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At least 505 records · Page 28

Architectural Dynamics of CaMKII-Actin Networks

Calcium-calmodulin-dependent kinase II (CaMKII) has an important role in dendritic spine remodeling upon synaptic stimulation. Using fluorescence video microscopy and image analysis, we investigated the architectural dynamics of rhodamine-phalloidin stabilized filamentous actin (F-actin) networks cross-linked by CaMKII. We used automated image analysis to identify F-actin bundles and crossover junctions and developed a dimensionless metric to characterize network architecture. Similar networks were formed by three different CaMKII species with a 10-fold length difference in the linker region between the kinase domain and holoenzyme hub, implying linker length is not a primary determinant of F-actin cross-linking. Electron micrographs showed that at physiological molar ratios, single CaMKII holoenzymes cross-linked multiple F-actin filaments at random, whereas at higher CaMKII/F-actin ratios, filaments bundled. Light microscopy established that the random network architecture resisted macromolecular crowding with polyethylene glycol and blocked ATP-powered compaction by myosin-II miniature filaments. Importantly, the networks disassembled after the addition of calcium-calmodulin and were then spaced within 3 min into compacted foci by myosin motors or more slowly (30 min) aggregated by crowding. Single-molecule total internal reflection fluorescence microscopy showed CaMKII dissociation from surface-immobilized globular actin exhibited a monoexponential dwell-time distribution, whereas CaMKII bound to F-actin networks had a long-lived fraction, trapped at crossover junctions. Release of CaMKII from F-actin, triggered by calcium-calmodulin, was too rapid to measure with flowcell exchange (<20 s). The residual bound fraction was reduced substantially upon addition of an N-methyl-D-aspartate receptor peptide analog but not ATP. These results provide mechanistic insights to CaMKII-actin interactions at the collective network and single-molecule level. Our findings argue that CaMKII-actin networks in dendritic spines maintain spine size against physical stress. Upon synaptic stimulation, CaMKII is disengaged by calcium-calmodulin, triggering network disassembly, expansion, and subsequent compaction by myosin motors with kinetics compatible with the times recorded for the poststimulus changes in spine volume.

59 BASIC BIOLOGICAL SCIENCES↗

Microstructural Characterization of Irradiated Fuels and Materials for the United States High Performance Research Reactor Fuel Development Program and the Fuel Cycle Research and Development Program

In an effort to contribute to the development of advanced nuclear fuel for research reactors, monolithic and dispersion plate fuels will be examined to determine how irradiation parameters such as fission density, fission rate, and irradiation temperature, as well as mechanical parameters such as composition and fabrication, affect the final microstructure of the fuel, post irradiation. Electron Backscatter Detection (EBSD) analysis capabilities of irradiated materials will be developed as well as improvements on irradiated sample preparation in order to provide higher quality samples for SEM, FIB, and TEM. In addition, image analysis techniques developed at Idaho National Laboratory (INL) will be employed to examine microstructural features such as fission product precipitates and fission gas bubbles. The main goals are to further develop EBSD capabilities on irradiated material; characterize microstructure of irradiated fuel to support qualification; develop a consistent, effective process for image analysis using INL developed software; and provide repeatable, statistically-confident, critically assessed data to further modeling efforts. (authors)

11 NUCLEAR FUEL CYCLE AND FUEL MATERIALS↗

Spatial Feature Evaluation for Aerial Scene Analysis

High-resolution aerial images are becoming more readily available, which drives the demand for robust, intelligent and efficient systems to process increasingly large amounts of image data. However, automated image interpretation still remains a challenging problem. Robust techniques to extract and represent features to uniquely characterize various aerial scene categories is key for automated image analysis. In this paper we examined the role of spatial features to uniquely characterize various aerial scene categories. We studied low-level features such as colors, edge orientations, and textures, and examined their local spatial arrangements. We computed correlograms representing the spatial correlation of features at various distances, then measured the distance between correlograms to identify similar scenes. We evaluated the proposed technique on several aerial image databases containing challenging aerial scene categories. We report detailed evaluation of various low-level features by quantitatively measuring accuracy and parameter sensitivity. To demonstrate the feature performance, we present a simple query-based aerial scene retrieval system.

Swearingen, Thomas S↗

Depth-varying density and organization of chondrocytes in immature and mature bovine articular cartilage assessed by 3d imaging and analysis

Articular cartilage is a heterogeneous tissue, with cell density and organization varying with depth from the surface. The objectives of the present study were to establish a method for localizing individual cells in three-dimensional (3D) images of cartilage and quantifying depth-associated variation in cellularity and cell organization at different stages of growth. Accuracy of nucleus localization was high, with 99% sensitivity relative to manual localization. Cellularity (million cells per cm3) decreased from 290, 310, and 150 near the articular surface in fetal, calf, and adult samples, respectively, to 120, 110, and 50 at a depth of 1.0 mm. The distance/angle to the nearest neighboring cell was 7.9 microm/31 degrees , 7.1 microm/31 degrees , and 9.1 microm/31 degrees for cells at the articular surface of fetal, calf, and adult samples, respectively, and increased/decreased to 11.6 microm/31 degrees , 12.0 microm/30 degrees , and 19.2 microm/25 degrees at a depth of 0.7 mm. The methodologies described here may be useful for analyzing the 3D cellular organization of cartilage during growth, maturation, aging, degeneration, and regeneration.

Non-NASA Center↗

A quantitative assay for intercellular aggregation

In an earlier communication (Munn et al., J Immunol. Methods 166: 11-25, 1993), we presented the initial development of a quantitative assay for monitoring the rates of cellular aggregation based on digital image processing and video microscopy. This study describes some important enhancements and modifications to the procedure. A new index is introduced to characterize the three-dimensional morphology of the aggregates. This index is based on temporal changes in the projected area of the cells and cell aggregates during the course of the experiment. By drawing an analogy with the kinetic theory of gases, we have also introduced a procedure to normalize for variations in cell seeding density among different experiments. In addition, the image analysis technique has been improved by introducing a background subtraction algorithm to remove illumination defects and an adaptive segmentation procedure. These improvements allowed us to completely automate the image analysis procedure, thus minimizing user intervention and improving the reproducibility of the measurements. The enhanced visual assay is evaluated using some recent results from our studies on homotypic lymphocyte aggregation.

Non-NASA Center↗

An analysis of image storage systems for scalable training of deep neural networks

This study presents a principled empirical evaluation of image storage systems for training deep neural networks. We employ the Caffe deep learning framework to train neural network models for three different data sets, MNIST, CIFAR-10, and ImageNet. While training the models, we evaluate five different options to retrieve training image data: (1) PNG-formatted image files on local file system; (2) pushing pixel arrays from image files into a single HDF5 file on local file system; (3) in-memory arrays to hold the pixel arrays in Python and C++; (4) loading the training data into LevelDB, a log-structured merge tree based key-value storage; and (5) loading the training data into LMDB, a B+tree based key-value storage. The experimental results quantitatively highlight the disadvantage of using normal image files on local file systems to train deep neural networks and demonstrate reliable performance with key-value storage based storage systems. When training a model on the ImageNet dataset, the image file option was more than 17 times slower than the key-value storage option. Along with measurements on training time, this study provides in-depth analysis on the cause of performance advantages/disadvantages of each back-end to train deep neural networks. We envision the provided measurements and analysis will shed light on the optimal way to architect systems for training neural networks in a scalable manner.

Lim, Seung-Hwan↗

Analysis of NIF experiments with the minimal energy implosion model

We apply a recently developed analytical model of implosion and thermonuclear burn to fusion capsule experiments performed at the National Ignition Facility that used low-foot and high-foot laser pulse formats. Our theoretical predictions are consistent with the experimental data. Our studies, together with neutron image analysis, reveal that the adiabats of the cold fuel in both low-foot and high-foot experiments are similar. That is, the cold deuterium-tritium shells in those experiments are all in a high adiabat state at the time of peak implosion velocity. The major difference between low-foot and high-foot capsule experiments is the growth of the shock-induced instabilities developed at the material interfaces which lead to fuel mixing with ablator material. Furthermore, we have compared the NIF capsules performance with the ignition criteria and analyzed the alpha particle heating in the NIF experiments. Our analysis shows that alpha heating was appreciable only in the high-foot experiments.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

Report Summarizing Progress in Digital Image Correlation Analysis of Burst Phenomenon

This report is an update on the progress made towards utilizing in-situ methods to observe and quantify Zry-4 deformation behavior during burst testing. A heavily modified burst test was developed that allows both digital image correlation and infrared thermography to be utilized during testing to quantify strain and axial thermal gradient data during burst. A variety of tests ranging from 6.2-15.9 MPa internal pressure and utilizing both constant and transient pressure conditions were conducted and presently reported on. The test modifications, which are detailed extensively in a previous report, are effectively found to have no discernible impact on burst temperatures when compared to historical Zircaloy burst data. To support future modeling studies, the IR thermography data was used to approximate the thermal gradient down the axial length at burst for all the claddings. Then, DIC is first correlated to thermocouple temperature for a 10.3 MPa Transient pressure test, and then DIC correlated to IR thermal gradient data down the axial length of a 8.2 MPa Transient pressure test at several points.

36 MATERIALS SCIENCE↗

Factors controlling pore network development of thermally mature Early Palaeozoic mudstones from the Baltic Basin (N Poland)

Understanding the formation of pore space, especially in low porosity shales (as source rocks and as unconventional resources), is critical to the oil and gas industry, since pores control the space available for hydrocarbon and participate in hydrocarbon transport. We examined 87 Ordovician and Silurian mudstone samples collected from four wells located in the Pomeranian part of the Baltic Basin (northern Poland), one of the primary Polish targets for hydrocarbon exploration. These samples represent the Pelplin, the Paslek, the Jantar, the Prabuty, and the Sasino Formations, which still requires more detailed porosity studies. Our study aimed to identify factors controlling porosity development, by applying bulk techniques (organic petrology and TOC analyses, quantitative mineralogy, and porosimetry) as well as nano- to microscale techniques (thin section petrography, electron microscopy). The studied samples are mainly argillaceous mudstones. The results of porosimetry measurements, combined with image analysis, indicate that the pores of all studied rocks are dominated by micropores (pores < 2 nm in diameter), mesopores (2-50 nm in diameter) and small macropores. The SEM images showed three main pore types: a) voids related to clay mineral aggregates, b) pores inside organic matter particles, and c) pores between other mineral grains. In the Jantar and Sasino mudstones, the organic matter content and its thermal maturity control porosity. The occurrence of solid bitumen in the rocks from these formations reduces samples’ mesoporosity because of the pore-clogging effect. In contrast, in the Paslek and Prabuty Formations, there is low organic matter content and specific surface area and the volume of mesopores increase with clay minerals content. In the Pelplin mudstones, there are no prevailing factors controlling porosity. As a result, we suggest that a combination of SEM image analysis and dual liquid porosity (DLP) measurements is a powerful method to assess porosity available for petroleum flow in mudstones.

03 NATURAL GAS↗

An Automated Approach to Map the History of Forest Disturbance from Insect Mortality and Harvest with Landsat Time-Series Data

Forests contain a majority of the aboveground carbon (C) found in ecosystems, and understanding biomass lost from disturbance is essential to improve our C-cycle knowledge. Our study region in the Wisconsin and Minnesota Laurentian Forest had a strong decline in Normalized Difference Vegetation Index (NDVI) from 1982 to 2007, observed with the National Ocean and Atmospheric Administration's (NOAA) series of Advanced Very High Resolution Radiometer (AVHRR). To understand the potential role of disturbances in the terrestrial C-cycle, we developed an algorithm to map forest disturbances from either harvest or insect outbreak for Landsat time-series stacks. We merged two image analysis approaches into one algorithm to monitor forest change that included: (1) multiple disturbance index thresholds to capture clear-cut harvest; and (2) a spectral trajectory-based image analysis with multiple confidence interval thresholds to map insect outbreak. We produced 20 maps and evaluated classification accuracy with air-photos and insect air-survey data to understand the performance of our algorithm. We achieved overall accuracies ranging from 65% to 75%, with an average accuracy of 72%. The producer's and user's accuracy ranged from a maximum of 32% to 70% for insect disturbance, 60% to 76% for insect mortality and 82% to 88% for harvested forest, which was the dominant disturbance agent. Forest disturbances accounted for 22% of total forested area (7349 km2). Our algorithm provides a basic approach to map disturbance history where large impacts to forest stands have occurred and highlights the limited spectral sensitivity of Landsat time-series to outbreaks of defoliating insects. We found that only harvest and insect mortality events can be mapped with adequate accuracy with a non-annual Landsat time-series. This limited our land cover understanding of NDVI decline drivers. We demonstrate that to capture more subtle disturbances with spectral trajectories, future observations must be temporally dense to distinguish between type and frequency in heterogeneous landscapes.

Forest↗

MALDI-MS analysis and imaging of small molecule metabolites with 1,5-diaminonaphthalene (DAN)

1,5-diaminonaphthalene (DAN) has previously been reported as an effective matrix for matrix-assisted laser desorption ionization-mass spectrometry of phospholipids. In the current work, we investigate the use of DAN as a matrix for small metabolite analysis in negative ion mode. DAN was found to provide superior ionization to the compared matrices for MW < ~400 Da; however, 9-aminoacridine (9-AA) was found to be superior for a uridine diphosphate standard (MW 566 Da). DAN was also found to provide a more representative profile of a natural phospholipid mixture than 9-AA. Finally, DAN and 9-AA were applied for imaging of metabolites directly from corn leaf sections. Published 2014. This article is a U.S. Government work and is in the public domain in the USA.

1,5-diaminonaphthalene↗

Imaging, microscopic analysis, and modeling of a CdTe module degraded by heat and light

Photoluminescence (PL), electroluminescence (EL), and dark lock-in thermography are collected during stressing of a CdTe module under one-Sun light at an elevated temperature of 100 degrees C. The PL imaging system is simple and economical. The PL images show differing degrees of degradation across the module and are less sensitive to effects of shunting and resistance that appear on the EL images. Regions of varying degradation are chosen based on avoiding pre-existing shunt defects. These regions are evaluated using time-of-flight secondary ion-mass spectrometry and Kelvin probe force microscopy. Reduced PL intensity correlates to increased Cu concentration at the front interface. Numerical modeling and measurements agree that the increased Cu concentration at the junction also correlates to a reduced space charge region.

14 SOLAR ENERGY↗

A Macintosh-Based Scientific Images Video Analysis System

A set of experiments was designed at MIT's Man-Vehicle Laboratory in order to evaluate the effects of zero gravity on the human orientation system. During many of these experiments, the movements of the eyes are recorded on high quality video cassettes. The images must be analyzed off-line to calculate the position of the eyes at every moment in time. To this aim, I have implemented a simple inexpensive computerized system which measures the angle of rotation of the eye from digitized video images. The system is implemented on a desktop Macintosh computer, processes one play-back frame per second and exhibits adequate levels of accuracy and precision. The system uses LabVIEW, a digital output board, and a video input board to control a VCR, digitize video images, analyze them, and provide a user friendly interface for the various phases of the process. The system uses the Concept Vi LabVIEW library (Graftek's Image, Meudon la Foret, France) for image grabbing and displaying as well as translation to and from LabVIEW arrays. Graftek's software layer drives an Image Grabber board from Neotech (Eastleigh, United Kingdom). A Colour Adapter box from Neotech provides adequate video signal synchronization. The system also requires a LabVIEW driven digital output board (MacADIOS II from GW Instruments, Cambridge, MA) controlling a slightly modified VCR remote control used mainly to advance the video tape frame by frame.

Groleau, Nicolas↗

Evaluation of accessible mineral surface areas for improved prediction of mineral reaction rates in porous media

The rates of mineral dissolution reactions in porous media are difficult to predict, in part because of a lack of understanding of mineral reactive surface area in natural porous media. Common estimates of mineral reactive surface area used in reactive transport models for porous media are typically ad hoc and often based on average grain size, increased to account for surface roughness or decreased by several orders of magnitude to account for reduced surface reactivity of field as opposed to laboratory samples. In this paper, accessible mineral surface areas are determined for a sample from the reservoir formation at the Nagaoka pilot CO 2 injection site (Japan) using a multi-scale image analysis based on synchrotron X-ray microCT, SEM QEMSCAN, XRD, SANS, and FIB-SEM. This analysis not only accounts for accessibility of mineral surfaces to macro-pores, but also accessibility through connected micro-pores in smectite, the most abundant clay mineral in this sample. While the imaging analysis reveals that most of the micro- and macro-pores are well connected, some pore regions are unconnected and thus inaccessible to fluid flow and diffusion. To evaluate whether mineral accessible surface area accurately reflects reactive surface area a flow-through core experiment is performed and modeled at the continuum scale. The core experiment is performed under conditions replicating the pilot site and the evolution of effluent solutes in the aqueous phase is tracked. Various reactive surface area models are evaluated for their ability to capture the observed effluent chemistry, beginning with parameter values determined as a best fit to a disaggregated sediment experiment (Beckingham et al., 2016) described previously. Simulations that assume that all mineral surfaces are accessible (as in the disaggregated sediment experiment) over-predict the observed mineral reaction rates, suggesting that a reduction of RSA by a factor of 10–20 is required to match the core flood experimental data. While the fit of the effluent chemistry (and inferred mineral dissolution rates) greatly improve when the pore-accessible mineral surface areas are used, it was also necessary to include highly reactive glass phases to match the experimental observations, in agreement with conclusions from the disaggregated sediment experiment. Finally, it is hypothesized here that the 10–20 reduction in reactive surface areas based on the limited pore accessibility of reactive phases in core flood experiment may be reasonable for poorly sorted and cemented sediments like those at the Nagaoka site, although this reflects pore rather than larger scale heterogeneity.

58 GEOSCIENCES↗

Laser Ablation Sampling of Materials Directly into the Formed Liquid Microjunction of a Continuous Flow Surface Sampling Probe/Electrospray Ionization Emitter for Mass Spectral Analysis and Imaging

Transmission geometry laser ablation directly into a formed liquid microjunction of a continuous flow liquid microjunction surface sampling probe/electrospray ionization emitter was utilized for molecular and elemental detection and mass spectrometry imaging. The ability to efficiently capture and ionize ablated material was demonstrated by the detection of various small soluble n-mers of polyaniline and silver ion solvent clusters formed from laser ablation of electropolymerized polyaniline and silver thin films, respectively. In addition, analysis of surfaces that contain soluble components was accomplished by coating or laminating the sample with an insoluble film to enable liquid junction formation without directly extracting material from the surface. The ability to perform mass spectrometry imaging at a spatial resolution of about 50 m was illustrated by using laminated inked patterns on a microscope slide. In general, these data demonstrate at least an order of magnitude signal enhancement compared to the non-contact, laser ablation droplet capture-based surface sampling/ionization approaches that have been previously presented.

electrospray ionization (ESI)↗

Extrusion Parameters for Foaming of a β-Glucan Concentrate

Plastics is a group of materials commonly encountered on a daily basis by many people. They have enabled rapid, low-cost manufacturing of products with complicated geometries and have contributed to the weight reduction of heavy components, especially when produced into a foamed structure. Despite the many advantages of plastics, some drawbacks such as the often fossil-based raw-material and the extensive littering of the material in nature, where it is not degraded for a very long time, needs to be dealt with. One way to address at least one of the issues could be to use polymers from nature instead of fossil-based ones. Here, a β-glucan concentrate originating from barley was investigated. The concentrate was processed into a foam by hot-melt extrusion, and the processing window was established. The effect of different blowing agents was also investigated. Water or a combination of water and sodium bicarbonate were used as blowing agents, the latter apparently giving a more uniform pore structure. The porous structure of the foamed materials was characterized mainly by using a combination of confocal laser scanning microscope and image analysis. The density of the samples was estimated and found to be in a similar range as some polyurethane foams. A set of 3D parameters were also quantified on two selected samples using X-ray microtomography in combination with image analysis, where it was indicated that the porous structure had a pre-determined direction, which followed the direction of the extrusion process.

36 MATERIALS SCIENCE↗

Characterizing Char Rate and Extent in Fiber-Reinforced Plastics Using X-ray Computed Tomography

Orbital debris is a growing problem for the space industry and the world in general, and an important component of the problem is what happens when that debris reenters the Earth’s atmosphere. With more spacecraft opting for fiber-reinforced polymer (FRP) components, we need to understand the thermal destruction process of these materials during an atmospheric reentry and how much of the material can survive to impact the ground. The NASA Orbital Debris Program Office (ODPO) has developed a new charring model for FRP components to be integrated into the latest version of the Object Reentry Survival Analysis Tool (ORSAT). To validate this new model, the ODPO performed several test series using the Inductively Coupled Plasma (ICP) Torch facility at UT Austin. To measure the extent of charred material at different conditions, some of the test samples were scanned using x-ray computed tomography (CT) by the Astromaterials Curation Lab at Johnson Space Center. 3D image analysis was then used to calculate the volume and density of the char in each test sample. This paper presents the image analysis methodology, an assessment of the accuracy of the data analysis, and a comparison with calculations using the ORSAT charring model.

Benton Greene↗

Proceedings of the Airborne Imaging Spectrometer Data Analysis Workshop

The Airborne Imaging Spectrometer (AIS) Data Analysis Workshop was held at the Jet Propulsion Laboratory on April 8 to 10, 1985. It was attended by 92 people who heard reports on 30 investigations currently under way using AIS data that have been collected over the past two years. Written summaries of 27 of the presentations are in these Proceedings. Many of the results presented at the Workshop are preliminary because most investigators have been working with this fundamentally new type of data for only a relatively short time. Nevertheless, several conclusions can be drawn from the Workshop presentations concerning the value of imaging spectrometry to Earth remote sensing. First, work with AIS has shown that direct identification of minerals through high spectral resolution imaging is a reality for a wide range of materials and geological settings. Second, there are strong indications that high spectral resolution remote sensing will enhance the ability to map vegetation species. There are also good indications that imaging spectrometry will be useful for biochemical studies of vegetation. Finally, there are a number of new data analysis techniques under development which should lead to more efficient and complete information extraction from imaging spectrometer data. The results of the Workshop indicate that as experience is gained with this new class of data, and as new analysis methodologies are developed and applied, the value of imaging spectrometry should increase.

Vane, G.↗