving PBRT were identified from a prospectively maintained database. Included patients (n=645) received 56 GyE in 4 fractions, had pretreatment best corrected VA (BCVA) in the affected eye of count fingers (CF) or better, with posttreatment VA assessment at specified post-PBRT time point(s). Patients were grouped according to the pretreatment BCVA into favorable (≥20/40) or unfavorable (20/50-20/400) and poor (CF) strata. Temporal analysis of BCVA changes was described, and univariate and forward stepwise multivariate logistic regression analyses were performed to identify predictors for VA loss. Results: Median VA follow-up was 53 months (range, 3-213 months). At 60-month follow up, among evaluable treated eyes with favorable pretreatment BCVA, 45% retained BCVA ≥20/40, whereas among evaluable treated eyes with initially unfavorable/poor BCVA, 21% had vision ≥20/100. Among those with a favorable initial BCVA, attaining BCVA of ≥20/40 at any posttreatment time point was associated with subsequent maintenance of excellent BCVA. Multivariate analysis identified volume of the macula receiving 28GyE (P<.0001) and optic nerve (P=.0004) as independent dose-volume histogram predictors of 48-month post-PBRT vision loss among initially favorable treated eyes. Conclusions: Approximately half of PBRT-treated UM eyes with excellent pretreatment BCVA assessed at 5 years after treatment will retain excellent long-term vision. 28GyE macula and optic nerve dose-volume histogram parameters allow for rational treatment planning optimization that may lead to improved visual outcomes. The detailed temporal analysis with intermediate as well as long-term functional prognosis, and the relationship of outcomes with clinical and treatment planning parameters, is critical for informed care of UM patients before and after PBRT.

62 RADIOLOGY AND NUCLEAR MEDICINE↗

Tracking the evolution of processes occurring in silicon anodes in lithium ion batteries by 3D visualization of relaxation times

An unconventional electroanalytical method has been used for tracking processes in silicon anodes in lithium ion batteries: a 3D visualization of relaxation times. Impedance data of the electrodes were collected at different potentials and different cycles during cyclic voltammetry, and were treated by means of the Distribution of Relaxation Times (DRT) method. A 3D visualization of the results allowed to identify the formation of a solid electrolyte interphase on the anode, composed of two layers with different relaxation times. Such findings are not possible by conventional analysis of impedance data by modeling with equivalent circuits, nor by simple DRT alone. Additionally, it was possible to observe that the characteristic relaxation time of the lithiation of the Si anode becomes smaller upon cycling, indicating that the material experiences structural transformations that allow it to lithiate faster. The result is relevant to motivate the use of micron-sized particles in the anode.

25 ENERGY STORAGE↗

Ultrasound assisted sonochemically engineered effective red luminescent labeling agent for high resolution visualization of latent fingerprints

Highlights: • BaTiO{sub 3}:Eu{sup 3+} NPs were prepared by facile bio-template assisted sonochemical route. • The obtained samples displayed superstructures of various regular morphological shapes. • The optimized product was used for forensic and anti-counterfeiting applications. • CIE, CCT studies indicate the present phosphor was highly useful in LED’s. - Abstract: Nanoscience and technology finds wide range of benefits in the area of surface based science due to its nano size and high surface area. This offers new potentials in surface-based science comprising latent fingerprint (LFP) and to develop luminescent ink for anti-counterfeiting applications. Due to high backward hindrance, low sensitivity, complicated setup, and poor universality of traditionally developed techniques were main drawbacks for the visualization of LFPs. To overcome these problems, we explored the superstructures (SS) of europium ions doped BaTiO{sub 3} nanophosphors (NPs) prepared via sonochemical route with bio-template as surfactant for the detection of LFPs and as an anti-counterfeiting ink. The morphologies of SS were highly dependent on the concentration of Aloe vera (A.V.) gel as well as ultrasound irradiation time. The obtained SS displayed pure red emission which corresponds to the {sup 5}D{sub 0} → {sup 7}F{sub J} transitions of Eu{sup 3+} ions under UV light. The results clearly evident that the optimized BaTiO{sub 3}:Eu{sup 3+} NPs will create a new prospect for research in LFPs visualization and anti-counterfeiting technology.

77 NANOSCIENCE AND NANOTECHNOLOGY↗

Visualization of post-detonation fireball flowfields and comparison to CFD modeling

Visualization of flow structures within post-detonation fireballs has been performed for benchmark validation of numerical simulations. Custom pressed PETN explosives with a 12-mm diameter hemispherical form factor were used to produce a spherically symmetric post-detonation flow with low soot yield. Hydroxyl-radical planar laser induce fluorescence (OH-PLIF) was employed to visualize the structure ranging from approximately 10 μs to 35 μs after shock breakout from the explosive pellet. Fireball simulations were performed using the HyBurn Computational Fluid Dynamics (CFD) package. Experimental OH-PLIF results were compared to synthetic OH-PLIF from post-processing of CFD simulations. From the comparison of experimental and synthetic OH-PLIF images, CFD is shown to replicate much of the flow structure observed in the experiments, revealing potential differences in turbulent length scales and OH kinetics. Furthermore, results provide significant advancement in experimental resolution of these harsh turbulent combustion environments and validate physical models thereof.

Detonator↗