Estimating 3D Leaf and Stem Shape of Nursery Paprika Plants by a Novel Multi-Camera Photography System

PubMed Central

Zhang, Yu; Teng, Poching; Shimizu, Yo; Hosoi, Fumiki; Omasa, Kenji

2016-01-01

For plant breeding and growth monitoring, accurate measurements of plant structure parameters are very crucial. We have, therefore, developed a high efficiency Multi-Camera Photography (MCP) system combining Multi-View Stereovision (MVS) with the Structure from Motion (SfM) algorithm. In this paper, we measured six variables of nursery paprika plants and investigated the accuracy of 3D models reconstructed from photos taken by four lens types at four different positions. The results demonstrated that error between the estimated and measured values was small, and the root-mean-square errors (RMSE) for leaf width/length and stem height/diameter were 1.65 mm (R2 = 0.98) and 0.57 mm (R2 = 0.99), respectively. The accuracies of the 3D model reconstruction of leaf and stem by a 28-mm lens at the first and third camera positions were the highest, and the number of reconstructed fine-scale 3D model shape surfaces of leaf and stem is the most. The results confirmed the practicability of our new method for the reconstruction of fine-scale plant model and accurate estimation of the plant parameters. They also displayed that our system is a good system for capturing high-resolution 3D images of nursery plants with high efficiency. PMID:27314348

A 3D Freehand Ultrasound System for Multi-view Reconstructions from Sparse 2D Scanning Planes

PubMed Central

2011-01-01

Background A significant limitation of existing 3D ultrasound systems comes from the fact that the majority of them work with fixed acquisition geometries. As a result, the users have very limited control over the geometry of the 2D scanning planes. Methods We present a low-cost and flexible ultrasound imaging system that integrates several image processing components to allow for 3D reconstructions from limited numbers of 2D image planes and multiple acoustic views. Our approach is based on a 3D freehand ultrasound system that allows users to control the 2D acquisition imaging using conventional 2D probes. For reliable performance, we develop new methods for image segmentation and robust multi-view registration. We first present a new hybrid geometric level-set approach that provides reliable segmentation performance with relatively simple initializations and minimum edge leakage. Optimization of the segmentation model parameters and its effect on performance is carefully discussed. Second, using the segmented images, a new coarse to fine automatic multi-view registration method is introduced. The approach uses a 3D Hotelling transform to initialize an optimization search. Then, the fine scale feature-based registration is performed using a robust, non-linear least squares algorithm. The robustness of the multi-view registration system allows for accurate 3D reconstructions from sparse 2D image planes. Results Volume measurements from multi-view 3D reconstructions are found to be consistently and significantly more accurate than measurements from single view reconstructions. The volume error of multi-view reconstruction is measured to be less than 5% of the true volume. We show that volume reconstruction accuracy is a function of the total number of 2D image planes and the number of views for calibrated phantom. In clinical in-vivo cardiac experiments, we show that volume estimates of the left ventricle from multi-view reconstructions are found to be in better agreement with clinical measures than measures from single view reconstructions. Conclusions Multi-view 3D reconstruction from sparse 2D freehand B-mode images leads to more accurate volume quantification compared to single view systems. The flexibility and low-cost of the proposed system allow for fine control of the image acquisition planes for optimal 3D reconstructions from multiple views. PMID:21251284

A 3D freehand ultrasound system for multi-view reconstructions from sparse 2D scanning planes.

PubMed

Yu, Honggang; Pattichis, Marios S; Agurto, Carla; Beth Goens, M

2011-01-20

A significant limitation of existing 3D ultrasound systems comes from the fact that the majority of them work with fixed acquisition geometries. As a result, the users have very limited control over the geometry of the 2D scanning planes. We present a low-cost and flexible ultrasound imaging system that integrates several image processing components to allow for 3D reconstructions from limited numbers of 2D image planes and multiple acoustic views. Our approach is based on a 3D freehand ultrasound system that allows users to control the 2D acquisition imaging using conventional 2D probes.For reliable performance, we develop new methods for image segmentation and robust multi-view registration. We first present a new hybrid geometric level-set approach that provides reliable segmentation performance with relatively simple initializations and minimum edge leakage. Optimization of the segmentation model parameters and its effect on performance is carefully discussed. Second, using the segmented images, a new coarse to fine automatic multi-view registration method is introduced. The approach uses a 3D Hotelling transform to initialize an optimization search. Then, the fine scale feature-based registration is performed using a robust, non-linear least squares algorithm. The robustness of the multi-view registration system allows for accurate 3D reconstructions from sparse 2D image planes. Volume measurements from multi-view 3D reconstructions are found to be consistently and significantly more accurate than measurements from single view reconstructions. The volume error of multi-view reconstruction is measured to be less than 5% of the true volume. We show that volume reconstruction accuracy is a function of the total number of 2D image planes and the number of views for calibrated phantom. In clinical in-vivo cardiac experiments, we show that volume estimates of the left ventricle from multi-view reconstructions are found to be in better agreement with clinical measures than measures from single view reconstructions. Multi-view 3D reconstruction from sparse 2D freehand B-mode images leads to more accurate volume quantification compared to single view systems. The flexibility and low-cost of the proposed system allow for fine control of the image acquisition planes for optimal 3D reconstructions from multiple views.

iCN718, an Updated and Improved Genome-Scale Metabolic Network Reconstruction of Acinetobacter baumannii AYE.

PubMed

Norsigian, Charles J; Kavvas, Erol; Seif, Yara; Palsson, Bernhard O; Monk, Jonathan M

2018-01-01

Acinetobacter baumannii has become an urgent clinical threat due to the recent emergence of multi-drug resistant strains. There is thus a significant need to discover new therapeutic targets in this organism. One means for doing so is through the use of high-quality genome-scale reconstructions. Well-curated and accurate genome-scale models (GEMs) of A. baumannii would be useful for improving treatment options. We present an updated and improved genome-scale reconstruction of A. baumannii AYE, named iCN718, that improves and standardizes previous A. baumannii AYE reconstructions. iCN718 has 80% accuracy for predicting gene essentiality data and additionally can predict large-scale phenotypic data with as much as 89% accuracy, a new capability for an A. baumannii reconstruction. We further demonstrate that iCN718 can be used to analyze conserved metabolic functions in the A. baumannii core genome and to build strain-specific GEMs of 74 other A. baumannii strains from genome sequence alone. iCN718 will serve as a resource to integrate and synthesize new experimental data being generated for this urgent threat pathogen.

Multi-Scale Measures of Rugosity, Slope and Aspect from Benthic Stereo Image Reconstructions

PubMed Central

Friedman, Ariell; Pizarro, Oscar; Williams, Stefan B.; Johnson-Roberson, Matthew

2012-01-01

This paper demonstrates how multi-scale measures of rugosity, slope and aspect can be derived from fine-scale bathymetric reconstructions created from geo-referenced stereo imagery. We generate three-dimensional reconstructions over large spatial scales using data collected by Autonomous Underwater Vehicles (AUVs), Remotely Operated Vehicles (ROVs), manned submersibles and diver-held imaging systems. We propose a new method for calculating rugosity in a Delaunay triangulated surface mesh by projecting areas onto the plane of best fit using Principal Component Analysis (PCA). Slope and aspect can be calculated with very little extra effort, and fitting a plane serves to decouple rugosity from slope. We compare the results of the virtual terrain complexity calculations with experimental results using conventional in-situ measurement methods. We show that performing calculations over a digital terrain reconstruction is more flexible, robust and easily repeatable. In addition, the method is non-contact and provides much less environmental impact compared to traditional survey techniques. For diver-based surveys, the time underwater needed to collect rugosity data is significantly reduced and, being a technique based on images, it is possible to use robotic platforms that can operate beyond diver depths. Measurements can be calculated exhaustively at multiple scales for surveys with tens of thousands of images covering thousands of square metres. The technique is demonstrated on data gathered by a diver-rig and an AUV, on small single-transect surveys and on a larger, dense survey that covers over . Stereo images provide 3D structure as well as visual appearance, which could potentially feed into automated classification techniques. Our multi-scale rugosity, slope and aspect measures have already been adopted in a number of marine science studies. This paper presents a detailed description of the method and thoroughly validates it against traditional in-situ measurements. PMID:23251370

Full-color large-scaled computer-generated holograms for physical and non-physical objects

NASA Astrophysics Data System (ADS)

Matsushima, Kyoji; Tsuchiyama, Yasuhiro; Sonobe, Noriaki; Masuji, Shoya; Yamaguchi, Masahiro; Sakamoto, Yuji

2017-05-01

Several full-color high-definition CGHs are created for reconstructing 3D scenes including real-existing physical objects. The field of the physical objects are generated or captured by employing three techniques; 3D scanner, synthetic aperture digital holography, and multi-viewpoint images. Full-color reconstruction of high-definition CGHs is realized by RGB color filters. The optical reconstructions are presented for verifying these techniques.

Reconstruction of late Holocene climate based on tree growth and mechanistic hierarchical models

USGS Publications Warehouse

Tipton, John; Hooten, Mevin B.; Pederson, Neil; Tingley, Martin; Bishop, Daniel

2016-01-01

Reconstruction of pre-instrumental, late Holocene climate is important for understanding how climate has changed in the past and how climate might change in the future. Statistical prediction of paleoclimate from tree ring widths is challenging because tree ring widths are a one-dimensional summary of annual growth that represents a multi-dimensional set of climatic and biotic influences. We develop a Bayesian hierarchical framework using a nonlinear, biologically motivated tree ring growth model to jointly reconstruct temperature and precipitation in the Hudson Valley, New York. Using a common growth function to describe the response of a tree to climate, we allow for species-specific parameterizations of the growth response. To enable predictive backcasts, we model the climate variables with a vector autoregressive process on an annual timescale coupled with a multivariate conditional autoregressive process that accounts for temporal correlation and cross-correlation between temperature and precipitation on a monthly scale. Our multi-scale temporal model allows for flexibility in the climate response through time at different temporal scales and predicts reasonable climate scenarios given tree ring width data.

Multi-scale signed envelope inversion

NASA Astrophysics Data System (ADS)

Chen, Guo-Xin; Wu, Ru-Shan; Wang, Yu-Qing; Chen, Sheng-Chang

2018-06-01

Envelope inversion based on modulation signal mode was proposed to reconstruct large-scale structures of underground media. In order to solve the shortcomings of conventional envelope inversion, multi-scale envelope inversion was proposed using new envelope Fréchet derivative and multi-scale inversion strategy to invert strong contrast models. In multi-scale envelope inversion, amplitude demodulation was used to extract the low frequency information from envelope data. However, only to use amplitude demodulation method will cause the loss of wavefield polarity information, thus increasing the possibility of inversion to obtain multiple solutions. In this paper we proposed a new demodulation method which can contain both the amplitude and polarity information of the envelope data. Then we introduced this demodulation method into multi-scale envelope inversion, and proposed a new misfit functional: multi-scale signed envelope inversion. In the numerical tests, we applied the new inversion method to the salt layer model and SEG/EAGE 2-D Salt model using low-cut source (frequency components below 4 Hz were truncated). The results of numerical test demonstrated the effectiveness of this method.

A novel algorithm of super-resolution image reconstruction based on multi-class dictionaries for natural scene

NASA Astrophysics Data System (ADS)

Wu, Wei; Zhao, Dewei; Zhang, Huan

2015-12-01

Super-resolution image reconstruction is an effective method to improve the image quality. It has important research significance in the field of image processing. However, the choice of the dictionary directly affects the efficiency of image reconstruction. A sparse representation theory is introduced into the problem of the nearest neighbor selection. Based on the sparse representation of super-resolution image reconstruction method, a super-resolution image reconstruction algorithm based on multi-class dictionary is analyzed. This method avoids the redundancy problem of only training a hyper complete dictionary, and makes the sub-dictionary more representatives, and then replaces the traditional Euclidean distance computing method to improve the quality of the whole image reconstruction. In addition, the ill-posed problem is introduced into non-local self-similarity regularization. Experimental results show that the algorithm is much better results than state-of-the-art algorithm in terms of both PSNR and visual perception.

SU-D-206-01: Employing a Novel Consensus Optimization Strategy to Achieve Iterative Cone Beam CT Reconstruction On a Multi-GPU Platform

DOE Office of Scientific and Technical Information (OSTI.GOV)

Li, B; Southern Medical University, Guangzhou, Guangdong; Tian, Z

Purpose: While compressed sensing-based cone-beam CT (CBCT) iterative reconstruction techniques have demonstrated tremendous capability of reconstructing high-quality images from undersampled noisy data, its long computation time still hinders wide application in routine clinic. The purpose of this study is to develop a reconstruction framework that employs modern consensus optimization techniques to achieve CBCT reconstruction on a multi-GPU platform for improved computational efficiency. Methods: Total projection data were evenly distributed to multiple GPUs. Each GPU performed reconstruction using its own projection data with a conventional total variation regularization approach to ensure image quality. In addition, the solutions from GPUs were subjectmore » to a consistency constraint that they should be identical. We solved the optimization problem with all the constraints considered rigorously using an alternating direction method of multipliers (ADMM) algorithm. The reconstruction framework was implemented using OpenCL on a platform with two Nvidia GTX590 GPU cards, each with two GPUs. We studied the performance of our method and demonstrated its advantages through a simulation case with a NCAT phantom and an experimental case with a Catphan phantom. Result: Compared with the CBCT images reconstructed using conventional FDK method with full projection datasets, our proposed method achieved comparable image quality with about one third projection numbers. The computation time on the multi-GPU platform was ∼55 s and ∼ 35 s in the two cases respectively, achieving a speedup factor of ∼ 3.0 compared with single GPU reconstruction. Conclusion: We have developed a consensus ADMM-based CBCT reconstruction method which enabled performing reconstruction on a multi-GPU platform. The achieved efficiency made this method clinically attractive.« less

Multi-Decadal Coastal Behavioural States From A Fusion Of Geohistorical Conceptual Modelling With 2-D Morphodynamic Modelling

NASA Astrophysics Data System (ADS)

Goodwin, I. D.; Mortlock, T.

2016-02-01

Geohistorical archives of shoreline and foredune planform geometry provides a unique evidence-based record of the time integral response to coupled directional wave climate and sediment supply variability on annual to multi-decadal time scales. We develop conceptual shoreline modelling from the geohistorical shoreline archive using a novel combination of methods, including: LIDAR DEM and field mapping of coastal geology; a decadal-scale climate reconstruction of sea-level pressure, marine windfields, and paleo-storm synoptic type and frequency, and historical bathymetry. The conceptual modelling allows for the discrimination of directional wave climate shifts and the relative contributions of cross-shore and along-shore sand supply rates at multi-decadal resolution. We present regional examples from south-eastern Australia over a large latitudinal gradient from subtropical Queensland (S 25°) to mid-latitude Bass Strait (S 40°) that illustrate the morphodynamic evolution and reorganization to wave climate change. We then use the conceptual modeling to inform a two-dimensional coupled spectral wave-hydrodynamic-morphodynamic model to investigate the shoreface response to paleo-directional wind and wave climates. Unlike one-line shoreline modelling, this fully dynamical approach allows for the investigation of cumulative and spatial bathymetric change due to wave-induced currents, as well as proxy-shoreline change. The fusion of the two modeling approaches allows for: (i) the identification of the natural range of coastal planform geometries in response to wave climate shifts; and, (ii) the decomposition of the multidecadal coastal change into the cross-shore and along-shore sand supply drivers, according to the best-matching planforms.

A point-by-point multi-scale surface temperature reconstruction method and tests by pseudo proxy experiments

NASA Astrophysics Data System (ADS)

Chen, X.

2016-12-01

This study present a multi-scale approach combining Mode Decomposition and Variance Matching (MDVM) method and basic process of Point-by-Point Regression (PPR) method. Different from the widely applied PPR method, the scanning radius for each grid box, were re-calculated considering the impact from topography (i.e. mean altitudes and fluctuations). Thus, appropriate proxy records were selected to be candidates for reconstruction. The results of this multi-scale methodology could not only provide the reconstructed gridded temperature, but also the corresponding uncertainties of the four typical timescales. In addition, this method can bring in another advantage that spatial distribution of the uncertainty for different scales could be quantified. To interpreting the necessity of scale separation in calibration, with proxy records location over Eastern Asia, we perform two sets of pseudo proxy experiments (PPEs) based on different ensembles of climate model simulation. One consist of 7 simulated results by 5 models (BCC-CSM1-1, CSIRO-MK3L-1-2, HadCM3, MPI-ESM-P, and Giss-E2-R) of the "past1000" simulation from Coupled Model Intercomparison Project Phase 5. The other is based on the simulations of Community Earth System Model Last Millennium Ensemble (CESM-LME). The pseudo-records network were obtained by adding the white noise with signal-to-noise ratio (SNR) increasing from 0.1 to 1.0 to the simulated true state and the locations mainly followed the PAGES-2k network in Asia. Totally, 400 years (1601-2000) simulation was used for calibration and 600 years (1001-1600) for verification. The reconstructed results were evaluated by three metrics 1) root mean squared error (RMSE), 2) correlation and 3) reduction of error (RE) score. The PPE verification results have shown that, in comparison with ordinary linear calibration method (variance matching), the RMSE and RE score of PPR-MDVM are improved, especially for the area with sparse proxy records. To be noted, in some periods with large volcanic activities, the RMSE of MDVM get larger than VM for higher SNR cases. It should be inferred that the volcanic eruptions might blur the intrinsic characteristics of multi-scales variabilities of the climate system and the MDVM method would show less advantage in that case.

Fast Measurement and Reconstruction of Large Workpieces with Freeform Surfaces by Combining Local Scanning and Global Position Data

PubMed Central

Chen, Zhe; Zhang, Fumin; Qu, Xinghua; Liang, Baoqiu

2015-01-01

In this paper, we propose a new approach for the measurement and reconstruction of large workpieces with freeform surfaces. The system consists of a handheld laser scanning sensor and a position sensor. The laser scanning sensor is used to acquire the surface and geometry information, and the position sensor is utilized to unify the scanning sensors into a global coordinate system. The measurement process includes data collection, multi-sensor data fusion and surface reconstruction. With the multi-sensor data fusion, errors accumulated during the image alignment and registration process are minimized, and the measuring precision is significantly improved. After the dense accurate acquisition of the three-dimensional (3-D) coordinates, the surface is reconstructed using a commercial software piece, based on the Non-Uniform Rational B-Splines (NURBS) surface. The system has been evaluated, both qualitatively and quantitatively, using reference measurements provided by a commercial laser scanning sensor. The method has been applied for the reconstruction of a large gear rim and the accuracy is up to 0.0963 mm. The results prove that this new combined method is promising for measuring and reconstructing the large-scale objects with complex surface geometry. Compared with reported methods of large-scale shape measurement, it owns high freedom in motion, high precision and high measurement speed in a wide measurement range. PMID:26091396

An interactive display system for large-scale 3D models

NASA Astrophysics Data System (ADS)

Liu, Zijian; Sun, Kun; Tao, Wenbing; Liu, Liman

2018-04-01

With the improvement of 3D reconstruction theory and the rapid development of computer hardware technology, the reconstructed 3D models are enlarging in scale and increasing in complexity. Models with tens of thousands of 3D points or triangular meshes are common in practical applications. Due to storage and computing power limitation, it is difficult to achieve real-time display and interaction with large scale 3D models for some common 3D display software, such as MeshLab. In this paper, we propose a display system for large-scale 3D scene models. We construct the LOD (Levels of Detail) model of the reconstructed 3D scene in advance, and then use an out-of-core view-dependent multi-resolution rendering scheme to realize the real-time display of the large-scale 3D model. With the proposed method, our display system is able to render in real time while roaming in the reconstructed scene and 3D camera poses can also be displayed. Furthermore, the memory consumption can be significantly decreased via internal and external memory exchange mechanism, so that it is possible to display a large scale reconstructed scene with over millions of 3D points or triangular meshes in a regular PC with only 4GB RAM.

Robust, Efficient Depth Reconstruction With Hierarchical Confidence-Based Matching.

PubMed

Sun, Li; Chen, Ke; Song, Mingli; Tao, Dacheng; Chen, Gang; Chen, Chun

2017-07-01

In recent years, taking photos and capturing videos with mobile devices have become increasingly popular. Emerging applications based on the depth reconstruction technique have been developed, such as Google lens blur. However, depth reconstruction is difficult due to occlusions, non-diffuse surfaces, repetitive patterns, and textureless surfaces, and it has become more difficult due to the unstable image quality and uncontrolled scene condition in the mobile setting. In this paper, we present a novel hierarchical framework with multi-view confidence-based matching for robust, efficient depth reconstruction in uncontrolled scenes. Particularly, the proposed framework combines local cost aggregation with global cost optimization in a complementary manner that increases efficiency and accuracy. A depth map is efficiently obtained in a coarse-to-fine manner by using an image pyramid. Moreover, confidence maps are computed to robustly fuse multi-view matching cues, and to constrain the stereo matching on a finer scale. The proposed framework has been evaluated with challenging indoor and outdoor scenes, and has achieved robust and efficient depth reconstruction.

Robust segmentation of trabecular bone for in vivo CT imaging using anisotropic diffusion and multi-scale morphological reconstruction

NASA Astrophysics Data System (ADS)

Chen, Cheng; Jin, Dakai; Zhang, Xiaoliu; Levy, Steven M.; Saha, Punam K.

2017-03-01

Osteoporosis is associated with an increased risk of low-trauma fractures. Segmentation of trabecular bone (TB) is essential to assess TB microstructure, which is a key determinant of bone strength and fracture risk. Here, we present a new method for TB segmentation for in vivo CT imaging. The method uses Hessian matrix-guided anisotropic diffusion to improve local separability of trabecular structures, followed by a new multi-scale morphological reconstruction algorithm for TB segmentation. High sensitivity (0.93), specificity (0.93), and accuracy (0.92) were observed for the new method based on regional manual thresholding on in vivo CT images. Mechanical tests have shown that TB segmentation using the new method improved the ability of derived TB spacing measure for predicting actual bone strength (R2=0.83).

Layer-oriented multigrid wavefront reconstruction algorithms for multi-conjugate adaptive optics

NASA Astrophysics Data System (ADS)

Gilles, Luc; Ellerbroek, Brent L.; Vogel, Curtis R.

2003-02-01

Multi-conjugate adaptive optics (MCAO) systems with 104-105 degrees of freedom have been proposed for future giant telescopes. Using standard matrix methods to compute, optimize, and implement wavefront control algorithms for these systems is impractical, since the number of calculations required to compute and apply the reconstruction matrix scales respectively with the cube and the square of the number of AO degrees of freedom. In this paper, we develop an iterative sparse matrix implementation of minimum variance wavefront reconstruction for telescope diameters up to 32m with more than 104 actuators. The basic approach is the preconditioned conjugate gradient method, using a multigrid preconditioner incorporating a layer-oriented (block) symmetric Gauss-Seidel iterative smoothing operator. We present open-loop numerical simulation results to illustrate algorithm convergence.

Planarity constrained multi-view depth map reconstruction for urban scenes

NASA Astrophysics Data System (ADS)

Hou, Yaolin; Peng, Jianwei; Hu, Zhihua; Tao, Pengjie; Shan, Jie

2018-05-01

Multi-view depth map reconstruction is regarded as a suitable approach for 3D generation of large-scale scenes due to its flexibility and scalability. However, there are challenges when this technique is applied to urban scenes where apparent man-made regular shapes may present. To address this need, this paper proposes a planarity constrained multi-view depth (PMVD) map reconstruction method. Starting with image segmentation and feature matching for each input image, the main procedure is iterative optimization under the constraints of planar geometry and smoothness. A set of candidate local planes are first generated by an extended PatchMatch method. The image matching costs are then computed and aggregated by an adaptive-manifold filter (AMF), whereby the smoothness constraint is applied to adjacent pixels through belief propagation. Finally, multiple criteria are used to eliminate image matching outliers. (Vertical) aerial images, oblique (aerial) images and ground images are used for qualitative and quantitative evaluations. The experiments demonstrated that the PMVD outperforms the popular multi-view depth map reconstruction with an accuracy two times better for the aerial datasets and achieves an outcome comparable to the state-of-the-art for ground images. As expected, PMVD is able to preserve the planarity for piecewise flat structures in urban scenes and restore the edges in depth discontinuous areas.

Reconstructed streamflow in the eastern United States: validity, drivers, and challenges

NASA Astrophysics Data System (ADS)

Maxwell, S.; Harley, G. L.; Maxwell, J. T.; Rayback, S. A.; Pederson, N.; Cook, E. R.; Barclay, D. J.; Li, W.; Rayburn, J. A.

2015-12-01

Tree-ring reconstructions of streamflow are uncommon in the eastern US compared to the western US. While the eastern US does not experience severe drought on the scale of the west, multi-year droughts have stressed the water management systems throughout the east. Here, we reconstruct three rivers serving population centers in the northeast (Beaver Kill River serving New York City, NY), mid-Atlantic (Potomac River serving Washington, D.C.), and southeast (Flint River serving Atlanta, GA) to demonstrate the ability to reconstruct in the eastern US. Then, we conducted an interbasin comparison to identify periods of common variability and examined synoptic scale drivers of drought and pluvial events. Finally, we discuss the utility of multi-species reconstructions in the moist, biodiverse eastern US. Our calibration models explained 66 - 68% of the variance in the instrumental record and passed verification tests in all basins to 1675 CE. Drought and pluvial events showed some synchrony across all basins but the mid-Atlantic acted as a hinge, sometimes behaving more like the northeast, and other times like the southeast. Weak correlations with oceanic-atmospheric oscillations made identification of synoptic scale drivers difficult. However, there appears to be a relationship between the position of the western ridge of the North Atlantic Subtropical High and streamflow across the basins of the east. Given the many factors influencing tree growth in closed canopy systems, we have shown that careful standardization of individual tree-ring series, nested regression models, and the use of multiple species can produce robust proxies in the east.

Generalizability and Dependability of a Multi-Item Direct Behavior Rating Scale in a Kindergarten Classroom Setting

ERIC Educational Resources Information Center

Wickerd, Garry; Hulac, David

2017-01-01

Accurate and rapid identification of students displaying behavioral problems requires instrumentation that is user friendly and reliable. The purpose of the study was to evaluate a multi-item direct behavior rating scale called the Direct Behavior Rating-Multiple Item Scale (DBR-MIS) for disruptive behavior to determine the number of…

Automatic Fabric Defect Detection with a Multi-Scale Convolutional Denoising Autoencoder Network Model.

PubMed

Mei, Shuang; Wang, Yudan; Wen, Guojun

2018-04-02

Fabric defect detection is a necessary and essential step of quality control in the textile manufacturing industry. Traditional fabric inspections are usually performed by manual visual methods, which are low in efficiency and poor in precision for long-term industrial applications. In this paper, we propose an unsupervised learning-based automated approach to detect and localize fabric defects without any manual intervention. This approach is used to reconstruct image patches with a convolutional denoising autoencoder network at multiple Gaussian pyramid levels and to synthesize detection results from the corresponding resolution channels. The reconstruction residual of each image patch is used as the indicator for direct pixel-wise prediction. By segmenting and synthesizing the reconstruction residual map at each resolution level, the final inspection result can be generated. This newly developed method has several prominent advantages for fabric defect detection. First, it can be trained with only a small amount of defect-free samples. This is especially important for situations in which collecting large amounts of defective samples is difficult and impracticable. Second, owing to the multi-modal integration strategy, it is relatively more robust and accurate compared to general inspection methods (the results at each resolution level can be viewed as a modality). Third, according to our results, it can address multiple types of textile fabrics, from simple to more complex. Experimental results demonstrate that the proposed model is robust and yields good overall performance with high precision and acceptable recall rates.

A Multidisciplinary Approach to Assessing the Causal Components of Climate Change

NASA Astrophysics Data System (ADS)

Gosnold, W. D.; Todhunter, P. E.; Dong, X.; Rundquist, B.; Majorowicz, J.; Blackwell, D. D.

2004-05-01

Separation of climate forcing by anthropogenic greenhouse gases from natural radiative climate forcing is difficult because the composite temperature signal in the meteorological and multi-proxy temperature records cannot be resolved directly into radiative forcing components. To address this problem, we have initiated a large-scale, multidisciplinary project to test coherence between ground surface temperatures (GST) reconstructed from borehole T-z profiles, surface air temperatures (SAT), soil temperatures, and solar radiation. Our hypothesis is that radiative heating and heat exchange between the ground and the air directly control the ground surface temperature. Consequently, borehole T-z measurements at multi-year intervals spanning time periods when solar radiation, soil and air temperatures have been recorded should enable comparison of the thermal energy stored in the ground to these quantities. If coherence between energy storage, solar radiation, GST, SAT and multi-proxy temperature data can be discerned for a one or two decade scale, synthesis of GST and multi-proxy data over the past several centuries may enable us to separately determine the anthropogenic and natural forcings of climate change. The data we are acquiring include: (1) New T-z measurements in boreholes previously used in paleoclimate and heat flow research in Canada and the United States from the 1970's to the present. (2) Meteorological data from the US Historical Climatology Network and the Automated Weather Data Network of the High Plains Regional Climate Center, and Environment Canada. (3) Direct and remotely sensed data on land use, environment, and soil properties at selected borehole and meteorological sites for the periods between borehole observations. The project addresses three related questions: What is the coherence between the GST, SAT, soil temperatures and solar radiation? Have microclimate changes at borehole sites and climate stations affected temperature trends? If good coherence is obtained, can the coherence between thermal energy stored in the ground and radiative forcing during the time between T-z measurements be extended several centuries into the past?

Development of direct multi-hazard susceptibility assessment method for post-earthquake reconstruction planning in Nepal

NASA Astrophysics Data System (ADS)

Mavrouli, Olga; Rana, Sohel; van Westen, Cees; Zhang, Jianqiang

2017-04-01

After the devastating 2015 Gorkha earthquake in Nepal, reconstruction activities have been delayed considerably, due to many reasons, of a political, organizational and technical nature. Due to the widespread occurrence of co-seismic landslides, and the expectation that these may be aggravated or re-activated in future years during the intense monsoon periods, there is a need to evaluate for thousands of sites whether these are suited for reconstruction. In this evaluation multi-hazards, such as rockfall, landslides, debris flow, and flashfloods should be taken into account. The application of indirect knowledge-based, data-driven or physically-based approaches is not suitable due to several reasons. Physically-based models generally require a large number of parameters, for which data is not available. Data-driven, statistical methods, depend on historical information, which is less useful after the occurrence of a major event, such as an earthquake. Besides, they would lead to unacceptable levels of generalization, as the analysis is done based on rather general causal factor maps. The same holds for indirect knowledge-driven methods. However, location-specific hazards analysis is required using a simple method that can be used by many people at the local level. In this research, a direct scientific method was developed where local level technical people can easily and quickly assess the post-earthquake multi hazards following a decision tree approach, using an app on a smartphone or tablet. The methods assumes that a central organization, such as the Department of Soil Conservation and Watershed Management, generates spatial information beforehand that is used in the direct assessment at a certain location. Pre-earthquake, co-seismic and post-seismic landslide inventories are generated through the interpretation of Google Earth multi-temporal images, using anaglyph methods. Spatial data, such as Digital Elevation Models, land cover maps, and geological maps are used in a GIS to generate Terrain Units in a semi-automated manner, which are further edited using stereo-image interpretation. Source areas for rockfall and debris flows are outlined from the factor maps, and historical inventory, and regional scale empirical runout models are used to define areas that might be affected. This data is then used in the field in an application that guides the user through the decision tree by asking a number of questions, which can be answered by using the existing data, and by direct field observations. The method was applied in a part of Rasuwa district, which was seriously affected by co-seismic and post-seismic mass movements, leading to the evacuation of a number of village, and temporary closure of a number of hydropower construction projects.

Synchronous multi-decadal climate variability of the whole Pacific areas revealed in tree rings since 1567

NASA Astrophysics Data System (ADS)

Fang, Keyan; Cook, Edward; Guo, Zhengtang; Chen, Deliang; Ou, Tinghai; Zhao, Yan

2018-02-01

Oceanic and atmospheric patterns play a crucial role in modulating climate variability from interannual to multi-decadal timescales by causing large-scale co-varying climate changes. The brevity of the existing instrumental records hinders the ability to recognize climate patterns before the industrial era, which can be alleviated using proxies. Unfortunately, proxy based reconstructions of oceanic and atmospheric modes of the past millennia often have modest agreements with each other before the instrumental period, raising questions about the robustness of the reconstructions. To ensure the stability of climate signals in proxy data through time, we first identified tree-ring datasets from distant regions containing coherent variations in Asia and North America, and then interpreted their climate information. We found that the multi-decadal covarying climate patterns of the middle and high latitudinal regions around the northern Pacific Ocean agreed quite well with the climate reconstructions of the tropical and southern Pacific areas. This indicates a synchronous variability at the multi-decadal timescale of the past 430 years for the entire Pacific Ocean. This pattern is closely linked to the dominant mode of the Pacific sea surface temperature (SST) after removing the warming trend. This Pacific multi-decadal SST variability resembles the Interdecadal Pacific Oscillation.

Direct Parametric Image Reconstruction in Reduced Parameter Space for Rapid Multi-Tracer PET Imaging.

PubMed

Cheng, Xiaoyin; Li, Zhoulei; Liu, Zhen; Navab, Nassir; Huang, Sung-Cheng; Keller, Ulrich; Ziegler, Sibylle; Shi, Kuangyu

2015-02-12

The separation of multiple PET tracers within an overlapping scan based on intrinsic differences of tracer pharmacokinetics is challenging, due to limited signal-to-noise ratio (SNR) of PET measurements and high complexity of fitting models. In this study, we developed a direct parametric image reconstruction (DPIR) method for estimating kinetic parameters and recovering single tracer information from rapid multi-tracer PET measurements. This is achieved by integrating a multi-tracer model in a reduced parameter space (RPS) into dynamic image reconstruction. This new RPS model is reformulated from an existing multi-tracer model and contains fewer parameters for kinetic fitting. Ordered-subsets expectation-maximization (OSEM) was employed to approximate log-likelihood function with respect to kinetic parameters. To incorporate the multi-tracer model, an iterative weighted nonlinear least square (WNLS) method was employed. The proposed multi-tracer DPIR (MTDPIR) algorithm was evaluated on dual-tracer PET simulations ([18F]FDG and [11C]MET) as well as on preclinical PET measurements ([18F]FLT and [18F]FDG). The performance of the proposed algorithm was compared to the indirect parameter estimation method with the original dual-tracer model. The respective contributions of the RPS technique and the DPIR method to the performance of the new algorithm were analyzed in detail. For the preclinical evaluation, the tracer separation results were compared with single [18F]FDG scans of the same subjects measured 2 days before the dual-tracer scan. The results of the simulation and preclinical studies demonstrate that the proposed MT-DPIR method can improve the separation of multiple tracers for PET image quantification and kinetic parameter estimations.

Cardiac Light-Sheet Fluorescent Microscopy for Multi-Scale and Rapid Imaging of Architecture and Function

NASA Astrophysics Data System (ADS)

Fei, Peng; Lee, Juhyun; Packard, René R. Sevag; Sereti, Konstantina-Ioanna; Xu, Hao; Ma, Jianguo; Ding, Yichen; Kang, Hanul; Chen, Harrison; Sung, Kevin; Kulkarni, Rajan; Ardehali, Reza; Kuo, C.-C. Jay; Xu, Xiaolei; Ho, Chih-Ming; Hsiai, Tzung K.

2016-03-01

Light Sheet Fluorescence Microscopy (LSFM) enables multi-dimensional and multi-scale imaging via illuminating specimens with a separate thin sheet of laser. It allows rapid plane illumination for reduced photo-damage and superior axial resolution and contrast. We hereby demonstrate cardiac LSFM (c-LSFM) imaging to assess the functional architecture of zebrafish embryos with a retrospective cardiac synchronization algorithm for four-dimensional reconstruction (3-D space + time). By combining our approach with tissue clearing techniques, we reveal the entire cardiac structures and hypertrabeculation of adult zebrafish hearts in response to doxorubicin treatment. By integrating the resolution enhancement technique with c-LSFM to increase the resolving power under a large field-of-view, we demonstrate the use of low power objective to resolve the entire architecture of large-scale neonatal mouse hearts, revealing the helical orientation of individual myocardial fibers. Therefore, our c-LSFM imaging approach provides multi-scale visualization of architecture and function to drive cardiovascular research with translational implication in congenital heart diseases.

Multi-Proxy Reconstructions of Northeast Pacific Decadal Variability from Bivalve Mollusks and Trees

NASA Astrophysics Data System (ADS)

Black, B.; Griffin, D.

2017-12-01

Decadal-scale climate variability in the Northeast Pacific Ocean profoundly influences fisheries production, forest growth, wildfire, drought, and snowpack in western North America. However, there remains considerable and long-standing uncertainly in its behavior prior to AD 1900 and the extent to which 20th century dynamics are atypical in a multi-centennial context. Here, we target the leading EOF of SST in the northeastern Pacific (ARCSST) as an index of Pacific Decadal Variability, which has been dynamically linked to sea level pressure and unlike the Pacific Decadal Oscillation Index, retains a linear warming trend. The ARCSST reconstruction is generated from a broad network of target-sensitive North American tree-ring data standardized using signal-free detrending to preserve lower frequency signals common to the original data. In a preliminary analysis, the mean of the approximately 50 chronologies that significantly (p < 0.01) correlate to the target variable explain 60% of the variance in cool-season ARCSST. Reconstruction skill is independently verified by three marine bivalve (Pacific geoduck; Panopea generosa) chronologies, the mean of which accounts for over 50% of the reconstruction variance over the common 1870-1900 interval. The nested reconstruction spans over 500 years and indicates that i) PDV is dominated by pentadecadal cycles, ii) century-long quiescent periods can occur, iii) 20th century regime shifts are typical, but iv) late 20th century warming is atypical in the longer-term context. Moreover, the reconstruction closely tracks paleofisheries datasets, particularly northern anchovy (Engraulis mordax) abundance inferred from scale deposition rates in the Santa Barbara Basin.

Sparse deconvolution for the large-scale ill-posed inverse problem of impact force reconstruction

NASA Astrophysics Data System (ADS)

Qiao, Baijie; Zhang, Xingwu; Gao, Jiawei; Liu, Ruonan; Chen, Xuefeng

2017-01-01

Most previous regularization methods for solving the inverse problem of force reconstruction are to minimize the l2-norm of the desired force. However, these traditional regularization methods such as Tikhonov regularization and truncated singular value decomposition, commonly fail to solve the large-scale ill-posed inverse problem in moderate computational cost. In this paper, taking into account the sparse characteristic of impact force, the idea of sparse deconvolution is first introduced to the field of impact force reconstruction and a general sparse deconvolution model of impact force is constructed. Second, a novel impact force reconstruction method based on the primal-dual interior point method (PDIPM) is proposed to solve such a large-scale sparse deconvolution model, where minimizing the l2-norm is replaced by minimizing the l1-norm. Meanwhile, the preconditioned conjugate gradient algorithm is used to compute the search direction of PDIPM with high computational efficiency. Finally, two experiments including the small-scale or medium-scale single impact force reconstruction and the relatively large-scale consecutive impact force reconstruction are conducted on a composite wind turbine blade and a shell structure to illustrate the advantage of PDIPM. Compared with Tikhonov regularization, PDIPM is more efficient, accurate and robust whether in the single impact force reconstruction or in the consecutive impact force reconstruction.

Long-range persistence in the global mean surface temperature and the global warming "time bomb"

NASA Astrophysics Data System (ADS)

Rypdal, M.; Rypdal, K.

2012-04-01

Detrended Fluctuation Analysis (DFA) and Maximum Likelihood Estimations (MLE) based on instrumental data over the last 160 years indicate that there is Long-Range Persistence (LRP) in Global Mean Surface Temperature (GMST) on time scales of months to decades. The persistence is much higher in sea surface temperature than in land temperatures. Power spectral analysis of multi-model, multi-ensemble runs of global climate models indicate further that this persistence may extend to centennial and maybe even millennial time-scales. We also support these conclusions by wavelet variogram analysis, DFA, and MLE of Northern hemisphere mean surface temperature reconstructions over the last two millennia. These analyses indicate that the GMST is a strongly persistent noise with Hurst exponent H>0.9 on time scales from decades up to at least 500 years. We show that such LRP can be very important for long-term climate prediction and for the establishment of a "time bomb" in the climate system due to a growing energy imbalance caused by the slow relaxation to radiative equilibrium under rising anthropogenic forcing. We do this by the construction of a multi-parameter dynamic-stochastic model for the GMST response to deterministic and stochastic forcing, where LRP is represented by a power-law response function. Reconstructed data for total forcing and GMST over the last millennium are used with this model to estimate trend coefficients and Hurst exponent for the GMST on multi-century time scale by means of MLE. Ensembles of solutions generated from the stochastic model also allow us to estimate confidence intervals for these estimates.

3D reconstruction from multi-view VHR-satellite images in MicMac

NASA Astrophysics Data System (ADS)

Rupnik, Ewelina; Pierrot-Deseilligny, Marc; Delorme, Arthur

2018-05-01

This work addresses the generation of high quality digital surface models by fusing multiple depths maps calculated with the dense image matching method. The algorithm is adapted to very high resolution multi-view satellite images, and the main contributions of this work are in the multi-view fusion. The algorithm is insensitive to outliers, takes into account the matching quality indicators, handles non-correlated zones (e.g. occlusions), and is solved with a multi-directional dynamic programming approach. No geometric constraints (e.g. surface planarity) or auxiliary data in form of ground control points are required for its operation. Prior to the fusion procedures, the RPC geolocation parameters of all images are improved in a bundle block adjustment routine. The performance of the algorithm is evaluated on two VHR (Very High Resolution)-satellite image datasets (Pléiades, WorldView-3) revealing its good performance in reconstructing non-textured areas, repetitive patterns, and surface discontinuities.

Multi-centennial upper-ocean heat content reconstruction using online data assimilation

NASA Astrophysics Data System (ADS)

Perkins, W. A.; Hakim, G. J.

2017-12-01

The Last Millennium Reanalysis (LMR) provides an advanced paleoclimate ensemble data assimilation framework for multi-variate climate field reconstructions over the Common Era. Although reconstructions in this framework with full Earth system models remain prohibitively expensive, recent work has shown improved ensemble reconstruction validation using computationally inexpensive linear inverse models (LIMs). Here we leverage these techniques in pursuit of a new multi-centennial field reconstruction of upper-ocean heat content (OHC), synthesizing model dynamics with observational constraints from proxy records. OHC is an important indicator of internal climate variability and responds to planetary energy imbalances. Therefore, a consistent extension of the OHC record in time will help inform aspects of low-frequency climate variability. We use the Community Climate System Model version 4 (CCSM4) and Max Planck Institute (MPI) last millennium simulations to derive the LIMs, and the PAGES2K v.2.0 proxy database to perform annually resolved reconstructions of upper-OHC, surface air temperature, and wind stress over the last 500 years. Annual OHC reconstructions and uncertainties for both the global mean and regional basins are compared against observational and reanalysis data. We then investigate differences in dynamical behavior at decadal and longer time scales between the reconstruction and simulations in the last-millennium Coupled Model Intercomparison Project version 5 (CMIP5). Preliminary investigation of 1-year forecast skill for an OHC-only LIM shows largely positive spatial grid point local anomaly correlations (LAC) with a global average LAC of 0.37. Compared to 1-year OHC persistence forecast LAC (global average LAC of 0.30), the LIM outperforms the persistence forecasts in the tropical Indo-Pacific region, the equatorial Atlantic, and in certain regions near the Antarctic Circumpolar Current. In other regions, the forecast correlations are less than the persistence case but still positive overall.

Metabolic Network Modeling of Microbial Communities

PubMed Central

Biggs, Matthew B.; Medlock, Gregory L.; Kolling, Glynis L.

2015-01-01

Genome-scale metabolic network reconstructions and constraint-based analysis are powerful methods that have the potential to make functional predictions about microbial communities. Current use of genome-scale metabolic networks to characterize the metabolic functions of microbial communities includes species compartmentalization, separating species-level and community-level objectives, dynamic analysis, the “enzyme-soup” approach, multi-scale modeling, and others. There are many challenges inherent to the field, including a need for tools that accurately assign high-level omics signals to individual community members, new automated reconstruction methods that rival manual curation, and novel algorithms for integrating omics data and engineering communities. As technologies and modeling frameworks improve, we expect that there will be proportional advances in the fields of ecology, health science, and microbial community engineering. PMID:26109480

Climate variability in China during the last millennium based on reconstructions and simulations

NASA Astrophysics Data System (ADS)

García-Bustamante, E.; Luterbacher, J.; Xoplaki, E.; Werner, J. P.; Jungclaus, J.; Zorita, E.; González-Rouco, J. F.; Fernández-Donado, L.; Hegerl, G.; Ge, Q.; Hao, Z.; Wagner, S.

2012-04-01

Multi-decadal to centennial climate variability in China during the last millennium is analysed. We compare the low frequency temperature and precipitation variations from proxy-based reconstructions and palaeo-simulations from climate models. Focusing on the regional responses to the global climate evolution is of high relevance due to the complexity of the interactions between physical mechanisms at different spatio-temporal scales and the potential severity of the derived multiple socio-economic impacts. China stands out as a particularly interesting region, not only due to its complex climatic features, ranging from the semiarid northwestern Tibetan Plateau to the tropical monsoon southeastern climates, but also because of its wealth of proxy data. However, comprehensive assessments of proxy- and model-based information about palaeo-climatic variations in China are, to our knowledge, still lacking. In addition, existing studies depict a general lack of agreement between reconstructions and model simulations with respect to the amplitude and/or occurrence of warmer/colder and wetter/drier periods during the last millennium and the magnitude of the 20th century warming trend. Furthermore, these works are mainly focused on eastern China regions that show a denser proxy data coverage. We investigate how last millennium palaeo-runs compare to independent evidences from an unusual large number of proxy reconstructions over the study area by employing state-of-the-art palaeo-simulations with multi-member ensembles from the CMIP5/PMIP3 project. This shapes an ideal frame for the evaluation of the uncertainties associated to internal and intermodel model variability. Preliminary results indicate that despite the strong regional and seasonal dependencies, temperature reconstructions in China evidence coherent variations among all regions at centennial scale, especially during the last 500 years. The spatial consistency of low frequency temperature changes is an interesting aspect and of relevance for the assessment of forced climatic responses in China. The comparison between reconstructions and simulations from climate models show that, apart from the 20th century warming trend, the variance of the reconstructed mean China temperature lies in the envelope (uncertainty range) spanned by the temperature simulations. The uncertainty arises from the internal (multi-member ensembles) and the inter-model variability. Centennial variations tend to be broadly synchronous in the reconstructions and the simulations. However, the simulations show a delay of the warm period 1000-1300 AD. This warm medieval period both in the simulations and the reconstructions is followed by cooling till 1800 AD. Based on the simulations, the recent warming is not unprecedented and is comparable to the medieval warming. Further steps of this study will address the individual contribution of anthropogenic and natural forcings on climate variability and change during the last millennium in China. We will make use of of models that provide runs including single forcings (fingerprints) for the attribution of climate variations from decadal to multi-centennial time scales. With this aim, we will implement statistical techniques for the detection of optimal signal-to-noise-ratio between external forcings and internal variability of reconstructed temperatures and precipitation. To apply these approaches the uncertainties associated with both reconstructions and simulations will be estimated. The latter will shed some light into the mechanisms behind current climate evolution and will help to constrain uncertainties in the sensitivity of model simulations to increasing CO2 scenarios of future climate change. This work will also contribute to the overall aims of the PAGES 2k initiative in Asia (http://www.pages.unibe.ch/workinggroups/2k-network)

Multiscale multimodal fusion of histological and MRI volumes for characterization of lung inflammation

NASA Astrophysics Data System (ADS)

Rusu, Mirabela; Wang, Haibo; Golden, Thea; Gow, Andrew; Madabhushi, Anant

2013-03-01

Mouse lung models facilitate the investigation of conditions such as chronic inflammation which are associated with common lung diseases. The multi-scale manifestation of lung inflammation prompted us to use multi-scale imaging - both in vivo, ex vivo MRI along with ex vivo histology, for its study in a new quantitative way. Some imaging modalities, such as MRI, are non-invasive and capture macroscopic features of the pathology, while others, e.g. ex vivo histology, depict detailed structures. Registering such multi-modal data to the same spatial coordinates will allow the construction of a comprehensive 3D model to enable the multi-scale study of diseases. Moreover, it may facilitate the identification and definition of quantitative of in vivo imaging signatures for diseases and pathologic processes. We introduce a quantitative, image analytic framework to integrate in vivo MR images of the entire mouse with ex vivo histology of the lung alone, using lung ex vivo MRI as conduit to facilitate their co-registration. In our framework, we first align the MR images by registering the in vivo and ex vivo MRI of the lung using an interactive rigid registration approach. Then we reconstruct the 3D volume of the ex vivo histological specimen by efficient group wise registration of the 2D slices. The resulting 3D histologic volume is subsequently registered to the MRI volumes by interactive rigid registration, directly to the ex vivo MRI, and implicitly to in vivo MRI. Qualitative evaluation of the registration framework was performed by comparing airway tree structures in ex vivo MRI and ex vivo histology where airways are visible and may be annotated. We present a use case for evaluation of our co-registration framework in the context of studying chronic inammation in a diseased mouse.

Long-term reconstructions of total solar irradiance

NASA Astrophysics Data System (ADS)

Krivova, Natalie; Solanki, Sami K.; Dasi Espuig, Maria

2012-07-01

Solar irradiance is the main external driver of the Earth's climate, although its relative contribution compared to other internal and anthropogenic factors is not yet well determined. Variations of total solar irradiance have being measured for over three decades and are relatively well understood. Reconstructions of the irradiance into the past remain, however, rather uncertain. In particular, the magnitude of the secular change is highly debated. The reason is the lack of direct and well-sampled proxies of solar magnetic activity on time scales longer than a few decades. Reconstructions on time scales of centuries rely on sunspot observations available since 1610. Reconstructions on millennial time scales use concentrations of the cosmogenic isotopes in terrestrial archives. We will review long-term reconstructions of the solar irradiance using the SATIRE set of models, compare them with other recent models and discuss the remaining uncertainties.

Dependability and Treatment Sensitivity of Multi-Item Direct Behavior Rating Scales for Interpersonal Peer Conflict

ERIC Educational Resources Information Center

Daniels, Brian; Volpe, Robert J.; Briesch, Amy M.; Gadow, Kenneth D.

2017-01-01

Direct behavior rating (DBR) represents a feasible method for monitoring student behavior in the classroom; however, limited work to date has focused on the use of multi-item scales. The purposes of the study were to examine the (a) dependability of data obtained from a multi-item DBR designed to assess peer conflict and (b) treatment sensitivity…

Combining wood anatomy and stable isotope variations in a 600-year multi-parameter climate reconstruction from Corsican black pine

NASA Astrophysics Data System (ADS)

Szymczak, Sonja; Hetzer, Timo; Bräuning, Achim; Joachimski, Michael M.; Leuschner, Hanns-Hubert; Kuhlemann, Joachim

2014-10-01

We present a new multi-parameter dataset from Corsican black pine growing on the island of Corsica in the Western Mediterranean basin covering the period AD 1410-2008. Wood parameters measured include tree-ring width, latewood width, earlywood width, cell lumen area, cell width, cell wall thickness, modelled wood density, as well as stable carbon and oxygen isotopes. We evaluated the relationships between different parameters and determined the value of the dataset for climate reconstructions. Correlation analyses revealed that carbon isotope ratios are influenced by cell parameters determining cell size, whereas oxygen isotope ratios are influenced by cell parameters determining the amount of transportable water in the xylem. A summer (June to August) precipitation reconstruction dating back to AD 1185 was established based on tree-ring width. No long-term trends or pronounced periods with extreme high/low precipitation are recorded in our reconstruction, indicating relatively stable moisture conditions over the entire time period. By comparing the precipitation reconstruction with a summer temperature reconstruction derived from the carbon isotope chronologies, we identified summers with extreme climate conditions, i.e. warm-dry, warm-wet, cold-dry and cold-wet. Extreme climate conditions during summer months were found to influence cell parameter characteristics. Cold-wet summers promote the production of broad latewood composed of wide and thin-walled tracheids, while warm-wet summers promote the production of latewood with small thick-walled cells. The presented dataset emphasizes the potential of multi-parameter wood analysis from one tree species over long time scales.

Imaging ATUM ultrathin section libraries with WaferMapper: a multi-scale approach to EM reconstruction of neural circuits

PubMed Central

Hayworth, Kenneth J.; Morgan, Josh L.; Schalek, Richard; Berger, Daniel R.; Hildebrand, David G. C.; Lichtman, Jeff W.

2014-01-01

The automated tape-collecting ultramicrotome (ATUM) makes it possible to collect large numbers of ultrathin sections quickly—the equivalent of a petabyte of high resolution images each day. However, even high throughput image acquisition strategies generate images far more slowly (at present ~1 terabyte per day). We therefore developed WaferMapper, a software package that takes a multi-resolution approach to mapping and imaging select regions within a library of ultrathin sections. This automated method selects and directs imaging of corresponding regions within each section of an ultrathin section library (UTSL) that may contain many thousands of sections. Using WaferMapper, it is possible to map thousands of tissue sections at low resolution and target multiple points of interest for high resolution imaging based on anatomical landmarks. The program can also be used to expand previously imaged regions, acquire data under different imaging conditions, or re-image after additional tissue treatments. PMID:25018701

LGM permafrost distribution: how well can the latest PMIP multi-model ensembles reconstruct?

NASA Astrophysics Data System (ADS)

Saito, K.; Sueyoshi, T.; Marchenko, S.; Romanovsky, V.; Otto-Bliesner, B.; Walsh, J.; Bigelow, N.; Hendricks, A.; Yoshikawa, K.

2013-03-01

Global-scale frozen ground distribution during the Last Glacial Maximum (LGM) was reconstructed using multi-model ensembles of global climate models, and then compared with evidence-based knowledge and earlier numerical results. Modeled soil temperatures, taken from Paleoclimate Modelling Intercomparison Project Phase III (PMIP3) simulations, were used to diagnose the subsurface thermal regime and determine underlying frozen ground types for the present-day (pre-industrial; 0 k) and the LGM (21 k). This direct method was then compared to the earlier indirect method, which categorizes the underlying frozen ground type from surface air temperature, applied to both the PMIP2 (phase II) and PMIP3 products. Both direct and indirect diagnoses for 0 k showed strong agreement with the present-day observation-based map, although the soil temperature ensemble showed a higher diversity among the models partly due to varying complexity of the implemented subsurface processes. The area of continuous permafrost estimated by the multi-model analysis was 25.6 million km2 for LGM, in contrast to 12.7 million km2 for the pre-industrial control, whereas seasonally, frozen ground increased from 22.5 million km2 to 32.6 million km2. These changes in area resulted mainly from a cooler climate at LGM, but other factors as well, such as the presence of huge land ice sheets and the consequent expansion of total land area due to sea-level change. LGM permafrost boundaries modeled by the PMIP3 ensemble-improved over those of the PMIP2 due to higher spatial resolutions and improved climatology-also compared better to previous knowledge derived from the geomorphological and geocryological evidences. Combinatorial applications of coupled climate models and detailed stand-alone physical-ecological models for the cold-region terrestrial, paleo-, and modern climates will advance our understanding of the functionality and variability of the frozen ground subsystem in the global eco-climate system.

Tone mapping infrared images using conditional filtering-based multi-scale retinex

NASA Astrophysics Data System (ADS)

Luo, Haibo; Xu, Lingyun; Hui, Bin; Chang, Zheng

2015-10-01

Tone mapping can be used to compress the dynamic range of the image data such that it can be fitted within the range of the reproduction media and human vision. The original infrared images that captured with infrared focal plane arrays (IFPA) are high dynamic images, so tone mapping infrared images is an important component in the infrared imaging systems, and it has become an active topic in recent years. In this paper, we present a tone mapping framework using multi-scale retinex. Firstly, a Conditional Gaussian Filter (CGF) was designed to suppress "halo" effect. Secondly, original infrared image is decomposed into a set of images that represent the mean of the image at different spatial resolutions by applying CGF of different scale. And then, a set of images that represent the multi-scale details of original image is produced by dividing the original image pointwise by the decomposed image. Thirdly, the final detail image is reconstructed by weighted sum of the multi-scale detail images together. Finally, histogram scaling and clipping is adopted to remove outliers and scale the detail image, 0.1% of the pixels are clipped at both extremities of the histogram. Experimental results show that the proposed algorithm efficiently increases the local contrast while preventing "halo" effect and provides a good rendition of visual effect.

LGM permafrost distribution: how well can the latest PMIP multi-model ensembles perform reconstruction?

NASA Astrophysics Data System (ADS)

Saito, K.; Sueyoshi, T.; Marchenko, S.; Romanovsky, V.; Otto-Bliesner, B.; Walsh, J.; Bigelow, N.; Hendricks, A.; Yoshikawa, K.

2013-08-01

Here, global-scale frozen ground distribution from the Last Glacial Maximum (LGM) has been reconstructed using multi-model ensembles of global climate models, and then compared with evidence-based knowledge and earlier numerical results. Modeled soil temperatures, taken from Paleoclimate Modelling Intercomparison Project phase III (PMIP3) simulations, were used to diagnose the subsurface thermal regime and determine underlying frozen ground types for the present day (pre-industrial; 0 kya) and the LGM (21 kya). This direct method was then compared to an earlier indirect method, which categorizes underlying frozen ground type from surface air temperature, applying to both the PMIP2 (phase II) and PMIP3 products. Both direct and indirect diagnoses for 0 kya showed strong agreement with the present-day observation-based map. The soil temperature ensemble showed a higher diversity around the border between permafrost and seasonally frozen ground among the models, partly due to varying subsurface processes, implementation, and settings. The area of continuous permafrost estimated by the PMIP3 multi-model analysis through the direct (indirect) method was 26.0 (17.7) million km2 for LGM, in contrast to 15.1 (11.2) million km2 for the pre-industrial control, whereas seasonally frozen ground decreased from 34.5 (26.6) million km2 to 18.1 (16.0) million km2. These changes in area resulted mainly from a cooler climate at LGM, but from other factors as well, such as the presence of huge land ice sheets and the consequent expansion of total land area due to sea-level change. LGM permafrost boundaries modeled by the PMIP3 ensemble - improved over those of the PMIP2 due to higher spatial resolutions and improved climatology - also compared better to previous knowledge derived from geomorphological and geocryological evidence. Combinatorial applications of coupled climate models and detailed stand-alone physical-ecological models for the cold-region terrestrial, paleo-, and modern climates will advance our understanding of the functionality and variability of the frozen ground subsystem in the global eco-climate system.

Multi-scale characterization of an upcurrent turbiditic pinch-out

NASA Astrophysics Data System (ADS)

Daghdevirenian, L. J. P.; Migeon, S.; Rubino, J. L., Sr.; Raisson, F.

2017-12-01

Continental margins with a steep topographic profile between their continental shelf and the basin exhibit a sudden slope break at the base of their continental slope. This slope break favors strong erosion or a by-pass and a fast accumulation of sediments on the base of the continental slope due to the hydraulic jump phenomena. Such a process is responsible for the construction of thick accumulations of limited extension and generally disconnected from the feeding tributaries. These accumulations usually onlap against the continental slope but their modality of pinch out is still questioned and it is the subject of this work. The Tabernas basin is located in South East of Spain, in the continuity of the Sorbas basin. Recent field works allowed identifying a "sedimentary" onlap associated with a small-scale sandy turbidite system that we discovered near the so-called El Buho area. The superb quality of the outcrops revealed, the presence of three successive onlap structures consisting in each case of a direct contact between fluvial conglomerates / marines conglomerates / marine marls / turbidite sands. Reconstruction of paleo-current direction gives a flow direction around N00, from north to south, suggesting the outcrops are cutting the pinch out of the sandy system in a longitudinal direction. A longitudinal and vertical transition of facies can be thus observed from marines' conglomerates to turbidite sands, respectively over distances of 500 m and 70 m. The complete evolution of facies along the pinch out consists of thick conglomerates in the proximal part to sandy turbidite channels then lobes in the distal part. The three successive onlap structures are located inside the channelize part of the system, just above a slope break structure. The basal units of the pinch out consist of an alternation of conglomerates and sandy bed, while the overlying units exhibits more sandy dominated beds. In order to reconstruct the architecture of the pinch out and to understand its process of formation, a complete photogrammetry acquisition was performed at the scale of the whole area This new dataset together with sedimentological logs and outcrop analysis allowed to model the multiple scale pinch out of a turbidite system against its adjacent continental slope, from the beds and the outcrops to regional scale given by the photogrammetry

Network design and analysis for multi-enzyme biocatalysis.

PubMed

Blaß, Lisa Katharina; Weyler, Christian; Heinzle, Elmar

2017-08-10

As more and more biological reaction data become available, the full exploration of the enzymatic potential for the synthesis of valuable products opens up exciting new opportunities but is becoming increasingly complex. The manual design of multi-step biosynthesis routes involving enzymes from different organisms is very challenging. To harness the full enzymatic potential, we developed a computational tool for the directed design of biosynthetic production pathways for multi-step catalysis with in vitro enzyme cascades, cell hydrolysates and permeabilized cells. We present a method which encompasses the reconstruction of a genome-scale pan-organism metabolic network, path-finding and the ranking of the resulting pathway candidates for proposing suitable synthesis pathways. The network is based on reaction and reaction pair data from the Kyoto Encyclopedia of Genes and Genomes (KEGG) and the thermodynamics calculator eQuilibrator. The pan-organism network is especially useful for finding the most suitable pathway to a target metabolite from a thermodynamic or economic standpoint. However, our method can be used with any network reconstruction, e.g. for a specific organism. We implemented a path-finding algorithm based on a mixed-integer linear program (MILP) which takes into account both topology and stoichiometry of the underlying network. Unlike other methods we do not specify a single starting metabolite, but our algorithm searches for pathways starting from arbitrary start metabolites to a target product of interest. Using a set of biochemical ranking criteria including pathway length, thermodynamics and other biological characteristics such as number of heterologous enzymes or cofactor requirement, it is possible to obtain well-designed meaningful pathway alternatives. In addition, a thermodynamic profile, the overall reactant balance and potential side reactions as well as an SBML file for visualization are generated for each pathway alternative. We present an in silico tool for the design of multi-enzyme biosynthetic production pathways starting from a pan-organism network. The method is highly customizable and each module can be adapted to the focus of the project at hand. This method is directly applicable for (i) in vitro enzyme cascades, (ii) cell hydrolysates and (iii) permeabilized cells.

A tree canopy height delineation method based on Morphological Reconstruction—Open Crown Decomposition

NASA Astrophysics Data System (ADS)

Liu, Q.; Jing, L.; Li, Y.; Tang, Y.; Li, H.; Lin, Q.

2016-04-01

For the purpose of forest management, high resolution LIDAR and optical remote sensing imageries are used for treetop detection, tree crown delineation, and classification. The purpose of this study is to develop a self-adjusted dominant scales calculation method and a new crown horizontal cutting method of tree canopy height model (CHM) to detect and delineate tree crowns from LIDAR, under the hypothesis that a treetop is radiometric or altitudinal maximum and tree crowns consist of multi-scale branches. The major concept of the method is to develop an automatic selecting strategy of feature scale on CHM, and a multi-scale morphological reconstruction-open crown decomposition (MRCD) to get morphological multi-scale features of CHM by: cutting CHM from treetop to the ground; analysing and refining the dominant multiple scales with differential horizontal profiles to get treetops; segmenting LiDAR CHM using watershed a segmentation approach marked with MRCD treetops. This method has solved the problems of false detection of CHM side-surface extracted by the traditional morphological opening canopy segment (MOCS) method. The novel MRCD delineates more accurate and quantitative multi-scale features of CHM, and enables more accurate detection and segmentation of treetops and crown. Besides, the MRCD method can also be extended to high optical remote sensing tree crown extraction. In an experiment on aerial LiDAR CHM of a forest of multi-scale tree crowns, the proposed method yielded high-quality tree crown maps.

Scientific Visualization and Simulation for Multi-dimensional Marine Environment Data

NASA Astrophysics Data System (ADS)

Su, T.; Liu, H.; Wang, W.; Song, Z.; Jia, Z.

2017-12-01

As higher attention on the ocean and rapid development of marine detection, there are increasingly demands for realistic simulation and interactive visualization of marine environment in real time. Based on advanced technology such as GPU rendering, CUDA parallel computing and rapid grid oriented strategy, a series of efficient and high-quality visualization methods, which can deal with large-scale and multi-dimensional marine data in different environmental circumstances, has been proposed in this paper. Firstly, a high-quality seawater simulation is realized by FFT algorithm, bump mapping and texture animation technology. Secondly, large-scale multi-dimensional marine hydrological environmental data is virtualized by 3d interactive technologies and volume rendering techniques. Thirdly, seabed terrain data is simulated with improved Delaunay algorithm, surface reconstruction algorithm, dynamic LOD algorithm and GPU programming techniques. Fourthly, seamless modelling in real time for both ocean and land based on digital globe is achieved by the WebGL technique to meet the requirement of web-based application. The experiments suggest that these methods can not only have a satisfying marine environment simulation effect, but also meet the rendering requirements of global multi-dimension marine data. Additionally, a simulation system for underwater oil spill is established by OSG 3D-rendering engine. It is integrated with the marine visualization method mentioned above, which shows movement processes, physical parameters, current velocity and direction for different types of deep water oil spill particle (oil spill particles, hydrates particles, gas particles, etc.) dynamically and simultaneously in multi-dimension. With such application, valuable reference and decision-making information can be provided for understanding the progress of oil spill in deep water, which is helpful for ocean disaster forecasting, warning and emergency response.

Estimation of polarization distribution on gold nanorods system from hierarchical features of optical near-field

NASA Astrophysics Data System (ADS)

Uchiyama, Kazuharu; Nishikawa, Naoki; Nakagomi, Ryo; Kobayashi, Kiyoshi; Hori, Hirokazu

2018-02-01

To design optoelectronic functionalities in nanometer scale based on interactions of electronic system with optical near-fields, it is essential to evaluate the relationship between optical near-fields and their sources. Several theoretical studies have been performed, so far, to analyze such complex relationship to design the interaction fields of several specific scales. In this study, we have performed detailed and high-precision measurements of optical near-field structures woven by a large number of independent polarizations generated in the gold nanorods array under laser light irradiation at the resonant frequency. We have accumulated the multi-layered data of optical near-field imaging at different heights above the planar surface with the resolution of several nm by a STM-assisted scanning near-field optical microscope. Based on these data, we have performed an inverse calculation to estimate the position, direction, and strength of the local polarization buried under the flat surface of the sample. As a result of the inverse operation, we have confirmed that the complexities in the nanometer scale optical near-fields could be reconstructed by combinations of induced polarization in each gold nanorod. We have demonstrated the hierarchical properties of optical near-fields based on spatial frequency expansion and superposition of dipole fields to provide insightful information for applications such for secure multi-layered information storage.

Multi-century cool- and warm-season rainfall reconstructions for Australia's major climatic regions

NASA Astrophysics Data System (ADS)

Freund, Mandy; Henley, Benjamin J.; Karoly, David J.; Allen, Kathryn J.; Baker, Patrick J.

2017-11-01

Australian seasonal rainfall is strongly affected by large-scale ocean-atmosphere climate influences. In this study, we exploit the links between these precipitation influences, regional rainfall variations, and palaeoclimate proxies in the region to reconstruct Australian regional rainfall between four and eight centuries into the past. We use an extensive network of palaeoclimate records from the Southern Hemisphere to reconstruct cool (April-September) and warm (October-March) season rainfall in eight natural resource management (NRM) regions spanning the Australian continent. Our bi-seasonal rainfall reconstruction aligns well with independent early documentary sources and existing reconstructions. Critically, this reconstruction allows us, for the first time, to place recent observations at a bi-seasonal temporal resolution into a pre-instrumental context, across the entire continent of Australia. We find that recent 30- and 50-year trends towards wetter conditions in tropical northern Australia are highly unusual in the multi-century context of our reconstruction. Recent cool-season drying trends in parts of southern Australia are very unusual, although not unprecedented, across the multi-century context. We also use our reconstruction to investigate the spatial and temporal extent of historical drought events. Our reconstruction reveals that the spatial extent and duration of the Millennium Drought (1997-2009) appears either very much below average or unprecedented in southern Australia over at least the last 400 years. Our reconstruction identifies a number of severe droughts over the past several centuries that vary widely in their spatial footprint, highlighting the high degree of diversity in historical droughts across the Australian continent. We document distinct characteristics of major droughts in terms of their spatial extent, duration, intensity, and seasonality. Compared to the three largest droughts in the instrumental period (Federation Drought, 1895-1903; World War II Drought, 1939-1945; and the Millennium Drought, 1997-2005), we find that the historically documented Settlement Drought (1790-1793), Sturt's Drought (1809-1830) and the Goyder Line Drought (1861-1866) actually had more regionalised patterns and reduced spatial extents. This seasonal rainfall reconstruction provides a new opportunity to understand Australian rainfall variability by contextualising severe droughts and recent trends in Australia.

Joint image reconstruction method with correlative multi-channel prior for x-ray spectral computed tomography

NASA Astrophysics Data System (ADS)

Kazantsev, Daniil; Jørgensen, Jakob S.; Andersen, Martin S.; Lionheart, William R. B.; Lee, Peter D.; Withers, Philip J.

2018-06-01

Rapid developments in photon-counting and energy-discriminating detectors have the potential to provide an additional spectral dimension to conventional x-ray grayscale imaging. Reconstructed spectroscopic tomographic data can be used to distinguish individual materials by characteristic absorption peaks. The acquired energy-binned data, however, suffer from low signal-to-noise ratio, acquisition artifacts, and frequently angular undersampled conditions. New regularized iterative reconstruction methods have the potential to produce higher quality images and since energy channels are mutually correlated it can be advantageous to exploit this additional knowledge. In this paper, we propose a novel method which jointly reconstructs all energy channels while imposing a strong structural correlation. The core of the proposed algorithm is to employ a variational framework of parallel level sets to encourage joint smoothing directions. In particular, the method selects reference channels from which to propagate structure in an adaptive and stochastic way while preferring channels with a high data signal-to-noise ratio. The method is compared with current state-of-the-art multi-channel reconstruction techniques including channel-wise total variation and correlative total nuclear variation regularization. Realistic simulation experiments demonstrate the performance improvements achievable by using correlative regularization methods.

Multiview photometric stereo.

PubMed

Hernández Esteban, Carlos; Vogiatzis, George; Cipolla, Roberto

2008-03-01

This paper addresses the problem of obtaining complete, detailed reconstructions of textureless shiny objects. We present an algorithm which uses silhouettes of the object, as well as images obtained under changing illumination conditions. In contrast with previous photometric stereo techniques, ours is not limited to a single viewpoint but produces accurate reconstructions in full 3D. A number of images of the object are obtained from multiple viewpoints, under varying lighting conditions. Starting from the silhouettes, the algorithm recovers camera motion and constructs the object's visual hull. This is then used to recover the illumination and initialise a multi-view photometric stereo scheme to obtain a closed surface reconstruction. There are two main contributions in this paper: Firstly we describe a robust technique to estimate light directions and intensities and secondly, we introduce a novel formulation of photometric stereo which combines multiple viewpoints and hence allows closed surface reconstructions. The algorithm has been implemented as a practical model acquisition system. Here, a quantitative evaluation of the algorithm on synthetic data is presented together with complete reconstructions of challenging real objects. Finally, we show experimentally how even in the case of highly textured objects, this technique can greatly improve on correspondence-based multi-view stereo results.

Reconstructing the backbone of the Saccharomycotina yeast phylogeny using genome-scale data

USDA-ARS?s Scientific Manuscript database

Understanding the phylogenetic relationships among the yeasts of the subphylum Saccharomycotina is a prerequisite for understanding the evolution of their metabolisms and ecological lifestyles. In the last two decades, the use of rDNA and multi-locus data sets has greatly advanced our understanding ...

A Picea crassifolia Tree-Ring Width-Based Temperature Reconstruction for the Mt. Dongda Region, Northwest China, and Its Relationship to Large-Scale Climate Forcing.

PubMed

Liu, Yu; Sun, Changfeng; Li, Qiang; Cai, Qiufang

2016-01-01

The historical May-October mean temperature since 1831 was reconstructed based on tree-ring width of Qinghai spruce (Picea crassifolia Kom.) collected on Mt. Dongda, North of the Hexi Corridor in Northwest China. The regression model explained 46.6% of the variance of the instrumentally observed temperature. The cold periods in the reconstruction were 1831-1889, 1894-1901, 1908-1934 and 1950-1952, and the warm periods were 1890-1893, 1902-1907, 1935-1949 and 1953-2011. During the instrumental period (1951-2011), an obvious warming trend appeared in the last twenty years. The reconstruction displayed similar patterns to a temperature reconstruction from the east-central Tibetan Plateau at the inter-decadal timescale, indicating that the temperature reconstruction in this study was a reliable proxy for Northwest China. It was also found that the reconstruction series had good consistency with the Northern Hemisphere temperature at a decadal timescale. Multi-taper method spectral analysis detected some low- and high-frequency cycles (2.3-2.4-year, 2.8-year, 3.4-3.6-year, 5.0-year, 9.9-year and 27.0-year). Combining these cycles, the relationship of the low-frequency change with the Pacific Decadal Oscillation (PDO), North Atlantic Oscillation (NAO) and Southern Oscillation (SO) suggested that the reconstructed temperature variations may be related to large-scale atmospheric-oceanic variations. Major volcanic eruptions were partly reflected in the reconstructed temperatures after high-pass filtering; these events promoted anomalous cooling in this region. The results of this study not only provide new information for assessing the long-term temperature changes in the Hexi Corridor of Northwest China, but also further demonstrate the effects of large-scale atmospheric-oceanic circulation on climate change in Northwest China.

Efficient and robust method for simultaneous reconstruction of the temperature distribution and radiative properties in absorbing, emitting, and scattering media

NASA Astrophysics Data System (ADS)

Niu, Chun-Yang; Qi, Hong; Huang, Xing; Ruan, Li-Ming; Tan, He-Ping

2016-11-01

A rapid computational method called generalized sourced multi-flux method (GSMFM) was developed to simulate outgoing radiative intensities in arbitrary directions at the boundary surfaces of absorbing, emitting, and scattering media which were served as input for the inverse analysis. A hybrid least-square QR decomposition-stochastic particle swarm optimization (LSQR-SPSO) algorithm based on the forward GSMFM solution was developed to simultaneously reconstruct multi-dimensional temperature distribution and absorption and scattering coefficients of the cylindrical participating media. The retrieval results for axisymmetric temperature distribution and non-axisymmetric temperature distribution indicated that the temperature distribution and scattering and absorption coefficients could be retrieved accurately using the LSQR-SPSO algorithm even with noisy data. Moreover, the influences of extinction coefficient and scattering albedo on the accuracy of the estimation were investigated, and the results suggested that the reconstruction accuracy decreased with the increase of extinction coefficient and the scattering albedo. Finally, a non-contact measurement platform of flame temperature field based on the light field imaging was set up to validate the reconstruction model experimentally.

A Unified Approach to Diffusion Direction Sensitive Slice Registration and 3-D DTI Reconstruction From Moving Fetal Brain Anatomy

PubMed Central

Fogtmann, Mads; Seshamani, Sharmishtaa; Kroenke, Christopher; Cheng, Xi; Chapman, Teresa; Wilm, Jakob; Rousseau, François

2014-01-01

This paper presents an approach to 3-D diffusion tensor image (DTI) reconstruction from multi-slice diffusion weighted (DW) magnetic resonance imaging acquisitions of the moving fetal brain. Motion scatters the slice measurements in the spatial and spherical diffusion domain with respect to the underlying anatomy. Previous image registration techniques have been described to estimate the between slice fetal head motion, allowing the reconstruction of 3-D a diffusion estimate on a regular grid using interpolation. We propose Approach to Unified Diffusion Sensitive Slice Alignment and Reconstruction (AUDiSSAR) that explicitly formulates a process for diffusion direction sensitive DW-slice-to-DTI-volume alignment. This also incorporates image resolution modeling to iteratively deconvolve the effects of the imaging point spread function using the multiple views provided by thick slices acquired in different anatomical planes. The algorithm is implemented using a multi-resolution iterative scheme and multiple real and synthetic data are used to evaluate the performance of the technique. An accuracy experiment using synthetically created motion data of an adult head and a experiment using synthetic motion added to sedated fetal monkey dataset show a significant improvement in motion-trajectory estimation compared to a state-of-the-art approaches. The performance of the method is then evaluated on challenging but clinically typical in utero fetal scans of four different human cases, showing improved rendition of cortical anatomy and extraction of white matter tracts. While the experimental work focuses on DTI reconstruction (second-order tensor model), the proposed reconstruction framework can employ any 5-D diffusion volume model that can be represented by the spatial parameterizations of an orientation distribution function. PMID:24108711

D Reconstruction and Visualization of Cultural Heritage: Analyzing Our Legacy Through Time

NASA Astrophysics Data System (ADS)

Rodríguez-Gonzálvez, P.; Muñoz-Nieto, A. L.; del Pozo, S.; Sanchez-Aparicio, L. J.; Gonzalez-Aguilera, D.; Micoli, L.; Gonizzi Barsanti, S.; Guidi, G.; Mills, J.; Fieber, K.; Haynes, I.; Hejmanowska, B.

2017-02-01

Temporal analyses and multi-temporal 3D reconstruction are fundamental for the preservation and maintenance of all forms of Cultural Heritage (CH) and are the basis for decisions related to interventions and promotion. Introducing the fourth dimension of time into three-dimensional geometric modelling of real data allows the creation of a multi-temporal representation of a site. In this way, scholars from various disciplines (surveyors, geologists, archaeologists, architects, philologists, etc.) are provided with a new set of tools and working methods to support the study of the evolution of heritage sites, both to develop hypotheses about the past and to model likely future developments. The capacity to "see" the dynamic evolution of CH assets across different spatial scales (e.g. building, site, city or territory) compressed in diachronic model, affords the possibility to better understand the present status of CH according to its history. However, there are numerous challenges in order to carry out 4D modelling and the requisite multi-data source integration. It is necessary to identify the specifications, needs and requirements of the CH community to understand the required levels of 4D model information. In this way, it is possible to determine the optimum material and technologies to be utilised at different CH scales, as well as the data management and visualization requirements. This manuscript aims to provide a comprehensive approach for CH time-varying representations, analysis and visualization across different working scales and environments: rural landscape, urban landscape and architectural scales. Within this aim, the different available metric data sources are systemized and evaluated in terms of their suitability.

Multi-Scale Modeling of an Integrated 3D Braided Composite with Applications to Helicopter Arm

NASA Astrophysics Data System (ADS)

Zhang, Diantang; Chen, Li; Sun, Ying; Zhang, Yifan; Qian, Kun

2017-10-01

A study is conducted with the aim of developing multi-scale analytical method for designing the composite helicopter arm with three-dimensional (3D) five-directional braided structure. Based on the analysis of 3D braided microstructure, the multi-scale finite element modeling is developed. Finite element analysis on the load capacity of 3D five-directional braided composites helicopter arm is carried out using the software ABAQUS/Standard. The influences of the braiding angle and loading condition on the stress and strain distribution of the helicopter arm are simulated. The results show that the proposed multi-scale method is capable of accurately predicting the mechanical properties of 3D braided composites, validated by the comparison the stress-strain curves of meso-scale RVCs. Furthermore, it is found that the braiding angle is an important factor affecting the mechanical properties of 3D five-directional braided composite helicopter arm. Based on the optimized structure parameters, the nearly net-shaped composite helicopter arm is fabricated using a novel resin transfer mould (RTM) process.

Quantifying climate changes of the Common Era for Finland

NASA Astrophysics Data System (ADS)

Luoto, Tomi P.; Nevalainen, Liisa

2017-10-01

In this study, we aim to quantify summer air temperatures from sediment records from Southern, Central and Northern Finland over the past 2000 years. We use lake sediment archives to estimate paleotemperatures applying fossil Chironomidae assemblages and the transfer function approach. The used enhanced Chironomidae-based temperature calibration set was validated in a 70-year high-resolution sediment record against instrumentally measured temperatures. Since the inferred and observed temperatures showed close correlation, we deduced that the new calibration model is reliable for reconstructions beyond the monitoring records. The 700-year long temperature reconstructions from three sites at multi-decadal temporal resolution showed similar trends, although they had differences in timing of the cold Little Ice Age (LIA) and the initiation of recent warming. The 2000-year multi-centennial reconstructions from three different sites showed resemblance with each other having clear signals of the Medieval Climate Anomaly (MCA) and LIA, but with differences in their timing. The influence of external forcing on climate of the southern and central sites appeared to be complex at the decadal scale, but the North Atlantic Oscillation (NAO) was closely linked to the temperature development of the northern site. Solar activity appears to be synchronous with the temperature fluctuations at the multi-centennial scale in all the sites. The present study provides new insights into centennial and decadal variability in air temperature dynamics in Northern Europe and on the external forcing behind these trends. These results are particularly useful in comparing regional responses and lags of temperature trends between different parts of Scandinavia.

An experimental 392-year documentary-based multi-proxy (vine and grain) reconstruction of May-July temperatures for Kőszeg, West-Hungary

NASA Astrophysics Data System (ADS)

Kiss, Andrea; Wilson, Rob; Bariska, István

2011-07-01

In this paper, we present a 392-year-long preliminary temperature reconstruction for western Hungary. The reconstructed series is based on five vine- and grain-related historical phenological series from the town of Kőszeg. We apply dendrochronological methods for both signal assessment of the phenological series and the resultant temperature reconstruction. As a proof of concept, the present reconstruction explains 57% of the temperature variance of May-July Budapest mean temperatures and is well verified with coefficient of efficiency values in excess of 0.45. The developed temperature reconstruction portrays warm conditions during the late seventeenth and early eighteenth centuries with a period of cooling until the coldest reconstructed period centred around 1815, which was followed by a period of warming until the 1860s. The phenological evidence analysed here represent an important data source from which non-biased estimates of past climate can be derived that may provide information at all possible time-scales.

Multi-Item Direct Behavior Ratings: Dependability of Two Levels of Assessment Specificity

ERIC Educational Resources Information Center

Volpe, Robert J.; Briesch, Amy M.

2015-01-01

Direct Behavior Rating-Multi-Item Scales (DBR-MIS) have been developed as formative measures of behavioral assessment for use in school-based problem-solving models. Initial research has examined the dependability of composite scores generated by summing all items comprising the scales. However, it has been argued that DBR-MIS may offer assessment…

Bayesian Models for Streamflow and River Network Reconstruction using Tree Rings

NASA Astrophysics Data System (ADS)

Ravindranath, A.; Devineni, N.

2016-12-01

Water systems face non-stationary, dynamically shifting risks due to shifting societal conditions and systematic long-term variations in climate manifesting as quasi-periodic behavior on multi-decadal time scales. Water systems are thus vulnerable to long periods of wet or dry hydroclimatic conditions. Streamflow is a major component of water systems and a primary means by which water is transported to serve ecosystems' and human needs. Thus, our concern is in understanding streamflow variability. Climate variability and impacts on water resources are crucial factors affecting streamflow, and multi-scale variability increases risk to water sustainability and systems. Dam operations are necessary for collecting water brought by streamflow while maintaining downstream ecological health. Rules governing dam operations are based on streamflow records that are woefully short compared to periods of systematic variation present in the climatic factors driving streamflow variability and non-stationarity. We use hierarchical Bayesian regression methods in order to reconstruct paleo-streamflow records for dams within a basin using paleoclimate proxies (e.g. tree rings) to guide the reconstructions. The riverine flow network for the entire basin is subsequently modeled hierarchically using feeder stream and tributary flows. This is a starting point in analyzing streamflow variability and risks to water systems, and developing a scientifically-informed dynamic risk management framework for formulating dam operations and water policies to best hedge such risks. We will apply this work to the Missouri and Delaware River Basins (DRB). Preliminary results of streamflow reconstructions for eight dams in the upper DRB using standard Gaussian regression with regional tree ring chronologies give streamflow records that now span two to two and a half centuries, and modestly smoothed versions of these reconstructed flows indicate physically-justifiable trends in the time series.

Multiphase computer-generated holograms for full-color image generation

NASA Astrophysics Data System (ADS)

Choi, Kyong S.; Choi, Byong S.; Choi, Yoon S.; Kim, Sun I.; Kim, Jong Man; Kim, Nam; Gil, Sang K.

2002-06-01

Multi-phase and binary-phase computer-generated holograms were designed and demonstrated for full-color image generation. Optimize a phase profile of the hologram that achieves each color image, we employed a simulated annealing method. The design binary phase hologram had the diffraction efficiency of 33.23 percent and the reconstruction error of 0.367 X 10-2. And eight phase hologram had the diffraction efficiency of 67.92 percent and the reconstruction error of 0.273 X 10-2. The designed BPH was fabricated by micro photolithographic technique with a minimum pixel width of 5micrometers . And the it was reconstructed using by two Ar-ion lasers and a He-Ne laser. In addition, the color dispersion characteristic of the fabricate grating and scaling problem of the reconstructed image were discussed.

A Zonal Mode in the Indian Ocean over the Past Millennium? Isotopic Evidence from Continental Climate Archives and Model Simulations

NASA Astrophysics Data System (ADS)

Konecky, B.; Russell, J. M.; Vuille, M.; Rodysill, J. R.; Cohen, L. R.; Chuman, A. F.; Huang, Y.

2011-12-01

We present new evidence for multi-decadal to millennial scale hydro-climatic change in the continental Indian Ocean region over the past two millennia. We assess regional hydrological variability using new records of the δD of terrestrial plant waxes from the sediments of several lakes in tropical East Africa and Indonesia. We compare these new data to previous δ18O and δD records from the region and interpret these results in light of an isotope-enabled climate model simulation of the past 130 years. Long-term trends in our data support a southward migration of the Intertropical Convergence Zone (ITCZ)'s mean position over the past millennium, bringing progressively wetter conditions and D-depleted waxes to our southernmost site (~8°S) starting around 950 C.E. while maintaining overall wet conditions at our northernmost site (~0°N) until the end of the 19th century. Superimposed on this long-term trend are a series of pronounced, multi-decadal to centennial scale isotopic excursions that are of the same timing but in opposite directions on the two sides of the Indian Ocean. These zonally asymmetric isotopic fluctuations become progressively more pronounced beginning around 1400 C.E., with the onset of Little Ice Age cool conditions recorded in sea surface temperature reconstructions from the Northern Hemisphere and the Indo-Pacific Warm Pool (IPWP). Previous work in the IPWP region suggests cooler SST, reduced boreal summer Asian monsoon intensity, and less ENSO-like activity during the Little Ice Age [Oppo et al., 2009, Nature 460:1113, and references therein], although recent paleolimnological reconstructions from Java indicate punctuated droughts during this time [Rodysill et al., 2010, Eos Trans. AGU, 91(52), Fall Meet. Suppl., Abstract PP51B-04]. Our records suggest that multi-decadal to centennial precipitation variability was in fact enhanced during this time period in parts of equatorial East Africa and western Indonesia. The direction of isotopic excursions in our records resembles the variations associated with the negative mode of the Indian Ocean Zonal Mode (IOZM) observed in modern seasonal data. To investigate the potential for an IOZM-like mode to explain multi-decadal phenomena over the past millennium, we compare the variations in our records and in other previously published δ18O and δD records from the region to a model simulation of the past 130 years by the Stable Water Isotope INtercomparison Group (SWING). We find significant multi-decadal isotopic variability associated with the IOZM in the SWING experiment. We analyze the isotopic signature associated with both the IOZM and ENSO and use these findings to help interpret the multi-decadal variability evident in continental paleoclimate archives over the past millennium in the Indian Ocean region.

Phase coupling in the cardiorespiratory interaction.

PubMed

Bahraminasab, A; Kenwright, D; Stefanovska, A; Ghasemi, F; McClintock, P V E

2008-01-01

Markovian analysis is applied to derive nonlinear stochastic equations for the reconstruction of heart rate and respiration rate variability data. A model of their 'phase' interactions is obtained for the first time, thereby gaining new insights into the strength and direction of the cardiorespiratory phase coupling. The reconstructed model can reproduce synchronisation phenomena between the cardiac and the respiratory systems, including switches in synchronisation ratio. The technique is equally applicable to the extraction of the multi-dimensional couplings between many interacting subsystems.

Disappearance of Anisotropic Intermittency in Large-amplitude MHD Turbulence and Its Comparison with Small-amplitude MHD Turbulence

NASA Astrophysics Data System (ADS)

Yang, Liping; Zhang, Lei; He, Jiansen; Tu, Chuanyi; Li, Shengtai; Wang, Xin; Wang, Linghua

2018-03-01

Multi-order structure functions in the solar wind are reported to display a monofractal scaling when sampled parallel to the local magnetic field and a multifractal scaling when measured perpendicularly. Whether and to what extent will the scaling anisotropy be weakened by the enhancement of turbulence amplitude relative to the background magnetic strength? In this study, based on two runs of the magnetohydrodynamic (MHD) turbulence simulation with different relative levels of turbulence amplitude, we investigate and compare the scaling of multi-order magnetic structure functions and magnetic probability distribution functions (PDFs) as well as their dependence on the direction of the local field. The numerical results show that for the case of large-amplitude MHD turbulence, the multi-order structure functions display a multifractal scaling at all angles to the local magnetic field, with PDFs deviating significantly from the Gaussian distribution and a flatness larger than 3 at all angles. In contrast, for the case of small-amplitude MHD turbulence, the multi-order structure functions and PDFs have different features in the quasi-parallel and quasi-perpendicular directions: a monofractal scaling and Gaussian-like distribution in the former, and a conversion of a monofractal scaling and Gaussian-like distribution into a multifractal scaling and non-Gaussian tail distribution in the latter. These results hint that when intermittencies are abundant and intense, the multifractal scaling in the structure functions can appear even if it is in the quasi-parallel direction; otherwise, the monofractal scaling in the structure functions remains even if it is in the quasi-perpendicular direction.

Stable carbon isotopes from Torneträsk, northern Sweden provide a millennial length reconstruction of summer sunshine and its relationship to Arctic circulation

NASA Astrophysics Data System (ADS)

Loader, N. J.; Young, G. H. F.; Grudd, H.; McCarroll, D.

2013-02-01

This paper presents results from the first 1100 years of a long stable carbon isotope chronology currently in development from Scots Pine (Pinus sylvestris L.) trees growing in the Torneträsk region of northern Sweden. The isotope record currently comprises a total of 74 trees with a mean annual replication of >12, thereby enabling it to be compared directly with other tree-ring based palæoclimate reconstructions from this region. In developing the reconstruction, several key topics in isotope dendroclimatology (chronology construction, replication, CO2 adjustment and age trends) were addressed. The resulting carbon isotope series is calibrated against instrumental data from the closest meteorological station at Abisko (AD1913-2008) to provide a record of June-August sunshine for northern Fennoscandia. This parameter is closely linked to the direct control of assimilation rate; Photosynthetically Active Radiation (PAR) and the indirect measures; mean July-August temperature and percent cloud cover. The coupled response of summer sunshine and temperature in this region permits a multi-parameter comparison with a local reconstruction of past temperature variability based upon tree growth proxies to explore the stability of this coupling through time. Several periods are identified where the temperature (X-ray density) and sunshine (stable carbon isotope ratio) records diverge. The most significant and sustained of these occur between c AD1200-1380 and c AD1550-1780, providing evidence for a cool, sunny, two-phase "Little Ice Age". Whilst summer sunshine reconstructed for the 20th century is significantly different from the mean of the last 1100 years (P < 0.01), conditions during the early mediæval period are similar to those experienced in northern Fennoscandia during the 20th century (P > 0.01), so it is the 17th-18th, and to a lesser extent, the 13th centuries rather than the early mediæval period that appear anomalous when viewed within the context of the last 1100 years. The observed departures between temperature and sunshine are interpreted as indicating a change in large-scale circulation associated with a southward migration of the Polar Front. Such a change, affecting the Northern Annular Mode (Arctic Oscillation) would result in more stable anticyclonic conditions (cool, bright, summers) over northern Fennoscandia, thus providing a testable mechanism for the development of a multi-phase, time-transgressive "Little Ice Age" across Europe.

Methodological framework for the probabilistic risk assessment of multi-hazards at a municipal scale: a case study in the Fella river valley, Eastern Italian Alps

NASA Astrophysics Data System (ADS)

Hussin, Haydar; van Westen, Cees; Reichenbach, Paola

2013-04-01

Local and regional authorities in mountainous areas that deal with hydro-meteorological hazards like landslides and floods try to set aside budgets for emergencies and risk mitigation. However, future losses are often not calculated in a probabilistic manner when allocating budgets or determining how much risk is acceptable. The absence of probabilistic risk estimates can create a lack of preparedness for reconstruction and risk reduction costs and a deficiency in promoting risk mitigation and prevention in an effective way. The probabilistic risk of natural hazards at local scale is usually ignored all together due to the difficulty in acknowledging, processing and incorporating uncertainties in the estimation of losses (e.g. physical damage, fatalities and monetary loss). This study attempts to set up a working framework for a probabilistic risk assessment (PRA) of landslides and floods at a municipal scale using the Fella river valley (Eastern Italian Alps) as a multi-hazard case study area. The emphasis is on the evaluation and determination of the uncertainty in the estimation of losses from multi-hazards. To carry out this framework some steps are needed: (1) by using physically based stochastic landslide and flood models we aim to calculate the probability of the physical impact on individual elements at risk, (2) this is then combined with a statistical analysis of the vulnerability and monetary value of the elements at risk in order to include their uncertainty in the risk assessment, (3) finally the uncertainty from each risk component is propagated into the loss estimation. The combined effect of landslides and floods on the direct risk to communities in narrow alpine valleys is also one of important aspects that needs to be studied.

Systematic assignment of thermodynamic constraints in metabolic network models

PubMed Central

Kümmel, Anne; Panke, Sven; Heinemann, Matthias

2006-01-01

Background The availability of genome sequences for many organisms enabled the reconstruction of several genome-scale metabolic network models. Currently, significant efforts are put into the automated reconstruction of such models. For this, several computational tools have been developed that particularly assist in identifying and compiling the organism-specific lists of metabolic reactions. In contrast, the last step of the model reconstruction process, which is the definition of the thermodynamic constraints in terms of reaction directionalities, still needs to be done manually. No computational method exists that allows for an automated and systematic assignment of reaction directions in genome-scale models. Results We present an algorithm that – based on thermodynamics, network topology and heuristic rules – automatically assigns reaction directions in metabolic models such that the reaction network is thermodynamically feasible with respect to the production of energy equivalents. It first exploits all available experimentally derived Gibbs energies of formation to identify irreversible reactions. As these thermodynamic data are not available for all metabolites, in a next step, further reaction directions are assigned on the basis of network topology considerations and thermodynamics-based heuristic rules. Briefly, the algorithm identifies reaction subsets from the metabolic network that are able to convert low-energy co-substrates into their high-energy counterparts and thus net produce energy. Our algorithm aims at disabling such thermodynamically infeasible cyclic operation of reaction subnetworks by assigning reaction directions based on a set of thermodynamics-derived heuristic rules. We demonstrate our algorithm on a genome-scale metabolic model of E. coli. The introduced systematic direction assignment yielded 130 irreversible reactions (out of 920 total reactions), which corresponds to about 70% of all irreversible reactions that are required to disable thermodynamically infeasible energy production. Conclusion Although not being fully comprehensive, our algorithm for systematic reaction direction assignment could define a significant number of irreversible reactions automatically with low computational effort. We envision that the presented algorithm is a valuable part of a computational framework that assists the automated reconstruction of genome-scale metabolic models. PMID:17123434

Rupture Complexities of Fluid Induced Microseismic Events at the Basel EGS Project

NASA Astrophysics Data System (ADS)

Folesky, Jonas; Kummerow, Jörn; Shapiro, Serge A.; Häring, Markus; Asanuma, Hiroshi

2016-04-01

Microseismic data sets of excellent quality, such as the seismicity recorded in the Basel-1 enhanced geothermal system, Switzerland, in 2006-2007, provide the opportunity to analyse induced seismic events in great detail. It is important to understand in how far seismological insights on e.g. source and rupture processes are scale dependent and how they can be transferred to fluid induced micro-seismicity. We applied the empirical Green's function (EGF) method in order to reconstruct the relative source time functions of 195 suitable microseismic events from the Basel-1 reservoir. We found 93 solutions with a clear and consistent directivity pattern. The remaining events display either no measurable directivity, are unfavourably oriented or exhibit non consistent or complex relative source time functions. In this work we focus on selected events of M ˜ 1 which show possible rupture complexities. It is demonstrated that the EGF method allows to resolve complex rupture behaviour even if it is not directly identifiable in the seismograms. We find clear evidence of rupture directivity and multi-phase rupturing in the analysed relative source time functions. The time delays between consecutive subevents lies in the order of 10ms. Amplitudes of the relative source time functions of the subevents do not always show the same azimuthal dependence, indicating dissimilarity in the rupture directivity of the subevents. Our observations support the assumption that heterogeneity on fault surfaces persists down to small scale (few tens of meters).

Poisson denoising on the sphere

NASA Astrophysics Data System (ADS)

Schmitt, J.; Starck, J. L.; Fadili, J.; Grenier, I.; Casandjian, J. M.

2009-08-01

In the scope of the Fermi mission, Poisson noise removal should improve data quality and make source detection easier. This paper presents a method for Poisson data denoising on sphere, called Multi-Scale Variance Stabilizing Transform on Sphere (MS-VSTS). This method is based on a Variance Stabilizing Transform (VST), a transform which aims to stabilize a Poisson data set such that each stabilized sample has an (asymptotically) constant variance. In addition, for the VST used in the method, the transformed data are asymptotically Gaussian. Thus, MS-VSTS consists in decomposing the data into a sparse multi-scale dictionary (wavelets, curvelets, ridgelets...), and then applying a VST on the coefficients in order to get quasi-Gaussian stabilized coefficients. In this present article, the used multi-scale transform is the Isotropic Undecimated Wavelet Transform. Then, hypothesis tests are made to detect significant coefficients, and the denoised image is reconstructed with an iterative method based on Hybrid Steepest Descent (HST). The method is tested on simulated Fermi data.

A multi-tissue type genome-scale metabolic network for analysis of whole-body systems physiology

PubMed Central

2011-01-01

Background Genome-scale metabolic reconstructions provide a biologically meaningful mechanistic basis for the genotype-phenotype relationship. The global human metabolic network, termed Recon 1, has recently been reconstructed allowing the systems analysis of human metabolic physiology and pathology. Utilizing high-throughput data, Recon 1 has recently been tailored to different cells and tissues, including the liver, kidney, brain, and alveolar macrophage. These models have shown utility in the study of systems medicine. However, no integrated analysis between human tissues has been done. Results To describe tissue-specific functions, Recon 1 was tailored to describe metabolism in three human cells: adipocytes, hepatocytes, and myocytes. These cell-specific networks were manually curated and validated based on known cellular metabolic functions. To study intercellular interactions, a novel multi-tissue type modeling approach was developed to integrate the metabolic functions for the three cell types, and subsequently used to simulate known integrated metabolic cycles. In addition, the multi-tissue model was used to study diabetes: a pathology with systemic properties. High-throughput data was integrated with the network to determine differential metabolic activity between obese and type II obese gastric bypass patients in a whole-body context. Conclusion The multi-tissue type modeling approach presented provides a platform to study integrated metabolic states. As more cell and tissue-specific models are released, it is critical to develop a framework in which to study their interdependencies. PMID:22041191

Robust Face Recognition via Multi-Scale Patch-Based Matrix Regression.

PubMed

Gao, Guangwei; Yang, Jian; Jing, Xiaoyuan; Huang, Pu; Hua, Juliang; Yue, Dong

2016-01-01

In many real-world applications such as smart card solutions, law enforcement, surveillance and access control, the limited training sample size is the most fundamental problem. By making use of the low-rank structural information of the reconstructed error image, the so-called nuclear norm-based matrix regression has been demonstrated to be effective for robust face recognition with continuous occlusions. However, the recognition performance of nuclear norm-based matrix regression degrades greatly in the face of the small sample size problem. An alternative solution to tackle this problem is performing matrix regression on each patch and then integrating the outputs from all patches. However, it is difficult to set an optimal patch size across different databases. To fully utilize the complementary information from different patch scales for the final decision, we propose a multi-scale patch-based matrix regression scheme based on which the ensemble of multi-scale outputs can be achieved optimally. Extensive experiments on benchmark face databases validate the effectiveness and robustness of our method, which outperforms several state-of-the-art patch-based face recognition algorithms.

Statistical shape model-based reconstruction of a scaled, patient-specific surface model of the pelvis from a single standard AP x-ray radiograph

DOE Office of Scientific and Technical Information (OSTI.GOV)

Zheng Guoyan

2010-04-15

Purpose: The aim of this article is to investigate the feasibility of using a statistical shape model (SSM)-based reconstruction technique to derive a scaled, patient-specific surface model of the pelvis from a single standard anteroposterior (AP) x-ray radiograph and the feasibility of estimating the scale of the reconstructed surface model by performing a surface-based 3D/3D matching. Methods: Data sets of 14 pelvises (one plastic bone, 12 cadavers, and one patient) were used to validate the single-image based reconstruction technique. This reconstruction technique is based on a hybrid 2D/3D deformable registration process combining a landmark-to-ray registration with a SSM-based 2D/3D reconstruction.more » The landmark-to-ray registration was used to find an initial scale and an initial rigid transformation between the x-ray image and the SSM. The estimated scale and rigid transformation were used to initialize the SSM-based 2D/3D reconstruction. The optimal reconstruction was then achieved in three stages by iteratively matching the projections of the apparent contours extracted from a 3D model derived from the SSM to the image contours extracted from the x-ray radiograph: Iterative affine registration, statistical instantiation, and iterative regularized shape deformation. The image contours are first detected by using a semiautomatic segmentation tool based on the Livewire algorithm and then approximated by a set of sparse dominant points that are adaptively sampled from the detected contours. The unknown scales of the reconstructed models were estimated by performing a surface-based 3D/3D matching between the reconstructed models and the associated ground truth models that were derived from a CT-based reconstruction method. Such a matching also allowed for computing the errors between the reconstructed models and the associated ground truth models. Results: The technique could reconstruct the surface models of all 14 pelvises directly from the landmark-based initialization. Depending on the surface-based matching techniques, the reconstruction errors were slightly different. When a surface-based iterative affine registration was used, an average reconstruction error of 1.6 mm was observed. This error was increased to 1.9 mm, when a surface-based iterative scaled rigid registration was used. Conclusions: It is feasible to reconstruct a scaled, patient-specific surface model of the pelvis from single standard AP x-ray radiograph using the present approach. The unknown scale of the reconstructed model can be estimated by performing a surface-based 3D/3D matching.« less

Generalization of the Lyot filter and its application to snapshot spectral imaging.

PubMed

Gorman, Alistair; Fletcher-Holmes, David William; Harvey, Andrew Robert

2010-03-15

A snapshot multi-spectral imaging technique is described which employs multiple cascaded birefringent interferometers to simultaneously spectrally filter and demultiplex multiple spectral images onto a single detector array. Spectral images are recorded directly without the need for inversion and without rejection of light and so the technique offers the potential for high signal-to-noise ratio. An example of an eight-band multi-spectral movie sequence is presented; we believe this is the first such demonstration of a technique able to record multi-spectral movie sequences without the need for computer reconstruction.

Disentangling Puzzles of Spatial Scales and Participation in Environmental Governance—The Case of Governance Re-scaling Through the European Water Framework Directive

NASA Astrophysics Data System (ADS)

Newig, Jens; Schulz, Daniel; Jager, Nicolas W.

2016-12-01

This article attempts to shed new light on prevailing puzzles of spatial scales in multi-level, participatory governance as regards the democratic legitimacy and environmental effectiveness of governance systems. We focus on the governance re-scaling by the European Water Framework Directive, which introduced new governance scales (mandated river basin management) and demands consultation of citizens and encourages `active involvement' of stakeholders. This allows to examine whether and how re-scaling through deliberate governance interventions impacts on democratic legitimacy and effective environmental policy delivery. To guide the enquiry, this article organizes existing—partly contradictory—claims on the relation of scale, democratic legitimacy, and environmental effectiveness into three clusters of mechanisms, integrating insights from multi-level governance, social-ecological systems, and public participation. We empirically examine Water Framework Directive implementation in a comparative case study of multi-level systems in the light of the suggested mechanisms. We compare two planning areas in Germany: North Rhine Westphalia and Lower Saxony. Findings suggest that the Water Framework Directive did have some impact on institutionalizing hydrological scales and participation. Local participation appears generally both more effective and legitimate than on higher levels, pointing to the need for yet more tailored multi-level governance approaches, depending on whether environmental knowledge or advocacy is sought. We find mixed results regarding the potential of participation to bridge spatial `misfits' between ecological and administrative scales of governance, depending on the historical institutionalization of governance on ecological scales. Polycentricity, finally, appeared somewhat favorable in effectiveness terms with some distinct differences regarding polycentricity in planning vs. polycentricity in implementation.

Disentangling Puzzles of Spatial Scales and Participation in Environmental Governance-The Case of Governance Re-scaling Through the European Water Framework Directive.

PubMed

Newig, Jens; Schulz, Daniel; Jager, Nicolas W

2016-12-01

This article attempts to shed new light on prevailing puzzles of spatial scales in multi-level, participatory governance as regards the democratic legitimacy and environmental effectiveness of governance systems. We focus on the governance re-scaling by the European Water Framework Directive, which introduced new governance scales (mandated river basin management) and demands consultation of citizens and encourages 'active involvement' of stakeholders. This allows to examine whether and how re-scaling through deliberate governance interventions impacts on democratic legitimacy and effective environmental policy delivery. To guide the enquiry, this article organizes existing-partly contradictory-claims on the relation of scale, democratic legitimacy, and environmental effectiveness into three clusters of mechanisms, integrating insights from multi-level governance, social-ecological systems, and public participation. We empirically examine Water Framework Directive implementation in a comparative case study of multi-level systems in the light of the suggested mechanisms. We compare two planning areas in Germany: North Rhine Westphalia and Lower Saxony. Findings suggest that the Water Framework Directive did have some impact on institutionalizing hydrological scales and participation. Local participation appears generally both more effective and legitimate than on higher levels, pointing to the need for yet more tailored multi-level governance approaches, depending on whether environmental knowledge or advocacy is sought. We find mixed results regarding the potential of participation to bridge spatial 'misfits' between ecological and administrative scales of governance, depending on the historical institutionalization of governance on ecological scales. Polycentricity, finally, appeared somewhat favorable in effectiveness terms with some distinct differences regarding polycentricity in planning vs. polycentricity in implementation.

A Multi Directional Perfect Reconstruction Filter Bank Designed with 2-D Eigenfilter Approach: Application to Ultrasound Speckle Reduction.

PubMed

Nagare, Mukund B; Patil, Bhushan D; Holambe, Raghunath S

2017-02-01

B-Mode ultrasound images are degraded by inherent noise called Speckle, which creates a considerable impact on image quality. This noise reduces the accuracy of image analysis and interpretation. Therefore, reduction of speckle noise is an essential task which improves the accuracy of the clinical diagnostics. In this paper, a Multi-directional perfect-reconstruction (PR) filter bank is proposed based on 2-D eigenfilter approach. The proposed method used for the design of two-dimensional (2-D) two-channel linear-phase FIR perfect-reconstruction filter bank. In this method, the fan shaped, diamond shaped and checkerboard shaped filters are designed. The quadratic measure of the error function between the passband and stopband of the filter has been used an objective function. First, the low-pass analysis filter is designed and then the PR condition has been expressed as a set of linear constraints on the corresponding synthesis low-pass filter. Subsequently, the corresponding synthesis filter is designed using the eigenfilter design method with linear constraints. The newly designed 2-D filters are used in translation invariant pyramidal directional filter bank (TIPDFB) for reduction of speckle noise in ultrasound images. The proposed 2-D filters give better symmetry, regularity and frequency selectivity of the filters in comparison to existing design methods. The proposed method is validated on synthetic and real ultrasound data which ensures improvement in the quality of ultrasound images and efficiently suppresses the speckle noise compared to existing methods.

Persistent multi-scale fluctuations shift European hydroclimate to its millennial boundaries.

PubMed

Markonis, Y; Hanel, M; Máca, P; Kyselý, J; Cook, E R

2018-05-02

In recent years, there has been growing concern about the effect of global warming on water resources, especially at regional and continental scales. The last IPCC report on extremes states that there is medium confidence about an increase on European drought frequency during twentieth century. Here we use the Old World Drought Atlas palaeoclimatic reconstruction to show that when Europe's hydroclimate is examined under a millennial, multi-scale perspective, a significant decrease in dryness can be observed since 1920 over most of central and northern Europe. On the contrary, in the south, drying conditions have prevailed, creating an intense north-to-south dipole. In both cases, hydroclimatic conditions have shifted to, and in some regions exceeded, their millennial boundaries, remaining at these extreme levels for the longest period of the 1000-year-long record.

Detection of Neuron Membranes in Electron Microscopy Images Using Multi-scale Context and Radon-Like Features

DOE Office of Scientific and Technical Information (OSTI.GOV)

Seyedhosseini, Mojtaba; Kumar, Ritwik; Jurrus, Elizabeth R.

2011-10-01

Automated neural circuit reconstruction through electron microscopy (EM) images is a challenging problem. In this paper, we present a novel method that exploits multi-scale contextual information together with Radon-like features (RLF) to learn a series of discriminative models. The main idea is to build a framework which is capable of extracting information about cell membranes from a large contextual area of an EM image in a computationally efficient way. Toward this goal, we extract RLF that can be computed efficiently from the input image and generate a scale-space representation of the context images that are obtained at the output ofmore » each discriminative model in the series. Compared to a single-scale model, the use of a multi-scale representation of the context image gives the subsequent classifiers access to a larger contextual area in an effective way. Our strategy is general and independent of the classifier and has the potential to be used in any context based framework. We demonstrate that our method outperforms the state-of-the-art algorithms in detection of neuron membranes in EM images.« less

Segmentation of hepatic artery in multi-phase liver CT using directional dilation and connectivity analysis

NASA Astrophysics Data System (ADS)

Wang, Lei; Schnurr, Alena-Kathrin; Zidowitz, Stephan; Georgii, Joachim; Zhao, Yue; Razavi, Mohammad; Schwier, Michael; Hahn, Horst K.; Hansen, Christian

2016-03-01

Segmentation of hepatic arteries in multi-phase computed tomography (CT) images is indispensable in liver surgery planning. During image acquisition, the hepatic artery is enhanced by the injection of contrast agent. The enhanced signals are often not stably acquired due to non-optimal contrast timing. Other vascular structure, such as hepatic vein or portal vein, can be enhanced as well in the arterial phase, which can adversely affect the segmentation results. Furthermore, the arteries might suffer from partial volume effects due to their small diameter. To overcome these difficulties, we propose a framework for robust hepatic artery segmentation requiring a minimal amount of user interaction. First, an efficient multi-scale Hessian-based vesselness filter is applied on the artery phase CT image, aiming to enhance vessel structures with specified diameter range. Second, the vesselness response is processed using a Bayesian classifier to identify the most probable vessel structures. Considering the vesselness filter normally performs not ideally on the vessel bifurcations or the segments corrupted by noise, two vessel-reconnection techniques are proposed. The first technique uses a directional morphological operator to dilate vessel segments along their centerline directions, attempting to fill the gap between broken vascular segments. The second technique analyzes the connectivity of vessel segments and reconnects disconnected segments and branches. Finally, a 3D vessel tree is reconstructed. The algorithm has been evaluated using 18 CT images of the liver. To quantitatively measure the similarities between segmented and reference vessel trees, the skeleton coverage and mean symmetric distance are calculated to quantify the agreement between reference and segmented vessel skeletons, resulting in an average of 0:55+/-0:27 and 12:7+/-7:9 mm (mean standard deviation), respectively.

Optimal Ranking Regime Analysis of TreeFlow Dendrohydrological Reconstructions

NASA Astrophysics Data System (ADS)

Mauget, S. A.

2017-12-01

The Optimal Ranking Regime (ORR) method was used to identify 6-100 year time windows containing significant ranking sequences in 55 western U.S. streamflow reconstructions, and reconstructions of the level of the Great Salt Lake and San Francisco Bay salinity during 1500-2007. The method's ability to identify optimally significant and non-overlapping runs of low and high rankings allows it to re-express a reconstruction time series as a simplified sequence of regime segments marking intra- to multi-decadal (IMD) periods of low or high streamflow, lake level, or salinity. Those ORR sequences, referred to here as Z-lines, can be plotted to identify consistent regime patterns in the analysis of numerous reconstructions. The Z-lines for the 57 reconstructions evaluated here show a common pattern of IMD cycles of drought and pluvial periods during the late 16th and 17th centuries, a relatively dormant period during the 18th century, and the reappearance of alternating dry and wet IMD periods during the 19th and early 20th centuries. Although this pattern suggests the possibility of similarly active and inactive oceanic modes in the North Pacific and North Atlantic, such centennial-scale patterns are not evident in the ORR analyses of reconstructed Pacific Decadal Oscillation (PDO), El Niño-Southern Oscillation, and North Atlantic seas-surface temperature variation. But given the inconsistency in the analyses of four PDO reconstructions the possible role of centennial-scale oceanic mechanisms is uncertain. In future research the ORR method might be applied to climate reconstructions around the Pacific Basin to try to resolve this uncertainty. Given its ability to compare regime patterns in climate reconstructions derived using different methods and proxies, the method may also be used in future research to evaluate long-term regional temperature reconstructions.

Automatic Tool for Local Assembly Structures

DOE Office of Scientific and Technical Information (OSTI.GOV)

Whole community shotgun sequencing of total DNA (i.e. metagenomics) and total RNA (i.e. metatranscriptomics) has provided a wealth of information in the microbial community structure, predicted functions, metabolic networks, and is even able to reconstruct complete genomes directly. Here we present ATLAS (Automatic Tool for Local Assembly Structures) a comprehensive pipeline for assembly, annotation, genomic binning of metagenomic and metatranscriptomic data with an integrated framework for Multi-Omics. This will provide an open source tool for the Multi-Omic community at large.

The volcanic double event at the dawn of the Dark Ages

NASA Astrophysics Data System (ADS)

Toohey, Matthew; Sigl, Michael; Krüger, Kirstin; Stordal, Frode; Svensen, Henrik

2016-04-01

Documentary records report dimming of the sun by a mysterious dust cloud covering Europe for 12-18 months in 536-537 CE, which was followed by a general climatic downturn and global societal decline. Tree rings and other climate proxies have corroborated the occurrence of this event as well as characterized its extent and duration, but failed to trace its origin. New volcanic timeseries, based on a multi-disciplinary approach that integrates novel, global-scale time markers with state-of-the-art continuous ice core aerosol measurements, automated objective ice-core layer counting, tephra analyses, and detailed examination of historical archives, show unequivocally that the 536-540 climate anomaly was concurrent with two or more major volcanic eruptions, with the largest eruptions likely occurring in the years 536 and 540 CE. Using a coupled aerosol-climate model, with eruption parameters constrained by ice core records and historical observations of the aerosol cloud, we reconstruct the radiative forcing resulting from the 536/540 CE eruption sequence. Comparing with existing reconstructions of the volcanic forcing over the past 1200 years, we estimate that the decadal-scale Northern Hemisphere (NH) extra-tropical radiative forcing from this volcanic "double event" was larger than that of any known period. Earth system model simulations including the volcanic forcing are used to explore the temperature and precipitation anomalies associated with the eruptions, and compared to available proxy records, including maximum latewood density (MXD) temperature reconstructions. Special attention is placed on the decadal persistence of the cooling signal in tree rings, and whether the climate model simulations reproduce such long-term climate anomalies. Finally, the climate model results are used to explore the probability of socioeconomic crisis resulting directly from the volcanic radiative forcing in different regions of the world.

3D deblending of simultaneous source data based on 3D multi-scale shaping operator

NASA Astrophysics Data System (ADS)

Zu, Shaohuan; Zhou, Hui; Mao, Weijian; Gong, Fei; Huang, Weilin

2018-04-01

We propose an iterative three-dimensional (3D) deblending scheme using 3D multi-scale shaping operator to separate 3D simultaneous source data. The proposed scheme is based on the property that signal is coherent, whereas interference is incoherent in some domains, e.g., common receiver domain and common midpoint domain. In two-dimensional (2D) blended record, the coherency difference of signal and interference is in only one spatial direction. Compared with 2D deblending, the 3D deblending can take more sparse constraints into consideration to obtain better performance, e.g., in 3D common receiver gather, the coherency difference is in two spatial directions. Furthermore, with different levels of coherency, signal and interference distribute in different scale curvelet domains. In both 2D and 3D blended records, most coherent signal locates in coarse scale curvelet domain, while most incoherent interference distributes in fine scale curvelet domain. The scale difference is larger in 3D deblending, thus, we apply the multi-scale shaping scheme to further improve the 3D deblending performance. We evaluate the performance of 3D and 2D deblending with the multi-scale and global shaping operators, respectively. One synthetic and one field data examples demonstrate the advantage of the 3D deblending with 3D multi-scale shaping operator.

A Picea crassifolia Tree-Ring Width-Based Temperature Reconstruction for the Mt. Dongda Region, Northwest China, and Its Relationship to Large-Scale Climate Forcing

PubMed Central

Liu, Yu; Sun, Changfeng; Li, Qiang; Cai, Qiufang

2016-01-01

The historical May–October mean temperature since 1831 was reconstructed based on tree-ring width of Qinghai spruce (Picea crassifolia Kom.) collected on Mt. Dongda, North of the Hexi Corridor in Northwest China. The regression model explained 46.6% of the variance of the instrumentally observed temperature. The cold periods in the reconstruction were 1831–1889, 1894–1901, 1908–1934 and 1950–1952, and the warm periods were 1890–1893, 1902–1907, 1935–1949 and 1953–2011. During the instrumental period (1951–2011), an obvious warming trend appeared in the last twenty years. The reconstruction displayed similar patterns to a temperature reconstruction from the east-central Tibetan Plateau at the inter-decadal timescale, indicating that the temperature reconstruction in this study was a reliable proxy for Northwest China. It was also found that the reconstruction series had good consistency with the Northern Hemisphere temperature at a decadal timescale. Multi-taper method spectral analysis detected some low- and high-frequency cycles (2.3–2.4-year, 2.8-year, 3.4–3.6-year, 5.0-year, 9.9-year and 27.0-year). Combining these cycles, the relationship of the low-frequency change with the Pacific Decadal Oscillation (PDO), North Atlantic Oscillation (NAO) and Southern Oscillation (SO) suggested that the reconstructed temperature variations may be related to large-scale atmospheric-oceanic variations. Major volcanic eruptions were partly reflected in the reconstructed temperatures after high-pass filtering; these events promoted anomalous cooling in this region. The results of this study not only provide new information for assessing the long-term temperature changes in the Hexi Corridor of Northwest China, but also further demonstrate the effects of large-scale atmospheric-oceanic circulation on climate change in Northwest China. PMID:27509206

Multi-threshold de-noising of electrical imaging logging data based on the wavelet packet transform

NASA Astrophysics Data System (ADS)

Xie, Fang; Xiao, Chengwen; Liu, Ruilin; Zhang, Lili

2017-08-01

A key problem of effectiveness evaluation for fractured-vuggy carbonatite reservoir is how to accurately extract fracture and vug information from electrical imaging logging data. Drill bits quaked during drilling and resulted in rugged surfaces of borehole walls and thus conductivity fluctuations in electrical imaging logging data. The occurrence of the conductivity fluctuations (formation background noise) directly affects the fracture/vug information extraction and reservoir effectiveness evaluation. We present a multi-threshold de-noising method based on wavelet packet transform to eliminate the influence of rugged borehole walls. The noise is present as fluctuations in button-electrode conductivity curves and as pockmarked responses in electrical imaging logging static images. The noise has responses in various scales and frequency ranges and has low conductivity compared with fractures or vugs. Our de-noising method is to decompose the data into coefficients with wavelet packet transform on a quadratic spline basis, then shrink high-frequency wavelet packet coefficients in different resolutions with minimax threshold and hard-threshold function, and finally reconstruct the thresholded coefficients. We use electrical imaging logging data collected from fractured-vuggy Ordovician carbonatite reservoir in Tarim Basin to verify the validity of the multi-threshold de-noising method. Segmentation results and extracted parameters are shown as well to prove the effectiveness of the de-noising procedure.

Computer Aided Battery Engineering Consortium

DOE Office of Scientific and Technical Information (OSTI.GOV)

Pesaran, Ahmad

A multi-national lab collaborative team was assembled that includes experts from academia and industry to enhance recently developed Computer-Aided Battery Engineering for Electric Drive Vehicles (CAEBAT)-II battery crush modeling tools and to develop microstructure models for electrode design - both computationally efficient. Task 1. The new Multi-Scale Multi-Domain model framework (GH-MSMD) provides 100x to 1,000x computation speed-up in battery electrochemical/thermal simulation while retaining modularity of particles and electrode-, cell-, and pack-level domains. The increased speed enables direct use of the full model in parameter identification. Task 2. Mechanical-electrochemical-thermal (MECT) models for mechanical abuse simulation were simultaneously coupled, enabling simultaneous modelingmore » of electrochemical reactions during the short circuit, when necessary. The interactions between mechanical failure and battery cell performance were studied, and the flexibility of the model for various batteries structures and loading conditions was improved. Model validation is ongoing to compare with test data from Sandia National Laboratories. The ABDT tool was established in ANSYS. Task 3. Microstructural modeling was conducted to enhance next-generation electrode designs. This 3- year project will validate models for a variety of electrodes, complementing Advanced Battery Research programs. Prototype tools have been developed for electrochemical simulation and geometric reconstruction.« less

Fast Acquisition and Reconstruction of Optical Coherence Tomography Images via Sparse Representation

PubMed Central

Li, Shutao; McNabb, Ryan P.; Nie, Qing; Kuo, Anthony N.; Toth, Cynthia A.; Izatt, Joseph A.; Farsiu, Sina

2014-01-01

In this paper, we present a novel technique, based on compressive sensing principles, for reconstruction and enhancement of multi-dimensional image data. Our method is a major improvement and generalization of the multi-scale sparsity based tomographic denoising (MSBTD) algorithm we recently introduced for reducing speckle noise. Our new technique exhibits several advantages over MSBTD, including its capability to simultaneously reduce noise and interpolate missing data. Unlike MSBTD, our new method does not require an a priori high-quality image from the target imaging subject and thus offers the potential to shorten clinical imaging sessions. This novel image restoration method, which we termed sparsity based simultaneous denoising and interpolation (SBSDI), utilizes sparse representation dictionaries constructed from previously collected datasets. We tested the SBSDI algorithm on retinal spectral domain optical coherence tomography images captured in the clinic. Experiments showed that the SBSDI algorithm qualitatively and quantitatively outperforms other state-of-the-art methods. PMID:23846467

3D virtual human atria: A computational platform for studying clinical atrial fibrillation

PubMed Central

Aslanidi, Oleg V; Colman, Michael A; Stott, Jonathan; Dobrzynski, Halina; Boyett, Mark R; Holden, Arun V; Zhang, Henggui

2011-01-01

Despite a vast amount of experimental and clinical data on the underlying ionic, cellular and tissue substrates, the mechanisms of common atrial arrhythmias (such as atrial fibrillation, AF) arising from the functional interactions at the whole atria level remain unclear. Computational modelling provides a quantitative framework for integrating such multi-scale data and understanding the arrhythmogenic behaviour that emerges from the collective spatio-temporal dynamics in all parts of the heart. In this study, we have developed a multi-scale hierarchy of biophysically detailed computational models for the human atria – 3D virtual human atria. Primarily, diffusion tensor MRI reconstruction of the tissue geometry and fibre orientation in the human sinoatrial node (SAN) and surrounding atrial muscle was integrated into the 3D model of the whole atria dissected from the Visible Human dataset. The anatomical models were combined with the heterogeneous atrial action potential (AP) models, and used to simulate the AP conduction in the human atria under various conditions: SAN pacemaking and atrial activation in the normal rhythm, break-down of regular AP wave-fronts during rapid atrial pacing, and the genesis of multiple re-entrant wavelets characteristic of AF. Contributions of different properties of the tissue to the mechanisms of the normal rhythm and AF arrhythmogenesis are investigated and discussed. The 3D model of the atria itself was incorporated into the torso model to simulate the body surface ECG patterns in the normal and arrhythmic conditions. Therefore, a state-of-the-art computational platform has been developed, which can be used for studying multi-scale electrical phenomena during atrial conduction and arrhythmogenesis. Results of such simulations can be directly compared with experimental electrophysiological and endocardial mapping data, as well as clinical ECG recordings. More importantly, the virtual human atria can provide validated means for directly dissecting 3D excitation propagation processes within the atrial walls from an in vivo whole heart, which are beyond the current technical capabilities of experimental or clinical set-ups. PMID:21762716

East Asian warm season temperature variations over the past two millennia.

PubMed

Zhang, Huan; Werner, Johannes P; García-Bustamante, Elena; González-Rouco, Fidel; Wagner, Sebastian; Zorita, Eduardo; Fraedrich, Klaus; Jungclaus, Johann H; Ljungqvist, Fredrik Charpentier; Zhu, Xiuhua; Xoplaki, Elena; Chen, Fahu; Duan, Jianping; Ge, Quansheng; Hao, Zhixin; Ivanov, Martin; Schneider, Lea; Talento, Stefanie; Wang, Jianglin; Yang, Bao; Luterbacher, Jürg

2018-05-16

East Asia has experienced strong warming since the 1960s accompanied by an increased frequency of heat waves and shrinking glaciers over the Tibetan Plateau and the Tien Shan. Here, we place the recent warmth in a long-term perspective by presenting a new spatially resolved warm-season (May-September) temperature reconstruction for the period 1-2000 CE using 59 multiproxy records from a wide range of East Asian regions. Our Bayesian Hierarchical Model (BHM) based reconstructions generally agree with earlier shorter regional temperature reconstructions but are more stable due to additional temperature sensitive proxies. We find a rather warm period during the first two centuries CE, followed by a multi-century long cooling period and again a warm interval covering the 900-1200 CE period (Medieval Climate Anomaly, MCA). The interval from 1450 to 1850 CE (Little Ice Age, LIA) was characterized by cooler conditions and the last 150 years are characterized by a continuous warming until recent times. Our results also suggest that the 1990s were likely the warmest decade in at least 1200 years. The comparison between an ensemble of climate model simulations and our summer reconstructions since 850 CE shows good agreement and an important role of internal variability and external forcing on multi-decadal time-scales.

Whole-body direct 4D parametric PET imaging employing nested generalized Patlak expectation-maximization reconstruction

PubMed Central

Karakatsanis, Nicolas A.; Casey, Michael E.; Lodge, Martin A.; Rahmim, Arman; Zaidi, Habib

2016-01-01

Whole-body (WB) dynamic PET has recently demonstrated its potential in translating the quantitative benefits of parametric imaging to the clinic. Post-reconstruction standard Patlak (sPatlak) WB graphical analysis utilizes multi-bed multi-pass PET acquisition to produce quantitative WB images of the tracer influx rate Ki as a complimentary metric to the semi-quantitative standardized uptake value (SUV). The resulting Ki images may suffer from high noise due to the need for short acquisition frames. Meanwhile, a generalized Patlak (gPatlak) WB post-reconstruction method had been suggested to limit Ki bias of sPatlak analysis at regions with non-negligible 18F-FDG uptake reversibility; however, gPatlak analysis is non-linear and thus can further amplify noise. In the present study, we implemented, within the open-source Software for Tomographic Image Reconstruction (STIR) platform, a clinically adoptable 4D WB reconstruction framework enabling efficient estimation of sPatlak and gPatlak images directly from dynamic multi-bed PET raw data with substantial noise reduction. Furthermore, we employed the optimization transfer methodology to accelerate 4D expectation-maximization (EM) convergence by nesting the fast image-based estimation of Patlak parameters within each iteration cycle of the slower projection-based estimation of dynamic PET images. The novel gPatlak 4D method was initialized from an optimized set of sPatlak ML-EM iterations to facilitate EM convergence. Initially, realistic simulations were conducted utilizing published 18F-FDG kinetic parameters coupled with the XCAT phantom. Quantitative analyses illustrated enhanced Ki target-to-background ratio (TBR) and especially contrast-to-noise ratio (CNR) performance for the 4D vs. the indirect methods and static SUV. Furthermore, considerable convergence acceleration was observed for the nested algorithms involving 10–20 sub-iterations. Moreover, systematic reduction in Ki % bias and improved TBR were observed for gPatlak vs. sPatlak. Finally, validation on clinical WB dynamic data demonstrated the clinical feasibility and superior Ki CNR performance for the proposed 4D framework compared to indirect Patlak and SUV imaging. PMID:27383991

Whole-body direct 4D parametric PET imaging employing nested generalized Patlak expectation-maximization reconstruction

NASA Astrophysics Data System (ADS)

Karakatsanis, Nicolas A.; Casey, Michael E.; Lodge, Martin A.; Rahmim, Arman; Zaidi, Habib

2016-08-01

Whole-body (WB) dynamic PET has recently demonstrated its potential in translating the quantitative benefits of parametric imaging to the clinic. Post-reconstruction standard Patlak (sPatlak) WB graphical analysis utilizes multi-bed multi-pass PET acquisition to produce quantitative WB images of the tracer influx rate K i as a complimentary metric to the semi-quantitative standardized uptake value (SUV). The resulting K i images may suffer from high noise due to the need for short acquisition frames. Meanwhile, a generalized Patlak (gPatlak) WB post-reconstruction method had been suggested to limit K i bias of sPatlak analysis at regions with non-negligible 18F-FDG uptake reversibility; however, gPatlak analysis is non-linear and thus can further amplify noise. In the present study, we implemented, within the open-source software for tomographic image reconstruction platform, a clinically adoptable 4D WB reconstruction framework enabling efficient estimation of sPatlak and gPatlak images directly from dynamic multi-bed PET raw data with substantial noise reduction. Furthermore, we employed the optimization transfer methodology to accelerate 4D expectation-maximization (EM) convergence by nesting the fast image-based estimation of Patlak parameters within each iteration cycle of the slower projection-based estimation of dynamic PET images. The novel gPatlak 4D method was initialized from an optimized set of sPatlak ML-EM iterations to facilitate EM convergence. Initially, realistic simulations were conducted utilizing published 18F-FDG kinetic parameters coupled with the XCAT phantom. Quantitative analyses illustrated enhanced K i target-to-background ratio (TBR) and especially contrast-to-noise ratio (CNR) performance for the 4D versus the indirect methods and static SUV. Furthermore, considerable convergence acceleration was observed for the nested algorithms involving 10-20 sub-iterations. Moreover, systematic reduction in K i % bias and improved TBR were observed for gPatlak versus sPatlak. Finally, validation on clinical WB dynamic data demonstrated the clinical feasibility and superior K i CNR performance for the proposed 4D framework compared to indirect Patlak and SUV imaging.

Distributed wavefront reconstruction with SABRE for real-time large scale adaptive optics control

NASA Astrophysics Data System (ADS)

Brunner, Elisabeth; de Visser, Cornelis C.; Verhaegen, Michel

2014-08-01

We present advances on Spline based ABerration REconstruction (SABRE) from (Shack-)Hartmann (SH) wavefront measurements for large-scale adaptive optics systems. SABRE locally models the wavefront with simplex B-spline basis functions on triangular partitions which are defined on the SH subaperture array. This approach allows high accuracy through the possible use of nonlinear basis functions and great adaptability to any wavefront sensor and pupil geometry. The main contribution of this paper is a distributed wavefront reconstruction method, D-SABRE, which is a 2 stage procedure based on decomposing the sensor domain into sub-domains each supporting a local SABRE model. D-SABRE greatly decreases the computational complexity of the method and removes the need for centralized reconstruction while obtaining a reconstruction accuracy for simulated E-ELT turbulences within 1% of the global method's accuracy. Further, a generalization of the methodology is proposed making direct use of SH intensity measurements which leads to an improved accuracy of the reconstruction compared to centroid algorithms using spatial gradients.

High-Resolution Multi-Shot Spiral Diffusion Tensor Imaging with Inherent Correction of Motion-Induced Phase Errors

PubMed Central

Truong, Trong-Kha; Guidon, Arnaud

2014-01-01

Purpose To develop and compare three novel reconstruction methods designed to inherently correct for motion-induced phase errors in multi-shot spiral diffusion tensor imaging (DTI) without requiring a variable-density spiral trajectory or a navigator echo. Theory and Methods The first method simply averages magnitude images reconstructed with sensitivity encoding (SENSE) from each shot, whereas the second and third methods rely on SENSE to estimate the motion-induced phase error for each shot, and subsequently use either a direct phase subtraction or an iterative conjugate gradient (CG) algorithm, respectively, to correct for the resulting artifacts. Numerical simulations and in vivo experiments on healthy volunteers were performed to assess the performance of these methods. Results The first two methods suffer from a low signal-to-noise ratio (SNR) or from residual artifacts in the reconstructed diffusion-weighted images and fractional anisotropy maps. In contrast, the third method provides high-quality, high-resolution DTI results, revealing fine anatomical details such as a radial diffusion anisotropy in cortical gray matter. Conclusion The proposed SENSE+CG method can inherently and effectively correct for phase errors, signal loss, and aliasing artifacts caused by both rigid and nonrigid motion in multi-shot spiral DTI, without increasing the scan time or reducing the SNR. PMID:23450457

Lensfree diffractive tomography for the imaging of 3D cell cultures

NASA Astrophysics Data System (ADS)

Berdeu, Anthony; Momey, Fabien; Dinten, Jean-Marc; Gidrol, Xavier; Picollet-D'hahan, Nathalie; Allier, Cédric

2017-02-01

New microscopes are needed to help reaching the full potential of 3D organoid culture studies by gathering large quantitative and systematic data over extended periods of time while preserving the integrity of the living sample. In order to reconstruct large volumes while preserving the ability to catch every single cell, we propose new imaging platforms based on lens-free microscopy, a technic which is addressing these needs in the context of 2D cell culture, providing label-free and non-phototoxic acquisition of large datasets. We built lens-free diffractive tomography setups performing multi-angle acquisitions of 3D organoid cultures embedded in Matrigel and developed dedicated 3D holographic reconstruction algorithms based on the Fourier diffraction theorem. Nonetheless, holographic setups do not record the phase of the incident wave front and the biological samples in Petri dish strongly limit the angular coverage. These limitations introduce numerous artefacts in the sample reconstruction. We developed several methods to overcome them, such as multi-wavelength imaging or iterative phase retrieval. The most promising technic currently developed is based on a regularised inverse problem approach directly applied on the 3D volume to reconstruct. 3D reconstructions were performed on several complex samples such as 3D networks or spheroids embedded in capsules with large reconstructed volumes up to 25 mm3 while still being able to identify single cells. To our knowledge, this is the first time that such an inverse problem approach is implemented in the context of lens-free diffractive tomography enabling to reconstruct large fully 3D volumes of unstained biological samples.

Stochastic simulation and decadal prediction of hydroclimate in the Western Himalayas

NASA Astrophysics Data System (ADS)

Robertson, A. W.; Chekroun, M. D.; Cook, E.; D'Arrigo, R.; Ghil, M.; Greene, A. M.; Holsclaw, T.; Kondrashov, D. A.; Lall, U.; Lu, M.; Smyth, P.

2012-12-01

Improved estimates of climate over the next 10 to 50 years are needed for long-term planning in water resource and flood management. However, the task of effectively incorporating the results of climate change research into decision-making face a ``double conflict of scales'': the temporal scales of climate model projections are too long, while their usable spatial scales (global to planetary) are much larger than those needed for actual decision making (at the regional to local level). This work is designed to help tackle this ``double conflict'' in the context of water management over monsoonal Asia, based on dendroclimatic multi-century reconstructions of drought indices and river flows. We identify low-frequency modes of variability with time scales from interannual to interdecadal based on these series, and then generate future scenarios based on (a) empirical model decadal predictions, and (b) stochastic simulations generated with autoregressive models that reproduce the power spectrum of the data. Finally, we consider how such scenarios could be used to develop reservoir optimization models. Results will be presented based on multi-century Upper Indus river discharge reconstructions that exhibit a strong periodicity near 27 years that is shown to yield some retrospective forecasting skill over the 1700-2000 period, at a 15-yr yield time. Stochastic simulations of annual PDSI drought index values over the Upper Indus basin are constructed using Empirical Model Reduction; their power spectra are shown to be quite realistic, with spectral peaks near 5--8 years.

Joint MR-PET reconstruction using a multi-channel image regularizer

PubMed Central

Koesters, Thomas; Otazo, Ricardo; Bredies, Kristian; Sodickson, Daniel K

2016-01-01

While current state of the art MR-PET scanners enable simultaneous MR and PET measurements, the acquired data sets are still usually reconstructed separately. We propose a new multi-modality reconstruction framework using second order Total Generalized Variation (TGV) as a dedicated multi-channel regularization functional that jointly reconstructs images from both modalities. In this way, information about the underlying anatomy is shared during the image reconstruction process while unique differences are preserved. Results from numerical simulations and in-vivo experiments using a range of accelerated MR acquisitions and different MR image contrasts demonstrate improved PET image quality, resolution, and quantitative accuracy. PMID:28055827

Automation of 3D reconstruction of neural tissue from large volume of conventional serial section transmission electron micrographs.

PubMed

Mishchenko, Yuriy

2009-01-30

We describe an approach for automation of the process of reconstruction of neural tissue from serial section transmission electron micrographs. Such reconstructions require 3D segmentation of individual neuronal processes (axons and dendrites) performed in densely packed neuropil. We first detect neuronal cell profiles in each image in a stack of serial micrographs with multi-scale ridge detector. Short breaks in detected boundaries are interpolated using anisotropic contour completion formulated in fuzzy-logic framework. Detected profiles from adjacent sections are linked together based on cues such as shape similarity and image texture. Thus obtained 3D segmentation is validated by human operators in computer-guided proofreading process. Our approach makes possible reconstructions of neural tissue at final rate of about 5 microm3/manh, as determined primarily by the speed of proofreading. To date we have applied this approach to reconstruct few blocks of neural tissue from different regions of rat brain totaling over 1000microm3, and used these to evaluate reconstruction speed, quality, error rates, and presence of ambiguous locations in neuropil ssTEM imaging data.

3D+time acquisitions of 3D cell culture by means of lens-free tomographic microscopy

NASA Astrophysics Data System (ADS)

Berdeu, Anthony; Laperrousaz, Bastien; Bordy, Thomas; Morales, S.; Gidrol, Xavier; Picollet-D'hahan, Nathalie; Allier, Cédric

2018-02-01

We propose a three-dimensional (3D) imaging platform based on lens-free microscopy to perform multi-angle acquisitions on 3D cell cultures embedded in extracellular matrix (ECM). We developed algorithms based on the Fourier diffraction theorem to perform fully 3D reconstructions of biological samples and we adapted the lens-free microscope to incubator conditions. Here we demonstrate for the first time, 3D+time lens-free acquisitions of 3D cell culture over 8 days directly into the incubator. The 3D reconstructed volume is as large as 5 mm3 and provides a unique way to observe in the same 3D cell culture experiment multiple cell migration strategies. Namely, in a 3D cell culture of prostate epithelial cells embedded within a Matrigel® matrix, we are able to distinguish single cell 'leaders', migration of cell clusters, migration of large aggregates of cells, and also close-gap and large-scale branching. In addition, we observe long-scale 3D deformations of the ECM that modify the geometry of the 3D cell culture. Interestingly, we also observed the opposite, i.e. we found that large aggregates of cells may deform the ECM by generating traction forces over very long distances. In sum we put forward a novel 3D lens-free microscopy tomographic technique to study the single and collective cell migrations, the cell-to-cell interactions and the cell-to-matrix interactions.

Modeling of ultrasonic wave propagation in composite laminates with realistic discontinuity representation.

PubMed

Zelenyak, Andreea-Manuela; Schorer, Nora; Sause, Markus G R

2018-02-01

This paper presents a method for embedding realistic defect geometries of a fiber reinforced material in a finite element modeling environment in order to simulate active ultrasonic inspection. When ultrasonic inspection is used experimentally to investigate the presence of defects in composite materials, the microscopic defect geometry may cause signal characteristics that are difficult to interpret. Hence, modeling of this interaction is key to improve our understanding and way of interpreting the acquired ultrasonic signals. To model the true interaction of the ultrasonic wave field with such defect structures as pores, cracks or delamination, a realistic three dimensional geometry reconstruction is required. We present a 3D-image based reconstruction process which converts computed tomography data in adequate surface representations ready to be embedded for processing with finite element methods. Subsequent modeling using these geometries uses a multi-scale and multi-physics simulation approach which results in quantitative A-Scan ultrasonic signals which can be directly compared with experimental signals. Therefore, besides the properties of the composite material, a full transducer implementation, piezoelectric conversion and simultaneous modeling of the attached circuit is applied. Comparison between simulated and experimental signals provides very good agreement in electrical voltage amplitude and the signal arrival time and thus validates the proposed modeling approach. Simulating ultrasound wave propagation in a medium with a realistic shape of the geometry clearly shows a difference in how the disturbance of the waves takes place and finally allows more realistic modeling of A-scans. Copyright © 2017 Elsevier B.V. All rights reserved.

A Novel Multi-scale Simulation Strategy for Turbulent Reacting Flows

DOE Office of Scientific and Technical Information (OSTI.GOV)

James, Sutherland C.

In this project, a new methodology was proposed to bridge the gap between Direct Numerical Simulation (DNS) and Large Eddy Simulation (LES). This novel methodology, titled Lattice-Based Multiscale Simulation (LBMS), creates a lattice structure of One-Dimensional Turbulence (ODT) models. This model has been shown to capture turbulent combustion with high fidelity by fully resolving interactions between turbulence and diffusion. By creating a lattice of ODT models, which are then coupled, LBMS overcomes the shortcomings of ODT, which are its inability to capture large scale three dimensional flow structures. However, by spacing these lattices significantly apart, LBMS can avoid the cursemore » of dimensionality that creates untenable computational costs associated with DNS. This project has shown that LBMS is capable of reproducing statistics of isotropic turbulent flows while coarsening the spacing between lines significantly. It also investigates and resolves issues that arise when coupling ODT lines, such as flux reconstruction perpendicular to a given ODT line, preservation of conserved quantities when eddies cross a course cell volume and boundary condition application. Robust parallelization is also investigated.« less

Combining multi-atlas segmentation with brain surface estimation

NASA Astrophysics Data System (ADS)

Huo, Yuankai; Carass, Aaron; Resnick, Susan M.; Pham, Dzung L.; Prince, Jerry L.; Landman, Bennett A.

2016-03-01

Whole brain segmentation (with comprehensive cortical and subcortical labels) and cortical surface reconstruction are two essential techniques for investigating the human brain. The two tasks are typically conducted independently, however, which leads to spatial inconsistencies and hinders further integrated cortical analyses. To obtain self-consistent whole brain segmentations and surfaces, FreeSurfer segregates the subcortical and cortical segmentations before and after the cortical surface reconstruction. However, this "segmentation to surface to parcellation" strategy has shown limitation in various situations. In this work, we propose a novel "multi-atlas segmentation to surface" method called Multi-atlas CRUISE (MaCRUISE), which achieves self-consistent whole brain segmentations and cortical surfaces by combining multi-atlas segmentation with the cortical reconstruction method CRUISE. To our knowledge, this is the first work that achieves the reliability of state-of-the-art multi-atlas segmentation and labeling methods together with accurate and consistent cortical surface reconstruction. Compared with previous methods, MaCRUISE has three features: (1) MaCRUISE obtains 132 cortical/subcortical labels simultaneously from a single multi-atlas segmentation before reconstructing volume consistent surfaces; (2) Fuzzy tissue memberships are combined with multi-atlas segmentations to address partial volume effects; (3) MaCRUISE reconstructs topologically consistent cortical surfaces by using the sulci locations from multi-atlas segmentation. Two data sets, one consisting of five subjects with expertly traced landmarks and the other consisting of 100 volumes from elderly subjects are used for validation. Compared with CRUISE, MaCRUISE achieves self-consistent whole brain segmentation and cortical reconstruction without compromising on surface accuracy. MaCRUISE is comparably accurate to FreeSurfer while achieving greater robustness across an elderly population.

Combining Multi-atlas Segmentation with Brain Surface Estimation.

PubMed

Huo, Yuankai; Carass, Aaron; Resnick, Susan M; Pham, Dzung L; Prince, Jerry L; Landman, Bennett A

2016-02-27

Whole brain segmentation (with comprehensive cortical and subcortical labels) and cortical surface reconstruction are two essential techniques for investigating the human brain. The two tasks are typically conducted independently, however, which leads to spatial inconsistencies and hinders further integrated cortical analyses. To obtain self-consistent whole brain segmentations and surfaces, FreeSurfer segregates the subcortical and cortical segmentations before and after the cortical surface reconstruction. However, this "segmentation to surface to parcellation" strategy has shown limitations in various situations. In this work, we propose a novel "multi-atlas segmentation to surface" method called Multi-atlas CRUISE (MaCRUISE), which achieves self-consistent whole brain segmentations and cortical surfaces by combining multi-atlas segmentation with the cortical reconstruction method CRUISE. To our knowledge, this is the first work that achieves the reliability of state-of-the-art multi-atlas segmentation and labeling methods together with accurate and consistent cortical surface reconstruction. Compared with previous methods, MaCRUISE has three features: (1) MaCRUISE obtains 132 cortical/subcortical labels simultaneously from a single multi-atlas segmentation before reconstructing volume consistent surfaces; (2) Fuzzy tissue memberships are combined with multi-atlas segmentations to address partial volume effects; (3) MaCRUISE reconstructs topologically consistent cortical surfaces by using the sulci locations from multi-atlas segmentation. Two data sets, one consisting of five subjects with expertly traced landmarks and the other consisting of 100 volumes from elderly subjects are used for validation. Compared with CRUISE, MaCRUISE achieves self-consistent whole brain segmentation and cortical reconstruction without compromising on surface accuracy. MaCRUISE is comparably accurate to FreeSurfer while achieving greater robustness across an elderly population.

Imaging of earthquake faults using small UAVs as a pathfinder for air and space observations

USGS Publications Warehouse

Donnellan, Andrea; Green, Joseph; Ansar, Adnan; Aletky, Joseph; Glasscoe, Margaret; Ben-Zion, Yehuda; Arrowsmith, J. Ramón; DeLong, Stephen B.

2017-01-01

Large earthquakes cause billions of dollars in damage and extensive loss of life and property. Geodetic and topographic imaging provide measurements of transient and long-term crustal deformation needed to monitor fault zones and understand earthquakes. Earthquake-induced strain and rupture characteristics are expressed in topographic features imprinted on the landscapes of fault zones. Small UAVs provide an efficient and flexible means to collect multi-angle imagery to reconstruct fine scale fault zone topography and provide surrogate data to determine requirements for and to simulate future platforms for air- and space-based multi-angle imaging.

Efficient storage and management of radiographic images using a novel wavelet-based multiscale vector quantizer

NASA Astrophysics Data System (ADS)

Yang, Shuyu; Mitra, Sunanda

2002-05-01

Due to the huge volumes of radiographic images to be managed in hospitals, efficient compression techniques yielding no perceptual loss in the reconstructed images are becoming a requirement in the storage and management of such datasets. A wavelet-based multi-scale vector quantization scheme that generates a global codebook for efficient storage and transmission of medical images is presented in this paper. The results obtained show that even at low bit rates one is able to obtain reconstructed images with perceptual quality higher than that of the state-of-the-art scalar quantization method, the set partitioning in hierarchical trees.

Multi-scale transport in the DIII-D ITER baseline scenario with direct electron heating and projection to ITER

DOE Office of Scientific and Technical Information (OSTI.GOV)

Grierson, B. A.; Staebler, G. M.; Solomon, W. M.

Multi-scale fluctuations measured by turbulence diagnostics spanning long and short wavelength spatial scales impact energy confinement and the scale-lengths of plasma kinetic profiles in the DIII-D ITER baseline scenario with direct electron heating. Contrasting discharge phases with ECH + neutral beam injection (NBI) and NBI only at similar rotation reveal higher energy confinement and lower fluctuations when only NBI heating is used. Modeling of the core transport with TGYRO using the TGLF turbulent transport model and NEO neoclassical transport reproduces the experimental profile changes upon application of direct electron heating and indicates that multi-scale transport mechanisms are responsible for changesmore » in the temperature and density profiles. Intermediate and high-k fluctuations appear responsible for the enhanced electron thermal flux, and intermediate-k electron modes produce an inward particle pinch that increases the inverse density scale length. Projection to ITER is performed with TGLF and indicates a density profile that has a finite scale length due to intermediate-k electron modes at low collisionality and increases the fusion gain. Finally, for a range of E×B shear, the dominant mechanism that increases fusion performance is suppression of outward low-k particle flux and increased density peaking.« less

Multi-scale transport in the DIII-D ITER baseline scenario with direct electron heating and projection to ITER

DOE PAGES

Grierson, B. A.; Staebler, G. M.; Solomon, W. M.; ...

2018-02-01

Multi-scale fluctuations measured by turbulence diagnostics spanning long and short wavelength spatial scales impact energy confinement and the scale-lengths of plasma kinetic profiles in the DIII-D ITER baseline scenario with direct electron heating. Contrasting discharge phases with ECH + neutral beam injection (NBI) and NBI only at similar rotation reveal higher energy confinement and lower fluctuations when only NBI heating is used. Modeling of the core transport with TGYRO using the TGLF turbulent transport model and NEO neoclassical transport reproduces the experimental profile changes upon application of direct electron heating and indicates that multi-scale transport mechanisms are responsible for changesmore » in the temperature and density profiles. Intermediate and high-k fluctuations appear responsible for the enhanced electron thermal flux, and intermediate-k electron modes produce an inward particle pinch that increases the inverse density scale length. Projection to ITER is performed with TGLF and indicates a density profile that has a finite scale length due to intermediate-k electron modes at low collisionality and increases the fusion gain. Finally, for a range of E×B shear, the dominant mechanism that increases fusion performance is suppression of outward low-k particle flux and increased density peaking.« less

Multi-scale transport in the DIII-D ITER baseline scenario with direct electron heating and projection to ITER

NASA Astrophysics Data System (ADS)

Grierson, B. A.; Staebler, G. M.; Solomon, W. M.; McKee, G. R.; Holland, C.; Austin, M.; Marinoni, A.; Schmitz, L.; Pinsker, R. I.; DIII-D Team

2018-02-01

Multi-scale fluctuations measured by turbulence diagnostics spanning long and short wavelength spatial scales impact energy confinement and the scale-lengths of plasma kinetic profiles in the DIII-D ITER baseline scenario with direct electron heating. Contrasting discharge phases with ECH + neutral beam injection (NBI) and NBI only at similar rotation reveal higher energy confinement and lower fluctuations when only NBI heating is used. Modeling of the core transport with TGYRO using the TGLF turbulent transport model and NEO neoclassical transport reproduces the experimental profile changes upon application of direct electron heating and indicates that multi-scale transport mechanisms are responsible for changes in the temperature and density profiles. Intermediate and high-k fluctuations appear responsible for the enhanced electron thermal flux, and intermediate-k electron modes produce an inward particle pinch that increases the inverse density scale length. Projection to ITER is performed with TGLF and indicates a density profile that has a finite scale length due to intermediate-k electron modes at low collisionality and increases the fusion gain. For a range of E × B shear, the dominant mechanism that increases fusion performance is suppression of outward low-k particle flux and increased density peaking.

Interleaved diffusion-weighted EPI improved by adaptive partial-Fourier and multi-band multiplexed sensitivity-encoding reconstruction

PubMed Central

Chang, Hing-Chiu; Guhaniyogi, Shayan; Chen, Nan-kuei

2014-01-01

Purpose We report a series of techniques to reliably eliminate artifacts in interleaved echo-planar imaging (EPI) based diffusion weighted imaging (DWI). Methods First, we integrate the previously reported multiplexed sensitivity encoding (MUSE) algorithm with a new adaptive Homodyne partial-Fourier reconstruction algorithm, so that images reconstructed from interleaved partial-Fourier DWI data are free from artifacts even in the presence of either a) motion-induced k-space energy peak displacement, or b) susceptibility field gradient induced fast phase changes. Second, we generalize the previously reported single-band MUSE framework to multi-band MUSE, so that both through-plane and in-plane aliasing artifacts in multi-band multi-shot interleaved DWI data can be effectively eliminated. Results The new adaptive Homodyne-MUSE reconstruction algorithm reliably produces high-quality and high-resolution DWI, eliminating residual artifacts in images reconstructed with previously reported methods. Furthermore, the generalized MUSE algorithm is compatible with multi-band and high-throughput DWI. Conclusion The integration of the multi-band and adaptive Homodyne-MUSE algorithms significantly improves the spatial-resolution, image quality, and scan throughput of interleaved DWI. We expect that the reported reconstruction framework will play an important role in enabling high-resolution DWI for both neuroscience research and clinical uses. PMID:24925000

Giant photovoltaic effects driven by residual polar field within unit-cell-scale LaAlO3 films on SrTiO3

PubMed Central

Liang, Haixing; Cheng, Long; Zhai, Xiaofang; Pan, Nan; Guo, Hongli; Zhao, Jin; Zhang, Hui; Li, Lin; Zhang, Xiaoqiang; Wang, Xiaoping; Zeng, Changgan; Zhang, Zhenyu; Hou, J. G.

2013-01-01

For polar/nonpolar heterostructures, Maxwell's theory dictates that the electric potential in the polar components will increase divergently with the film thickness. For LaAlO3/SrTiO3, a conceptually intriguing route, termed charge reconstruction, has been proposed to avert such “polar catastrophe”. The existence of a polar potential in LaAlO3 is a prerequisite for the validity of the charge reconstruction picture, yet to date, its direct measurement remains a major challenge. Here we establish unambiguously the existence of the residual polar potential in ultrathin LaAlO3 films on SrTiO3, using a novel photovoltaic device design as an effective probe. The measured lower bound of the residual polar potential is 1.0 V. Such a direct observation of the giant residual polar potential within the unit-cell-scale LaAlO3 films amounts to a definitive experimental evidence for the charge reconstruction picture, and also points to new technological significance of oxide heterostructures in photovoltaic and sensing devices with atomic-scale control. PMID:23756918

Spatio-temporal variability of Arctic summer temperatures over the past 2 millennia

NASA Astrophysics Data System (ADS)

Werner, Johannes P.; Divine, Dmitry V.; Charpentier Ljungqvist, Fredrik; Nilsen, Tine; Francus, Pierre

2018-04-01

In this article, the first spatially resolved and millennium-length summer (June-August) temperature reconstruction over the Arctic and sub-Arctic domain (north of 60° N) is presented. It is based on a set of 44 annually dated temperature-sensitive proxy archives of various types from the revised PAGES2k database supplemented with six new recently updated proxy records. As a major advance, an extension of the Bayesian BARCAST climate field (CF) reconstruction technique provides a means to treat climate archives with dating uncertainties. This results not only in a more precise reconstruction but additionally enables joint probabilistic constraints to be imposed on the chronologies of the used archives. The new seasonal CF reconstruction for the Arctic region can be shown to be skilful for the majority of the terrestrial nodes. The decrease in the proxy data density back in time, however, limits the analyses in the spatial domain to the period after 750 CE, while the spatially averaged reconstruction covers the entire time interval of 1-2002 CE.The centennial to millennial evolution of the reconstructed temperature is in good agreement with a general pattern that was inferred in recent studies for the Arctic and its subregions. In particular, the reconstruction shows a pronounced Medieval Climate Anomaly (MCA; here ca. 920-1060 CE), which was characterised by a sequence of extremely warm decades over the whole domain. The medieval warming was followed by a gradual cooling into the Little Ice Age (LIA), with 1766-1865 CE as the longest centennial-scale cold period, culminating around 1811-1820 CE for most of the target region.In total over 600 independent realisations of the temperature CF were generated. As showcased for local and regional trends and temperature anomalies, operating in a probabilistic framework directly results in comprehensive uncertainty estimates, even for complex analyses. For the presented multi-scale trend analysis, for example, the spread in different paths across the reconstruction ensemble prevents a robust analysis of features at timescales shorter than ca. 30 years. For the spatial reconstruction, the benefit of using the spatially resolved reconstruction ensemble is demonstrated by focusing on the regional expression of the recent warming and the MCA. While our analysis shows that the peak MCA summer temperatures were as high as in the late 20th and early 21st centuries, the spatial coherence of extreme years over the last decades of the reconstruction (1980s onwards) seems unprecedented at least back until 750 CE. However, statistical testing could not provide conclusive support of the contemporary warming to exceed the peak of the MCA in terms of the pan-Arctic mean summer temperatures: the reconstruction cannot be extended reliably past 2002 CE due to lack of proxy data and thus the most recent warming is not captured.

A multi-scale tensor voting approach for small retinal vessel segmentation in high resolution fundus images.

PubMed

Christodoulidis, Argyrios; Hurtut, Thomas; Tahar, Houssem Ben; Cheriet, Farida

2016-09-01

Segmenting the retinal vessels from fundus images is a prerequisite for many CAD systems for the automatic detection of diabetic retinopathy lesions. So far, research efforts have concentrated mainly on the accurate localization of the large to medium diameter vessels. However, failure to detect the smallest vessels at the segmentation step can lead to false positive lesion detection counts in a subsequent lesion analysis stage. In this study, a new hybrid method for the segmentation of the smallest vessels is proposed. Line detection and perceptual organization techniques are combined in a multi-scale scheme. Small vessels are reconstructed from the perceptual-based approach via tracking and pixel painting. The segmentation was validated in a high resolution fundus image database including healthy and diabetic subjects using pixel-based as well as perceptual-based measures. The proposed method achieves 85.06% sensitivity rate, while the original multi-scale line detection method achieves 81.06% sensitivity rate for the corresponding images (p<0.05). The improvement in the sensitivity rate for the database is 6.47% when only the smallest vessels are considered (p<0.05). For the perceptual-based measure, the proposed method improves the detection of the vasculature by 7.8% against the original multi-scale line detection method (p<0.05). Copyright © 2016 Elsevier Ltd. All rights reserved.

Efficient High Order Central Schemes for Multi-Dimensional Hamilton-Jacobi Equations: Talk Slides

NASA Technical Reports Server (NTRS)

Bryson, Steve; Levy, Doron; Biegel, Brian R. (Technical Monitor)

2002-01-01

This viewgraph presentation presents information on the attempt to produce high-order, efficient, central methods that scale well to high dimension. The central philosophy is that the equations should evolve to the point where the data is smooth. This is accomplished by a cyclic pattern of reconstruction, evolution, and re-projection. One dimensional and two dimensional representational methods are detailed, as well.

Quantitative assessment of ischemia and reactive hyperemia of the dermal layers using multi - spectral imaging on the human arm

NASA Astrophysics Data System (ADS)

Kainerstorfer, Jana M.; Amyot, Franck; Demos, Stavros G.; Hassan, Moinuddin; Chernomordik, Victor; Hitzenberger, Christoph K.; Gandjbakhche, Amir H.; Riley, Jason D.

2009-07-01

Quantitative assessment of skin chromophores in a non-invasive fashion is often desirable. Especially pixel wise assessment of blood volume and blood oxygenation is beneficial for improved diagnostics. We utilized a multi-spectral imaging system for acquiring diffuse reflectance images of healthy volunteers' lower forearm. Ischemia and reactive hyperemia was introduced by occluding the upper arm with a pressure cuff for 5min with 180mmHg. Multi-spectral images were taken every 30s, before, during and after occlusion. Image reconstruction for blood volume and blood oxygenation was performed, using a two layered skin model. As the images were taken in a non-contact way, strong artifacts related to the shape (curvature) of the arms were observed, making reconstruction of optical / physiological parameters highly inaccurate. We developed a curvature correction method, which is based on extracting the curvature directly from the intensity images acquired and does not require any additional measures on the object imaged. The effectiveness of the algorithm was demonstrated, on reconstruction results of blood volume and blood oxygenation for in vivo data during occlusion of the arm. Pixel wise assessment of blood volume and blood oxygenation was made possible over the entire image area and comparison of occlusion effects between veins and surrounding skin was performed. Induced ischemia during occlusion and reactive hyperemia afterwards was observed and quantitatively assessed. Furthermore, the influence of epidermal thickness on reconstruction results was evaluated and the exact knowledge of this parameter for fully quantitative assessment was pointed out.

Ultrasonic multi-skip tomography for pipe inspection

DOE Office of Scientific and Technical Information (OSTI.GOV)

Volker, Arno; Zon, Tim van

The inspection of wall loss corrosion is difficult at pipe supports due to limited accessibility. The recently developed ultrasonic Multi-Skip screening technique is suitable for this problem. The method employs ultrasonic transducers in a pitch-catch geometry positioned on opposite sides of the pipe support. Shear waves are transmitted in the axial direction within the pipe wall, reflecting multiple times between the inner and outer surfaces before reaching the receivers. Along this path, the signals accumulate information on the integral wall thickness (e.g., via variations in travel time). The method is very sensitive in detecting the presence of wall loss, butmore » it is difficult to quantify both the extent and depth of the loss. Multi-skip tomography has been developed to reconstruct the wall thickness profile along the axial direction of the pipe. The method uses model-based full wave field inversion; this consists of a forward model for predicting the measured wave field and an iterative process that compares the predicted and measured wave fields and minimizes the differences with respect to the model parameters (i.e., the wall thickness profile). Experimental results are very encouraging. Various defects (slot and flat bottom hole) are reconstructed using the tomographic inversion. The general shape and width are well recovered. The current sizing accuracy is in the order of 1 mm.« less

Multi-view light-sheet imaging and tracking with the MaMuT software reveals the cell lineage of a direct developing arthropod limb

PubMed Central

Stamataki, Evangelia; Harich, Benjamin; Guignard, Léo; Preibisch, Stephan; Shorte, Spencer; Keller, Philipp J

2018-01-01

During development, coordinated cell behaviors orchestrate tissue and organ morphogenesis. Detailed descriptions of cell lineages and behaviors provide a powerful framework to elucidate the mechanisms of morphogenesis. To study the cellular basis of limb development, we imaged transgenic fluorescently-labeled embryos from the crustacean Parhyale hawaiensis with multi-view light-sheet microscopy at high spatiotemporal resolution over several days of embryogenesis. The cell lineage of outgrowing thoracic limbs was reconstructed at single-cell resolution with new software called Massive Multi-view Tracker (MaMuT). In silico clonal analyses suggested that the early limb primordium becomes subdivided into anterior-posterior and dorsal-ventral compartments whose boundaries intersect at the distal tip of the growing limb. Limb-bud formation is associated with spatial modulation of cell proliferation, while limb elongation is also driven by preferential orientation of cell divisions along the proximal-distal growth axis. Cellular reconstructions were predictive of the expression patterns of limb development genes including the BMP morphogen Decapentaplegic. PMID:29595475

A Maximum NEC Criterion for Compton Collimation to Accurately Identify True Coincidences in PET

PubMed Central

Chinn, Garry; Levin, Craig S.

2013-01-01

In this work, we propose a new method to increase the accuracy of identifying true coincidence events for positron emission tomography (PET). This approach requires 3-D detectors with the ability to position each photon interaction in multi-interaction photon events. When multiple interactions occur in the detector, the incident direction of the photon can be estimated using the Compton scatter kinematics (Compton Collimation). If the difference between the estimated incident direction of the photon relative to a second, coincident photon lies within a certain angular range around colinearity, the line of response between the two photons is identified as a true coincidence and used for image reconstruction. We present an algorithm for choosing the incident photon direction window threshold that maximizes the noise equivalent counts of the PET system. For simulated data, the direction window removed 56%–67% of random coincidences while retaining > 94% of true coincidences from image reconstruction as well as accurately extracted 70% of true coincidences from multiple coincidences. PMID:21317079

Reconstructing Holocene glacier activity at Langfjordjøkelen, Arctic Norway, using multi-proxy fingerprinting of distal glacier-fed lake sediments

NASA Astrophysics Data System (ADS)

Wittmeier, Hella E.; Bakke, Jostein; Vasskog, Kristian; Trachsel, Mathias

2015-04-01

Late Glacial and Holocene glacier fluctuations are important indicators of climate variability in the northern polar region and contain knowledge vital to understanding and predicting present and future climate changes. However, there still is a lack of robustly dated terrestrial climate records from Arctic Norway. Here, we present a high-resolution relative glacier activity record covering the past ∼10,000 cal. a BP from the northern outlet of the Langfjordjøkelen ice cap in Arctic Norway. This record is reconstructed from detailed geomorphic mapping, multi-proxy sedimentary fingerprinting and analyses of distal glacier-fed lake sediments. We used Principal Component Analysis to characterize sediments of glacial origin and trace them in a chain of downstream lakes. Of the variability in the sediment record of the uppermost Lake Jøkelvatnet, 73% can be explained by the first Principal Component axis and tied directly to upstream glacier erosion, whereas the glacial signal becomes weaker in the more distal Lakes Store Rundvatnet and Storvatnet. Magnetic susceptibility and titanium count rates were found to be the most suitable indicators of Holocene glacier activity in the distal glacier-fed lakes. The complete deglaciation of the valley of Sør-Tverrfjorddalen occurred ∼10,000 cal. a BP, followed by a reduced or absent glacier during the Holocene Thermal Optimum. The Langfjordjøkelen ice cap reformed with the onset of the Neoglacial ∼4100 cal. a BP, and the gradually increasing glacier activity culminated at the end of the Little Ice Age in the early 20th century. Over the past 2000 cal. a BP, the record reflects frequent high-amplitude glacier fluctuations. Periods of reduced glacier activity were centered around 1880, 1600, 1250 and 950 cal. a BP, while intervals of increased glacier activity occurred around 1680, 1090, 440 and 25 cal. a BP. The large-scale Holocene glacier activity of the Langfjordjøkelen ice cap is consistent with regional temperature proxy reconstructions and glacier variability across Norway. Long-term changes in the extent of the northern outlet of the Langfjordjøkelen ice cap largely followed trends in regional summer temperatures, whereas winter season atmospheric variability may have triggered decadal-scale glacial fluctuations and generally affected the amplitude of glacier events.

Modeling Vascularized Bone Regeneration Within a Porous Biodegradable CaP Scaffold Loaded with Growth Factors

PubMed Central

Sun, X; Kang, Y; Bao, J; Zhang, Y; Yang, Y; Zhou, X

2013-01-01

Osteogenetic microenvironment is a complex constitution in which extracellular matrix (ECM) molecules, stem cells and growth factors each interact to direct the coordinate regulation of bone tissue development. Importantly, angiogenesis improvement and revascularization are critical for osteogenesis during bone tissue regeneration processes. In this study, we developed a three-dimensional (3D) multi-scale system model to study cell response to growth factors released from a 3D biodegradable porous calcium phosphate (CaP) scaffold. Our model reconstructed the 3D bone regeneration system and examined the effects of pore size and porosity on bone formation and angiogenesis. The results suggested that scaffold porosity played a more dominant role in affecting bone formation and angiogenesis compared with pore size, while the pore size could be controlled to tailor the growth factor release rate and release fraction. Furthermore, a combination of gradient VEGF with BMP2 and Wnt released from the multi-layer scaffold promoted angiogenesis and bone formation more readily than single growth factors. These results demonstrated that the developed model can be potentially applied to predict vascularized bone regeneration with specific scaffold and growth factors. PMID:23566802

Network features of sector indexes spillover effects in China: A multi-scale view

NASA Astrophysics Data System (ADS)

Feng, Sida; Huang, Shupei; Qi, Yabin; Liu, Xueyong; Sun, Qingru; Wen, Shaobo

2018-04-01

The spillover effects among sectors are of concern for distinct market participants, who are in distinct investment horizons and concerned with the information in different time scales. In order to uncover the hidden spillover information in multi-time scales in the rapidly changing stock market and thereby offer guidance to different investors concerning distinct time scales from a system perspective, this paper constructed directional spillover effect networks for the economic sectors in distinct time scales. The results are as follows: (1) The "2-4 days" scale is the most risky scale, and the "8-16 days" scale is the least risky one. (2) The most influential and sensitive sectors are distinct in different time scales. (3) Although two sectors in the same community may not have direct spillover relations, the volatility of one sector will have a relatively strong influence on the other through indirect relations.

Image-Based Reconstruction and Analysis of Dynamic Scenes in a Landslide Simulation Facility

NASA Astrophysics Data System (ADS)

Scaioni, M.; Crippa, J.; Longoni, L.; Papini, M.; Zanzi, L.

2017-12-01

The application of image processing and photogrammetric techniques to dynamic reconstruction of landslide simulations in a scaled-down facility is described. Simulations are also used here for active-learning purpose: students are helped understand how physical processes happen and which kinds of observations may be obtained from a sensor network. In particular, the use of digital images to obtain multi-temporal information is presented. On one side, using a multi-view sensor set up based on four synchronized GoPro 4 Black® cameras, a 4D (3D spatial position and time) reconstruction of the dynamic scene is obtained through the composition of several 3D models obtained from dense image matching. The final textured 4D model allows one to revisit in dynamic and interactive mode a completed experiment at any time. On the other side, a digital image correlation (DIC) technique has been used to track surface point displacements from the image sequence obtained from the camera in front of the simulation facility. While the 4D model may provide a qualitative description and documentation of the experiment running, DIC analysis output quantitative information such as local point displacements and velocities, to be related to physical processes and to other observations. All the hardware and software equipment adopted for the photogrammetric reconstruction has been based on low-cost and open-source solutions.

A Riparian Approach to Dendrochronological Flow Reconstruction, Yellowstone River, Montana

NASA Astrophysics Data System (ADS)

Schook, D. M.; Rathburn, S. L.; Friedman, J. M.

2015-12-01

Tree ring-based flow reconstructions can reveal river discharge variability over durations far exceeding the gauged record, building perspective for both the measured record and future flows. We use plains cottonwood (Populus deltoides subsp. monilifera) tree rings collected from four rivers to reconstruct flow history of the Yellowstone River near its confluence with the Missouri River. Upland trees in dry regions are typically used in flow reconstruction because their annual growth is controlled by the same precipitation that drives downstream flow, but our study improves flow reconstruction by including floodplain trees that are directly affected by the river. Cores from over 1000 cottonwoods along the Yellowstone, Powder, Little Missouri, and Redwater Rivers were collected from within a 170 km radius to reconstruct flows using the Age Curve Standardization technique in a multiple regression analysis. The large sample from trees spanning many age classes allows us to use only the rings that were produced when each tree was less than 50 years old and growth was most strongly correlated to river discharge. Using trees from a range of rivers improves our ability to differentiate between growth resulting from local precipitation and river flow, and we show that cottonwood growth differs across these neighboring rivers having different watersheds. Using the program Seascorr, tree growth is found to better correlated to seasonal river discharge (R = 0.69) than to local precipitation (R = 0.45). Our flow reconstruction reveals that the most extreme multi-year or multi-decade drought periods of the last 250 years on either the Yellowstone (1817-1821) or Powder (1846-1865) Rivers are missed by the gauged discharge record. Across all sites, we document increased growth in the 20th century compared to the 19th, a finding unattainable with conventional methods but having important implications for flow management.

Uncertainty in detecting trend: a new criterion and its applications to global SST

NASA Astrophysics Data System (ADS)

Lian, Tao

2017-10-01

In most parts of the global ocean, the magnitude of the long-term linear trend in sea surface temperature (SST) is much smaller than the amplitude of multi-scale internal variation. One can thus use a specific period in a much longer record to arbitrarily determine the sign of long-term trend, which is statistically significant, in regional SST. This could lead to a controversial conclusion on how global SST responded to the anthropogenic forcing in the recent history. In this study, the uncertainty in the linear trend due to multi-scale internal variation is theoretically investigated. It is found that the "estimated" trend will not change its sign only when its magnitude is greater than a theoretical threshold that scales the influence from the multi-scale internal variation. Otherwise, the sign of the "estimated" trend may depend on the period used. The new criterion is found to be superior over the existing methods when the de-trended time series is dominated by the oscillatory term. Applying this new criterion to a global SST reconstruction from 1881 to 2013 reveals that the influences from multi-scale internal variation on the sign of "estimated" linear trend cannot be excluded in most parts of the Pacific, the southern Indian Ocean and the northern Atlantic; therefore, the warming or/and cooling trends found in these regions cannot be interpreted as the consequences of anthropogenic forcing. It's also suggested that the recent hiatus can be explained by combined uncertainty from internal variations at the interannual and decadal time scales.

Uncertainty in Detecting Trend: A New Criterion and Its Applications to Global SST

NASA Astrophysics Data System (ADS)

Lian, Tao

2017-04-01

In most parts of the global ocean, the magnitude of the long-term linear trend in sea surface temperature (SST) is much smaller than the amplitude of multi-scale internal variation. One can thus use a specific period in a much longer record to arbitrarily determine the sign of long-term trend, which is statistically significant, in regional SST. This could lead to a controversial conclusion on how global SST responded to the anthropogenic forcing in the recent history. In this study, the uncertainty in the linear trend due to multi-scale internal variation is theoretically investigated. It is found that the "estimated" trend will not change its sign only when its magnitude is greater than a theoretical threshold that scales the influence from the multi-scale internal variation. Otherwise, the sign of the "estimated" trend may depend on the period used. The new criterion is found to be superior over the existing methods when the de-trended time series is dominated by the oscillatory term. Applying this new criterion to a global SST reconstruction from 1881 to 2013 reveals that the influences from multi-scale internal variation on the sign of "estimated" linear trend cannot be excluded in most parts of the Pacific, the southern Indian Ocean and the northern Atlantic; therefore, the warming or/and cooling trends found in these regions cannot be interpreted as the consequences of anthropogenic forcing. It's also suggested that the recent hiatus can be explained by combined uncertainty from internal variations at the interannual and decadal time scales.

Sparse and redundant representations for inverse problems and recognition

NASA Astrophysics Data System (ADS)

Patel, Vishal M.

Sparse and redundant representation of data enables the description of signals as linear combinations of a few atoms from a dictionary. In this dissertation, we study applications of sparse and redundant representations in inverse problems and object recognition. Furthermore, we propose two novel imaging modalities based on the recently introduced theory of Compressed Sensing (CS). This dissertation consists of four major parts. In the first part of the dissertation, we study a new type of deconvolution algorithm that is based on estimating the image from a shearlet decomposition. Shearlets provide a multi-directional and multi-scale decomposition that has been mathematically shown to represent distributed discontinuities such as edges better than traditional wavelets. We develop a deconvolution algorithm that allows for the approximation inversion operator to be controlled on a multi-scale and multi-directional basis. Furthermore, we develop a method for the automatic determination of the threshold values for the noise shrinkage for each scale and direction without explicit knowledge of the noise variance using a generalized cross validation method. In the second part of the dissertation, we study a reconstruction method that recovers highly undersampled images assumed to have a sparse representation in a gradient domain by using partial measurement samples that are collected in the Fourier domain. Our method makes use of a robust generalized Poisson solver that greatly aids in achieving a significantly improved performance over similar proposed methods. We will demonstrate by experiments that this new technique is more flexible to work with either random or restricted sampling scenarios better than its competitors. In the third part of the dissertation, we introduce a novel Synthetic Aperture Radar (SAR) imaging modality which can provide a high resolution map of the spatial distribution of targets and terrain using a significantly reduced number of needed transmitted and/or received electromagnetic waveforms. We demonstrate that this new imaging scheme, requires no new hardware components and allows the aperture to be compressed. Also, it presents many new applications and advantages which include strong resistance to countermesasures and interception, imaging much wider swaths and reduced on-board storage requirements. The last part of the dissertation deals with object recognition based on learning dictionaries for simultaneous sparse signal approximations and feature extraction. A dictionary is learned for each object class based on given training examples which minimize the representation error with a sparseness constraint. A novel test image is then projected onto the span of the atoms in each learned dictionary. The residual vectors along with the coefficients are then used for recognition. Applications to illumination robust face recognition and automatic target recognition are presented.

Optimization of view weighting in tilted-plane-based reconstruction algorithms to minimize helical artifacts in multi-slice helical CT

NASA Astrophysics Data System (ADS)

Tang, Xiangyang

2003-05-01

In multi-slice helical CT, the single-tilted-plane-based reconstruction algorithm has been proposed to combat helical and cone beam artifacts by tilting a reconstruction plane to fit a helical source trajectory optimally. Furthermore, to improve the noise characteristics or dose efficiency of the single-tilted-plane-based reconstruction algorithm, the multi-tilted-plane-based reconstruction algorithm has been proposed, in which the reconstruction plane deviates from the pose globally optimized due to an extra rotation along the 3rd axis. As a result, the capability of suppressing helical and cone beam artifacts in the multi-tilted-plane-based reconstruction algorithm is compromised. An optomized tilted-plane-based reconstruction algorithm is proposed in this paper, in which a matched view weighting strategy is proposed to optimize the capability of suppressing helical and cone beam artifacts and noise characteristics. A helical body phantom is employed to quantitatively evaluate the imaging performance of the matched view weighting approach by tabulating artifact index and noise characteristics, showing that the matched view weighting improves both the helical artifact suppression and noise characteristics or dose efficiency significantly in comparison to the case in which non-matched view weighting is applied. Finally, it is believed that the matched view weighting approach is of practical importance in the development of multi-slive helical CT, because it maintains the computational structure of fan beam filtered backprojection and demands no extra computational services.

3D reconstruction of the optic nerve head using stereo fundus images for computer-aided diagnosis of glaucoma

NASA Astrophysics Data System (ADS)

Tang, Li; Kwon, Young H.; Alward, Wallace L. M.; Greenlee, Emily C.; Lee, Kyungmoo; Garvin, Mona K.; Abràmoff, Michael D.

2010-03-01

The shape of the optic nerve head (ONH) is reconstructed automatically using stereo fundus color images by a robust stereo matching algorithm, which is needed for a quantitative estimate of the amount of nerve fiber loss for patients with glaucoma. Compared to natural scene stereo, fundus images are noisy because of the limits on illumination conditions and imperfections of the optics of the eye, posing challenges to conventional stereo matching approaches. In this paper, multi scale pixel feature vectors which are robust to noise are formulated using a combination of both pixel intensity and gradient features in scale space. Feature vectors associated with potential correspondences are compared with a disparity based matching score. The deep structures of the optic disc are reconstructed with a stack of disparity estimates in scale space. Optical coherence tomography (OCT) data was collected at the same time, and depth information from 3D segmentation was registered with the stereo fundus images to provide the ground truth for performance evaluation. In experiments, the proposed algorithm produces estimates for the shape of the ONH that are close to the OCT based shape, and it shows great potential to help computer-aided diagnosis of glaucoma and other related retinal diseases.

Multi-grid finite element method used for enhancing the reconstruction accuracy in Cerenkov luminescence tomography

NASA Astrophysics Data System (ADS)

Guo, Hongbo; He, Xiaowei; Liu, Muhan; Zhang, Zeyu; Hu, Zhenhua; Tian, Jie

2017-03-01

Cerenkov luminescence tomography (CLT), as a promising optical molecular imaging modality, can be applied to cancer diagnostic and therapeutic. Most researches about CLT reconstruction are based on the finite element method (FEM) framework. However, the quality of FEM mesh grid is still a vital factor to restrict the accuracy of the CLT reconstruction result. In this paper, we proposed a multi-grid finite element method framework, which was able to improve the accuracy of reconstruction. Meanwhile, the multilevel scheme adaptive algebraic reconstruction technique (MLS-AART) based on a modified iterative algorithm was applied to improve the reconstruction accuracy. In numerical simulation experiments, the feasibility of our proposed method were evaluated. Results showed that the multi-grid strategy could obtain 3D spatial information of Cerenkov source more accurately compared with the traditional single-grid FEM.

Limited-angle multi-energy CT using joint clustering prior and sparsity regularization

NASA Astrophysics Data System (ADS)

Zhang, Huayu; Xing, Yuxiang

2016-03-01

In this article, we present an easy-to-implement Multi-energy CT scanning strategy and a corresponding reconstruction method, which facilitate spectral CT imaging by improving the data efficiency the number-of-energy- channel fold without introducing visible limited-angle artifacts caused by reducing projection views. Leveraging the structure coherence at different energies, we first pre-reconstruct a prior structure information image using projection data from all energy channels. Then, we perform a k-means clustering on the prior image to generate a sparse dictionary representation for the image, which severs as a structure information constraint. We com- bine this constraint with conventional compressed sensing method and proposed a new model which we referred as Joint Clustering Prior and Sparsity Regularization (CPSR). CPSR is a convex problem and we solve it by Alternating Direction Method of Multipliers (ADMM). We verify our CPSR reconstruction method with a numerical simulation experiment. A dental phantom with complicate structures of teeth and soft tissues is used. X-ray beams from three spectra of different peak energies (120kVp, 90kVp, 60kVp) irradiate the phantom to form tri-energy projections. Projection data covering only 75◦ from each energy spectrum are collected for reconstruction. Independent reconstruction for each energy will cause severe limited-angle artifacts even with the help of compressed sensing approaches. Our CPSR provides us with images free of the limited-angle artifact. All edge details are well preserved in our experimental study.

External vibration multi-directional ultrasound shearwave elastography (EVMUSE): application in liver fibrosis staging.

PubMed

Zhao, Heng; Song, Pengfei; Meixner, Duane D; Kinnick, Randall R; Callstrom, Matthew R; Sanchez, William; Urban, Matthew W; Manduca, Armando; Greenleaf, James F; Chen, Shigao

2014-11-01

Shear wave speed can be used to assess tissue elasticity, which is associated with tissue health. Ultrasound shear wave elastography techniques based on measuring the propagation speed of the shear waves induced by acoustic radiation force are becoming promising alternatives to biopsy in liver fibrosis staging. However, shear waves generated by such methods are typically very weak. Therefore, the penetration may become problematic, especially for overweight or obese patients. In this study, we developed a new method called external vibration multi-directional ultrasound shearwave elastography (EVMUSE), in which external vibration from a loudspeaker was used to generate a multi-directional shear wave field. A directional filter was then applied to separate the complex shear wave field into several shear wave fields propagating in different directions. A 2-D shear wave speed map was reconstructed from each individual shear wave field, and a final 2-D shear wave speed map was constructed by compounding these individual wave speed maps. The method was validated using two homogeneous phantoms and one multi-purpose tissue-mimicking phantom. Ten patients undergoing liver magnetic resonance elastography (MRE) were also studied with EVMUSE to compare results between the two methods. Phantom results showed EVMUSE was able to quantify tissue elasticity accurately with good penetration. In vivo EVMUSE results were well correlated with MRE results, indicating the promise of using EVMUSE for liver fibrosis staging.

External Vibration Multi-directional Ultrasound Shearwave Elastography (EVMUSE): Application in Liver Fibrosis Staging

PubMed Central

Zhao, Heng; Song, Pengfei; Meixner, Duane D.; Kinnick, Randall R.; Callstrom, Matthew R.; Sanchez, William; Urban, Matthew W.; Manduca, Armando; Greenleaf, James F.

2014-01-01

Shear wave speed can be used to assess tissue elasticity, which is associated with tissue health. Ultrasound shear wave elastography techniques based on measuring the propagation speed of the shear waves induced by acoustic radiation force are becoming promising alternatives to biopsy in liver fibrosis staging. However, shear waves generated by such methods are typically very weak. Therefore, the penetration may become problematic, especially for overweight or obese patients. In this study, we developed a new method called External Vibration Multi-directional Ultrasound Shearwave Elastography (EVMUSE), in which external vibration from a loudspeaker was used to generate a multi-directional shear wave field. A directional filter was then applied to separate the complex shear wave field into several shear wave fields propagating in different directions. A two-dimensional (2D) shear wave speed map was reconstructed from each individual shear wave field, and a final 2D shear wave speed map was constructed by compounding these individual wave speed maps. The method was validated using two homogeneous phantoms and one multi-purpose tissue-mimicking phantom. Ten patients undergoing liver Magnetic Resonance Elastography (MRE) were also studied with EVMUSE to compare results between the two methods. Phantom results showed EVMUSE was able to quantify tissue elasticity accurately with good penetration. In vivo EVMUSE results were well correlated with MRE results, indicating the promise of using EVMUSE for liver fibrosis staging. PMID:25020066

Multi-modal STEM-based tomography of HT-9 irradiated in FFTF

DOE Office of Scientific and Technical Information (OSTI.GOV)

Field, Kevin G.; Eftink, Benjamin Paul; Saleh, Tarik A.

Under irradiation, point defects and defect clusters can agglomerate to form extended two and three dimensional (2D/3D) defects. The formation of defects can be synergistic in nature with one defect or defect-type influencing the formation and/or evolution of another. The resul is a need exists to perform advanced characterization where microstructures are accurately reproduced in 3D. Here, HT-9 neutron irradiated in the FFTF was used to evaluate the ability of multi-tilt STEM-based tomography to reproduce the fine-scale radiation-induced microstructure. High-efficiency STEM-EDS was used to provide both structural and chemical information during the 3D reconstruction. The results show similar results tomore » a previous two-tilt tomography study on the same material; the α' phase is denuded around the Ni-Si-Mn rich G-phase and cavities. It is concluded both tomography reconstruction techniques are readily viable and could add significant value to the advanced characterization capabilities for irradiated materials.« less

Scalable High-order Methods for Multi-Scale Problems: Analysis, Algorithms and Application

DTIC Science & Technology

2016-02-26

Karniadakis, “Resilient algorithms for reconstructing and simulating gappy flow fields in CFD ”, Fluid Dynamic Research, vol. 47, 051402, 2015. 2. Y. Yu, H...simulation, domain decomposition, CFD , gappy data, estimation theory, and gap-tooth algorithm. 16. SECURITY CLASSIFICATION OF: 17. LIMITATION OF...objective of this project was to develop a general CFD framework for multifidelity simula- tions to target multiscale problems but also resilience in

Scaling up close-range surveys, a challenge for the generalization of as-built data in industrial applications

NASA Astrophysics Data System (ADS)

Hullo, J.-F.; Thibault, G.

2014-06-01

As-built CAD data reconstructed from Terrestrial Laser Scanner (TLS) data are used for more than two decades by Electricité de France (EDF) to prepare maintenance operations in its facilities. But today, the big picture is renewed: "as-built virtual reality" must address a huge scale-up to provide data to an increasing number of applications. In this paper, we first present a wide multi-sensor multi-purpose scanning campaign performed in a 10 floor building of a power plant in 2013: 1083 TLS stations (about 40.109 3D points referenced under a 2 cm tolerance) and 1025 RGB panoramic images (340.106 pixels per point of view). As expected, this very large survey of high precision measurements in a complex environment stressed sensors and tools that were developed for more favourable conditions and smaller data sets. The whole survey process (tools and methods used from acquisition and processing to CAD reconstruction) underwent a detailed follow-up in order to state on the locks to a possible generalization to other buildings. Based on these recent feedbacks, we have highlighted some of these current bottlenecks in this paper: sensors denoising, automation in processes, data validation tools improvements, standardization of formats and (meta-) data structures.

Snowpack variations since AD 1150 in the Andes of Chile and Argentina (30°-37°S) inferred from rainfall, tree-ring and documentary records

NASA Astrophysics Data System (ADS)

Masiokas, M. H.; Villalba, R.; Christie, D. A.; Betman, E.; Luckman, B. H.; Le Quesne, C.; Prieto, M. R.; Mauget, S.

2012-03-01

The Andean snowpack is the main source of freshwater and arguably the single most important natural resource for the populated, semi-arid regions of central Chile and central-western Argentina. However, apart from recent analyses of instrumental snowpack data, very little is known about the long term variability of this key natural resource. Here we present two complementary, annually-resolved reconstructions of winter snow accumulation in the southern Andes between 30°-37°S. The reconstructions cover the past 850 years and were developed using simple regression models based on snowpack proxies with different inherent limitations. Rainfall data from central Chile (very strongly correlated with snow accumulation values in the adjacent mountains) were used to extend a regional 1951-2010 snowpack record back to AD 1866. Subsequently, snow accumulation variations since AD 1150 were inferred from precipitation-sensitive tree-ring width series. The reconstructed snowpack values were validated with independent historical and instrumental information. An innovative time series analysis approach allowed the identification of the onset, duration and statistical significance of the main intra- to multi-decadal patterns in the reconstructions and indicates that variations observed in the last 60 years are not particularly anomalous when assessed in a multi-century context. In addition to providing new information on past variations for a highly relevant hydroclimatic variable in the southern Andes, the snowpack reconstructions can also be used to improve the understanding and modeling of related, larger-scale atmospheric features such as ENSO and the PDO.

Multi-scale structures of turbulent magnetic reconnection

DOE Office of Scientific and Technical Information (OSTI.GOV)

Nakamura, T. K. M., E-mail: takuma.nakamura@oeaw.ac.at; Nakamura, R.; Narita, Y.

2016-05-15

We have analyzed data from a series of 3D fully kinetic simulations of turbulent magnetic reconnection with a guide field. A new concept of the guide filed reconnection process has recently been proposed, in which the secondary tearing instability and the resulting formation of oblique, small scale flux ropes largely disturb the structure of the primary reconnection layer and lead to 3D turbulent features [W. Daughton et al., Nat. Phys. 7, 539 (2011)]. In this paper, we further investigate the multi-scale physics in this turbulent, guide field reconnection process by introducing a wave number band-pass filter (k-BPF) technique in whichmore » modes for the small scale (less than ion scale) fluctuations and the background large scale (more than ion scale) variations are separately reconstructed from the wave number domain to the spatial domain in the inverse Fourier transform process. Combining with the Fourier based analyses in the wave number domain, we successfully identify spatial and temporal development of the multi-scale structures in the turbulent reconnection process. When considering a strong guide field, the small scale tearing mode and the resulting flux ropes develop over a specific range of oblique angles mainly along the edge of the primary ion scale flux ropes and reconnection separatrix. The rapid merging of these small scale modes leads to a smooth energy spectrum connecting ion and electron scales. When the guide field is sufficiently weak, the background current sheet is strongly kinked and oblique angles for the small scale modes are widely scattered at the kinked regions. Similar approaches handling both the wave number and spatial domains will be applicable to the data from multipoint, high-resolution spacecraft observations such as the NASA magnetospheric multiscale (MMS) mission.« less

Multi-scale structures of turbulent magnetic reconnection

NASA Astrophysics Data System (ADS)

Nakamura, T. K. M.; Nakamura, R.; Narita, Y.; Baumjohann, W.; Daughton, W.

2016-05-01

We have analyzed data from a series of 3D fully kinetic simulations of turbulent magnetic reconnection with a guide field. A new concept of the guide filed reconnection process has recently been proposed, in which the secondary tearing instability and the resulting formation of oblique, small scale flux ropes largely disturb the structure of the primary reconnection layer and lead to 3D turbulent features [W. Daughton et al., Nat. Phys. 7, 539 (2011)]. In this paper, we further investigate the multi-scale physics in this turbulent, guide field reconnection process by introducing a wave number band-pass filter (k-BPF) technique in which modes for the small scale (less than ion scale) fluctuations and the background large scale (more than ion scale) variations are separately reconstructed from the wave number domain to the spatial domain in the inverse Fourier transform process. Combining with the Fourier based analyses in the wave number domain, we successfully identify spatial and temporal development of the multi-scale structures in the turbulent reconnection process. When considering a strong guide field, the small scale tearing mode and the resulting flux ropes develop over a specific range of oblique angles mainly along the edge of the primary ion scale flux ropes and reconnection separatrix. The rapid merging of these small scale modes leads to a smooth energy spectrum connecting ion and electron scales. When the guide field is sufficiently weak, the background current sheet is strongly kinked and oblique angles for the small scale modes are widely scattered at the kinked regions. Similar approaches handling both the wave number and spatial domains will be applicable to the data from multipoint, high-resolution spacecraft observations such as the NASA magnetospheric multiscale (MMS) mission.

Can GRACE Explain Some of the Main Interannual Polar Motion Signatures?

NASA Astrophysics Data System (ADS)

Adhikari, S.; Ivins, E. R.; Larour, E. Y.

2016-12-01

GRACE has provided a series of monthly solutions for water mass transport that now span a 14-year period. A natural question to ask is how much of this mass transport information might be used to reconstruct, theoretically, the non-tidal and non-Chandlerian polar motion at interannual time scales. Reconstruction of the pole position at interannual time scales since 2002 has been performed by Chen et al. (2013, GRL) and Adhikari and Ivins (2016, Science Advances). (The main feature of polar motion that has been evolving since the mid 1990's is the increasing dominance of Greenland ice mass loss.) Here we discuss this reconstruction and the level of error that occurs because of missing information about the spherical harmonic degree 1 and 2 terms and the lack of terms associated with angular momentum transfer in the Louiville equations. Using GRACE observations and complementary solutions of self-attraction/loading problem on an elastically compressible rotating earth, we show that ice mass losses from polar ice sheets, and when combined with changes in continental hydrology, explain nearly the entire amplitude (83±23%) and mean directional shift (within 5.9±7.6°) of recently observed eastward polar motion. We also show that decadal scale pole variations are directly linked to global changes in continental hydrology. The energy sources for such motions are likely to be associated with decadal scale ocean and atmospheric oscillations that also drive 20th century continental wet-dry variability. Interannual variability in pole position, therefore, offers a tool for assessing past stability of our climate, and for the future, now faced with an increased intensity in the water cycle and more vulnerable to ice sheet instability. Figure caption: Observed and reconstructed mean annual pole positions with respect to the 2003-2015 mean position. Blue error band is associated with the reconstructed solution; red signifies additional errors that are related to uncertainty in the long-term linear trend. Notice the interannual variability during the GRACE period.

Research Advances on Radiation Transfer Modeling and Inversion for Multi-Scale Land Surface Remote Sensing

NASA Astrophysics Data System (ADS)

Liu, Q.

2011-09-01

At first, research advances on radiation transfer modeling on multi-scale remote sensing data are presented: after a general overview of remote sensing radiation transfer modeling, several recent research advances are presented, including leaf spectrum model (dPROS-PECT), vegetation canopy BRDF models, directional thermal infrared emission models(TRGM, SLEC), rugged mountains area radiation models, and kernel driven models etc. Then, new methodologies on land surface parameters inversion based on multi-source remote sensing data are proposed. The land surface Albedo, leaf area index, temperature/emissivity, and surface net radiation etc. are taken as examples. A new synthetic land surface parameter quantitative remote sensing product generation system is designed and the software system prototype will be demonstrated. At last, multi-scale field experiment campaigns, such as the field campaigns in Gansu and Beijing, China will be introduced briefly. The ground based, tower based, and airborne multi-angular measurement system have been built to measure the directional reflectance, emission and scattering characteristics from visible, near infrared, thermal infrared and microwave bands for model validation and calibration. The remote sensing pixel scale "true value" measurement strategy have been designed to gain the ground "true value" of LST, ALBEDO, LAI, soil moisture and ET etc. at 1-km2 for remote sensing product validation.

CoryneRegNet: an ontology-based data warehouse of corynebacterial transcription factors and regulatory networks.

PubMed

Baumbach, Jan; Brinkrolf, Karina; Czaja, Lisa F; Rahmann, Sven; Tauch, Andreas

2006-02-14

The application of DNA microarray technology in post-genomic analysis of bacterial genome sequences has allowed the generation of huge amounts of data related to regulatory networks. This data along with literature-derived knowledge on regulation of gene expression has opened the way for genome-wide reconstruction of transcriptional regulatory networks. These large-scale reconstructions can be converted into in silico models of bacterial cells that allow a systematic analysis of network behavior in response to changing environmental conditions. CoryneRegNet was designed to facilitate the genome-wide reconstruction of transcriptional regulatory networks of corynebacteria relevant in biotechnology and human medicine. During the import and integration process of data derived from experimental studies or literature knowledge CoryneRegNet generates links to genome annotations, to identified transcription factors and to the corresponding cis-regulatory elements. CoryneRegNet is based on a multi-layered, hierarchical and modular concept of transcriptional regulation and was implemented by using the relational database management system MySQL and an ontology-based data structure. Reconstructed regulatory networks can be visualized by using the yFiles JAVA graph library. As an application example of CoryneRegNet, we have reconstructed the global transcriptional regulation of a cellular module involved in SOS and stress response of corynebacteria. CoryneRegNet is an ontology-based data warehouse that allows a pertinent data management of regulatory interactions along with the genome-scale reconstruction of transcriptional regulatory networks. These models can further be combined with metabolic networks to build integrated models of cellular function including both metabolism and its transcriptional regulation.

Fast Shear Compounding Using Robust Two-dimensional Shear Wave Speed Calculation and Multi-directional Filtering

PubMed Central

Song, Pengfei; Manduca, Armando; Zhao, Heng; Urban, Matthew W.; Greenleaf, James F.; Chen, Shigao

2014-01-01

A fast shear compounding method was developed in this study using only one shear wave push-detect cycle, such that the shear wave imaging frame rate is preserved and motion artifacts are minimized. The proposed method is composed of the following steps: 1. applying a comb-push to produce multiple differently angled shear waves at different spatial locations simultaneously; 2. decomposing the complex shear wave field into individual shear wave fields with differently oriented shear waves using a multi-directional filter; 3. using a robust two-dimensional (2D) shear wave speed calculation to reconstruct 2D shear elasticity maps from each filter direction; 4. compounding these 2D maps from different directions into a final map. An inclusion phantom study showed that the fast shear compounding method could achieve comparable performance to conventional shear compounding without sacrificing the imaging frame rate. A multi-inclusion phantom experiment showed that the fast shear compounding method could provide a full field-of-view (FOV), 2D, and compounded shear elasticity map with three types of inclusions clearly resolved and stiffness measurements showing excellent agreement to the nominal values. PMID:24613636

BICEP2/Keck Array VIII: Measurement of Gravitational Lensing from Large-scale B-mode Polarization

NASA Astrophysics Data System (ADS)

BICEP2 Collaboration; Keck Array Collaboration; Ade, P. A. R.; Ahmed, Z.; Aikin, R. W.; Alexander, K. D.; Barkats, D.; Benton, S. J.; Bischoff, C. A.; Bock, J. J.; Bowens-Rubin, R.; Brevik, J. A.; Buder, I.; Bullock, E.; Buza, V.; Connors, J.; Crill, B. P.; Duband, L.; Dvorkin, C.; Filippini, J. P.; Fliescher, S.; Grayson, J.; Halpern, M.; Harrison, S.; Hildebrandt, S. R.; Hilton, G. C.; Hui, H.; Irwin, K. D.; Kang, J.; Karkare, K. S.; Karpel, E.; Kaufman, J. P.; Keating, B. G.; Kefeli, S.; Kernasovskiy, S. A.; Kovac, J. M.; Kuo, C. L.; Leitch, E. M.; Lueker, M.; Megerian, K. G.; Namikawa, T.; Netterfield, C. B.; Nguyen, H. T.; O'Brient, R.; Ogburn, R. W., IV; Orlando, A.; Pryke, C.; Richter, S.; Schwarz, R.; Sheehy, C. D.; Staniszewski, Z. K.; Steinbach, B.; Sudiwala, R. V.; Teply, G. P.; Thompson, K. L.; Tolan, J. E.; Tucker, C.; Turner, A. D.; Vieregg, A. G.; Weber, A. C.; Wiebe, D. V.; Willmert, J.; Wong, C. L.; Wu, W. L. K.; Yoon, K. W.

2016-12-01

We present measurements of polarization lensing using the 150 GHz maps, which include all data taken by the BICEP2 and Keck Array Cosmic Microwave Background polarization experiments up to and including the 2014 observing season (BK14). Despite their modest angular resolution (˜ 0.5°), the excellent sensitivity (˜3μK-arcmin) of these maps makes it possible to directly reconstruct the lensing potential using only information at larger angular scales ({ℓ}≤700). From the auto-spectrum of the reconstructed potential, we measure an amplitude of the spectrum to be ALφ φ=1.15+/- 0.36 (Planck ΛCDM prediction corresponds to ALφ φ =1) and reject the no-lensing hypothesis at 5.8σ , which is the highest significance achieved to date using an EB lensing estimator. Taking the cross-spectrum of the reconstructed potential with the Planck 2015 lensing map yields ALφ φ =1.13+/- 0.20. These direct measurements of ALφ φ are consistent with the ΛCDM cosmology and with that derived from the previously reported BK14 B-mode auto-spectrum (AL{BB}=1.20+/- 0.17). We perform a series of null tests and consistency checks to show that these results are robust against systematics and are insensitive to analysis choices. These results unambiguously demonstrate that the B modes previously reported by BICEP/Keck at intermediate angular scales (150≲ ℓ ≲ 350) are dominated by gravitational lensing. The good agreement between the lensing amplitudes obtained from the lensing reconstruction and B-mode spectrum starts to place constraints on any alternative cosmological sources of B modes at these angular scales.

Land-Sea relationships of climate-related records: example of the Holocene in the eastern Canadian Arctic and Greenland

NASA Astrophysics Data System (ADS)

de Vernal, Anne; Fréchette, Bianca; Hillaire-Marcel, Claude

2017-04-01

Anne de Vernal, Bianca Fréchette, Claude Hillaire-Marcel Important progresses have been made to reconstruct climate and ocean changes through time. However, there is often a hiatus between the land-based climate reconstructions and paleoceanographical data. The reconstructed parameters are not the same (e.g. surface air temperature vs. sea-surface temperature). Moreover, the spatial (local to regional) and temporal dimensions (seasonal, annual to multi-decadal) of proxy-data are often inconsistent, thus preventing direct correlation of time series and often leading to uncertainties in multi-site, multi-proxy compilations. Here, we address the issue of land-sea relationships in the eastern Canadian Arctic-Baffin Bay-Labrador Sea-western Greenland based on the examination of different climate-related information from marine cores (dinocysts) collected nearshore vs. offshore, ice cores (isotopes), fjord and lake data (pollen). The combined information tends to indicate that "climate" changes are not easily neither adequately captured by temperature and temperature shifts. However, the seasonal contrast of temperatures seems to be a key parameter. Whereas it is often attenuated offshore, it is generally easy to reconstruct nearshore, where water stratification is usually stronger. The confrontation of data also shows a relationship between ice core data and sea-ice cover and/or sea-surface salinity, suggesting that air-sea exchanges in basins surrounding ice sheets play a significant role with respect to their isotopic composition. On the whole, combined onshore-offshore data consistently suggest a two-step shift towards optimal summer and winter conditions the circum Baffin Bay and northern Labrador Sea at 7.5 and 6 ka BP. These delayed optimal conditions seem to result from ice-meltwater discharges maintaining low salinity conditions in marine surface waters and thus a strong seasonality.

Context-specific metabolic networks are consistent with experiments.

PubMed

Becker, Scott A; Palsson, Bernhard O

2008-05-16

Reconstructions of cellular metabolism are publicly available for a variety of different microorganisms and some mammalian genomes. To date, these reconstructions are "genome-scale" and strive to include all reactions implied by the genome annotation, as well as those with direct experimental evidence. Clearly, many of the reactions in a genome-scale reconstruction will not be active under particular conditions or in a particular cell type. Methods to tailor these comprehensive genome-scale reconstructions into context-specific networks will aid predictive in silico modeling for a particular situation. We present a method called Gene Inactivity Moderated by Metabolism and Expression (GIMME) to achieve this goal. The GIMME algorithm uses quantitative gene expression data and one or more presupposed metabolic objectives to produce the context-specific reconstruction that is most consistent with the available data. Furthermore, the algorithm provides a quantitative inconsistency score indicating how consistent a set of gene expression data is with a particular metabolic objective. We show that this algorithm produces results consistent with biological experiments and intuition for adaptive evolution of bacteria, rational design of metabolic engineering strains, and human skeletal muscle cells. This work represents progress towards producing constraint-based models of metabolism that are specific to the conditions where the expression profiling data is available.

The Uncertainty of Long-term Linear Trend in Global SST Due to Internal Variation

NASA Astrophysics Data System (ADS)

Lian, Tao

2016-04-01

In most parts of the global ocean, the magnitude of the long-term linear trend in sea surface temperature (SST) is much smaller than the amplitude of local multi-scale internal variation. One can thus use the record of a specified period to arbitrarily determine the value and the sign of the long-term linear trend in regional SST, and further leading to controversial conclusions on how global SST responds to global warming in the recent history. Analyzing the linear trend coefficient estimated by the ordinary least-square method indicates that the linear trend consists of two parts: One related to the long-term change, and the other related to the multi-scale internal variation. The sign of the long-term change can be correctly reproduced only when the magnitude of the linear trend coefficient is greater than a theoretical threshold which scales the influence from the multi-scale internal variation. Otherwise, the sign of the linear trend coefficient will depend on the phase of the internal variation, or in the other words, the period being used. An improved least-square method is then proposed to reduce the theoretical threshold. When apply the new method to a global SST reconstruction from 1881 to 2013, we find that in a large part of Pacific, the southern Indian Ocean and North Atlantic, the influence from the multi-scale internal variation on the sign of the linear trend coefficient can-not be excluded. Therefore, the resulting warming or/and cooling linear trends in these regions can-not be fully assigned to global warming.

Algorithm for the classification of multi-modulating signals on the electrocardiogram.

PubMed

Mita, Mitsuo

2007-03-01

This article discusses the algorithm to measure electrocardiogram (ECG) and respiration simultaneously and to have the diagnostic potentiality for sleep apnoea from ECG recordings. The algorithm is composed by the combination with the three particular scale transform of a(j)(t), u(j)(t), o(j)(a(j)) and the statistical Fourier transform (SFT). Time and magnitude scale transforms of a(j)(t), u(j)(t) change the source into the periodic signal and tau(j) = o(j)(a(j)) confines its harmonics into a few instantaneous components at tau(j) being a common instant on two scales between t and tau(j). As a result, the multi-modulating source is decomposed by the SFT and is reconstructed into ECG, respiration and the other signals by inverse transform. The algorithm is expected to get the partial ventilation and the heart rate variability from scale transforms among a(j)(t), a(j+1)(t) and u(j+1)(t) joining with each modulation. The algorithm has a high potentiality of the clinical checkup for the diagnosis of sleep apnoea from ECG recordings.

Multi-Mounted X-Ray Computed Tomography.

PubMed

Fu, Jian; Liu, Zhenzhong; Wang, Jingzheng

2016-01-01

Most existing X-ray computed tomography (CT) techniques work in single-mounted mode and need to scan the inspected objects one by one. It is time-consuming and not acceptable for the inspection in a large scale. In this paper, we report a multi-mounted CT method and its first engineering implementation. It consists of a multi-mounted scanning geometry and the corresponding algebraic iterative reconstruction algorithm. This approach permits the CT rotation scanning of multiple objects simultaneously without the increase of penetration thickness and the signal crosstalk. Compared with the conventional single-mounted methods, it has the potential to improve the imaging efficiency and suppress the artifacts from the beam hardening and the scatter. This work comprises a numerical study of the method and its experimental verification using a dataset measured with a developed multi-mounted X-ray CT prototype system. We believe that this technique is of particular interest for pushing the engineering applications of X-ray CT.

Restoration of Ecological Infrastructure in Rural Areas after Earthquake – A Case Study from Dujiangyan, Sichuan Province

NASA Astrophysics Data System (ADS)

Fu, Fei

2018-05-01

After Wenchuan and Lushan earthquake, the experience of Sichuan reconstruction planning is an important sample of agricultural village human settlements safety and regional ecological environment restoration. This paper combines the experience of the reconstruction of Dujiangyan after the Wenchuan earthquake - that is, the concept of sustainable ecological restoration as well as the concept of regional ecological restoration, and the post-disaster recovery study on Ya'an Zhougongshan Chengqing Temple and the surrounding environment after Lushan earthquake, trying to integrate into the process of post - disaster ecological restoration. Through a comprehensive assessment of the thinking on the regional scale issues and the impact of rural ecological infrastructure, we proposed macro-cognitive and multi-level measures of ecological restoration projects in order to provide effective methods to restore regional ecological environment and reconstruct sustainable human settlements in affected areas in the latest Jiuzhaigou earthquake.

Multiscale deformation behavior for multilayered steel by in-situ FE-SEM

NASA Astrophysics Data System (ADS)

Tanaka, Y.; Kishimoto, S.; Yin, F.; Kobayashi, M.; Tomimatsu, T.; Kagawa, K.

2010-03-01

The multi-scale deformation behavior of multi-layered steel during tensile loading was investigated by in-situ FE-SEM observation coupled with multi-scale pattern. The material used was multi-layered steel sheet consisting of martensitic and austenitic stainless steel layers. Prior to in-situ tensile testing, the multi-scale pattern combined with a grid and random dots were fabricated by electron beam lithography on the polished surface in the area of 1 mm2 to facilitate direct observation of multi-scale deformation. Both of the grids with pitches of 10 μm and a random speckle pattern ranging from 200 nm to a few μm sizes were drawn onto the specimen surface at same location. The electron moiré method was applied to measure the strain distribution in the deformed specimens at a millimeter scale and digital images correlation method was applied to measure the in-plane deformation and strain distribution at a micron meter scale acquired before and after at various increments of straining. The results showed that the plastic deformation in the austenitic stainless steel layer was larger than the martensitic steel layer at millimeter scale. However, heterogeneous intrinsic grain-scale plastic deformation was clearly observed and it increased with increasing the plastic deformation.

Reconstructions of solar irradiance on centennial time scales

NASA Astrophysics Data System (ADS)

Krivova, Natalie; Solanki, Sami K.; Dasi Espuig, Maria; Kok Leng, Yeo

Solar irradiance is the main external source of energy to Earth's climate system. The record of direct measurements covering less than 40 years is too short to study solar influence on Earth's climate, which calls for reconstructions of solar irradiance into the past with the help of appropriate models. An obvious requirement to a competitive model is its ability to reproduce observed irradiance changes, and a successful example of such a model is presented by the SATIRE family of models. As most state-of-the-art models, SATIRE assumes that irradiance changes on time scales longer than approximately a day are caused by the evolving distribution of dark and bright magnetic features on the solar surface. The surface coverage by such features as a function of time is derived from solar observations. The choice of these depends on the time scale in question. Most accurate is the version of the model that employs full-disc spatially-resolved solar magnetograms and reproduces over 90% of the measured irradiance variation, including the overall decreasing trend in the total solar irradiance over the last four cycles. Since such magnetograms are only available for about four decades, reconstructions on time scales of centuries have to rely on disc-integrated proxies of solar magnetic activity, such as sunspot areas and numbers. Employing a surface flux transport model and sunspot observations as input, we have being able to produce synthetic magnetograms since 1700. This improves the temporal resolution of the irradiance reconstructions on centennial time scales. The most critical aspect of such reconstructions remains the uncertainty in the magnitude of the secular change.

Multi-Scale Transport Properties of Fine-Grained Rocks: A Case Study of the Kirtland Formation, San Juan Basin, USA

NASA Astrophysics Data System (ADS)

Heath, J. E.; Dewers, T. A.; McPherson, B. J.; Wilson, T. H.; Flach, T.

2009-12-01

Understanding and characterizing transport properties of fine-grained rocks is critical in development of shale gas plays or assessing retention of CO2 at geologic storage sites. Difficulties arise in that both small scale (i.e., ~ nm) properties of the rock matrix and much larger scale fractures, faults, and sedimentological architecture govern migration of multiphase fluids. We present a multi-scale investigation of sealing and transport properties of the Kirtland Formation, which is a regional aquitard and reservoir seal in the San Juan Basin, USA. Sub-micron dual FIB/SEM imaging and reconstruction of 3D pore networks in core samples reveal a variety of pore types, including slit-shaped pores that are co-located with sedimentary structures and variations in mineralogy. Micron-scale chemical analysis and XRD reveal a mixture of mixed-layer smectite/illite, chlorite, quartz, and feldspar with little organic matter. Analysis of sub-micron digital reconstructions, mercury capillary injection pressure, and gas breakthrough measurements indicate a high quality sealing matrix. Natural full and partially mineralized fractures observed in core and in FMI logs include those formed from early soil-forming processes, differential compaction, and tectonic events. The potential impact of both fracture and matrix properties on large-scale transport is investigated through an analysis of natural helium from core samples, 3D seismic data and poro-elastic modeling. While seismic interpretations suggest considerable fracturing of the Kirtland, large continuous fracture zones and faults extending through the seal to the surface cannot be inferred from the data. Observed Kirtland Formation multi-scale transport properties are included as part of a risk assessment methodology for CO2 storage. Acknowledgements: The authors gratefully acknowledge the U.S. Department of Energy’s (DOE) National Energy Technology Laboratory for sponsoring this project. The DOE’s Basic Energy Science Office funded the dual FIB/SEM analysis. The Kirtland Formation overlies the coal seams of the Fruitland into which CO2 has been injected as a Phase II demonstration of the Southwest Regional Partnership on Carbon Sequestration. Sandia is a multiprogram laboratory operated by Sandia Corporation, a Lockheed Martin Company, for the U.S. Department of Energy under contract DE-ACOC4-94AL85000.

Parallel Mutual Information Based Construction of Genome-Scale Networks on the Intel® Xeon Phi™ Coprocessor.

PubMed

Misra, Sanchit; Pamnany, Kiran; Aluru, Srinivas

2015-01-01

Construction of whole-genome networks from large-scale gene expression data is an important problem in systems biology. While several techniques have been developed, most cannot handle network reconstruction at the whole-genome scale, and the few that can, require large clusters. In this paper, we present a solution on the Intel Xeon Phi coprocessor, taking advantage of its multi-level parallelism including many x86-based cores, multiple threads per core, and vector processing units. We also present a solution on the Intel® Xeon® processor. Our solution is based on TINGe, a fast parallel network reconstruction technique that uses mutual information and permutation testing for assessing statistical significance. We demonstrate the first ever inference of a plant whole genome regulatory network on a single chip by constructing a 15,575 gene network of the plant Arabidopsis thaliana from 3,137 microarray experiments in only 22 minutes. In addition, our optimization for parallelizing mutual information computation on the Intel Xeon Phi coprocessor holds out lessons that are applicable to other domains.

Multi-fluid Dynamics for Supersonic Jet-and-Crossflows and Liquid Plug Rupture

NASA Astrophysics Data System (ADS)

Hassan, Ezeldin A.

Multi-fluid dynamics simulations require appropriate numerical treatments based on the main flow characteristics, such as flow speed, turbulence, thermodynamic state, and time and length scales. In this thesis, two distinct problems are investigated: supersonic jet and crossflow interactions; and liquid plug propagation and rupture in an airway. Gaseous non-reactive ethylene jet and air crossflow simulation represents essential physics for fuel injection in SCRAMJET engines. The regime is highly unsteady, involving shocks, turbulent mixing, and large-scale vortical structures. An eddy-viscosity-based multi-scale turbulence model is proposed to resolve turbulent structures consistent with grid resolution and turbulence length scales. Predictions of the time-averaged fuel concentration from the multi-scale model is improved over Reynolds-averaged Navier-Stokes models originally derived from stationary flow. The response to the multi-scale model alone is, however, limited, in cases where the vortical structures are small and scattered thus requiring prohibitively expensive grids in order to resolve the flow field accurately. Statistical information related to turbulent fluctuations is utilized to estimate an effective turbulent Schmidt number, which is shown to be highly varying in space. Accordingly, an adaptive turbulent Schmidt number approach is proposed, by allowing the resolved field to adaptively influence the value of turbulent Schmidt number in the multi-scale turbulence model. The proposed model estimates a time-averaged turbulent Schmidt number adapted to the computed flowfield, instead of the constant value common to the eddy-viscosity-based Navier-Stokes models. This approach is assessed using a grid-refinement study for the normal injection case, and tested with 30 degree injection, showing improved results over the constant turbulent Schmidt model both in mean and variance of fuel concentration predictions. For the incompressible liquid plug propagation and rupture study, numerical simulations are conducted using an Eulerian-Lagrangian approach with a continuous-interface method. A reconstruction scheme is developed to allow topological changes during plug rupture by altering the connectivity information of the interface mesh. Rupture time is shown to be delayed as the initial precursor film thickness increases. During the plug rupture process, a sudden increase of mechanical stresses on the tube wall is recorded, which can cause tissue damage.

Comparison of multi-subject ICA methods for analysis of fMRI data

PubMed Central

Erhardt, Erik Barry; Rachakonda, Srinivas; Bedrick, Edward; Allen, Elena; Adali, Tülay; Calhoun, Vince D.

2010-01-01

Spatial independent component analysis (ICA) applied to functional magnetic resonance imaging (fMRI) data identifies functionally connected networks by estimating spatially independent patterns from their linearly mixed fMRI signals. Several multi-subject ICA approaches estimating subject-specific time courses (TCs) and spatial maps (SMs) have been developed, however there has not yet been a full comparison of the implications of their use. Here, we provide extensive comparisons of four multi-subject ICA approaches in combination with data reduction methods for simulated and fMRI task data. For multi-subject ICA, the data first undergo reduction at the subject and group levels using principal component analysis (PCA). Comparisons of subject-specific, spatial concatenation, and group data mean subject-level reduction strategies using PCA and probabilistic PCA (PPCA) show that computationally intensive PPCA is equivalent to PCA, and that subject-specific and group data mean subject-level PCA are preferred because of well-estimated TCs and SMs. Second, aggregate independent components are estimated using either noise free ICA or probabilistic ICA (PICA). Third, subject-specific SMs and TCs are estimated using back-reconstruction. We compare several direct group ICA (GICA) back-reconstruction approaches (GICA1-GICA3) and an indirect back-reconstruction approach, spatio-temporal regression (STR, or dual regression). Results show the earlier group ICA (GICA1) approximates STR, however STR has contradictory assumptions and may show mixed-component artifacts in estimated SMs. Our evidence-based recommendation is to use GICA3, introduced here, with subject-specific PCA and noise-free ICA, providing the most robust and accurate estimated SMs and TCs in addition to offering an intuitive interpretation. PMID:21162045

Advanced texture filtering: a versatile framework for reconstructing multi-dimensional image data on heterogeneous architectures

NASA Astrophysics Data System (ADS)

Zellmann, Stefan; Percan, Yvonne; Lang, Ulrich

2015-01-01

Reconstruction of 2-d image primitives or of 3-d volumetric primitives is one of the most common operations performed by the rendering components of modern visualization systems. Because this operation is often aided by GPUs, reconstruction is typically restricted to first-order interpolation. With the advent of in situ visualization, the assumption that rendering algorithms are in general executed on GPUs is however no longer adequate. We thus propose a framework that provides versatile texture filtering capabilities: up to third-order reconstruction using various types of cubic filtering and interpolation primitives; cache-optimized algorithms that integrate seamlessly with GPGPU rendering or with software rendering that was optimized for cache-friendly "Structure of Array" (SoA) access patterns; a memory management layer (MML) that gracefully hides the complexities of extra data copies necessary for memory access optimizations such as swizzling, for rendering on GPGPUs, or for reconstruction schemes that rely on pre-filtered data arrays. We prove the effectiveness of our software architecture by integrating it into and validating it using the open source direct volume rendering (DVR) software DeskVOX.

Genome-scale reconstruction of the sigma factor network in Escherichia coli: topology and functional states

PubMed Central

2014-01-01

Background At the beginning of the transcription process, the RNA polymerase (RNAP) core enzyme requires a σ-factor to recognize the genomic location at which the process initiates. Although the crucial role of σ-factors has long been appreciated and characterized for many individual promoters, we do not yet have a genome-scale assessment of their function. Results Using multiple genome-scale measurements, we elucidated the network of σ-factor and promoter interactions in Escherichia coli. The reconstructed network includes 4,724 σ-factor-specific promoters corresponding to transcription units (TUs), representing an increase of more than 300% over what has been previously reported. The reconstructed network was used to investigate competition between alternative σ-factors (the σ70 and σ38 regulons), confirming the competition model of σ substitution and negative regulation by alternative σ-factors. Comparison with σ-factor binding in Klebsiella pneumoniae showed that transcriptional regulation of conserved genes in closely related species is unexpectedly divergent. Conclusions The reconstructed network reveals the regulatory complexity of the promoter architecture in prokaryotic genomes, and opens a path to the direct determination of the systems biology of their transcriptional regulatory networks. PMID:24461193

Integrated large view angle hologram system with multi-slm

NASA Astrophysics Data System (ADS)

Yang, ChengWei; Liu, Juan

2017-10-01

Recently holographic display has attracted much attention for its ability to generate real-time 3D reconstructed image. CGH provides an effective way to produce hologram, and spacial light modulator (SLM) is used to reconstruct the image. However the reconstructing system is usually very heavy and complex, and the view-angle is limited by the pixel size and spatial bandwidth product (SBP) of the SLM. In this paper a light portable holographic display system is proposed by integrating the optical elements and host computer units.Which significantly reduces the space taken in horizontal direction. CGH is produced based on the Fresnel diffraction and point source method. To reduce the memory usage and image distortion, we use an optimized accurate compressed look up table method (AC-LUT) to compute the hologram. In the system, six SLMs are concatenated to a curved plane, each one loading the phase-only hologram in a different angle of the object, the horizontal view-angle of the reconstructed image can be expanded to about 21.8°.

Research Advances on Radiation Transfer Modeling and Inversion for Multi-scale Land Surface Remote Sensing

NASA Astrophysics Data System (ADS)

Liu, Q.; Li, J.; Du, Y.; Wen, J.; Zhong, B.; Wang, K.

2011-12-01

As the remote sensing data accumulating, it is a challenge and significant issue how to generate high accurate and consistent land surface parameter product from the multi source remote observation and the radiation transfer modeling and inversion methodology are the theoretical bases. In this paper, recent research advances and unresolved issues are presented. At first, after a general overview, recent research advances on multi-scale remote sensing radiation transfer modeling are presented, including leaf spectrum model, vegetation canopy BRDF models, directional thermal infrared emission models, rugged mountains area radiation models, and kernel driven models etc. Then, new methodologies on land surface parameters inversion based on multi-source remote sensing data are proposed, taking the land surface Albedo, leaf area index, temperature/emissivity, and surface net radiation as examples. A new synthetic land surface parameter quantitative remote sensing product generation system is suggested and the software system prototype will be demonstrated. At last, multi-scale field experiment campaigns, such as the field campaigns in Gansu and Beijing, China are introduced briefly. The ground based, tower based, and airborne multi-angular measurement system have been built to measure the directional reflectance, emission and scattering characteristics from visible, near infrared, thermal infrared and microwave bands for model validation and calibration. The remote sensing pixel scale "true value" measurement strategy have been designed to gain the ground "true value" of LST, ALBEDO, LAI, soil moisture and ET etc. at 1-km2 for remote sensing product validation.

BPF-type region-of-interest reconstruction for parallel translational computed tomography.

PubMed

Wu, Weiwen; Yu, Hengyong; Wang, Shaoyu; Liu, Fenglin

2017-01-01

The objective of this study is to present and test a new ultra-low-cost linear scan based tomography architecture. Similar to linear tomosynthesis, the source and detector are translated in opposite directions and the data acquisition system targets on a region-of-interest (ROI) to acquire data for image reconstruction. This kind of tomographic architecture was named parallel translational computed tomography (PTCT). In previous studies, filtered backprojection (FBP)-type algorithms were developed to reconstruct images from PTCT. However, the reconstructed ROI images from truncated projections have severe truncation artefact. In order to overcome this limitation, we in this study proposed two backprojection filtering (BPF)-type algorithms named MP-BPF and MZ-BPF to reconstruct ROI images from truncated PTCT data. A weight function is constructed to deal with data redundancy for multi-linear translations modes. Extensive numerical simulations are performed to evaluate the proposed MP-BPF and MZ-BPF algorithms for PTCT in fan-beam geometry. Qualitative and quantitative results demonstrate that the proposed BPF-type algorithms cannot only more accurately reconstruct ROI images from truncated projections but also generate high-quality images for the entire image support in some circumstances.

Synthesizing late Holocene paleoclimate reconstructions: Lessons learned, common challenges, and implications for future research

NASA Astrophysics Data System (ADS)

Rodysill, J. R.

2017-12-01

Proxy-based reconstructions provide vital information for developing histories of environmental and climate changes. Networks of spatiotemporal paleoclimate information are powerful tools for understanding dynamical processes within the global climate system and improving model-based predictions of the patterns and magnitudes of climate changes at local- to global-scales. Compiling individual paleoclimate records and integrating reconstructed climate information in the context of an ensemble of multi-proxy records, which are fundamental for developing a spatiotemporal climate data network, are hindered by challenges related to data and information accessibility, chronological uncertainty, sampling resolution, climate proxy type, and differences between depositional environments. The U.S. Geological Survey (USGS) North American Holocene Climate Synthesis Working Group has been compiling and integrating multi-proxy paleoclimate data as part of an ongoing effort to synthesize Holocene climate records from North America. The USGS North American Holocene Climate Synthesis Working Group recently completed a late Holocene hydroclimate synthesis for the North American continent using several proxy types from a range of depositional environments, including lakes, wetlands, coastal marine, and cave speleothems. Using new age-depth relationships derived from the Bacon software package, we identified century-scale patterns of wetness and dryness for the past 2000 years with an age uncertainty-based confidence rating for each proxy record. Additionally, for highly-resolved North American lake sediment records, we computed average late Holocene sediment deposition rates and identified temporal trends in age uncertainty that are common to multiple lakes. This presentation addresses strengths and challenges of compiling and integrating data from different paleoclimate archives, with a particular focus on lake sediments, which may inform and guide future paleolimnological studies.

Retinex Image Processing: Improved Fidelity To Direct Visual Observation

NASA Technical Reports Server (NTRS)

Jobson, Daniel J.; Rahman, Zia-Ur; Woodell, Glenn A.

1996-01-01

Recorded color images differ from direct human viewing by the lack of dynamic range compression and color constancy. Research is summarized which develops the center/surround retinex concept originated by Edwin Land through a single scale design to a multi-scale design with color restoration (MSRCR). The MSRCR synthesizes dynamic range compression, color constancy, and color rendition and, thereby, approaches fidelity to direct observation.

Reconstructing White Walls: Multi-View Multi-Shot 3d Reconstruction of Textureless Surfaces

NASA Astrophysics Data System (ADS)

Ley, Andreas; Hänsch, Ronny; Hellwich, Olaf

2016-06-01

The reconstruction of the 3D geometry of a scene based on image sequences has been a very active field of research for decades. Nevertheless, there are still existing challenges in particular for homogeneous parts of objects. This paper proposes a solution to enhance the 3D reconstruction of weakly-textured surfaces by using standard cameras as well as a standard multi-view stereo pipeline. The underlying idea of the proposed method is based on improving the signal-to-noise ratio in weakly-textured regions while adaptively amplifying the local contrast to make better use of the limited numerical range in 8-bit images. Based on this premise, multiple shots per viewpoint are used to suppress statistically uncorrelated noise and enhance low-contrast texture. By only changing the image acquisition and adding a preprocessing step, a tremendous increase of up to 300% in completeness of the 3D reconstruction is achieved.

Post-Tsunami Reconstruction in Sri Lanka: Houses or Housing?

NASA Astrophysics Data System (ADS)

Khazai, B.; Franco, G.; Ingram, J. C.; Rumbaitis del Rio, C.

2005-12-01

Reconstruction can be an opportunity to address longer-term livelihood vulnerability within poor communities and households, and to empower the most vulnerable. The post-tsunami reconstruction efforts in Sri Lanka can be seen on two disconnected scales. On a local scale there seems to be a growing recognition by district-level government and NGOs on the importance of households in creating social, human and financial capital, as demonstrated by many programs targeted at rebuilding livelihoods and income-generating activities. On a national scale, however, programs have revealed an emphasis on houses as the physical capital rather than housing as the arena of social and economic life. The aim of national-scale programs is to deliver tangible and quantifiable products, in the form of houses built, often without regard of whether this complements or disrupts livelihoods. One example of such a directive is the implementation of a coastal buffer zone which will ban any new construction within a 100 to 200 meter band from the ocean and allowing only structures that sustained less than 40 percent damage to remain and rebuild. In general these kind of surviving structures along the coast are businesses such as hotels and restaurants. In an island nation such as Sri Lanka, where beach front property is by and large considered low-income housing, typically inhabited by fishermen who rely on the ocean for their livelihoods, the buffer zone constitutes a drastic oversight of local processes shaping these households. The product-oriented solution on the national scale has resulted in building permanent houses for fishery communities in resettlement sites kilometers away from the ocean. The focus of this presentation will be on reconciling the need for immediate shelter needs with a long-term perspective of livelihood rehabilitation using Sri Lanka as a case study. Houses themselves are often not an immediate priority for local people, whose first need is likely to resume income-generating activities. In normal times, building houses is seen as a multi-stage process often fitted around the local economic calendar: annual farming or fishing cycles for example. Disaster victims may choose to stay in makeshift shelters in the short term, hoping to have more time, money or materials for rebuilding later. A major challenge for the tsunami-stricken areas in Sri Lanka is to find ways of widening public participation in what to date has been a governmental framework that operates on two disconnected scales in its reconstruction efforts. There is a general absence of mechanisms for incorporating community participation into the governmental decision-making process. Local governments might have also been expected to play a larger role in recovery decision making, but frequently lack both the resources and the authority to become actively involved. Lack of participation in the construction process, has led on an over-reliance on outsiders, reinforcing an attitude of raised expectations.

Multi-scale variability and long-range memory in indoor Radon concentrations from Coimbra, Portugal

NASA Astrophysics Data System (ADS)

Donner, Reik V.; Potirakis, Stelios; Barbosa, Susana

2014-05-01

The presence or absence of long-range correlations in the variations of indoor Radon concentrations has recently attracted considerable interest. As a radioactive gas naturally emitted from the ground in certain geological settings, understanding environmental factors controlling Radon concentrations and their dynamics is important for estimating its effect on human health and the efficiency of possible measures for reducing the corresponding exposition. In this work, we re-analyze two high-resolution records of indoor Radon concentrations from Coimbra, Portugal, each of which spans several months of continuous measurements. In order to evaluate the presence of long-range correlations and fractal scaling, we utilize a multiplicity of complementary methods, including power spectral analysis, ARFIMA modeling, classical and multi-fractal detrended fluctuation analysis, and two different estimators of the signals' fractal dimensions. Power spectra and fluctuation functions reveal some complex behavior with qualitatively different properties on different time-scales: white noise in the high-frequency part, indications of some long-range correlated process dominating time scales of several hours to days, and pronounced low-frequency variability associated with tidal and/or meteorological forcing. In order to further decompose these different scales of variability, we apply two different approaches. On the one hand, applying multi-resolution analysis based on the discrete wavelet transform allows separately studying contributions on different time scales and characterize their specific correlation and scaling properties. On the other hand, singular system analysis (SSA) provides a reconstruction of the essential modes of variability. Specifically, by considering only the first leading SSA modes, we achieve an efficient de-noising of our environmental signals, highlighting the low-frequency variations together with some distinct scaling on sub-daily time-scales resembling the properties of a long-range correlated process.

EIT image regularization by a new Multi-Objective Simulated Annealing algorithm.

PubMed

Castro Martins, Thiago; Sales Guerra Tsuzuki, Marcos

2015-01-01

Multi-Objective Optimization can be used to produce regularized Electrical Impedance Tomography (EIT) images where the weight of the regularization term is not known a priori. This paper proposes a novel Multi-Objective Optimization algorithm based on Simulated Annealing tailored for EIT image reconstruction. Images are reconstructed from experimental data and compared with images from other Multi and Single Objective optimization methods. A significant performance enhancement from traditional techniques can be inferred from the results.

Temperature variability inferred from tree-ring records in Weichang region, China, and its teleconnection with large-scale climate forcing

NASA Astrophysics Data System (ADS)

Wang, Yanchao; Liu, Yu; Zhang, Huifang; Wang, Hui; Guo, Jingli; Zhang, Erliang; Wang, Jun; Li, Xiao

2018-04-01

Based on the combination of two dendrochronologies, the annual mean temperature from May to June for the last 160 years was reconstructed in Weichang region, China, with the predictor variables accounting 43.3% of the variance during the calibration period of 1956-2012. Warm periods with temperature levels great than the mean (17.66 °C) occurred in 1853-1881, 1886-1891, 1904-1909, 1923-1930, 1964-1970, 1980-1988, 1998-2002 and 2007-2011; and cold periods with temperature levels less than the mean occurred in 1882-1885, 1892-1898, 1901-1903, 1910-1922, 1931-1963, 1971-1979, 1989-1997 and 2003-2006. The reconstruction showed that droughts usually occurred in the warm years. And the reconstructed temperature series showed an almost reverse trend to the total precipitation of previous August to present July from Chifeng-Weichang on inter-decadal scale, which indicate the basic feature of climate was warm-dry and cold-wet in Weichang region. The reconstructed temperature series showed a linear increasing trend with a rise 0.11 °C from 1880 to 2012. Comparisons with other temperature series revealed a consistently warming trend after the mid-1950s and confirmed a good repeatability and high reliability in our reconstruction. Spatial correlation implied the reconstruction could represent a regional temperature signal in the large parts of northern China and Central-Eastern Mongolia. The multi-taper method reveals several significant periodicities in our reconstruction over the past 160 years, suggesting possible linkages with the El Niño-Southern Oscillation, lunar gravity, Pacific Decadal Oscillation (PDO) and solar activity. Correlation analysis between the reconstruction and Southern Oscillation Index (SOI), lunar geocentric declination, PDO and sunspot number further demonstrates that the temperature variations in Weichang region are negatively correlated with SOI and positively correlated with lunar gravity, PDO and solar activity in the long term.

Can Regional Climate Models be used in the assessment of vulnerability and risk caused by extreme events?

NASA Astrophysics Data System (ADS)

Nunes, Ana

2015-04-01

Extreme meteorological events played an important role in catastrophic occurrences observed in the past over densely populated areas in Brazil. This motived the proposal of an integrated system for analysis and assessment of vulnerability and risk caused by extreme events in urban areas that are particularly affected by complex topography. That requires a multi-scale approach, which is centered on a regional modeling system, consisting of a regional (spectral) climate model coupled to a land-surface scheme. This regional modeling system employs a boundary forcing method based on scale-selective bias correction and assimilation of satellite-based precipitation estimates. Scale-selective bias correction is a method similar to the spectral nudging technique for dynamical downscaling that allows internal modes to develop in agreement with the large-scale features, while the precipitation assimilation procedure improves the modeled deep-convection and drives the land-surface scheme variables. Here, the scale-selective bias correction acts only on the rotational part of the wind field, letting the precipitation assimilation procedure to correct moisture convergence, in order to reconstruct South American current climate within the South American Hydroclimate Reconstruction Project. The hydroclimate reconstruction outputs might eventually produce improved initial conditions for high-resolution numerical integrations in metropolitan regions, generating more reliable short-term precipitation predictions, and providing accurate hidrometeorological variables to higher resolution geomorphological models. Better representation of deep-convection from intermediate scales is relevant when the resolution of the regional modeling system is refined by any method to meet the scale of geomorphological dynamic models of stability and mass movement, assisting in the assessment of risk areas and estimation of terrain stability over complex topography. The reconstruction of past extreme events also helps the development of a system for decision-making, regarding natural and social disasters, and reducing impacts. Numerical experiments using this regional modeling system successfully modeled severe weather events in Brazil. Comparisons with the NCEP Climate Forecast System Reanalysis outputs were made at resolutions of about 40- and 25-km of the regional climate model.

Tree-Ring Reconstruction of Wet Season Rainfall Totals in the Amazon

NASA Astrophysics Data System (ADS)

Stahle, D. W.; Lopez, L.; Granato-Souza, D.; Barbosa, A. C. M. C.; Torbenson, M.; Villalba, R.; Pereira, G. D. A.; Feng, S.; Schongart, J.; Cook, E. R.

2017-12-01

The Amazon Basin is a globally important center of deep atmospheric convection, energy balance, and biodiversity, but only a handful of weather stations in this vast Basin have recorded rainfall measurements for at least 50 years. The available rainfall and river level observations suggest that the hydrologic cycle in the Amazon may have become amplified in the last 40-years, with more extreme rainfall and streamflow seasonality, deeper droughts, and more severe flooding. These changes in the largest hydrological system on earth may be early evidence of the expected consequences of anthropogenic climate change and deforestation in the coming century. Placing these observed and simulated changes in the context of natural climate variability during the late Holocene is a significant challenge for high-resolution paleoclimatology. We have developed exactly dated and well-replicated annual tree-ring chronologies from two native Amazonian tree species (Cedrela sp and Centrolobium microchaete). These moisture sensitive chronologies have been used to compute two reconstructions of wet season rainfall totals, one in the southern Amazon based on Centrolobium and another in the eastern equatorial Amazon using Cedrela. Both reconstructions are over 200-years long and extend the available instrumental observations in each region by over 150-years. These reconstructions are well correlated with the same regional and large-scale climate dynamics that govern the inter-annual variability of the instrumental wet season rainfall totals. Increased multi-decadal variability is reconstructed after 1950 with the Centrolobium chronologies in the southern Amazon. The Cedrela reconstruction from the eastern Amazon exhibits changes in the spatial pattern of correlation with regional rainfall stations and the large-scale sea surface temperature field after 1990 that may be consistent with recent changes in the mean position of the Inter-Tropical Convergence Zone in March over the western Atlantic and South American sector.

CoryneRegNet: An ontology-based data warehouse of corynebacterial transcription factors and regulatory networks

PubMed Central

Baumbach, Jan; Brinkrolf, Karina; Czaja, Lisa F; Rahmann, Sven; Tauch, Andreas

2006-01-01

Background The application of DNA microarray technology in post-genomic analysis of bacterial genome sequences has allowed the generation of huge amounts of data related to regulatory networks. This data along with literature-derived knowledge on regulation of gene expression has opened the way for genome-wide reconstruction of transcriptional regulatory networks. These large-scale reconstructions can be converted into in silico models of bacterial cells that allow a systematic analysis of network behavior in response to changing environmental conditions. Description CoryneRegNet was designed to facilitate the genome-wide reconstruction of transcriptional regulatory networks of corynebacteria relevant in biotechnology and human medicine. During the import and integration process of data derived from experimental studies or literature knowledge CoryneRegNet generates links to genome annotations, to identified transcription factors and to the corresponding cis-regulatory elements. CoryneRegNet is based on a multi-layered, hierarchical and modular concept of transcriptional regulation and was implemented by using the relational database management system MySQL and an ontology-based data structure. Reconstructed regulatory networks can be visualized by using the yFiles JAVA graph library. As an application example of CoryneRegNet, we have reconstructed the global transcriptional regulation of a cellular module involved in SOS and stress response of corynebacteria. Conclusion CoryneRegNet is an ontology-based data warehouse that allows a pertinent data management of regulatory interactions along with the genome-scale reconstruction of transcriptional regulatory networks. These models can further be combined with metabolic networks to build integrated models of cellular function including both metabolism and its transcriptional regulation. PMID:16478536

Simulation of Tomographic Reconstruction of Magnetosphere Plasma Distribution By Multi-spacecraft Systems.

NASA Astrophysics Data System (ADS)

Kunitsyn, V.; Nesterov, I.; Andreeva, E.; Zelenyi, L.; Veselov, M.; Galperin, Y.; Buchner, J.

A satellite radiotomography method for electron density distributions was recently proposed for closely-space multi-spacecraft group of high-altitude satellites to study the physics of reconnection process. The original idea of the ROY project is to use a constellation of spacecrafts (one main and several sub-satellites) in order to carry out closely-spaced multipoint measurements and 2D tomographic reconstruction of elec- tron density in the space between the main satellite and the subsatellites. The distances between the satellites were chosen to vary from dozens to few hundreds of kilometers. The easiest data interpretation is achieved when the subsatellites are placed along the plasma streamline. Then, whenever a plasma density irregularity moves between the main satellite and the subsatellites it will be scanned in different directions and we can get 2D distribution of plasma using these projections. However in general sub- satellites are not placed exactly along the plasma streamline. The method of plasma velocity determination relative to multi-spacecraft systems is considered. Possibilities of 3D tomographic imaging using multi-spacecraft systems are analyzed. The model- ing has shown that efficient scheme for 3D tomographic imaging would be to place spacecrafts in different planes so that the angle between the planes would make not more then ten degrees. Work is supported by INTAS PROJECT 2000-465.

Active appearance pyramids for object parametrisation and fitting.

PubMed

Zhang, Qiang; Bhalerao, Abhir; Dickenson, Edward; Hutchinson, Charles

2016-08-01

Object class representation is one of the key problems in various medical image analysis tasks. We propose a part-based parametric appearance model we refer to as an Active Appearance Pyramid (AAP). The parts are delineated by multi-scale Local Feature Pyramids (LFPs) for superior spatial specificity and distinctiveness. An AAP models the variability within a population with local translations of multi-scale parts and linear appearance variations of the assembly of the parts. It can fit and represent new instances by adjusting the shape and appearance parameters. The fitting process uses a two-step iterative strategy: local landmark searching followed by shape regularisation. We present a simultaneous local feature searching and appearance fitting algorithm based on the weighted Lucas and Kanade method. A shape regulariser is derived to calculate the maximum likelihood shape with respect to the prior and multiple landmark candidates from multi-scale LFPs, with a compact closed-form solution. We apply the 2D AAP on the modelling of variability in patients with lumbar spinal stenosis (LSS) and validate its performance on 200 studies consisting of routine axial and sagittal MRI scans. Intervertebral sagittal and parasagittal cross-sections are typically used for the diagnosis of LSS, we therefore build three AAPs on L3/4, L4/5 and L5/S1 axial cross-sections and three on parasagittal slices. Experiments show significant improvement in convergence range, robustness to local minima and segmentation precision compared with Constrained Local Models (CLMs), Active Shape Models (ASMs) and Active Appearance Models (AAMs), as well as superior performance in appearance reconstruction compared with AAMs. We also validate the performance on 3D CT volumes of hip joints from 38 studies. Compared to AAMs, AAPs achieve a higher segmentation and reconstruction precision. Moreover, AAPs have a significant improvement in efficiency, consuming about half the memory and less than 10% of the training time and 15% of the testing time. Copyright © 2016 Elsevier B.V. All rights reserved.

Multi-decadal to centennial scale variations in sea surface temperature off southeast Korea over the last 2000 yr

NASA Astrophysics Data System (ADS)

Lee, K. E.; Park, W.; Bae, S. W.; Nam, S. I.

2016-12-01

We have reconstructed variations in sea surface temperature (SST) for the last 2000 yr by using the alkenone unsaturation index of marine sediments of cores TY2010 PC4 and ARA/ES 03-01 GC01 recovered from the southwestern part of the East Sea. The core site is chracterized by very high sedimentation rate so that a new high-resolution continuous SST record can be reconstructed with an average temporal resolution of 2-7 years. The core top alkenone temperature (20.5°C) is higher than the annual averaged in situ SST (18 °C) and it corresponds to those of summer to autumn. During the last 2000 yr, the alkenone temperatures exhibited fluctuations on multi-decadal to centennial time scales. The temperatures were relatively warm fluctuating between 19.6°C and 21°C on centennial time scale during the period of AD 0- 1200. There were two evident cold periods: AD 1200-1400 and AD 1600-1800. The lowest temperature (approximately 18°C) occurred at AD 1290 and AD 1650. The temperatures increased toward 20 centry, which is consistent with anthropogenic global warming. Results of singular spectrum analysis of the last 2000 yr SST record suggest that there is characteristic periodicity of 100 yr and 160 yr and 50-60 yr, which can be natural variability of climate system. In addition, a comparison of the SST record with global volcanic forcing data shows that volcanic events also can be correlated to the distinct cooling events.

Identifying Decadal to Multi-decadal Variability in the Pacific by Empirical Mode Decomposition

NASA Astrophysics Data System (ADS)

Sommers, L. A.; Hamlington, B.; Cheon, S. H.

2016-12-01

Large scale climate variability in the Pacific Ocean like that associated with ENSO and the Pacific Decadal Oscillation (PDO) has been shown to have a significant impact on climate and sea level across a range of timescales. The changes related to these climate signals have worldwide impacts on fisheries, weather, and precipitation patterns among others. Understanding these inter-annual to multi-decadal oscillations is imperative to longer term climate forecasts and understanding how climate will behave, and its effect on changes in sea level. With a 110-year reconstruction of sea level, we examine decadal to multi-decadal variability seen in the sea level fluctuations in the Pacific Ocean. Using empirical mode decomposition (EMD), we break down regional sea level into a series of intrinsic mode functions (IMFs) and attempt attribution of these IMFs to specific climate modes of variability. In particular, and not unexpectedly, we identify IMFs associated with the PDO, finding correlations between the PDO Index and IMFs in the Pacific Ocean upwards of 0.6-0.8 over the 110-year reconstructed record. Perhaps more significantly, we also find evidence of a longer multi-decadal signal ( 50-60 years) in the higher order IMFs. This lower frequency variability has been suggested in previous literature as influencing GMSL, but here we find a regional pattern associated with this multi-decadal signal. By identifying and separating these periodic climate signals, we can gain a better understanding of how the sea level variability associated with these modes can impact sea level on short timescales and serve to exacerbate the effects of long-term sea level change.

An automated 3D reconstruction method of UAV images

NASA Astrophysics Data System (ADS)

Liu, Jun; Wang, He; Liu, Xiaoyang; Li, Feng; Sun, Guangtong; Song, Ping

2015-10-01

In this paper a novel fully automated 3D reconstruction approach based on low-altitude unmanned aerial vehicle system (UAVs) images will be presented, which does not require previous camera calibration or any other external prior knowledge. Dense 3D point clouds are generated by integrating orderly feature extraction, image matching, structure from motion (SfM) and multi-view stereo (MVS) algorithms, overcoming many of the cost, time limitations of rigorous photogrammetry techniques. An image topology analysis strategy is introduced to speed up large scene reconstruction by taking advantage of the flight-control data acquired by UAV. Image topology map can significantly reduce the running time of feature matching by limiting the combination of images. A high-resolution digital surface model of the study area is produced base on UAV point clouds by constructing the triangular irregular network. Experimental results show that the proposed approach is robust and feasible for automatic 3D reconstruction of low-altitude UAV images, and has great potential for the acquisition of spatial information at large scales mapping, especially suitable for rapid response and precise modelling in disaster emergency.

Microstructural Quantification, Property Prediction, and Stochastic Reconstruction of Heterogeneous Materials Using Limited X-Ray Tomography Data

NASA Astrophysics Data System (ADS)

Li, Hechao

An accurate knowledge of the complex microstructure of a heterogeneous material is crucial for quantitative structure-property relations establishment and its performance prediction and optimization. X-ray tomography has provided a non-destructive means for microstructure characterization in both 3D and 4D (i.e., structural evolution over time). Traditional reconstruction algorithms like filtered-back-projection (FBP) method or algebraic reconstruction techniques (ART) require huge number of tomographic projections and segmentation process before conducting microstructural quantification. This can be quite time consuming and computationally intensive. In this thesis, a novel procedure is first presented that allows one to directly extract key structural information in forms of spatial correlation functions from limited x-ray tomography data. The key component of the procedure is the computation of a "probability map", which provides the probability of an arbitrary point in the material system belonging to specific phase. The correlation functions of interest are then readily computed from the probability map. Using effective medium theory, accurate predictions of physical properties (e.g., elastic moduli) can be obtained. Secondly, a stochastic optimization procedure that enables one to accurately reconstruct material microstructure from a small number of x-ray tomographic projections (e.g., 20 - 40) is presented. Moreover, a stochastic procedure for multi-modal data fusion is proposed, where both X-ray projections and correlation functions computed from limited 2D optical images are fused to accurately reconstruct complex heterogeneous materials in 3D. This multi-modal reconstruction algorithm is proved to be able to integrate the complementary data to perform an excellent optimization procedure, which indicates its high efficiency in using limited structural information. Finally, the accuracy of the stochastic reconstruction procedure using limited X-ray projection data is ascertained by analyzing the microstructural degeneracy and the roughness of energy landscape associated with different number of projections. Ground-state degeneracy of a microstructure is found to decrease with increasing number of projections, which indicates a higher probability that the reconstructed configurations match the actual microstructure. The roughness of energy landscape can also provide information about the complexity and convergence behavior of the reconstruction for given microstructures and projection number.

Traces on the 'Ubaidian Shore: Mid-Holocene Eustasis, Marine Transgression, and Urbanization in the Mesopotamian Delta (Iraq)

NASA Astrophysics Data System (ADS)

Pournelle, J. R.; Smith, J. R.; Hritz, C.; Nsf Hrrpaa 1045974

2011-12-01

Development and flourit of pre-urban and urban complex societies of southern Mesopotamia (Iraq) during the mid-Holocene took place in the context of Tigris-Euphrates and Karun-Karkheh deltaic progradation on one hand, and marine transgression at the head of the Gulf on the other. Understanding these processes has profound implications for assessing likely resource bioavailability, resource extraction and transport options, population distribution and density, and labour requirements for intensification/ extensification of extraction and production activities during this critical formative period. Multiple attempts have been made to reconstruct the Gulf "shoreline" at various pre-historic and historical periods. Because no systematic coring operations have been undertaken in the region, these attempts have been hampered by the paucity of direct geologic evidence. Conflicting hypotheses based on models of deltaic subsidence, tectonic uplift, and and/or eustatic change were barely testable against scant available cores and archaeologically-derived proxies from a few sites on the western "shore," such as H3, Eridu, Ur, Uruk, and Tell al Oueli. Recently published coring operations in the Iranian Karun-Karkheh delta add considerably to the available corpus of archaeological and geomorphologic data useful for reconstructing the timeline and extent of these processes, especially on the eastern "shore," but these are also bounded in spatial and temporal extent. Multi-scale, multi-sensor processing of remote sensing data and imagery make possible a fuller interpretation of geomorphologic and artifactual evidence bearing on overall shoreline reconstruction from approximately 6,000-3,000 BCE. This paper reports the results of combining interpreted LANDSAT, ASTER, SPOT, CORONA, Digital Globe, and other imagery with multiple derived Digital Elevation Models, thus providing stochastic boundaries for re-interpreting geological and archaeological point data, as well as new pilot data collected in 2010-2011. The result is better understanding of the likely location, extent, and impact of maximum mid-Holocene marine incursion into lower Mesopotamia and Khuzistan associated with deltaic geomorphological and ecological evolution, with implications for assessing site locations, agricultural potential, and water transport routes available to the world's oldest-known cities.

Development of the algorithm of measurement data and tomographic section reconstruction results processing for evaluating the respiratory activity of the lungs using the multi-angle electric impedance tomography

NASA Astrophysics Data System (ADS)

Aleksanyan, Grayr; Shcherbakov, Ivan; Kucher, Artem; Sulyz, Andrew

2018-04-01

Continuous monitoring of the patient's breathing by the method of multi-angle electric impedance tomography allows to obtain images of conduction change in the chest cavity during the monitoring. Direct analysis of images is difficult due to the large amount of information and low resolution images obtained by multi-angle electrical impedance tomography. This work presents a method for obtaining a graph of respiratory activity of the lungs based on the results of continuous lung monitoring using the multi-angle electrical impedance tomography method. The method makes it possible to obtain a graph of the respiratory activity of the left and right lungs separately, as well as a summary graph, to which it is possible to apply methods of processing the results of spirography.

Mesoscale Effective Property Simulations Incorporating Conductive Binder

DOE Office of Scientific and Technical Information (OSTI.GOV)

Trembacki, Bradley L.; Noble, David R.; Brunini, Victor E.

Lithium-ion battery electrodes are composed of active material particles, binder, and conductive additives that form an electrolyte-filled porous particle composite. The mesoscale (particle-scale) interplay of electrochemistry, mechanical deformation, and transport through this tortuous multi-component network dictates the performance of a battery at the cell-level. Effective electrode properties connect mesoscale phenomena with computationally feasible battery-scale simulations. We utilize published tomography data to reconstruct a large subsection (1000+ particles) of an NMC333 cathode into a computational mesh and extract electrode-scale effective properties from finite element continuum-scale simulations. We present a novel method to preferentially place a composite binder phase throughout the mesostructure,more » a necessary approach due difficulty distinguishing between non-active phases in tomographic data. We compare stress generation and effective thermal, electrical, and ionic conductivities across several binder placement approaches. Isotropic lithiation-dependent mechanical swelling of the NMC particles and the consideration of strain-dependent composite binder conductivity significantly impact the resulting effective property trends and stresses generated. Lastly, our results suggest that composite binder location significantly affects mesoscale behavior, indicating that a binder coating on active particles is not sufficient and that more accurate approaches should be used when calculating effective properties that will inform battery-scale models in this inherently multi-scale battery simulation challenge.« less

Mesoscale Effective Property Simulations Incorporating Conductive Binder

DOE PAGES

Trembacki, Bradley L.; Noble, David R.; Brunini, Victor E.; ...

2017-07-26

Lithium-ion battery electrodes are composed of active material particles, binder, and conductive additives that form an electrolyte-filled porous particle composite. The mesoscale (particle-scale) interplay of electrochemistry, mechanical deformation, and transport through this tortuous multi-component network dictates the performance of a battery at the cell-level. Effective electrode properties connect mesoscale phenomena with computationally feasible battery-scale simulations. We utilize published tomography data to reconstruct a large subsection (1000+ particles) of an NMC333 cathode into a computational mesh and extract electrode-scale effective properties from finite element continuum-scale simulations. We present a novel method to preferentially place a composite binder phase throughout the mesostructure,more » a necessary approach due difficulty distinguishing between non-active phases in tomographic data. We compare stress generation and effective thermal, electrical, and ionic conductivities across several binder placement approaches. Isotropic lithiation-dependent mechanical swelling of the NMC particles and the consideration of strain-dependent composite binder conductivity significantly impact the resulting effective property trends and stresses generated. Lastly, our results suggest that composite binder location significantly affects mesoscale behavior, indicating that a binder coating on active particles is not sufficient and that more accurate approaches should be used when calculating effective properties that will inform battery-scale models in this inherently multi-scale battery simulation challenge.« less

Generalized channeled polarimetry.

PubMed

Alenin, Andrey S; Tyo, J Scott

2014-05-01

Channeled polarimeters measure polarization by modulating the measured intensity in order to create polarization-dependent channels that can be demodulated to reveal the desired polarization information. A number of channeled systems have been described in the past, but their proposed designs often unintentionally sacrifice optimality for ease of algebraic reconstruction. To obtain more optimal systems, a generalized treatment of channeled polarimeters is required. This paper describes methods that enable handling of multi-domain modulations and reconstruction of polarization information using linear algebra. We make practical choices regarding use of either Fourier or direct channels to make these methods more immediately useful. Employing the introduced concepts to optimize existing systems often results in superficial system changes, like changing the order, orientation, thickness, or spacing of polarization elements. For the two examples we consider, we were able to reduce noise in the reconstruction to 34.1% and 57.9% of the original design values.

Vertical structure of medium-scale traveling ionospheric disturbances

NASA Astrophysics Data System (ADS)

Ssessanga, Nicholas; Kim, Yong Ha; Kim, Eunsol

2015-11-01

We develop an algorithm of computerized ionospheric tomography (CIT) to infer information on the vertical and horizontal structuring of electron density during nighttime medium-scale traveling ionospheric disturbances (MSTIDs). To facilitate digital CIT we have adopted total electron contents (TEC) from a dense Global Positioning System (GPS) receiver network, GEONET, which contains more than 1000 receivers. A multiplicative algebraic reconstruction technique was utilized with a calibrated IRI-2012 model as an initial solution. The reconstructed F2 peak layer varied in altitude with average peak-to-peak amplitude of ~52 km. In addition, the F2 peak layer anticorrelated with TEC variations. This feature supports a theory in which nighttime MSTID is composed of oscillating electric fields due to conductivity variations. Moreover, reconstructed TEC variations over two stations were reasonably close to variations directly derived from the measured TEC data set. Our tomographic analysis may thus help understand three-dimensional structure of MSTIDs in a quantitative way.

Position and volume estimation of atmospheric nuclear detonations from video reconstruction

NASA Astrophysics Data System (ADS)

Schmitt, Daniel T.

Recent work in digitizing films of foundational atmospheric nuclear detonations from the 1950s provides an opportunity to perform deeper analysis on these historical tests. This work leverages multi-view geometry and computer vision techniques to provide an automated means to perform three-dimensional analysis of the blasts for several points in time. The accomplishment of this requires careful alignment of the films in time, detection of features in the images, matching of features, and multi-view reconstruction. Sub-explosion features can be detected with a 67% hit rate and 22% false alarm rate. Hotspot features can be detected with a 71.95% hit rate, 86.03% precision and a 0.015% false positive rate. Detected hotspots are matched across 57-109 degree viewpoints with 76.63% average correct matching by defining their location relative to the center of the explosion, rotating them to the alternative viewpoint, and matching them collectively. When 3D reconstruction is applied to the hotspot matching it completes an automated process that has been used to create 168 3D point clouds with 31.6 points per reconstruction with each point having an accuracy of 0.62 meters with 0.35, 0.24, and 0.34 meters of accuracy in the x-, y- and z-direction respectively. As a demonstration of using the point clouds for analysis, volumes are estimated and shown to be consistent with radius-based models and in some cases improve on the level of uncertainty in the yield calculation.

Uncertainties in Past and Future Global Water Availability

NASA Astrophysics Data System (ADS)

Sheffield, J.; Kam, J.

2014-12-01

Understanding how water availability changes on inter-annual to decadal time scales and how it may change in the future under climate change are a key part of understanding future stresses on water and food security. Historic evaluations of water availability on regional to global scales are generally based on large-scale model simulations with their associated uncertainties, in particular for long-term changes. Uncertainties are due to model errors and missing processes, parameter uncertainty, and errors in meteorological forcing data. Recent multi-model inter-comparisons and impact studies have highlighted large differences for past reconstructions, due to different simplifying assumptions in the models or the inclusion of physical processes such as CO2 fertilization. Modeling of direct anthropogenic factors such as water and land management also carry large uncertainties in their physical representation and from lack of socio-economic data. Furthermore, there is little understanding of the impact of uncertainties in the meteorological forcings that underpin these historic simulations. Similarly, future changes in water availability are highly uncertain due to climate model diversity, natural variability and scenario uncertainty, each of which dominates at different time scales. In particular, natural climate variability is expected to dominate any externally forced signal over the next several decades. We present results from multi-land surface model simulations of the historic global availability of water in the context of natural variability (droughts) and long-term changes (drying). The simulations take into account the impact of uncertainties in the meteorological forcings and the incorporation of water management in the form of reservoirs and irrigation. The results indicate that model uncertainty is important for short-term drought events, and forcing uncertainty is particularly important for long-term changes, especially uncertainty in precipitation due to reduced gauge density in recent years. We also discuss uncertainties in future projections from these models as driven by bias-corrected and downscaled CMIP5 climate projections, in the context of the balance between climate model robustness and climate model diversity.

A Bayesian approach to distinguishing interdigitated tongue muscles from limited diffusion magnetic resonance imaging.

PubMed

Ye, Chuyang; Murano, Emi; Stone, Maureen; Prince, Jerry L

2015-10-01

The tongue is a critical organ for a variety of functions, including swallowing, respiration, and speech. It contains intrinsic and extrinsic muscles that play an important role in changing its shape and position. Diffusion tensor imaging (DTI) has been used to reconstruct tongue muscle fiber tracts. However, previous studies have been unable to reconstruct the crossing fibers that occur where the tongue muscles interdigitate, which is a large percentage of the tongue volume. To resolve crossing fibers, multi-tensor models on DTI and more advanced imaging modalities, such as high angular resolution diffusion imaging (HARDI) and diffusion spectrum imaging (DSI), have been proposed. However, because of the involuntary nature of swallowing, there is insufficient time to acquire a sufficient number of diffusion gradient directions to resolve crossing fibers while the in vivo tongue is in a fixed position. In this work, we address the challenge of distinguishing interdigitated tongue muscles from limited diffusion magnetic resonance imaging by using a multi-tensor model with a fixed tensor basis and incorporating prior directional knowledge. The prior directional knowledge provides information on likely fiber directions at each voxel, and is computed with anatomical knowledge of tongue muscles. The fiber directions are estimated within a maximum a posteriori (MAP) framework, and the resulting objective function is solved using a noise-aware weighted ℓ1-norm minimization algorithm. Experiments were performed on a digital crossing phantom and in vivo tongue diffusion data including three control subjects and four patients with glossectomies. On the digital phantom, effects of parameters, noise, and prior direction accuracy were studied, and parameter settings for real data were determined. The results on the in vivo data demonstrate that the proposed method is able to resolve interdigitated tongue muscles with limited gradient directions. The distributions of the computed fiber directions in both the controls and the patients were also compared, suggesting a potential clinical use for this imaging and image analysis methodology. Copyright © 2015 Elsevier Ltd. All rights reserved.

Fast shear compounding using robust 2-D shear wave speed calculation and multi-directional filtering.

PubMed

Song, Pengfei; Manduca, Armando; Zhao, Heng; Urban, Matthew W; Greenleaf, James F; Chen, Shigao

2014-06-01

A fast shear compounding method was developed in this study using only one shear wave push-detect cycle, such that the shear wave imaging frame rate is preserved and motion artifacts are minimized. The proposed method is composed of the following steps: 1. Applying a comb-push to produce multiple differently angled shear waves at different spatial locations simultaneously; 2. Decomposing the complex shear wave field into individual shear wave fields with differently oriented shear waves using a multi-directional filter; 3. Using a robust 2-D shear wave speed calculation to reconstruct 2-D shear elasticity maps from each filter direction; and 4. Compounding these 2-D maps from different directions into a final map. An inclusion phantom study showed that the fast shear compounding method could achieve comparable performance to conventional shear compounding without sacrificing the imaging frame rate. A multi-inclusion phantom experiment showed that the fast shear compounding method could provide a full field-of-view, 2-D and compounded shear elasticity map with three types of inclusions clearly resolved and stiffness measurements showing excellent agreement to the nominal values. Copyright © 2014 World Federation for Ultrasound in Medicine & Biology. Published by Elsevier Inc. All rights reserved.

Direct endoscopic video registration for sinus surgery

NASA Astrophysics Data System (ADS)

Mirota, Daniel; Taylor, Russell H.; Ishii, Masaru; Hager, Gregory D.

2009-02-01

Advances in computer vision have made possible robust 3D reconstruction of monocular endoscopic video. These reconstructions accurately represent the visible anatomy and, once registered to pre-operative CT data, enable a navigation system to track directly through video eliminating the need for an external tracking system. Video registration provides the means for a direct interface between an endoscope and a navigation system and allows a shorter chain of rigid-body transformations to be used to solve the patient/navigation-system registration. To solve this registration step we propose a new 3D-3D registration algorithm based on Trimmed Iterative Closest Point (TrICP)1 and the z-buffer algorithm.2 The algorithm takes as input a 3D point cloud of relative scale with the origin at the camera center, an isosurface from the CT, and an initial guess of the scale and location. Our algorithm utilizes only the visible polygons of the isosurface from the current camera location during each iteration to minimize the search area of the target region and robustly reject outliers of the reconstruction. We present example registrations in the sinus passage applicable to both sinus surgery and transnasal surgery. To evaluate our algorithm's performance we compare it to registration via Optotrak and present closest distance point to surface error. We show our algorithm has a mean closest distance error of .2268mm.

Probing atomic-scale friction on reconstructed surfaces of single-crystal semiconductors

NASA Astrophysics Data System (ADS)

Goryl, M.; Budzioch, J.; Krok, F.; Wojtaszek, M.; Kolmer, M.; Walczak, L.; Konior, J.; Gnecco, E.; Szymonski, M.

2012-02-01

Friction force microscopy (FFM) investigations have been performed on reconstructed (001) surfaces of InSb and Ge in an ultrahigh vacuum. On the c(8×2) reconstruction of InSb(001) atomic resolution is achieved under superlubric conditions, and the features observed in the lateral force images are precisely reproduced by numerical simulations, taking into account possible decorations of the probing tip. On the simultaneously acquired (1×3) reconstruction a significant disorder of the surface atoms is observed. If the loading force increases, friction becomes much larger on this reconstruction compared to the c(8×2) one. In FFM images acquired on the Ge(001)(2×1) characteristic substructures are resolved within the unit cells. In such a case, a strong dependence of the friction pattern on the scan direction is observed.

New well pattern optimization methodology in mature low-permeability anisotropic reservoirs

NASA Astrophysics Data System (ADS)

Qin, Jiazheng; Liu, Yuetian; Feng, Yueli; Ding, Yao; Liu, Liu; He, Youwei

2018-02-01

In China, lots of well patterns were designed before people knew the principal permeability direction in low-permeability anisotropic reservoirs. After several years’ production, it turns out that well line direction is unparallel with principal permeability direction. However, traditional well location optimization methods (in terms of the objective function such as net present value and/or ultimate recovery) are inapplicable, since wells are not free to move around in a mature oilfield. Thus, the well pattern optimization (WPO) of mature low-permeability anisotropic reservoirs is a significant but challenging task, since the original well pattern (WP) will be distorted and reconstructed due to permeability anisotropy. In this paper, we investigate the destruction and reconstruction of WP when the principal permeability direction and well line direction are unparallel. A new methodology was developed to quantitatively optimize the well locations of mature large-scale WP through a WPO algorithm on the basis of coordinate transformation (i.e. rotating and stretching). For a mature oilfield, large-scale WP has settled, so it is not economically viable to carry out further infill drilling. This paper circumvents this difficulty by combining the WPO algorithm with the well status (open or shut-in) and schedule adjustment. Finally, this methodology is applied to an example. Cumulative oil production rates of the optimized WP are higher, and water-cut is lower, which highlights the potential of the WPO methodology application in mature large-scale field development projects.

The impact of multi-decadal sub-surface circulation changes on sea surface chlorophyll patterns in the tropical Pacific

NASA Astrophysics Data System (ADS)

Schollaert Uz, S.; Busalacchi, A. J.; Smith, T. M.; Evans, M. N.; Brown, C.; Hackert, E. C.; Wang, X.

2016-12-01

The tropical Pacific is a region of strong forcing where physical oceanography primarily controls biological variability over the seasonal to interannual time scales observed since dedicated ocean color satellite remote sensing began in 1997. To quantify how multi-decadal, climate-scale changes impact marine biological dynamics, we used the correlation with sea-surface temperature and height to reconstruct a 50-year time series of surface chlorophyll concentrations. The reconstruction demonstrates greatest skill away from the coast and within 10o of the equator where chlorophyll variance is greatest and primarily associated with El Niño Southern Oscillation (ENSO) dynamics and secondarily associated with decadal variability. We observe significant basin-wide differences between east and central Pacific events when the El Niño events are strong: chlorophyll increases with La Niña and decreases with El Niño, with larger declines east of 180o for remotely-forced east Pacific events and west of 180o for locally-forced central Pacific events. Chlorophyll variations also reflect the physical dynamics of Pacific decadal variability with small but significant differences between cool and warm eras: consistent with advection variability west of 180o and likely driven by subsurface changes in the nutricline depth between 110-140oW. Comparisons with output from a fully-coupled biogeochemical model support the hypothesis that this anomalous region is controlled by lower frequency changes in subsurface circulation patterns that transport nutrients to the surface. Basin-wide chlorophyll distributions exhibiting spatial heterogeneity in response to multi-decadal climate forcing imply similar long-term changes in phytoplankton productivity, with implications for the marine food web and the ocean's role as a carbon sink.

Multidirectional Image Sensing for Microscopy Based on a Rotatable Robot.

PubMed

Shen, Yajing; Wan, Wenfeng; Zhang, Lijun; Yong, Li; Lu, Haojian; Ding, Weili

2015-12-15

Image sensing at a small scale is essentially important in many fields, including microsample observation, defect inspection, material characterization and so on. However, nowadays, multi-directional micro object imaging is still very challenging due to the limited field of view (FOV) of microscopes. This paper reports a novel approach for multi-directional image sensing in microscopes by developing a rotatable robot. First, a robot with endless rotation ability is designed and integrated with the microscope. Then, the micro object is aligned to the rotation axis of the robot automatically based on the proposed forward-backward alignment strategy. After that, multi-directional images of the sample can be obtained by rotating the robot within one revolution under the microscope. To demonstrate the versatility of this approach, we view various types of micro samples from multiple directions in both optical microscopy and scanning electron microscopy, and panoramic images of the samples are processed as well. The proposed method paves a new way for the microscopy image sensing, and we believe it could have significant impact in many fields, especially for sample detection, manipulation and characterization at a small scale.

Electronic Bandgap and Edge Reconstruction in Phosphorene Materials

DOE PAGES

Liang, Liangbo; Wang, Jun; Lin, Wenzhi; ...

2014-11-12

Single-layer black phosphorous (BP), or phosphorene, is a highly-anisotropic two-dimensional elemental material possessing promising semiconductor properties for flexible electronics. However, the direct bandgap of single-layer black phosphorus predicted theoretically has not been directly measured, and the properties of its edges have not been considered in detail. Here we report atomic scale electronic variation related to strain-induced anisotropic deformation of the puckered honeycomb structure of freshly cleaved black phosphorus using a highresolved scanning tunneling spectroscopy (STS) survey along the light (x) and heavy (y) effective mass directions. Through a combination of STS measurements and first-principles calculations, a model for edge reconstructionmore » is also determined. The reconstruction is shown to self-passivate any dangling bond by switching the oxidation state of phosphorous from +3 to +5.« less

LFNet: A Novel Bidirectional Recurrent Convolutional Neural Network for Light-Field Image Super-Resolution.

PubMed

Wang, Yunlong; Liu, Fei; Zhang, Kunbo; Hou, Guangqi; Sun, Zhenan; Tan, Tieniu

2018-09-01

The low spatial resolution of light-field image poses significant difficulties in exploiting its advantage. To mitigate the dependency of accurate depth or disparity information as priors for light-field image super-resolution, we propose an implicitly multi-scale fusion scheme to accumulate contextual information from multiple scales for super-resolution reconstruction. The implicitly multi-scale fusion scheme is then incorporated into bidirectional recurrent convolutional neural network, which aims to iteratively model spatial relations between horizontally or vertically adjacent sub-aperture images of light-field data. Within the network, the recurrent convolutions are modified to be more effective and flexible in modeling the spatial correlations between neighboring views. A horizontal sub-network and a vertical sub-network of the same network structure are ensembled for final outputs via stacked generalization. Experimental results on synthetic and real-world data sets demonstrate that the proposed method outperforms other state-of-the-art methods by a large margin in peak signal-to-noise ratio and gray-scale structural similarity indexes, which also achieves superior quality for human visual systems. Furthermore, the proposed method can enhance the performance of light field applications such as depth estimation.

Morphological rational multi-scale algorithm for color contrast enhancement

NASA Astrophysics Data System (ADS)

Peregrina-Barreto, Hayde; Terol-Villalobos, Iván R.

2010-01-01

Contrast enhancement main goal consists on improving the image visual appearance but also it is used for providing a transformed image in order to segment it. In mathematical morphology several works have been derived from the framework theory for contrast enhancement proposed by Meyer and Serra. However, when working with images with a wide range of scene brightness, as for example when strong highlights and deep shadows appear in the same image, the proposed morphological methods do not allow the enhancement. In this work, a rational multi-scale method, which uses a class of morphological connected filters called filters by reconstruction, is proposed. Granulometry is used by finding the more accurate scales for filters and with the aim of avoiding the use of other little significant scales. The CIE-u'v'Y' space was used to introduce our results since it takes into account the Weber's Law and by avoiding the creation of new colors it permits to modify the luminance values without affecting the hue. The luminance component ('Y) is enhanced separately using the proposed method, next it is used for enhancing the chromatic components (u', v') by means of the center of gravity law of color mixing.

DEEP WIDEBAND SINGLE POINTINGS AND MOSAICS IN RADIO INTERFEROMETRY: HOW ACCURATELY DO WE RECONSTRUCT INTENSITIES AND SPECTRAL INDICES OF FAINT SOURCES?

DOE Office of Scientific and Technical Information (OSTI.GOV)

Rau, U.; Bhatnagar, S.; Owen, F. N., E-mail: rurvashi@nrao.edu

Many deep wideband wide-field radio interferometric surveys are being designed to accurately measure intensities, spectral indices, and polarization properties of faint source populations. In this paper, we compare various wideband imaging methods to evaluate the accuracy to which intensities and spectral indices of sources close to the confusion limit can be reconstructed. We simulated a wideband single-pointing (C-array, L-Band (1–2 GHz)) and 46-pointing mosaic (D-array, C-Band (4–8 GHz)) JVLA observation using a realistic brightness distribution ranging from 1 μ Jy to 100 mJy and time-, frequency-, polarization-, and direction-dependent instrumental effects. The main results from these comparisons are (a) errors in themore » reconstructed intensities and spectral indices are larger for weaker sources even in the absence of simulated noise, (b) errors are systematically lower for joint reconstruction methods (such as Multi-Term Multi-Frequency-Synthesis (MT-MFS)) along with A-Projection for accurate primary beam correction, and (c) use of MT-MFS for image reconstruction eliminates Clean-bias (which is present otherwise). Auxiliary tests include solutions for deficiencies of data partitioning methods (e.g., the use of masks to remove clean bias and hybrid methods to remove sidelobes from sources left un-deconvolved), the effect of sources not at pixel centers, and the consequences of various other numerical approximations within software implementations. This paper also demonstrates the level of detail at which such simulations must be done in order to reflect reality, enable one to systematically identify specific reasons for every trend that is observed, and to estimate scientifically defensible imaging performance metrics and the associated computational complexity of the algorithms/analysis procedures.« less

Arctic temperature and moisture trends during the past 2000 years - Progress from multiproxy-paleoclimate data compilations

NASA Astrophysics Data System (ADS)

Kaufman, Darrell; Routson, Cody; McKay, Nicholas; Beltrami, Hugo; Jaume-Santero, Fernando; Konecky, Bronwen; Saenger, Casey

2017-04-01

Instrumental climate data and climate-model projections show that Arctic-wide surface temperature and precipitation are positively correlated. Higher temperatures coincide with greater moisture by: (1) expanding the duration and source area for evaporation as sea ice retracts, (2) enhancing the poleward moisture transport, and (3) increasing the water-vapor content of the atmosphere. Higher temperature also influences evaporation rate, and therefore precipitation minus evaporation (P-E), the climate variable often sensed by paleo-hydroclimate proxies. Here, we test whether Arctic temperature and moisture also correlate on centennial timescales over the Common Era (CE). We use the new PAGES2k multiproxy-temperature dataset along with a first-pass compilation of moisture-sensitive proxy records to calculate century-scale composite timeseries, with a focus on longer records that extend back through the first millennium CE. We present a new Arctic borehole temperature reconstruction as a check on the magnitude of Little Ice Age cooling inferred from the proxy records, and we investigate the spatial pattern of centennial-scale variability. Similar to previous reconstructions, v2 of the PAGES2k proxy temperature dataset shows that, prior to the 20th century, mean annual Arctic-wide temperature decreased over the CE. The millennial-scale cooling trend is most prominent in proxy records from glacier ice, but is also registered in lake and marine sediment, and trees. In contrast, the composite of moisture-sensitive (primarily P-E) records does not exhibit a millennial-scale trend. Determining whether fluctuations in the mean state of Arctic temperature and moisture were in fact decoupled is hampered by the difficulty in detecting a significant trend within the relatively small number of spatially heterogeneous multi-proxy moisture-sensitive records. A decoupling of temperature and moisture would indicate that evaporation had a strong counterbalancing effect on precipitation and/or that shifting circulation patterns overwhelmed any multi-centennial-scale co-variability.

Reconstruction of Complex Directional Networks with Group Lasso Nonlinear Conditional Granger Causality.

PubMed

Yang, Guanxue; Wang, Lin; Wang, Xiaofan

2017-06-07

Reconstruction of networks underlying complex systems is one of the most crucial problems in many areas of engineering and science. In this paper, rather than identifying parameters of complex systems governed by pre-defined models or taking some polynomial and rational functions as a prior information for subsequent model selection, we put forward a general framework for nonlinear causal network reconstruction from time-series with limited observations. With obtaining multi-source datasets based on the data-fusion strategy, we propose a novel method to handle nonlinearity and directionality of complex networked systems, namely group lasso nonlinear conditional granger causality. Specially, our method can exploit different sets of radial basis functions to approximate the nonlinear interactions between each pair of nodes and integrate sparsity into grouped variables selection. The performance characteristic of our approach is firstly assessed with two types of simulated datasets from nonlinear vector autoregressive model and nonlinear dynamic models, and then verified based on the benchmark datasets from DREAM3 Challenge4. Effects of data size and noise intensity are also discussed. All of the results demonstrate that the proposed method performs better in terms of higher area under precision-recall curve.

Establishing mesh topology in multi-material cells: enabling technology for robust and accurate multi-material simulations

DOE PAGES

Kikinzon, Evgeny; Shashkov, Mikhail Jurievich; Garimella, Rao Veerabhadra

2018-05-29

Real world problems are typically multi-material, combining materials such as gases, liquids and solids that have very different properties. The material interfaces may be fixed in time or can be a part of the solution, as in fluid-structure interactions or air-water dynamics, and therefore move and change shape. In such problems the computational mesh may be non-conformal to interfaces due to complexity of these interfaces, presence of small fractions of materials, or because the mesh does not move with the flow, as in the arbitrary Lagrangian–Eulerian (ALE) methods. In order to solve problems of interest on such meshes, interface reconstructionmore » methods are usually used to recover an approximation of material regions within the cells. For a cell intersecting multiple material regions, these approximations of contained subregions can be considered as single-material subcells in a local mesh that we call a minimesh. In this paper, we discuss some of the requirements that discretization methods have on topological information in the resulting hierarchical meshes and present an approach that allows incorporating the buildup of sufficiently detailed topology into the nested dissections based PLIC-type reconstruction algorithms (e.g. Volume-of-Fluid, Moment-of-Fluid) in an efficient and robust manner. Specifically, we describe the X-MOF interface reconstruction algorithm in 2D, which extends the Moment-Of-Fluid (MOF) method to include the topology of minimeshes created inside of multi-material cells and parent-child relations between corresponding mesh entities on different hierarchy levels. X-MOF retains the property of being local to a cell and not requiring external communication, which makes it suitable for massively parallel applications. Here, we demonstrate some scaling results for the X-MOF implementation in Tangram, a modern interface reconstruction framework for exascale computing.« less

Establishing mesh topology in multi-material cells: enabling technology for robust and accurate multi-material simulations

DOE Office of Scientific and Technical Information (OSTI.GOV)

Kikinzon, Evgeny; Shashkov, Mikhail Jurievich; Garimella, Rao Veerabhadra

Real world problems are typically multi-material, combining materials such as gases, liquids and solids that have very different properties. The material interfaces may be fixed in time or can be a part of the solution, as in fluid-structure interactions or air-water dynamics, and therefore move and change shape. In such problems the computational mesh may be non-conformal to interfaces due to complexity of these interfaces, presence of small fractions of materials, or because the mesh does not move with the flow, as in the arbitrary Lagrangian–Eulerian (ALE) methods. In order to solve problems of interest on such meshes, interface reconstructionmore » methods are usually used to recover an approximation of material regions within the cells. For a cell intersecting multiple material regions, these approximations of contained subregions can be considered as single-material subcells in a local mesh that we call a minimesh. In this paper, we discuss some of the requirements that discretization methods have on topological information in the resulting hierarchical meshes and present an approach that allows incorporating the buildup of sufficiently detailed topology into the nested dissections based PLIC-type reconstruction algorithms (e.g. Volume-of-Fluid, Moment-of-Fluid) in an efficient and robust manner. Specifically, we describe the X-MOF interface reconstruction algorithm in 2D, which extends the Moment-Of-Fluid (MOF) method to include the topology of minimeshes created inside of multi-material cells and parent-child relations between corresponding mesh entities on different hierarchy levels. X-MOF retains the property of being local to a cell and not requiring external communication, which makes it suitable for massively parallel applications. Here, we demonstrate some scaling results for the X-MOF implementation in Tangram, a modern interface reconstruction framework for exascale computing.« less

Using coral Ba/Ca records to investigate seasonal to decadal scale biogeochemical cycling in the surface and intermediate ocean.

NASA Astrophysics Data System (ADS)

LaVigne, M.; Cobb, K. M.; DeLong, K. L.; Freiberger, M. M.; Grottoli, A. G.; Hill, T. M.; Miller, H. R.; Nurhati, I. S.; Richey, J. N.; Serrato Marks, G.; Sherrell, R. M.

2016-12-01

Dissolved barium (BaSW), a bio-intermediate element, is linked to several biogeochemical processes such as the cycling and export of nutrients, organic carbon (Corg), and barite in surface and intermediate oceans. Dynamic BaSW cycling has been demonstrated in the water column on short timescales (days-weeks) while sedimentary records have documented geologic-scale changes in barite preservation driven by export production. Our understanding of how seasonal-decadal scale climate variability impacts these biogeochemical processes currently lacks robust records. Ba/Ca calibrations in surface and deep sea corals suggest barium is incorporated via cationic substitution in both aragonite and calcite. Here we demonstrate the utility of Ba/Ca for reconstructing biogeochemical variability using examples of surface and deep sea coral records. Century-long deep sea coral records from the California Current System (bamboo corals: 900-1500m) record interannual variations in Ba/Ca, likely reflecting changes in barite formation via bacterial Corg respiration or barite saturation state. A surface Porites coral Ba/Ca record from Christmas Island (central equatorial Pacific: 1978-1995) shows maxima during low productivity El Niño warm periods, suggesting that variations in BaSW are driven by biological removal via direct cellular uptake or indirectly via barite precipitation with the decomposition of large phytoplankton blooms at this location. Similarly, a sixteen-year long Siderastera siderea surface coral record from Dry Tortugas, FL (Gulf of Mexico: 1991-2007) shows seasonal Ba/Ca cycles that align with annual chlorophyll and δ13C. Taken together, these records demonstrate the linkages among Corg, nutrient cycling and BaSW in the surface and intermediate ocean on seasonal to decadal timescales. Multi-proxy paleoceanographic reconstructions including Ba/Ca have the potential to elucidate the mechanisms linking past climate, productivity, nutrients, and BaSW cycling in the past.

Tomographic reconstruction of ionospheric electron density during the storm of 5-6 August 2011 using multi-source data

PubMed Central

Tang, Jun; Yao, Yibin; Zhang, Liang; Kong, Jian

2015-01-01

The insufficiency of data is the essential reason for ill-posed problem existed in computerized ionospheric tomography (CIT) technique. Therefore, the method of integrating multi-source data is proposed. Currently, the multiple satellite navigation systems and various ionospheric observing instruments provide abundant data which can be employed to reconstruct ionospheric electron density (IED). In order to improve the vertical resolution of IED, we do research on IED reconstruction by integration of ground-based GPS data, occultation data from the LEO satellite, satellite altimetry data from Jason-1 and Jason-2 and ionosonde data. We used the CIT results to compare with incoherent scatter radar (ISR) observations, and found that the multi-source data fusion was effective and reliable to reconstruct electron density, showing its superiority than CIT with GPS data alone. PMID:26266764

Tomographic reconstruction of ionospheric electron density during the storm of 5-6 August 2011 using multi-source data.

PubMed

Tang, Jun; Yao, Yibin; Zhang, Liang; Kong, Jian

2015-08-12

The insufficiency of data is the essential reason for ill-posed problem existed in computerized ionospheric tomography (CIT) technique. Therefore, the method of integrating multi-source data is proposed. Currently, the multiple satellite navigation systems and various ionospheric observing instruments provide abundant data which can be employed to reconstruct ionospheric electron density (IED). In order to improve the vertical resolution of IED, we do research on IED reconstruction by integration of ground-based GPS data, occultation data from the LEO satellite, satellite altimetry data from Jason-1 and Jason-2 and ionosonde data. We used the CIT results to compare with incoherent scatter radar (ISR) observations, and found that the multi-source data fusion was effective and reliable to reconstruct electron density, showing its superiority than CIT with GPS data alone.

Multi-Mounted X-Ray Computed Tomography

PubMed Central

Fu, Jian; Liu, Zhenzhong; Wang, Jingzheng

2016-01-01

Most existing X-ray computed tomography (CT) techniques work in single-mounted mode and need to scan the inspected objects one by one. It is time-consuming and not acceptable for the inspection in a large scale. In this paper, we report a multi-mounted CT method and its first engineering implementation. It consists of a multi-mounted scanning geometry and the corresponding algebraic iterative reconstruction algorithm. This approach permits the CT rotation scanning of multiple objects simultaneously without the increase of penetration thickness and the signal crosstalk. Compared with the conventional single-mounted methods, it has the potential to improve the imaging efficiency and suppress the artifacts from the beam hardening and the scatter. This work comprises a numerical study of the method and its experimental verification using a dataset measured with a developed multi-mounted X-ray CT prototype system. We believe that this technique is of particular interest for pushing the engineering applications of X-ray CT. PMID:27073911

An efficient photogrammetric stereo matching method for high-resolution images

NASA Astrophysics Data System (ADS)

Li, Yingsong; Zheng, Shunyi; Wang, Xiaonan; Ma, Hao

2016-12-01

Stereo matching of high-resolution images is a great challenge in photogrammetry. The main difficulty is the enormous processing workload that involves substantial computing time and memory consumption. In recent years, the semi-global matching (SGM) method has been a promising approach for solving stereo problems in different data sets. However, the time complexity and memory demand of SGM are proportional to the scale of the images involved, which leads to very high consumption when dealing with large images. To solve it, this paper presents an efficient hierarchical matching strategy based on the SGM algorithm using single instruction multiple data instructions and structured parallelism in the central processing unit. The proposed method can significantly reduce the computational time and memory required for large scale stereo matching. The three-dimensional (3D) surface is reconstructed by triangulating and fusing redundant reconstruction information from multi-view matching results. Finally, three high-resolution aerial date sets are used to evaluate our improvement. Furthermore, precise airborne laser scanner data of one data set is used to measure the accuracy of our reconstruction. Experimental results demonstrate that our method remarkably outperforms in terms of time and memory savings while maintaining the density and precision of the 3D cloud points derived.

Winter-to-Summer Precipitation Phasing in Southwestern North America: A Multi-Century Perspective from Paleoclimatic Model-Data Comparisons

NASA Technical Reports Server (NTRS)

Coats, Sloan; Smerdon, Jason E.; Seager, Richard; Griffin, Daniel; Cook, Benjamin I.

2015-01-01

The phasing of winter-to-summer precipitation anomalies in the North American monsoon (NAM) region 2 (113.25 deg W-107.75 deg W, 30 deg N-35.25 deg N-NAM2) of southwestern North America is analyzed in fully coupled simulations of the Last Millennium and compared to tree ring reconstructed winter and summer precipitation variability. The models simulate periods with in-phase seasonal precipitation anomalies, but the strength of this relationship is variable on multidecadal time scales, behavior that is also exhibited by the reconstructions. The models, however, are unable to simulate periods with consistently out-of-phase winter-to-summer precipitation anomalies as observed in the latter part of the instrumental interval. The periods with predominantly in-phase winter-to-summer precipitation anomalies in the models are significant against randomness, and while this result is suggestive of a potential for dual-season drought on interannual and longer time scales, models do not consistently exhibit the persistent dual-season drought seen in the dendroclimatic reconstructions. These collective findings indicate that model-derived drought risk assessments may underestimate the potential for dual-season drought in 21st century projections of hydroclimate in the American Southwest and parts of Mexico.

Multi-scale diffuse interface modeling of multi-component two-phase flow with partial miscibility

NASA Astrophysics Data System (ADS)

Kou, Jisheng; Sun, Shuyu

2016-08-01

In this paper, we introduce a diffuse interface model to simulate multi-component two-phase flow with partial miscibility based on a realistic equation of state (e.g. Peng-Robinson equation of state). Because of partial miscibility, thermodynamic relations are used to model not only interfacial properties but also bulk properties, including density, composition, pressure, and realistic viscosity. As far as we know, this effort is the first time to use diffuse interface modeling based on equation of state for modeling of multi-component two-phase flow with partial miscibility. In numerical simulation, the key issue is to resolve the high contrast of scales from the microscopic interface composition to macroscale bulk fluid motion since the interface has a nanoscale thickness only. To efficiently solve this challenging problem, we develop a multi-scale simulation method. At the microscopic scale, we deduce a reduced interfacial equation under reasonable assumptions, and then we propose a formulation of capillary pressure, which is consistent with macroscale flow equations. Moreover, we show that Young-Laplace equation is an approximation of this capillarity formulation, and this formulation is also consistent with the concept of Tolman length, which is a correction of Young-Laplace equation. At the macroscopical scale, the interfaces are treated as discontinuous surfaces separating two phases of fluids. Our approach differs from conventional sharp-interface two-phase flow model in that we use the capillary pressure directly instead of a combination of surface tension and Young-Laplace equation because capillarity can be calculated from our proposed capillarity formulation. A compatible condition is also derived for the pressure in flow equations. Furthermore, based on the proposed capillarity formulation, we design an efficient numerical method for directly computing the capillary pressure between two fluids composed of multiple components. Finally, numerical tests are carried out to verify the effectiveness of the proposed multi-scale method.

Multi-scale diffuse interface modeling of multi-component two-phase flow with partial miscibility

DOE Office of Scientific and Technical Information (OSTI.GOV)

Kou, Jisheng; Sun, Shuyu, E-mail: shuyu.sun@kaust.edu.sa; School of Mathematics and Statistics, Xi'an Jiaotong University, Xi'an 710049

2016-08-01

In this paper, we introduce a diffuse interface model to simulate multi-component two-phase flow with partial miscibility based on a realistic equation of state (e.g. Peng–Robinson equation of state). Because of partial miscibility, thermodynamic relations are used to model not only interfacial properties but also bulk properties, including density, composition, pressure, and realistic viscosity. As far as we know, this effort is the first time to use diffuse interface modeling based on equation of state for modeling of multi-component two-phase flow with partial miscibility. In numerical simulation, the key issue is to resolve the high contrast of scales from themore » microscopic interface composition to macroscale bulk fluid motion since the interface has a nanoscale thickness only. To efficiently solve this challenging problem, we develop a multi-scale simulation method. At the microscopic scale, we deduce a reduced interfacial equation under reasonable assumptions, and then we propose a formulation of capillary pressure, which is consistent with macroscale flow equations. Moreover, we show that Young–Laplace equation is an approximation of this capillarity formulation, and this formulation is also consistent with the concept of Tolman length, which is a correction of Young–Laplace equation. At the macroscopical scale, the interfaces are treated as discontinuous surfaces separating two phases of fluids. Our approach differs from conventional sharp-interface two-phase flow model in that we use the capillary pressure directly instead of a combination of surface tension and Young–Laplace equation because capillarity can be calculated from our proposed capillarity formulation. A compatible condition is also derived for the pressure in flow equations. Furthermore, based on the proposed capillarity formulation, we design an efficient numerical method for directly computing the capillary pressure between two fluids composed of multiple components. Finally, numerical tests are carried out to verify the effectiveness of the proposed multi-scale method.« less

Determination of Flux rope axis for GS reconstruction

NASA Astrophysics Data System (ADS)

Tian, A.; Shi, Q.; Bai, S.; Zhang, S.

2016-12-01

It is important to give the axis direction and velocity of a magnetic flux ropes before employing Grad-Shafranov reconstruction. The ability of single-satellite based MVA (MVAB and CMVA) and multi-satellite based MDD methods in finding the invariant axis are tested by a model. The choice of principal axis given by MVA along the aimed direction is dependent on the distance of the path from the flux-rope axis. The MDD results are influenced by the ratio of Noise level/separation to the gradient of the structure. An accurate axial direction will be obtained when the ratio is less than 1. By a model, an example with failed HT method is displayed indicating the importance of the STD method in obtaining the velocity of such a structure. The applicability of trial and error method by Hu and Sonnerup(2012) was also used and discussed. Finally, all above methods were applied to a flux-rope observed by Cluster. It shows that the GS method can be easily carried out in the case of clearly known dimensionality and velocity.

Tomographic Reconstruction from a Few Views: A Multi-Marginal Optimal Transport Approach

DOE Office of Scientific and Technical Information (OSTI.GOV)

Abraham, I., E-mail: isabelle.abraham@cea.fr; Abraham, R., E-mail: romain.abraham@univ-orleans.fr; Bergounioux, M., E-mail: maitine.bergounioux@univ-orleans.fr

2017-02-15

In this article, we focus on tomographic reconstruction. The problem is to determine the shape of the interior interface using a tomographic approach while very few X-ray radiographs are performed. We use a multi-marginal optimal transport approach. Preliminary numerical results are presented.

Practical implementation of tetrahedral mesh reconstruction in emission tomography

PubMed Central

Boutchko, R.; Sitek, A.; Gullberg, G. T.

2014-01-01

This paper presents a practical implementation of image reconstruction on tetrahedral meshes optimized for emission computed tomography with parallel beam geometry. Tetrahedral mesh built on a point cloud is a convenient image representation method, intrinsically three-dimensional and with a multi-level resolution property. Image intensities are defined at the mesh nodes and linearly interpolated inside each tetrahedron. For the given mesh geometry, the intensities can be computed directly from tomographic projections using iterative reconstruction algorithms with a system matrix calculated using an exact analytical formula. The mesh geometry is optimized for a specific patient using a two stage process. First, a noisy image is reconstructed on a finely-spaced uniform cloud. Then, the geometry of the representation is adaptively transformed through boundary-preserving node motion and elimination. Nodes are removed in constant intensity regions, merged along the boundaries, and moved in the direction of the mean local intensity gradient in order to provide higher node density in the boundary regions. Attenuation correction and detector geometric response are included in the system matrix. Once the mesh geometry is optimized, it is used to generate the final system matrix for ML-EM reconstruction of node intensities and for visualization of the reconstructed images. In dynamic PET or SPECT imaging, the system matrix generation procedure is performed using a quasi-static sinogram, generated by summing projection data from multiple time frames. This system matrix is then used to reconstruct the individual time frame projections. Performance of the new method is evaluated by reconstructing simulated projections of the NCAT phantom and the method is then applied to dynamic SPECT phantom and patient studies and to a dynamic microPET rat study. Tetrahedral mesh-based images are compared to the standard voxel-based reconstruction for both high and low signal-to-noise ratio projection datasets. The results demonstrate that the reconstructed images represented as tetrahedral meshes based on point clouds offer image quality comparable to that achievable using a standard voxel grid while allowing substantial reduction in the number of unknown intensities to be reconstructed and reducing the noise. PMID:23588373

Practical implementation of tetrahedral mesh reconstruction in emission tomography

NASA Astrophysics Data System (ADS)

Boutchko, R.; Sitek, A.; Gullberg, G. T.

2013-05-01

This paper presents a practical implementation of image reconstruction on tetrahedral meshes optimized for emission computed tomography with parallel beam geometry. Tetrahedral mesh built on a point cloud is a convenient image representation method, intrinsically three-dimensional and with a multi-level resolution property. Image intensities are defined at the mesh nodes and linearly interpolated inside each tetrahedron. For the given mesh geometry, the intensities can be computed directly from tomographic projections using iterative reconstruction algorithms with a system matrix calculated using an exact analytical formula. The mesh geometry is optimized for a specific patient using a two stage process. First, a noisy image is reconstructed on a finely-spaced uniform cloud. Then, the geometry of the representation is adaptively transformed through boundary-preserving node motion and elimination. Nodes are removed in constant intensity regions, merged along the boundaries, and moved in the direction of the mean local intensity gradient in order to provide higher node density in the boundary regions. Attenuation correction and detector geometric response are included in the system matrix. Once the mesh geometry is optimized, it is used to generate the final system matrix for ML-EM reconstruction of node intensities and for visualization of the reconstructed images. In dynamic PET or SPECT imaging, the system matrix generation procedure is performed using a quasi-static sinogram, generated by summing projection data from multiple time frames. This system matrix is then used to reconstruct the individual time frame projections. Performance of the new method is evaluated by reconstructing simulated projections of the NCAT phantom and the method is then applied to dynamic SPECT phantom and patient studies and to a dynamic microPET rat study. Tetrahedral mesh-based images are compared to the standard voxel-based reconstruction for both high and low signal-to-noise ratio projection datasets. The results demonstrate that the reconstructed images represented as tetrahedral meshes based on point clouds offer image quality comparable to that achievable using a standard voxel grid while allowing substantial reduction in the number of unknown intensities to be reconstructed and reducing the noise.

Ring-widths of the above tree-line shrub Rhododendron reveal the change of minimum winter temperature over the past 211 years in Southwestern China

NASA Astrophysics Data System (ADS)

Bi, Yingfeng; Xu, Jianchu; Yang, Jinchao; Li, Zongshan; Gebrekirstos, Aster; Liang, Eryuan; Zhang, Shibao; Yang, Yang; Yang, Yongping; Yang, Xuefei

2017-06-01

Changes in minimum winter temperature (MWT) and their potential effects on plant growth and development have been gaining increased scientific attention. To better understand these changes across long temporal scales, the present study used dendroclimatological techniques to assess variations in MWT in Southwestern China. Using data from Rhododendron species distributed in areas above the tree-line, a regional composite chronology was generated for a 341-year period. Based on the significant negative correlation between MWT values and ring-width, the most reliable parts of this chronological data were then used to reconstruct MWT values for the past 211 years. This reconstructed MWT series showed decadal to multi-decadal fluctuations. Three distinct cold periods prevailed during 1823-1858, 1882-1891 and 1922-1965, while four warm intervals occurred in 1800-1822, 1858-1881, 1892-1921 and 1966-2011. Our reconstructed MWT reveals a warming trend over the most recent eight decades, which is in agreement with instrumental observations. However, the MWT values and rate of warming over the past seven decades did not exceed those found in the reconstructed temperature data for the past 211 years. Spatial correlations reveal that the MWT in Southwest China is strongly associated with regional temperatures in the Eastern and Central Himalaya, Northern China, and the Indian Peninsula. Larger scale climate oscillations of the Western Pacific and Northern Indian Ocean as well as the North Atlantic Oscillation probably influenced the region's temperature in the past.

Intraluminal laser speckle rheology using an omni-directional viewing catheter

PubMed Central

Wang, Jing; Hosoda, Masaki; Tshikudi, Diane M.; Hajjarian, Zeinab; Nadkarni, Seemantini K.

2016-01-01

A number of disease conditions in luminal organs are associated with alterations in tissue mechanical properties. Here, we report a new omni-directional viewing Laser Speckle Rheology (LSR) catheter for mapping the mechanical properties of luminal organs without the need for rotational motion. The LSR catheter incorporates multiple illumination fibers, an optical fiber bundle and a multi-faceted mirror to permit omni-directional viewing of the luminal wall. By retracting the catheter using a motor-drive assembly, cylindrical maps of tissue mechanical properties are reconstructed. Evaluation conducted in a test phantom with circumferentially-varying mechanical properties demonstrates the capability of the LSR catheter for the accurate mechanical assessment of luminal organs. PMID:28101407

Fullerene/layered antiferromagnetic reconstructed spinterface: Subsurface layer dominates molecular orbitals' spin-split and large induced magnetic moment

NASA Astrophysics Data System (ADS)

Shao, Yangfan; Pang, Rui; Pan, Hui; Shi, Xingqiang

2018-03-01

The interfaces between organic molecules and magnetic metals have gained increasing interest for both fundamental reasons and applications. Among them, the C60/layered antiferromagnetic (AFM) interfaces have been studied only for C60 bonded to the outermost ferromagnetic layer [S. L. Kawahara et al., Nano Lett. 12, 4558 (2012) and D. Li et al., Phys. Rev. B 93, 085425 (2016)]. Here, via density functional theory calculations combined with evidence from the literature, we demonstrate that C60 adsorption can reconstruct the layered-AFM Cr(001) surface at elevated annealing temperatures so that C60 bonds to both the outermost and the subsurface Cr layers in opposite spin directions. Surface reconstruction drastically changes the adsorbed molecule spintronic properties: (1) the spin-split p-d hybridization involves multi-orbitals of C60 and top two layers of Cr with opposite spin-polarization, (2) the subsurface Cr atom dominates the C60 electronic properties, and (3) the reconstruction induces a large magnetic moment of 0.58 μB in C60 as a synergistic effect of the top two Cr layers. The induced magnetic moment in C60 can be explained by the magnetic direct-exchange mechanism, which can be generalized to other C60/magnetic metal systems. Understanding these complex hybridization behaviors is a crucial step for molecular spintronic applications.

Three-Dimensional Reconstruction from Single Image Base on Combination of CNN and Multi-Spectral Photometric Stereo.

PubMed

Lu, Liang; Qi, Lin; Luo, Yisong; Jiao, Hengchao; Dong, Junyu

2018-03-02

Multi-spectral photometric stereo can recover pixel-wise surface normal from a single RGB image. The difficulty lies in that the intensity in each channel is the tangle of illumination, albedo and camera response; thus, an initial estimate of the normal is required in optimization-based solutions. In this paper, we propose to make a rough depth estimation using the deep convolutional neural network (CNN) instead of using depth sensors or binocular stereo devices. Since high-resolution ground-truth data is expensive to obtain, we designed a network and trained it with rendered images of synthetic 3D objects. We use the model to predict initial normal of real-world objects and iteratively optimize the fine-scale geometry in the multi-spectral photometric stereo framework. The experimental results illustrate the improvement of the proposed method compared with existing methods.

Three-Dimensional Reconstruction from Single Image Base on Combination of CNN and Multi-Spectral Photometric Stereo

PubMed Central

Lu, Liang; Qi, Lin; Luo, Yisong; Jiao, Hengchao; Dong, Junyu

2018-01-01

Multi-spectral photometric stereo can recover pixel-wise surface normal from a single RGB image. The difficulty lies in that the intensity in each channel is the tangle of illumination, albedo and camera response; thus, an initial estimate of the normal is required in optimization-based solutions. In this paper, we propose to make a rough depth estimation using the deep convolutional neural network (CNN) instead of using depth sensors or binocular stereo devices. Since high-resolution ground-truth data is expensive to obtain, we designed a network and trained it with rendered images of synthetic 3D objects. We use the model to predict initial normal of real-world objects and iteratively optimize the fine-scale geometry in the multi-spectral photometric stereo framework. The experimental results illustrate the improvement of the proposed method compared with existing methods. PMID:29498703

Preliminary reconstructions of spring precipitation in southwestern Turkey from tree-ring width

NASA Astrophysics Data System (ADS)

Touchan, Ramzi; Garfin, Gregg M.; Meko, David M.; Funkhouser, Gary; Erkan, Nesat; Hughes, Malcolm K.; Wallin, Brian S.

2003-02-01

Two reconstructions of spring (May-June) precipitation have been developed for southwestern Turkey. The first reconstruction (1776-1998) was developed from principal components of nine chronologies of Cedrus libani, Juniperus excelsa, Pinus brutia, and Pinus nigra. The second reconstruction (1339-1998) was derived from principal components of three J. excelsa chronologies. Calibration and verification statistics of both reconstructions indicate reasonably accurate reconstruction of spring precipitation for southwestern Turkey, and show clear evidence of multi-year to decadal variations in spring precipitation. The longest period of reconstructed spring drought, defined as consecutive years with less than 80% of normal May-June precipitation, was 4 years (1476-79). Only one drought event of this duration has occurred during the last six centuries. Monte Carlo analysis indicates a less than 33% probability that southwestern Turkey has experienced spring drought longer than 5 years in the past 660 years. Apart from the 1476-79 extended dry period, spring droughts of 3 years in length have only occurred from 1700 to the present. The longest reconstructed wet period, defined as consecutive years with more than 120% of normal May-June precipitation, was 4 years (1532-35). The absence of extended spring drought during the 16th and 17th centuries and the occurrence of extended wet spring periods during these centuries suggest a possible regime shift in climate. Preliminary analysis of links between large-scale climatic variation and these climate reconstructions shows that there is a relationship between extremes in spring precipitation and anomalous atmospheric circulation in the region.

Micro-computed tomography pore-scale study of flow in porous media: Effect of voxel resolution

NASA Astrophysics Data System (ADS)

Shah, S. M.; Gray, F.; Crawshaw, J. P.; Boek, E. S.

2016-09-01

A fundamental understanding of flow in porous media at the pore-scale is necessary to be able to upscale average displacement processes from core to reservoir scale. The study of fluid flow in porous media at the pore-scale consists of two key procedures: Imaging - reconstruction of three-dimensional (3D) pore space images; and modelling such as with single and two-phase flow simulations with Lattice-Boltzmann (LB) or Pore-Network (PN) Modelling. Here we analyse pore-scale results to predict petrophysical properties such as porosity, single-phase permeability and multi-phase properties at different length scales. The fundamental issue is to understand the image resolution dependency of transport properties, in order to up-scale the flow physics from pore to core scale. In this work, we use a high resolution micro-computed tomography (micro-CT) scanner to image and reconstruct three dimensional pore-scale images of five sandstones (Bentheimer, Berea, Clashach, Doddington and Stainton) and five complex carbonates (Ketton, Estaillades, Middle Eastern sample 3, Middle Eastern sample 5 and Indiana Limestone 1) at four different voxel resolutions (4.4 μm, 6.2 μm, 8.3 μm and 10.2 μm), scanning the same physical field of view. Implementing three phase segmentation (macro-pore phase, intermediate phase and grain phase) on pore-scale images helps to understand the importance of connected macro-porosity in the fluid flow for the samples studied. We then compute the petrophysical properties for all the samples using PN and LB simulations in order to study the influence of voxel resolution on petrophysical properties. We then introduce a numerical coarsening scheme which is used to coarsen a high voxel resolution image (4.4 μm) to lower resolutions (6.2 μm, 8.3 μm and 10.2 μm) and study the impact of coarsening data on macroscopic and multi-phase properties. Numerical coarsening of high resolution data is found to be superior to using a lower resolution scan because it avoids the problem of partial volume effects and reduces the scaling effect by preserving the pore-space properties influencing the transport properties. This is evidently compared in this study by predicting several pore network properties such as number of pores and throats, average pore and throat radius and coordination number for both scan based analysis and numerical coarsened data.

Extended hybrid-space SENSE for EPI: Off-resonance and eddy current corrected joint interleaved blip-up/down reconstruction.

PubMed

Zahneisen, Benjamin; Aksoy, Murat; Maclaren, Julian; Wuerslin, Christian; Bammer, Roland

2017-06-01

Geometric distortions along the phase encode direction caused by off-resonant spins are still a major issue in EPI based functional and diffusion imaging. If the off-resonance map is known it is possible to correct for distortions. Most correction methods operate as a post-processing step on the reconstructed magnitude images. Here, we present an algebraic reconstruction method (hybrid-space SENSE) that incorporates a physics based model of off-resonances, phase inconsistencies between k-space segments, and T2*-decay during the acquisition. The method can be used to perform a joint reconstruction of interleaved acquisitions with normal (blip-up) and inverted (blip-down) phase encode direction which results in reduced g-factor penalty. A joint blip-up/down simultaneous multi slice (SMS) reconstruction for SMS-factor 4 in combination with twofold in-plane acceleration leads to a factor of two decrease in maximum g-factor penalty while providing off-resonance and eddy-current corrected images. We provide an algebraic framework for reconstructing diffusion weighted EPI data that in addition to the general applicability of hybrid-space SENSE to 2D-EPI, SMS-EPI and 3D-EPI with arbitrary k-space coverage along z, allows for a modeling of arbitrary spatio-temporal effects during the acquisition period like off-resonances, phase inconsistencies and T2*-decay. The most immediate benefit is a reduction in g-factor penalty if an interleaved blip-up/down acquisition strategy is chosen which facilitates eddy current estimation and ensures no loss in k-space encoding in regions with strong off-resonance gradients. Copyright © 2017 Elsevier Inc. All rights reserved.

The Large-scale Structure of the Universe: Probes of Cosmology and Structure Formation

NASA Astrophysics Data System (ADS)

Noh, Yookyung

The usefulness of large-scale structure as a probe of cosmology and structure formation is increasing as large deep surveys in multi-wavelength bands are becoming possible. The observational analysis of large-scale structure guided by large volume numerical simulations are beginning to offer us complementary information and crosschecks of cosmological parameters estimated from the anisotropies in Cosmic Microwave Background (CMB) radiation. Understanding structure formation and evolution and even galaxy formation history is also being aided by observations of different redshift snapshots of the Universe, using various tracers of large-scale structure. This dissertation work covers aspects of large-scale structure from the baryon acoustic oscillation scale, to that of large scale filaments and galaxy clusters. First, I discuss a large- scale structure use for high precision cosmology. I investigate the reconstruction of Baryon Acoustic Oscillation (BAO) peak within the context of Lagrangian perturbation theory, testing its validity in a large suite of cosmological volume N-body simulations. Then I consider galaxy clusters and the large scale filaments surrounding them in a high resolution N-body simulation. I investigate the geometrical properties of galaxy cluster neighborhoods, focusing on the filaments connected to clusters. Using mock observations of galaxy clusters, I explore the correlations of scatter in galaxy cluster mass estimates from multi-wavelength observations and different measurement techniques. I also examine the sources of the correlated scatter by considering the intrinsic and environmental properties of clusters.

Continental-Scale Temperature Reconstructions from the PAGES 2k Network

NASA Astrophysics Data System (ADS)

Kaufman, D. S.

2012-12-01

We present a major new synthesis of seven regional temperature reconstructions to elucidate the global pattern of variations and their association with climate-forcing mechanisms over the past two millennia. To coordinate the integration of new and existing data of all proxy types, the Past Global Changes (PAGES) project developed the 2k Network. It comprises nine working groups representing eight continental-scale regions and the oceans. The PAGES 2k Consortium, authoring this paper, presently includes 79 representatives from 25 countries. For this synthesis, each of the PAGES 2k working groups identified the proxy climate records for reconstructing past temperature and associated uncertainty using the data and methodologies that they deemed most appropriate for their region. The datasets are from 973 sites where tree rings, pollen, corals, lake and marine sediment, glacier ice, speleothems, and historical documents record changes in biologically and physically mediated processes that are sensitive to temperature change, among other climatic factors. The proxy records used for this synthesis are available through the NOAA World Data Center for Paleoclimatology. On long time scales, the temperature reconstructions display similarities among regions, and a large part of this common behavior can be explained by known climate forcings. Reconstructed temperatures in all regions show an overall long-term cooling trend until around 1900 C.E., followed by strong warming during the 20th century. On the multi-decadal time scale, we assessed the variability among the temperature reconstructions using principal component (PC) analysis of the standardized decadal mean temperatures over the period of overlap among the reconstructions (1200 to 1980 C.E.). PC1 explains 35% of the total variability and is strongly correlated with temperature reconstructions from the four Northern Hemisphere regions, and with the sum of external forcings including solar, volcanic, and greenhouse gases. PC2 captures 18% of the variability and is correlated most strongly with the Southern Hemisphere regions of Australasia and South America. PC3 captures 15% of the variability in the temperature reconstructions with a predominant loading from Antarctica. The timing of extremely warm and cold decades (10th percentiles) in each region were analyzed and compared with climate forcings. Only 22% of the regionally coldest decades can be ascribed to extreme minima in solar forcing, and 17% to volcanic forcing. The association between extremely warm regional temperatures and solar maxima is weaker than for cold temperatures and their corresponding solar minima. Spatially, volcanic forcing moderately increased the frequency of extremely cold decades in the Northern Hemisphere reconstructions, but had no significant effect in the Southern Hemisphere. Solar and volcanic impacts do not induce globally consistent decadal temperature shifts, but they increase the probability of cooling or warming at the continental scale. The majority of cold and warm decades identified here cannot be explained by changes in the records of volcanic activity or solar forcing. This indicates that at this timescale, prior to the anthropogenic buildup of greenhouse gases, unforced internal variability in the coupled ocean/atmosphere system was the dominant control on temperature variation.

Multi-Tissue Computational Modeling Analyzes Pathophysiology of Type 2 Diabetes in MKR Mice

PubMed Central

Kumar, Amit; Harrelson, Thomas; Lewis, Nathan E.; Gallagher, Emily J.; LeRoith, Derek; Shiloach, Joseph; Betenbaugh, Michael J.

2014-01-01

Computational models using metabolic reconstructions for in silico simulation of metabolic disorders such as type 2 diabetes mellitus (T2DM) can provide a better understanding of disease pathophysiology and avoid high experimentation costs. There is a limited amount of computational work, using metabolic reconstructions, performed in this field for the better understanding of T2DM. In this study, a new algorithm for generating tissue-specific metabolic models is presented, along with the resulting multi-confidence level (MCL) multi-tissue model. The effect of T2DM on liver, muscle, and fat in MKR mice was first studied by microarray analysis and subsequently the changes in gene expression of frank T2DM MKR mice versus healthy mice were applied to the multi-tissue model to test the effect. Using the first multi-tissue genome-scale model of all metabolic pathways in T2DM, we found out that branched-chain amino acids' degradation and fatty acids oxidation pathway is downregulated in T2DM MKR mice. Microarray data showed low expression of genes in MKR mice versus healthy mice in the degradation of branched-chain amino acids and fatty-acid oxidation pathways. In addition, the flux balance analysis using the MCL multi-tissue model showed that the degradation pathways of branched-chain amino acid and fatty acid oxidation were significantly downregulated in MKR mice versus healthy mice. Validation of the model was performed using data derived from the literature regarding T2DM. Microarray data was used in conjunction with the model to predict fluxes of various other metabolic pathways in the T2DM mouse model and alterations in a number of pathways were detected. The Type 2 Diabetes MCL multi-tissue model may explain the high level of branched-chain amino acids and free fatty acids in plasma of Type 2 Diabetic subjects from a metabolic fluxes perspective. PMID:25029527

Change Detection of Remote Sensing Images by Dt-Cwt and Mrf

NASA Astrophysics Data System (ADS)

Ouyang, S.; Fan, K.; Wang, H.; Wang, Z.

2017-05-01

Aiming at the significant loss of high frequency information during reducing noise and the pixel independence in change detection of multi-scale remote sensing image, an unsupervised algorithm is proposed based on the combination between Dual-tree Complex Wavelet Transform (DT-CWT) and Markov random Field (MRF) model. This method first performs multi-scale decomposition for the difference image by the DT-CWT and extracts the change characteristics in high-frequency regions by using a MRF-based segmentation algorithm. Then our method estimates the final maximum a posterior (MAP) according to the segmentation algorithm of iterative condition model (ICM) based on fuzzy c-means(FCM) after reconstructing the high-frequency and low-frequency sub-bands of each layer respectively. Finally, the method fuses the above segmentation results of each layer by using the fusion rule proposed to obtain the mask of the final change detection result. The results of experiment prove that the method proposed is of a higher precision and of predominant robustness properties.

Single-stage multi-level construct design incorporating ribs and chest wall reconstruction after en bloc resection of spinal tumour.

PubMed

Xiao, Jianru; He, Shaohui; Jiao, Jian; Wan, Wei; Xu, Wei; Zhang, Dan; Liu, Weibo; Zhong, Nanzhe; Liu, Tielong; Wei, Haifeng; Yang, Xinghai

2018-03-01

Multi-level reconstruction incorporating the chest wall and ribs is technically demanding after multi-segmental total en bloc spondylectomy (TES) of thoracic spinal tumours. Few surgical techniques are reported for effective reconstruction. A novel and straightforward technical reconstruction through posterior-lateral approach was presented to solve the extensive chest wall defect and prevent occurrences of severe respiratory dysfunctions after performing TES. The preliminary outcomes of surgery were reviewed. Multi-level TES was performed for five patients with primary or recurrent thoracic spinal malignancies through posterior-lateral approach. The involved ribs and chest wall were removed to achieve tumour-free margin. Then titanium mesh with allograft bone and pedicle screw-rod system were adopted for the circumferential spinal reconstruction routinely. Titanium rods were modified accordingly to attach to the screw-rod system proximally, and the distal end of rods was dynamically inserted into the ribs. The mean surgery time was 6.7 hours (range 5-8), with the average blood loss of 3260 ml (range 2300-4500). No severe neurological complications were reported while three patients had complaints of slight numbness of chest skin (no. 1, 3, and 5). No severe respiratory complications occurred during peri-operative period. No implant failure and no local recurrence or distant metastases were observed with an average follow-up of 12.5 months. The single-stage reconstructions incorporating spine and chest wall are straightforward and easy to perform. The preliminary outcomes of co-reconstructions are promising and favourable. More studies and longer follow-up are required to validate this technique.

Downscaling and hydrological uncertainties in 20th century hydrometeorological reconstructions over France

NASA Astrophysics Data System (ADS)

Vidal, Jean-Philippe; Caillouet, Laurie; Dayon, Gildas; Boé, Julien; Sauquet, Eric; Thirel, Guillaume; Graff, Benjamin

2017-04-01

The record length of streamflow observations is generally limited to the last 50 years, which is not enough to properly explore the natural hydrometeorological variability, a key to better understand the effects of anthropogenic climate change. This work proposes a comparison of different hydrometeorological reconstruction datasets over France built on the downscaling of the NOAA 20th century global extended reanalysis (20CR, Compo et al., 2011). It aims at assessing the uncertainties related to these reconstructions and improving our knowledge of the multi-decadal hydrometeorological variability over the 20th century. High-resolution daily meteorological reconstructions over the period 1871-2012 are obtained with two statistical downscaling methods based on the analogue approach: the deterministic ANALOG method (Dayon et al., 2015) and the probabilistic SCOPE method (Caillouet et al., 2016). These reconstructions are then used as forcings for the GR6J lumped conceptual rainfall-runoff model and the SIM physically-based distributed hydrological model, in order to derive daily streamflow reconstructions over a set of around 70 reference near-natural catchments. Results show a large multi-decadal streamflow variability over the last 140 years, which is however relatively consistent over France. Empirical estimates of three types of uncertainty - structure of the downscaling method, small-scale internal variability, and hydrological model structure - show roughly equal contributions to the streamflow uncertainty at the annual time scale, with values as high as 20% of the interannual mean. Caillouet, L., Vidal, J.-P., Sauquet, E., and Graff, B.: Probabilistic precipitation and temperature downscaling of the Twentieth Century Reanalysis over France, Clim. Past, 12, 635-662, doi:10.5194/cp-12-635-2016, 2016. Compo, G. P., Whitaker, J. S., Sardeshmukh, P. D., Matsui, N., Allan, R. J., Yin, X., Gleason, B. E., Vose, R. S., Rutledge, G., Bessemoulin, P., Brönnimann, S., Brunet, M., Crouthamel, R. I., Grant, A. N., Groisman, P. Y., Jones, P. D., Kruk, M. C., Kruger, A. C., Marshall, G. J., Maugeri, M., Mok, H. Y., Nordli, Ø., Ross, T. F., Trigo, R. M., Wang, X. L., Woodruff, S. D., and Worley, S. J.: The Twentieth Century Reanalysis Project. Q. J. R. Meteorol. Soc., 137, 1-28, doi:10.1002/qj.776, 2011. Dayon, G., Boé, J., and Martin, E.: Transferability in the future climate of a statistical downscaling method for precipitation in France, J. Geophys. Res.-Atmos., 120, 1023-1043, doi: 10.1002/2014JD022236, 2015.

Effect of Multi-Scale Thermoelectric Magnetic Convection on Solidification Microstructure in Directionally Solidified Al-Si Alloys Under a Transverse Magnetic Field

NASA Astrophysics Data System (ADS)

Li, Xi; Du, Dafan; Gagnoud, Annie; Ren, Zhongming; Fautrelle, Yves; Moreau, Rene

2014-11-01

The influence of a transverse magnetic field ( B < 1 T) on the solidification structure in directionally solidified Al-Si alloys was investigated. Experimental results indicate that the magnetic field caused macrosegregation, dendrite refinement, and a decrease in the length of the mushy zone in both Al-7 wt pct Si alloy and Al-7 wt pct Si-1 wt pct Fe alloys. Moreover, the application of the magnetic field is capable of separating the Fe-rich intermetallic phases from Al-7 wt pct Si-1 wt pct Fe alloy. Thermoelectric magnetic convection (TEMC) was numerically simulated during the directional solidification of Al-Si alloys. The results reveal that the TEMC increases to a maximum () when the magnetic field reaches a critical magnetic field strength (), and then decreases as the magnetic field strength increases further. The TEMC exhibits the multi-scales effects: the and values are different at various scales, with decreasing and increasing as the scale decreases. The modification of the solidification structure under the magnetic field should be attributed to the TEMC on the sample and dendrite scales.

Fast data reconstructed method of Fourier transform imaging spectrometer based on multi-core CPU

NASA Astrophysics Data System (ADS)

Yu, Chunchao; Du, Debiao; Xia, Zongze; Song, Li; Zheng, Weijian; Yan, Min; Lei, Zhenggang

2017-10-01

Imaging spectrometer can gain two-dimensional space image and one-dimensional spectrum at the same time, which shows high utility in color and spectral measurements, the true color image synthesis, military reconnaissance and so on. In order to realize the fast reconstructed processing of the Fourier transform imaging spectrometer data, the paper designed the optimization reconstructed algorithm with OpenMP parallel calculating technology, which was further used for the optimization process for the HyperSpectral Imager of `HJ-1' Chinese satellite. The results show that the method based on multi-core parallel computing technology can control the multi-core CPU hardware resources competently and significantly enhance the calculation of the spectrum reconstruction processing efficiency. If the technology is applied to more cores workstation in parallel computing, it will be possible to complete Fourier transform imaging spectrometer real-time data processing with a single computer.

Future Cosmic Microwave Background Delensing with Galaxy Surveys

NASA Astrophysics Data System (ADS)

Manzotti, Alessandro

The cosmic microwave background (CMB) polarization is a promising experimental dataset to test the inflationary paradigm and to probe the physics of the early universe. A particular component, the so-called B-modes, is indeed a direct signature of a prediction of inflation: the presence of gravitational waves in the early universe. However, reducing the instrumental noise in future experiments will not be enough to detect this signal. Secondary effects in the low redshift universe will also produce non-primordial B-modes adding confusion to the inflationary signal. In particular, the gravitational interactions of CMB photons with large scale structures will distort the primordial E-modes adding a lensing B-mode component to the primordial signal. Removing the lensing part ("delensing") from the measurement of CMB B-modes will then be necessary to constrain the amplitude of the primordial gravitational waves. Here we discuss the role of current and future large scale structure surveys in a multi-tracers approach to delensing that will improve the reconstruction of the lensing potential that lenses the CMB photons and, as a consequence, the delensing efficiency. We quantify this by the improvement due to delensing on the constraints on the inflationary tensor perturbations amplitude and shape (r and nt). We find that, in general, galaxy surveys should be split into tomographic bins as this can improve the correlation with CMB lensing by 30%. Among currently available surveys, a DES-like galaxy survey can remove about 14% of the lensing signal. Ongoing CMB experiments (CMB-S2) will particularly benefit from large scale structure tracers that, once properly combined, will have a better performance than a CMB internal reconstruction. With the decrease of instrumental noise, the CMB internal reconstruction will increase its efficiency and the fraction of removed lensing B-modes with CMB alone will rapidly improve from the current level of Planck (8%) and SPTPol (35%) to 3G (56%) and CMB S4 (85%) level. Nevertheless optical galaxy surveys will still play an important role even for CMB S4. In particular an LSST-like survey can a achieve a delensing performance comparable to a 3G CMB experiment but with completely different systematics. This will be important to prove the robustness against systematics of an eventual detection of primordial B-modes.

Tree-ring width based temperature and precipitation reconstruction in southeastern China

NASA Astrophysics Data System (ADS)

Shi, Jiangfeng; Shi, Shiyuan; Zhao, Yesi; Lu, Huayu

2017-04-01

Southeastern China is a subtropical region where the climate is dominated by the Asian monsoon climate system, with high temperature and precipitation in summer, and low temperature and precipitation in winter. Tree-ring research has been developed very fast in the past decade in the region. Some studies show that coniferous tree growth in the region is limited by temperatures in prior winter and during the growing season (i.e., prior November to current April, April to July, etc.), however to different limiting levels. Higher temperature in the dormant season means less damage to leaves and roots, and less consumption of previously stored carbohydrates and starches that can be used for tree growth in the coming year. The mechanism of positive relationships with the growing season is the same as that in high-latitude and high-elevation regions. The temperature reconstructions match each other very well at decadal to multi-decadal scales during the past 150 years at a large spatial scale, that is, of 700 km away, even though there are some discrepancies in the early part of the comparisons. Possible reasons for the discrepancies may include local temperature differences, small sample depth in the early part of the reconstructions, and/or juvenile effects. Generally, there is a weak precipitation signal in tree-ring width chronlogies. However, some studies have shown potentials in precipitation reconstruction in recent years, such as using tree-ring width chrnologies by taking samples at some special sites, using adjusted late-wood width chronlogies, and using stable isotopes. Thus, we might have a comprehensive understanding of the Asian monsson climate system over the past several centuries through temperature and precipitation reconstruction together using tree-ring series.

Implementation of GPU accelerated SPECT reconstruction with Monte Carlo-based scatter correction.

PubMed

Bexelius, Tobias; Sohlberg, Antti

2018-06-01

Statistical SPECT reconstruction can be very time-consuming especially when compensations for collimator and detector response, attenuation, and scatter are included in the reconstruction. This work proposes an accelerated SPECT reconstruction algorithm based on graphics processing unit (GPU) processing. Ordered subset expectation maximization (OSEM) algorithm with CT-based attenuation modelling, depth-dependent Gaussian convolution-based collimator-detector response modelling, and Monte Carlo-based scatter compensation was implemented using OpenCL. The OpenCL implementation was compared against the existing multi-threaded OSEM implementation running on a central processing unit (CPU) in terms of scatter-to-primary ratios, standardized uptake values (SUVs), and processing speed using mathematical phantoms and clinical multi-bed bone SPECT/CT studies. The difference in scatter-to-primary ratios, visual appearance, and SUVs between GPU and CPU implementations was minor. On the other hand, at its best, the GPU implementation was noticed to be 24 times faster than the multi-threaded CPU version on a normal 128 × 128 matrix size 3 bed bone SPECT/CT data set when compensations for collimator and detector response, attenuation, and scatter were included. GPU SPECT reconstructions show great promise as an every day clinical reconstruction tool.

Quantitative Features of Liver Lesions, Lung Nodules, and Renal Stones at Multi-Detector Row CT Examinations: Dependency on Radiation Dose and Reconstruction Algorithm.

PubMed

Solomon, Justin; Mileto, Achille; Nelson, Rendon C; Roy Choudhury, Kingshuk; Samei, Ehsan

2016-04-01

To determine if radiation dose and reconstruction algorithm affect the computer-based extraction and analysis of quantitative imaging features in lung nodules, liver lesions, and renal stones at multi-detector row computed tomography (CT). Retrospective analysis of data from a prospective, multicenter, HIPAA-compliant, institutional review board-approved clinical trial was performed by extracting 23 quantitative imaging features (size, shape, attenuation, edge sharpness, pixel value distribution, and texture) of lesions on multi-detector row CT images of 20 adult patients (14 men, six women; mean age, 63 years; range, 38-72 years) referred for known or suspected focal liver lesions, lung nodules, or kidney stones. Data were acquired between September 2011 and April 2012. All multi-detector row CT scans were performed at two different radiation dose levels; images were reconstructed with filtered back projection, adaptive statistical iterative reconstruction, and model-based iterative reconstruction (MBIR) algorithms. A linear mixed-effects model was used to assess the effect of radiation dose and reconstruction algorithm on extracted features. Among the 23 imaging features assessed, radiation dose had a significant effect on five, three, and four of the features for liver lesions, lung nodules, and renal stones, respectively (P < .002 for all comparisons). Adaptive statistical iterative reconstruction had a significant effect on three, one, and one of the features for liver lesions, lung nodules, and renal stones, respectively (P < .002 for all comparisons). MBIR reconstruction had a significant effect on nine, 11, and 15 of the features for liver lesions, lung nodules, and renal stones, respectively (P < .002 for all comparisons). Of note, the measured size of lung nodules and renal stones with MBIR was significantly different than those for the other two algorithms (P < .002 for all comparisons). Although lesion texture was significantly affected by the reconstruction algorithm used (average of 3.33 features affected by MBIR throughout lesion types; P < .002, for all comparisons), no significant effect of the radiation dose setting was observed for all but one of the texture features (P = .002-.998). Radiation dose settings and reconstruction algorithms affect the extraction and analysis of quantitative imaging features in lesions at multi-detector row CT.

A rapid and robust gradient measurement technique using dynamic single-point imaging.

PubMed

Jang, Hyungseok; McMillan, Alan B

2017-09-01

We propose a new gradient measurement technique based on dynamic single-point imaging (SPI), which allows simple, rapid, and robust measurement of k-space trajectory. To enable gradient measurement, we utilize the variable field-of-view (FOV) property of dynamic SPI, which is dependent on gradient shape. First, one-dimensional (1D) dynamic SPI data are acquired from a targeted gradient axis, and then relative FOV scaling factors between 1D images or k-spaces at varying encoding times are found. These relative scaling factors are the relative k-space position that can be used for image reconstruction. The gradient measurement technique also can be used to estimate the gradient impulse response function for reproducible gradient estimation as a linear time invariant system. The proposed measurement technique was used to improve reconstructed image quality in 3D ultrashort echo, 2D spiral, and multi-echo bipolar gradient-echo imaging. In multi-echo bipolar gradient-echo imaging, measurement of the k-space trajectory allowed the use of a ramp-sampled trajectory for improved acquisition speed (approximately 30%) and more accurate quantitative fat and water separation in a phantom. The proposed dynamic SPI-based method allows fast k-space trajectory measurement with a simple implementation and no additional hardware for improved image quality. Magn Reson Med 78:950-962, 2017. © 2016 International Society for Magnetic Resonance in Medicine. © 2016 International Society for Magnetic Resonance in Medicine.

Reconstruction and topological characterization of the sigma factor regulatory network of Mycobacterium tuberculosis

PubMed Central

Chauhan, Rinki; Ravi, Janani; Datta, Pratik; Chen, Tianlong; Schnappinger, Dirk; Bassler, Kevin E.; Balázsi, Gábor; Gennaro, Maria Laura

2016-01-01

Accessory sigma factors, which reprogram RNA polymerase to transcribe specific gene sets, activate bacterial adaptive responses to noxious environments. Here we reconstruct the complete sigma factor regulatory network of the human pathogen Mycobacterium tuberculosis by an integrated approach. The approach combines identification of direct regulatory interactions between M. tuberculosis sigma factors in an E. coli model system, validation of selected links in M. tuberculosis, and extensive literature review. The resulting network comprises 41 direct interactions among all 13 sigma factors. Analysis of network topology reveals (i) a three-tiered hierarchy initiating at master regulators, (ii) high connectivity and (iii) distinct communities containing multiple sigma factors. These topological features are likely associated with multi-layer signal processing and specialized stress responses involving multiple sigma factors. Moreover, the identification of overrepresented network motifs, such as autoregulation and coregulation of sigma and anti-sigma factor pairs, provides structural information that is relevant for studies of network dynamics. PMID:27029515

[Reconstruction of Vehicle-human Crash Accident and Injury Analysis Based on 3D Laser Scanning, Multi-rigid-body Reconstruction and Optimized Genetic Algorithm].

PubMed

Sun, J; Wang, T; Li, Z D; Shao, Y; Zhang, Z Y; Feng, H; Zou, D H; Chen, Y J

2017-12-01

To reconstruct a vehicle-bicycle-cyclist crash accident and analyse the injuries using 3D laser scanning technology, multi-rigid-body dynamics and optimized genetic algorithm, and to provide biomechanical basis for the forensic identification of death cause. The vehicle was measured by 3D laser scanning technology. The multi-rigid-body models of cyclist, bicycle and vehicle were developed based on the measurements. The value range of optimal variables was set. A multi-objective genetic algorithm and the nondominated sorting genetic algorithm were used to find the optimal solutions, which were compared to the record of the surveillance video around the accident scene. The reconstruction result of laser scanning on vehicle was satisfactory. In the optimal solutions found by optimization method of genetic algorithm, the dynamical behaviours of dummy, bicycle and vehicle corresponded to that recorded by the surveillance video. The injury parameters of dummy were consistent with the situation and position of the real injuries on the cyclist in accident. The motion status before accident, damage process by crash and mechanical analysis on the injury of the victim can be reconstructed using 3D laser scanning technology, multi-rigid-body dynamics and optimized genetic algorithm, which have application value in the identification of injury manner and analysis of death cause in traffic accidents. Copyright© by the Editorial Department of Journal of Forensic Medicine

Multi-modal molecular diffuse optical tomography system for small animal imaging

PubMed Central

Guggenheim, James A.; Basevi, Hector R. A.; Frampton, Jon; Styles, Iain B.; Dehghani, Hamid

2013-01-01

A multi-modal optical imaging system for quantitative 3D bioluminescence and functional diffuse imaging is presented, which has no moving parts and uses mirrors to provide multi-view tomographic data for image reconstruction. It is demonstrated that through the use of trans-illuminated spectral near infrared measurements and spectrally constrained tomographic reconstruction, recovered concentrations of absorbing agents can be used as prior knowledge for bioluminescence imaging within the visible spectrum. Additionally, the first use of a recently developed multi-view optical surface capture technique is shown and its application to model-based image reconstruction and free-space light modelling is demonstrated. The benefits of model-based tomographic image recovery as compared to 2D planar imaging are highlighted in a number of scenarios where the internal luminescence source is not visible or is confounding in 2D images. The results presented show that the luminescence tomographic imaging method produces 3D reconstructions of individual light sources within a mouse-sized solid phantom that are accurately localised to within 1.5mm for a range of target locations and depths indicating sensitivity and accurate imaging throughout the phantom volume. Additionally the total reconstructed luminescence source intensity is consistent to within 15% which is a dramatic improvement upon standard bioluminescence imaging. Finally, results from a heterogeneous phantom with an absorbing anomaly are presented demonstrating the use and benefits of a multi-view, spectrally constrained coupled imaging system that provides accurate 3D luminescence images. PMID:24954977

SU-F-I-49: Vendor-Independent, Model-Based Iterative Reconstruction On a Rotating Grid with Coordinate-Descent Optimization for CT Imaging Investigations

DOE Office of Scientific and Technical Information (OSTI.GOV)

Young, S; Hoffman, J; McNitt-Gray, M

Purpose: Iterative reconstruction methods show promise for improving image quality and lowering the dose in helical CT. We aim to develop a novel model-based reconstruction method that offers potential for dose reduction with reasonable computation speed and storage requirements for vendor-independent reconstruction from clinical data on a normal desktop computer. Methods: In 2012, Xu proposed reconstructing on rotating slices to exploit helical symmetry and reduce the storage requirements for the CT system matrix. Inspired by this concept, we have developed a novel reconstruction method incorporating the stored-system-matrix approach together with iterative coordinate-descent (ICD) optimization. A penalized-least-squares objective function with amore » quadratic penalty term is solved analytically voxel-by-voxel, sequentially iterating along the axial direction first, followed by the transaxial direction. 8 in-plane (transaxial) neighbors are used for the ICD algorithm. The forward problem is modeled via a unique approach that combines the principle of Joseph’s method with trilinear B-spline interpolation to enable accurate reconstruction with low storage requirements. Iterations are accelerated with multi-CPU OpenMP libraries. For preliminary evaluations, we reconstructed (1) a simulated 3D ellipse phantom and (2) an ACR accreditation phantom dataset exported from a clinical scanner (Definition AS, Siemens Healthcare). Image quality was evaluated in the resolution module. Results: Image quality was excellent for the ellipse phantom. For the ACR phantom, image quality was comparable to clinical reconstructions and reconstructions using open-source FreeCT-wFBP software. Also, we did not observe any deleterious impact associated with the utilization of rotating slices. The system matrix storage requirement was only 4.5GB, and reconstruction time was 50 seconds per iteration. Conclusion: Our reconstruction method shows potential for furthering research in low-dose helical CT, in particular as part of our ongoing development of an acquisition/reconstruction pipeline for generating images under a wide range of conditions. Our algorithm will be made available open-source as “FreeCT-ICD”. NIH U01 CA181156; Disclosures (McNitt-Gray): Institutional research agreement, Siemens Healthcare; Past recipient, research grant support, Siemens Healthcare; Consultant, Toshiba America Medical Systems; Consultant, Samsung Electronics.« less

SU-E-J-128: 3D Surface Reconstruction of a Patient Using Epipolar Geometry

DOE Office of Scientific and Technical Information (OSTI.GOV)

Kotoku, J; Nakabayashi, S; Kumagai, S

Purpose: To obtain a 3D surface data of a patient in a non-invasive way can substantially reduce the effort for the registration of patient in radiation therapy. To achieve this goal, we introduced the multiple view stereo technique, which is known to be used in a 'photo tourism' on the internet. Methods: 70 Images were taken with a digital single-lens reflex camera from different angles and positions. The camera positions and angles were inferred later in the reconstruction step. A sparse 3D reconstruction model was locating by SIFT features, which is robust for rotation and shift variance, in each image.more » We then found a set of correspondences between pairs of images by computing the fundamental matrix using the eight-point algorithm with RANSAC. After the pair matching, we optimized the parameter including camera positions to minimize the reprojection error by use of bundle adjustment technique (non-linear optimization). As a final step, we performed dense reconstruction and associate a color with each point using the library of PMVS. Results: Surface data were reconstructed well by visual inspection. The human skin is reconstructed well, althogh the reconstruction was time-consuming for direct use in daily clinical practice. Conclusion: 3D reconstruction using multi view stereo geometry is a promising tool for reducing the effort of patient setup. This work was supported by JSPS KAKENHI(25861128)« less

Fast l₁-SPIRiT compressed sensing parallel imaging MRI: scalable parallel implementation and clinically feasible runtime.

PubMed

Murphy, Mark; Alley, Marcus; Demmel, James; Keutzer, Kurt; Vasanawala, Shreyas; Lustig, Michael

2012-06-01

We present l₁-SPIRiT, a simple algorithm for auto calibrating parallel imaging (acPI) and compressed sensing (CS) that permits an efficient implementation with clinically-feasible runtimes. We propose a CS objective function that minimizes cross-channel joint sparsity in the wavelet domain. Our reconstruction minimizes this objective via iterative soft-thresholding, and integrates naturally with iterative self-consistent parallel imaging (SPIRiT). Like many iterative magnetic resonance imaging reconstructions, l₁-SPIRiT's image quality comes at a high computational cost. Excessively long runtimes are a barrier to the clinical use of any reconstruction approach, and thus we discuss our approach to efficiently parallelizing l₁-SPIRiT and to achieving clinically-feasible runtimes. We present parallelizations of l₁-SPIRiT for both multi-GPU systems and multi-core CPUs, and discuss the software optimization and parallelization decisions made in our implementation. The performance of these alternatives depends on the processor architecture, the size of the image matrix, and the number of parallel imaging channels. Fundamentally, achieving fast runtime requires the correct trade-off between cache usage and parallelization overheads. We demonstrate image quality via a case from our clinical experimentation, using a custom 3DFT spoiled gradient echo (SPGR) sequence with up to 8× acceleration via Poisson-disc undersampling in the two phase-encoded directions.

Fast ℓ1-SPIRiT Compressed Sensing Parallel Imaging MRI: Scalable Parallel Implementation and Clinically Feasible Runtime

PubMed Central

Murphy, Mark; Alley, Marcus; Demmel, James; Keutzer, Kurt; Vasanawala, Shreyas; Lustig, Michael

2012-01-01

We present ℓ1-SPIRiT, a simple algorithm for auto calibrating parallel imaging (acPI) and compressed sensing (CS) that permits an efficient implementation with clinically-feasible runtimes. We propose a CS objective function that minimizes cross-channel joint sparsity in the Wavelet domain. Our reconstruction minimizes this objective via iterative soft-thresholding, and integrates naturally with iterative Self-Consistent Parallel Imaging (SPIRiT). Like many iterative MRI reconstructions, ℓ1-SPIRiT’s image quality comes at a high computational cost. Excessively long runtimes are a barrier to the clinical use of any reconstruction approach, and thus we discuss our approach to efficiently parallelizing ℓ1-SPIRiT and to achieving clinically-feasible runtimes. We present parallelizations of ℓ1-SPIRiT for both multi-GPU systems and multi-core CPUs, and discuss the software optimization and parallelization decisions made in our implementation. The performance of these alternatives depends on the processor architecture, the size of the image matrix, and the number of parallel imaging channels. Fundamentally, achieving fast runtime requires the correct trade-off between cache usage and parallelization overheads. We demonstrate image quality via a case from our clinical experimentation, using a custom 3DFT Spoiled Gradient Echo (SPGR) sequence with up to 8× acceleration via poisson-disc undersampling in the two phase-encoded directions. PMID:22345529

Towards Next Generation Lithium-Sulfur Batteries: Non-Conventional Carbon Compartments/Sulfur Electrodes and Multi-Scale Analysis

DOE PAGES

Dysart, Arthur D.; Burgos, Juan C.; Mistry, Aashutosh; ...

2016-02-09

In this work, a novel heterofunctional, bimodal-porous carbon morphology, termed the carbon compartment (CC), is utilized as a sulfur host as a lithium-sulfur battery cathode. A multi-scale model explores the physics and chemistry of the lithium-sulfur battery cathode. The CCs are synthesized by a rapid, low cost process to improve electrode-electrolyte interfacial contact and accommodate volumetric expansion associated with sulfide formation. The CCs demonstrate high sulfur loading (47 %-wt. S) and ca. 700 mAh g -1 reversible capacity with high coulombic efficiency due to their unique structures. Density functional theory and ab initio Molecular Dynamics characterize the interface between themore » C/S composite and electrolyte during the sulfur reduction mechanism. Stochastic realizations of 3D electrode microstructures are reconstructed based on representative SEM images to study the influence of solid sulfur loading and lithium sulfide precipitation on microstructural and electrochemical properties. A macroscale electrochemical performance model is developed to analyze the performance of lithium-sulfur batteries. The combined multi-scale simulation studies explain key fundamentals of sulfur reduction and its relation to the polysulfide shuttle mechanism: how the process is affected due to the presence of carbon substrate, thermodynamics of lithium sulfide formation and deposition on carbon, and microstructural effects on the overall cell performance.« less

Turbulence sources, character, and effects in the stable boundary layer: Insights from multi-scale direct numerical simulations and new, high-resolution measurements

NASA Astrophysics Data System (ADS)

Fritts, Dave; Wang, Ling; Balsley, Ben; Lawrence, Dale

2013-04-01

A number of sources contribute to intermittent small-scale turbulence in the stable boundary layer (SBL). These include Kelvin-Helmholtz instability (KHI), gravity wave (GW) breaking, and fluid intrusions, among others. Indeed, such sources arise naturally in response to even very simple "multi-scale" superpositions of larger-scale GWs and smaller-scale GWs, mean flows, or fine structure (FS) throughout the atmosphere and the oceans. We describe here results of two direct numerical simulations (DNS) of these GW-FS interactions performed at high resolution and high Reynolds number that allow exploration of these turbulence sources and the character and effects of the turbulence that arises in these flows. Results include episodic turbulence generation, a broad range of turbulence scales and intensities, PDFs of dissipation fields exhibiting quasi-log-normal and more complex behavior, local turbulent mixing, and "sheet and layer" structures in potential temperature that closely resemble high-resolution measurements. Importantly, such multi-scale dynamics differ from their larger-scale, quasi-monochromatic gravity wave or quasi-horizontally homogeneous shear flow instabilities in significant ways. The ability to quantify such multi-scale dynamics with new, very high-resolution measurements is also advancing rapidly. New in-situ sensors on small, unmanned aerial vehicles (UAVs), balloons, or tethered systems are enabling definition of SBL (and deeper) environments and turbulence structure and dissipation fields with high spatial and temporal resolution and precision. These new measurement and modeling capabilities promise significant advances in understanding small-scale instability and turbulence dynamics, in quantifying their roles in mixing, transport, and evolution of the SBL environment, and in contributing to improved parameterizations of these dynamics in mesoscale, numerical weather prediction, climate, and general circulation models. We expect such measurement and modeling capabilities to also aid in the design of new and more comprehensive future SBL measurement programs.

Approximate static condensation algorithm for solving multi-material diffusion problems on meshes non-aligned with material interfaces

DOE Office of Scientific and Technical Information (OSTI.GOV)

Kikinzon, Evgeny; Kuznetsov, Yuri; Lipnikov, Konstatin

In this study, we describe a new algorithm for solving multi-material diffusion problem when material interfaces are not aligned with the mesh. In this case interface reconstruction methods are used to construct approximate representation of interfaces between materials. They produce so-called multi-material cells, in which materials are represented by material polygons that contain only one material. The reconstructed interface is not continuous between cells. Finally, we suggest the new method for solving multi-material diffusion problems on such meshes and compare its performance with known homogenization methods.

Approximate static condensation algorithm for solving multi-material diffusion problems on meshes non-aligned with material interfaces

DOE PAGES

Kikinzon, Evgeny; Kuznetsov, Yuri; Lipnikov, Konstatin; ...

2017-07-08

In this study, we describe a new algorithm for solving multi-material diffusion problem when material interfaces are not aligned with the mesh. In this case interface reconstruction methods are used to construct approximate representation of interfaces between materials. They produce so-called multi-material cells, in which materials are represented by material polygons that contain only one material. The reconstructed interface is not continuous between cells. Finally, we suggest the new method for solving multi-material diffusion problems on such meshes and compare its performance with known homogenization methods.

Super-resolution mapping using multi-viewing CHRIS/PROBA data

NASA Astrophysics Data System (ADS)

Dwivedi, Manish; Kumar, Vinay

2016-04-01

High-spatial resolution Remote Sensing (RS) data provides detailed information which ensures high-definition visual image analysis of earth surface features. These data sets also support improved information extraction capabilities at a fine scale. In order to improve the spatial resolution of coarser resolution RS data, the Super Resolution Reconstruction (SRR) technique has become widely acknowledged which focused on multi-angular image sequences. In this study multi-angle CHRIS/PROBA data of Kutch area is used for SR image reconstruction to enhance the spatial resolution from 18 m to 6m in the hope to obtain a better land cover classification. Various SR approaches like Projection onto Convex Sets (POCS), Robust, Iterative Back Projection (IBP), Non-Uniform Interpolation and Structure-Adaptive Normalized Convolution (SANC) chosen for this study. Subjective assessment through visual interpretation shows substantial improvement in land cover details. Quantitative measures including peak signal to noise ratio and structural similarity are used for the evaluation of the image quality. It was observed that SANC SR technique using Vandewalle algorithm for the low resolution image registration outperformed the other techniques. After that SVM based classifier is used for the classification of SRR and data resampled to 6m spatial resolution using bi-cubic interpolation. A comparative analysis is carried out between classified data of bicubic interpolated and SR derived images of CHRIS/PROBA and SR derived classified data have shown a significant improvement of 10-12% in the overall accuracy. The results demonstrated that SR methods is able to improve spatial detail of multi-angle images as well as the classification accuracy.

"torino 1911" Project: a Contribution of a Slam-Based Survey to Extensive 3d Heritage Modeling

NASA Astrophysics Data System (ADS)

Chiabrando, F.; Della Coletta, C.; Sammartano, G.; Spanò, A.; Spreafico, A.

2018-05-01

In the framework of the digital documentation of complex environments the advanced Geomatics researches offers integrated solution and multi-sensor strategies for the 3D accurate reconstruction of stratified structures and articulated volumes in the heritage domain. The use of handheld devices for rapid mapping, both image- and range-based, can help the production of suitable easy-to use and easy-navigable 3D model for documentation projects. These types of reality-based modelling could support, with their tailored integrated geometric and radiometric aspects, valorisation and communication projects including virtual reconstructions, interactive navigation settings, immersive reality for dissemination purposes and evoking past places and atmospheres. The aim of this research is localized within the "Torino 1911" project, led by the University of San Diego (California) in cooperation with the PoliTo. The entire project is conceived for multi-scale reconstruction of the real and no longer existing structures in the whole park space of more than 400,000 m2, for a virtual and immersive visualization of the Turin 1911 International "Fabulous Exposition" event, settled in the Valentino Park. Particularly, in the presented research, a 3D metric documentation workflow is proposed and validated in order to integrate the potentialities of LiDAR mapping by handheld SLAM-based device, the ZEB REVO Real Time instrument by GeoSLAM (2017 release), instead of TLS consolidated systems. Starting from these kind of models, the crucial aspects of the trajectories performances in the 3D reconstruction and the radiometric content from imaging approaches are considered, specifically by means of compared use of common DSLR cameras and portable sensors.

Reduced Complexity Modelling of Urban Floodplain Inundation

NASA Astrophysics Data System (ADS)

McMillan, H. K.; Brasington, J.; Mihir, M.

2004-12-01

Significant recent advances in floodplain inundation modelling have been achieved by directly coupling 1d channel hydraulic models with a raster storage cell approximation for floodplain flows. The strengths of this reduced-complexity model structure derive from its explicit dependence on a digital elevation model (DEM) to parameterize flows through riparian areas, providing a computationally efficient algorithm to model heterogeneous floodplains. Previous applications of this framework have generally used mid-range grid scales (101-102 m), showing the capacity of the models to simulate long reaches (103-104 m). However, the increasing availability of precision DEMs derived from airborne laser altimetry (LIDAR) enables their use at very high spatial resolutions (100-101 m). This spatial scale offers the opportunity to incorporate the complexity of the built environment directly within the floodplain DEM and simulate urban flooding. This poster describes a series of experiments designed to explore model functionality at these reduced scales. Important questions are considered, raised by this new approach, about the reliability and representation of the floodplain topography and built environment, and the resultant sensitivity of inundation forecasts. The experiments apply a raster floodplain model to reconstruct a 1:100 year flood event on the River Granta in eastern England, which flooded 72 properties in the town of Linton in October 2001. The simulations use a nested-scale model to maintain efficiency. A 2km by 4km urban zone is represented by a high-resolution DEM derived from single-pulse LIDAR data supplied by the UK Environment Agency, together with surveyed data and aerial photography. Novel methods of processing the raw data to provide the individual structure detail required are investigated and compared. This is then embedded within a lower-resolution model application at the reach scale which provides boundary conditions based on recorded flood stage. The high resolution predictions on a scale commensurate with urban structures make possible a multi-criteria validation which combines verification of reach-scale characteristics such as downstream flow and inundation extent with internal validation of flood depth at individual sites.

Lumley decomposition of turbulent boundary layer at high Reynolds numbers

NASA Astrophysics Data System (ADS)

Tutkun, Murat; George, William K.

2017-02-01

The decomposition proposed by Lumley in 1966 is applied to a high Reynolds number turbulent boundary layer. The experimental database was created by a hot-wire rake of 143 probes in the Laboratoire de Mécanique de Lille wind tunnel. The Reynolds numbers based on momentum thickness (Reθ) are 9800 and 19 100. Three-dimensional decomposition is performed, namely, proper orthogonal decomposition (POD) in the inhomogeneous and bounded wall-normal direction, Fourier decomposition in the homogeneous spanwise direction, and Fourier decomposition in time. The first POD modes in both cases carry nearly 50% of turbulence kinetic energy when the energy is integrated over Fourier dimensions. The eigenspectra always peak near zero frequency and most of the large scale, energy carrying features are found at the low end of the spectra. The spanwise Fourier mode which has the largest amount of energy is the first spanwise mode and its symmetrical pair. Pre-multiplied eigenspectra have only one distinct peak and it matches the secondary peak observed in the log-layer of pre-multiplied velocity spectra. Energy carrying modes obtained from the POD scale with outer scaling parameters. Full or partial reconstruction of turbulent velocity signal based only on energetic modes or non-energetic modes revealed the behaviour of urms in distinct regions across the boundary layer. When urms is based on energetic reconstruction, there exists (a) an exponential decay from near wall to log-layer, (b) a constant layer through the log-layer, and (c) another exponential decay in the outer region. The non-energetic reconstruction reveals that urms has (a) an exponential decay from the near-wall to the end of log-layer and (b) a constant layer in the outer region. Scaling of urms using the outer parameters is best when both energetic and non-energetic profiles are combined.

Comparing Split and Unsplit Numerical Methods for Simulating Low and High Mach Number Turbulent Flows in Xrage

NASA Astrophysics Data System (ADS)

Saenz, Juan; Grinstein, Fernando; Dolence, Joshua; Rauenzahn, Rick; Masser, Thomas; Francois, Marianne; LANL Team

2017-11-01

We report progress in evaluating an unsplit hydrodynamic solver being implemented in the radiation adaptive grid Eulerian (xRAGE) code, and compare to a split scheme. xRage is a Eulerian hydrodynamics code used for implicit large eddy simulations (ILES) of multi-material, multi-physics flows where low and high Mach number (Ma) processes and instabilities interact and co-exist. The hydrodynamic solver in xRAGE uses a directionally split, second order Godunov, finite volume (FV) scheme. However, a standard, unsplit, Godunov-type FV scheme with 2nd and 3rd order reconstruction options, low Ma correction and a variety of Riemann solvers has recently become available. To evaluate the hydrodynamic solvers for turbulent low Ma flows, we use simulations of the Taylor Green Vortex (TGV), where there is a transition to turbulence via vortex stretching and production of small-scale eddies. We also simulate a high-low Ma shock-tube flow, where a shock passing over a perturbed surface generates a baroclinic Richtmyer-Meshkov instability (RMI); after the shock has passed, the turbulence in the accelerated interface region resembles Rayleigh Taylor (RT) instability. We compare turbulence spectra and decay in simulated TGV flows, and we present progress in simulating the high-low Ma RMI-RT flow. LANL is operated by LANS LLC for the U.S. DOE NNSA under Contract No. DE-AC52-06NA25396.

Wavelength scanning achieves pixel super-resolution in holographic on-chip microscopy

NASA Astrophysics Data System (ADS)

Luo, Wei; Göröcs, Zoltan; Zhang, Yibo; Feizi, Alborz; Greenbaum, Alon; Ozcan, Aydogan

2016-03-01

Lensfree holographic on-chip imaging is a potent solution for high-resolution and field-portable bright-field imaging over a wide field-of-view. Previous lensfree imaging approaches utilize a pixel super-resolution technique, which relies on sub-pixel lateral displacements between the lensfree diffraction patterns and the image sensor's pixel-array, to achieve sub-micron resolution under unit magnification using state-of-the-art CMOS imager chips, commonly used in e.g., mobile-phones. Here we report, for the first time, a wavelength scanning based pixel super-resolution technique in lensfree holographic imaging. We developed an iterative super-resolution algorithm, which generates high-resolution reconstructions of the specimen from low-resolution (i.e., under-sampled) diffraction patterns recorded at multiple wavelengths within a narrow spectral range (e.g., 10-30 nm). Compared with lateral shift-based pixel super-resolution, this wavelength scanning approach does not require any physical shifts in the imaging setup, and the resolution improvement is uniform in all directions across the sensor-array. Our wavelength scanning super-resolution approach can also be integrated with multi-height and/or multi-angle on-chip imaging techniques to obtain even higher resolution reconstructions. For example, using wavelength scanning together with multi-angle illumination, we achieved a halfpitch resolution of 250 nm, corresponding to a numerical aperture of 1. In addition to pixel super-resolution, the small scanning steps in wavelength also enable us to robustly unwrap phase, revealing the specimen's optical path length in our reconstructed images. We believe that this new wavelength scanning based pixel super-resolution approach can provide competitive microscopy solutions for high-resolution and field-portable imaging needs, potentially impacting tele-pathology applications in resource-limited-settings.

Multi-threaded Event Processing with DANA

DOE Office of Scientific and Technical Information (OSTI.GOV)

David Lawrence; Elliott Wolin

2007-05-14

The C++ data analysis framework DANA has been written to support the next generation of Nuclear Physics experiments at Jefferson Lab commensurate with the anticipated 12GeV upgrade. The DANA framework was designed to allow multi-threaded event processing with a minimal impact on developers of reconstruction software. This document describes how DANA implements multi-threaded event processing and compares it to simply running multiple instances of a program. Also presented are relative reconstruction rates for Pentium4, Xeon, and Opteron based machines.

Multiscale Information Transfer in Functional Corticomuscular Coupling Estimation Following Stroke: A Pilot Study

PubMed Central

Chen, Xiaoling; Xie, Ping; Zhang, Yuanyuan; Chen, Yuling; Yang, Fangmei; Zhang, Litai; Li, Xiaoli

2018-01-01

Recently, functional corticomuscular coupling (FCMC) between the cortex and the contralateral muscle has been used to evaluate motor function after stroke. As we know, the motor-control system is a closed-loop system that is regulated by complex self-regulating and interactive mechanisms which operate in multiple spatial and temporal scales. Multiscale analysis can represent the inherent complexity. However, previous studies in FCMC for stroke patients mainly focused on the coupling strength in single-time scale, without considering the changes of the inherently directional and multiscale properties in sensorimotor systems. In this paper, a multiscale-causal model, named multiscale transfer entropy, was used to quantify the functional connection between electroencephalogram over the scalp and electromyogram from the flexor digitorum superficialis (FDS) recorded simultaneously during steady-state grip task in eight stroke patients and eight healthy controls. Our results showed that healthy controls exhibited higher coupling when the scale reached up to about 12, and the FCMC in descending direction was stronger at certain scales (1, 7, 12, and 14) than that in ascending direction. Further analysis showed these multi-time scale characteristics mainly focused on the beta1 band at scale 11 and beta2 band at scale 9, 11, 13, and 15. Compared to controls, the multiscale properties of the FCMC for stroke were changed, the strengths in both directions were reduced, and the gaps between the descending and ascending directions were disappeared over all scales. Further analysis in specific bands showed that the reduced FCMC mainly focused on the alpha2 at higher scale, beta1 and beta2 across almost the entire scales. This study about multi-scale confirms that the FCMC between the brain and muscles is capable of complex and directional characteristics, and these characteristics in functional connection for stroke are destroyed by the structural lesion in the brain that might disrupt coordination, feedback, and information transmission in efferent control and afferent feedback. The study demonstrates for the first time the multiscale and directional characteristics of the FCMC for stroke patients, and provides a preliminary observation for application in clinical assessment following stroke. PMID:29765351

Land-Atmosphere Coupling in the Multi-Scale Modelling Framework

NASA Astrophysics Data System (ADS)

Kraus, P. M.; Denning, S.

2015-12-01

The Multi-Scale Modeling Framework (MMF), in which cloud-resolving models (CRMs) are embedded within general circulation model (GCM) gridcells to serve as the model's cloud parameterization, has offered a number of benefits to GCM simulations. The coupling of these cloud-resolving models directly to land surface model instances, rather than passing averaged atmospheric variables to a single instance of a land surface model, the logical next step in model development, has recently been accomplished. This new configuration offers conspicuous improvements to estimates of precipitation and canopy through-fall, but overall the model exhibits warm surface temperature biases and low productivity.This work presents modifications to a land-surface model that take advantage of the new multi-scale modeling framework, and accommodate the change in spatial scale from a typical GCM range of ~200 km to the CRM grid-scale of 4 km.A parameterization is introduced to apportion modeled surface radiation into direct-beam and diffuse components. The diffuse component is then distributed among the land-surface model instances within each GCM cell domain. This substantially reduces the number excessively low light values provided to the land-surface model when cloudy conditions are modeled in the CRM, associated with its 1-D radiation scheme. The small spatial scale of the CRM, ~4 km, as compared with the typical ~200 km GCM scale, provides much more realistic estimates of precipitation intensity, this permits the elimination of a model parameterization of canopy through-fall. However, runoff at such scales can no longer be considered as an immediate flow to the ocean. Allowing sub-surface water flow between land-surface instances within the GCM domain affords better realism and also reduces temperature and productivity biases.The MMF affords a number of opportunities to land-surface modelers, providing both the advantages of direct simulation at the 4 km scale and a much reduced conceptual gap between model resolution and parameterized processes.

ABC of multi-fractal spacetimes and fractional sea turtles

NASA Astrophysics Data System (ADS)

Calcagni, Gianluca

2016-04-01

We clarify what it means to have a spacetime fractal geometry in quantum gravity and show that its properties differ from those of usual fractals. A weak and a strong definition of multi-scale and multi-fractal spacetimes are given together with a sketch of the landscape of multi-scale theories of gravitation. Then, in the context of the fractional theory with q-derivatives, we explore the consequences of living in a multi-fractal spacetime. To illustrate the behavior of a non-relativistic body, we take the entertaining example of a sea turtle. We show that, when only the time direction is fractal, sea turtles swim at a faster speed than in an ordinary world, while they swim at a slower speed if only the spatial directions are fractal. The latter type of geometry is the one most commonly found in quantum gravity. For time-like fractals, relativistic objects can exceed the speed of light, but strongly so only if their size is smaller than the range of particle-physics interactions. We also find new results about log-oscillating measures, the measure presentation and their role in physical observations and in future extensions to nowhere-differentiable stochastic spacetimes.

Multi-Scale Modeling of a Graphite-Epoxy-Nanotube System

NASA Technical Reports Server (NTRS)

Frankland, S. J. V.; Riddick, J. C.; Gates, T. S.

2005-01-01

A multi-scale method is utilized to determine some of the constitutive properties of a three component graphite-epoxy-nanotube system. This system is of interest because carbon nanotubes have been proposed as stiffening and toughening agents in the interlaminar regions of carbon fiber/epoxy laminates. The multi-scale method uses molecular dynamics simulation and equivalent-continuum modeling to compute three of the elastic constants of the graphite-epoxy-nanotube system: C11, C22, and C33. The 1-direction is along the nanotube axis, and the graphene sheets lie in the 1-2 plane. It was found that the C11 is only 4% larger than the C22. The nanotube therefore does have a small, but positive effect on the constitutive properties in the interlaminar region.

In vivo bioluminescence tomography based on multi-view projection and 3D surface reconstruction

NASA Astrophysics Data System (ADS)

Zhang, Shuang; Wang, Kun; Leng, Chengcai; Deng, Kexin; Hu, Yifang; Tian, Jie

2015-03-01

Bioluminescence tomography (BLT) is a powerful optical molecular imaging modality, which enables non-invasive realtime in vivo imaging as well as 3D quantitative analysis in preclinical studies. In order to solve the inverse problem and reconstruct inner light sources accurately, the prior structural information is commonly necessary and obtained from computed tomography or magnetic resonance imaging. This strategy requires expensive hybrid imaging system, complicated operation protocol and possible involvement of ionizing radiation. The overall robustness highly depends on the fusion accuracy between the optical and structural information. In this study we present a pure optical bioluminescence tomographic system (POBTS) and a novel BLT method based on multi-view projection acquisition and 3D surface reconstruction. The POBTS acquired a sparse set of white light surface images and bioluminescent images of a mouse. Then the white light images were applied to an approximate surface model to generate a high quality textured 3D surface reconstruction of the mouse. After that we integrated multi-view luminescent images based on the previous reconstruction, and applied an algorithm to calibrate and quantify the surface luminescent flux in 3D.Finally, the internal bioluminescence source reconstruction was achieved with this prior information. A BALB/C mouse with breast tumor of 4T1-fLuc cells mouse model were used to evaluate the performance of the new system and technique. Compared with the conventional hybrid optical-CT approach using the same inverse reconstruction method, the reconstruction accuracy of this technique was improved. The distance error between the actual and reconstructed internal source was decreased by 0.184 mm.

Application of process tomography in gas-solid fluidised beds in different scales and structures

NASA Astrophysics Data System (ADS)

Wang, H. G.; Che, H. Q.; Ye, J. M.; Tu, Q. Y.; Wu, Z. P.; Yang, W. Q.; Ocone, R.

2018-04-01

Gas-solid fluidised beds are commonly used in particle-related processes, e.g. for coal combustion and gasification in the power industry, and the coating and granulation process in the pharmaceutical industry. Because the operation efficiency depends on the gas-solid flow characteristics, it is necessary to investigate the flow behaviour. This paper is about the application of process tomography, including electrical capacitance tomography (ECT) and microwave tomography (MWT), in multi-scale gas-solid fluidisation processes in the pharmaceutical and power industries. This is the first time that both ECT and MWT have been applied for this purpose in multi-scale and complex structure. To evaluate the sensor design and image reconstruction and to investigate the effects of sensor structure and dimension on the image quality, a normalised sensitivity coefficient is introduced. In the meantime, computational fluid dynamic (CFD) analysis based on a computational particle fluid dynamic (CPFD) model and a two-phase fluid model (TFM) is used. Part of the CPFD-TFM simulation results are compared and validated by experimental results from ECT and/or MWT. By both simulation and experiment, the complex flow hydrodynamic behaviour in different scales is analysed. Time-series capacitance data are analysed both in time and frequency domains to reveal the flow characteristics.

A multi-pixel InSAR time series analysis method: Simultaneous estimation of atmospheric noise, orbital errors and deformation

NASA Astrophysics Data System (ADS)

Jolivet, R.; Simons, M.

2016-12-01

InSAR time series analysis allows reconstruction of ground deformation with meter-scale spatial resolution and high temporal sampling. For instance, the ESA Sentinel-1 Constellation is capable of providing 6-day temporal sampling, thereby opening a new window on the spatio-temporal behavior of tectonic processes. However, due to computational limitations, most time series methods rely on a pixel-by-pixel approach. This limitation is a concern because (1) accounting for orbital errors requires referencing all interferograms to a common set of pixels before reconstruction of the time series and (2) spatially correlated atmospheric noise due to tropospheric turbulence is ignored. Decomposing interferograms into statistically independent wavelets will mitigate issues of correlated noise, but prior estimation of orbital uncertainties will still be required. Here, we explore a method that considers all pixels simultaneously when solving for the spatio-temporal evolution of interferometric phase Our method is based on a massively parallel implementation of a conjugate direction solver. We consider an interferogram as the sum of the phase difference between 2 SAR acquisitions and the corresponding orbital errors. In addition, we fit the temporal evolution with a physically parameterized function while accounting for spatially correlated noise in the data covariance. We assume noise is isotropic for any given InSAR pair with a covariance described by an exponential function that decays with increasing separation distance between pixels. We regularize our solution in space using a similar exponential function as model covariance. Given the problem size, we avoid matrix multiplications of the full covariances by computing convolutions in the Fourier domain. We first solve the unregularized least squares problem using the LSQR algorithm to approach the final solution, then run our conjugate direction solver to account for data and model covariances. We present synthetic tests showing the efficiency of our method. We then reconstruct a 20-year continuous time series covering Northern Chile. Without input from any additional GNSS data, we recover the secular deformation rate, seasonal oscillations and the deformation fields from the 2005 Mw 7.8 Tarapaca and 2007 Mw 7.7 Tocopilla earthquakes.

Kernel Regression Estimation of Fiber Orientation Mixtures in Diffusion MRI

PubMed Central

Cabeen, Ryan P.; Bastin, Mark E.; Laidlaw, David H.

2016-01-01

We present and evaluate a method for kernel regression estimation of fiber orientations and associated volume fractions for diffusion MR tractography and population-based atlas construction in clinical imaging studies of brain white matter. This is a model-based image processing technique in which representative fiber models are estimated from collections of component fiber models in model-valued image data. This extends prior work in nonparametric image processing and multi-compartment processing to provide computational tools for image interpolation, smoothing, and fusion with fiber orientation mixtures. In contrast to related work on multi-compartment processing, this approach is based on directional measures of divergence and includes data-adaptive extensions for model selection and bilateral filtering. This is useful for reconstructing complex anatomical features in clinical datasets analyzed with the ball-and-sticks model, and our framework’s data-adaptive extensions are potentially useful for general multi-compartment image processing. We experimentally evaluate our approach with both synthetic data from computational phantoms and in vivo clinical data from human subjects. With synthetic data experiments, we evaluate performance based on errors in fiber orientation, volume fraction, compartment count, and tractography-based connectivity. With in vivo data experiments, we first show improved scan-rescan reproducibility and reliability of quantitative fiber bundle metrics, including mean length, volume, streamline count, and mean volume fraction. We then demonstrate the creation of a multi-fiber tractography atlas from a population of 80 human subjects. In comparison to single tensor atlasing, our multi-fiber atlas shows more complete features of known fiber bundles and includes reconstructions of the lateral projections of the corpus callosum and complex fronto-parietal connections of the superior longitudinal fasciculus I, II, and III. PMID:26691524

Drought change in the middle reach of the Yellow River since the late Ming Dynasty and their correlation with runoff

NASA Astrophysics Data System (ADS)

Chen, F.

2017-12-01

Because of the reported decreasing trends in precipitation and streamflow in north-central China (Starting point of Ancient Silk Road), it is essential to understand long-term in water resource availability in this area. Thus, this research presents a new February-August PDSI reconstruction spanning CE 1615-2013 for the southern edge of the Gobi Desert under a highly variable arid and semi-arid climate in northern China. In addition to this new PDSI reconstruction, some previously published annual precipitation/PDSI reconstructions from the neighbouring regions were also used to infer the large-scale hydro-climatic signal of the middle reach of the Yellow River. Spatial correlation analyses with gridded precipitation data showed that the tree-ring records were indeed able to capture much of the regional interannual hydro-climatic signal variability. Using principal component analyses on the reconstructions and documentary records, many large-scale dry and flood events were found during the period AD 1615-2006. Many of these dry events have had profound impacts on the people of the study area over the past several centuries. Temporal correlations among the reconstruction and climatic indices, such as the El Niño-Southern Oscillation, demonstrate that water availability is influenced by tropical and high-latitude forcings in the Pacific rim. Continued work in this direction should enable us to understand better the hydrological change under global warming and the past climate variability of the silk road over long temporal and large spatial scales.

Revisiting the Robustness of PET-Based Textural Features in the Context of Multi-Centric Trials.

PubMed

Bailly, Clément; Bodet-Milin, Caroline; Couespel, Solène; Necib, Hatem; Kraeber-Bodéré, Françoise; Ansquer, Catherine; Carlier, Thomas

2016-01-01

This study aimed to investigate the variability of textural features (TF) as a function of acquisition and reconstruction parameters within the context of multi-centric trials. The robustness of 15 selected TFs were studied as a function of the number of iterations, the post-filtering level, input data noise, the reconstruction algorithm and the matrix size. A combination of several reconstruction and acquisition settings was devised to mimic multi-centric conditions. We retrospectively studied data from 26 patients enrolled in a diagnostic study that aimed to evaluate the performance of PET/CT 68Ga-DOTANOC in gastro-entero-pancreatic neuroendocrine tumors. Forty-one tumors were extracted and served as the database. The coefficient of variation (COV) or the absolute deviation (for the noise study) was derived and compared statistically with SUVmax and SUVmean results. The majority of investigated TFs can be used in a multi-centric context when each parameter is considered individually. The impact of voxel size and noise in the input data were predominant as only 4 TFs presented a high/intermediate robustness against SUV-based metrics (Entropy, Homogeneity, RP and ZP). When combining several reconstruction settings to mimic multi-centric conditions, most of the investigated TFs were robust enough against SUVmax except Correlation, Contrast, LGRE, LGZE and LZLGE. Considering previously published results on either reproducibility or sensitivity against delineation approach and our findings, it is feasible to consider Homogeneity, Entropy, Dissimilarity, HGRE, HGZE and ZP as relevant for being used in multi-centric trials.

Multi-Dimensional, Inviscid Flux Reconstruction for Simulation of Hypersonic Heating on Tetrahedral Grids

NASA Technical Reports Server (NTRS)

Gnoffo, Peter A.

2009-01-01

The quality of simulated hypersonic stagnation region heating on tetrahedral meshes is investigated by using a three-dimensional, upwind reconstruction algorithm for the inviscid flux vector. Two test problems are investigated: hypersonic flow over a three-dimensional cylinder with special attention to the uniformity of the solution in the spanwise direction and hypersonic flow over a three-dimensional sphere. The tetrahedral cells used in the simulation are derived from a structured grid where cell faces are bisected across the diagonal resulting in a consistent pattern of diagonals running in a biased direction across the otherwise symmetric domain. This grid is known to accentuate problems in both shock capturing and stagnation region heating encountered with conventional, quasi-one-dimensional inviscid flux reconstruction algorithms. Therefore the test problem provides a sensitive test for algorithmic effects on heating. This investigation is believed to be unique in its focus on three-dimensional, rotated upwind schemes for the simulation of hypersonic heating on tetrahedral grids. This study attempts to fill the void left by the inability of conventional (quasi-one-dimensional) approaches to accurately simulate heating in a tetrahedral grid system. Results show significant improvement in spanwise uniformity of heating with some penalty of ringing at the captured shock. Issues with accuracy near the peak shear location are identified and require further study.

Objective analysis of ambisonics for hearing aid applications: Effect of listener's head, room reverberation, and directional microphones.

PubMed

Oreinos, Chris; Buchholz, Jörg M

2015-06-01

Recently, an increased interest has been demonstrated in evaluating hearing aids (HAs) inside controlled, but at the same time, realistic sound environments. A promising candidate that employs loudspeakers for realizing such sound environments is the listener-centered method of higher-order ambisonics (HOA). Although the accuracy of HOA has been widely studied, it remains unclear to what extent the results can be generalized when (1) a listener wearing HAs that may feature multi-microphone directional algorithms is considered inside the reconstructed sound field and (2) reverberant scenes are recorded and reconstructed. For the purpose of objectively validating HOA for listening tests involving HAs, a framework was developed to simulate the entire path of sounds presented in a modeled room, recorded by a HOA microphone array, decoded to a loudspeaker array, and finally received at the ears and HA microphones of a dummy listener fitted with HAs. Reproduction errors at the ear signals and at the output of a cardioid HA microphone were analyzed for different anechoic and reverberant scenes. It was found that the diffuse reverberation reduces the considered time-averaged HOA reconstruction errors which, depending on the considered application, suggests that reverberation can increase the usable frequency range of a HOA system.

High resolution human diffusion tensor imaging using 2-D navigated multi-shot SENSE EPI at 7 Tesla

PubMed Central

Jeong, Ha-Kyu; Gore, John C.; Anderson, Adam W.

2012-01-01

The combination of parallel imaging with partial Fourier acquisition has greatly improved the performance of diffusion-weighted single-shot EPI and is the preferred method for acquisitions at low to medium magnetic field strength such as 1.5 or 3 Tesla. Increased off-resonance effects and reduced transverse relaxation times at 7 Tesla, however, generate more significant artifacts than at lower magnetic field strength and limit data acquisition. Additional acceleration of k-space traversal using a multi-shot approach, which acquires a subset of k-space data after each excitation, reduces these artifacts relative to conventional single-shot acquisitions. However, corrections for motion-induced phase errors are not straightforward in accelerated, diffusion-weighted multi-shot EPI because of phase aliasing. In this study, we introduce a simple acquisition and corresponding reconstruction method for diffusion-weighted multi-shot EPI with parallel imaging suitable for use at high field. The reconstruction uses a simple modification of the standard SENSE algorithm to account for shot-to-shot phase errors; the method is called Image Reconstruction using Image-space Sampling functions (IRIS). Using this approach, reconstruction from highly aliased in vivo image data using 2-D navigator phase information is demonstrated for human diffusion-weighted imaging studies at 7 Tesla. The final reconstructed images show submillimeter in-plane resolution with no ghosts and much reduced blurring and off-resonance artifacts. PMID:22592941

Directional Multi-scale Modeling of High-Resolution Computed Tomography (HRCT) Lung Images for Diffuse Lung Disease Classification

NASA Astrophysics Data System (ADS)

Vo, Kiet T.; Sowmya, Arcot

A directional multi-scale modeling scheme based on wavelet and contourlet transforms is employed to describe HRCT lung image textures for classifying four diffuse lung disease patterns: normal, emphysema, ground glass opacity (GGO) and honey-combing. Generalized Gaussian density parameters are used to represent the detail sub-band features obtained by wavelet and contourlet transforms. In addition, support vector machines (SVMs) with excellent performance in a variety of pattern classification problems are used as classifier. The method is tested on a collection of 89 slices from 38 patients, each slice of size 512x512, 16 bits/pixel in DICOM format. The dataset contains 70,000 ROIs of those slices marked by experienced radiologists. We employ this technique at different wavelet and contourlet transform scales for diffuse lung disease classification. The technique presented here has best overall sensitivity 93.40% and specificity 98.40%.

Real-Time and Meter-Scale Absolute Distance Measurement by Frequency-Comb-Referenced Multi-Wavelength Interferometry.

PubMed

Wang, Guochao; Tan, Lilong; Yan, Shuhua

2018-02-07

We report on a frequency-comb-referenced absolute interferometer which instantly measures long distance by integrating multi-wavelength interferometry with direct synthetic wavelength interferometry. The reported interferometer utilizes four different wavelengths, simultaneously calibrated to the frequency comb of a femtosecond laser, to implement subwavelength distance measurement, while direct synthetic wavelength interferometry is elaborately introduced by launching a fifth wavelength to extend a non-ambiguous range for meter-scale measurement. A linearity test performed comparatively with a He-Ne laser interferometer shows a residual error of less than 70.8 nm in peak-to-valley over a 3 m distance, and a 10 h distance comparison is demonstrated to gain fractional deviations of ~3 × 10 -8 versus 3 m distance. Test results reveal that the presented absolute interferometer enables precise, stable, and long-term distance measurements and facilitates absolute positioning applications such as large-scale manufacturing and space missions.

Real-Time and Meter-Scale Absolute Distance Measurement by Frequency-Comb-Referenced Multi-Wavelength Interferometry

PubMed Central

Tan, Lilong; Yan, Shuhua

2018-01-01

We report on a frequency-comb-referenced absolute interferometer which instantly measures long distance by integrating multi-wavelength interferometry with direct synthetic wavelength interferometry. The reported interferometer utilizes four different wavelengths, simultaneously calibrated to the frequency comb of a femtosecond laser, to implement subwavelength distance measurement, while direct synthetic wavelength interferometry is elaborately introduced by launching a fifth wavelength to extend a non-ambiguous range for meter-scale measurement. A linearity test performed comparatively with a He–Ne laser interferometer shows a residual error of less than 70.8 nm in peak-to-valley over a 3 m distance, and a 10 h distance comparison is demonstrated to gain fractional deviations of ~3 × 10−8 versus 3 m distance. Test results reveal that the presented absolute interferometer enables precise, stable, and long-term distance measurements and facilitates absolute positioning applications such as large-scale manufacturing and space missions. PMID:29414897

Atlantic forcing of Western Mediterranean winter rain minima during the last 12,000 years

NASA Astrophysics Data System (ADS)

Zielhofer, Christoph; Fletcher, William J.; Mischke, Steffen; De Batist, Marc; Campbell, Jennifer F. E.; Joannin, Sebastien; Tjallingii, Rik; El Hamouti, Najib; Junginger, Annett; Stele, Andreas; Bussmann, Jens; Schneider, Birgit; Lauer, Tobias; Spitzer, Katrin; Strupler, Michael; Brachert, Thomas; Mikdad, Abdeslam

2017-02-01

The limited availability of high-resolution continuous archives, insufficient chronological control, and complex hydro-climatic forcing mechanisms lead to many uncertainties in palaeo-hydrological reconstructions for the Western Mediterranean. In this study we present a newly recovered 19.63 m long core from Lake Sidi Ali in the North African Middle Atlas, a transition zone of Atlantic, Western Mediterranean and Saharan air mass trajectories. With a multi-proxy approach based on magnetic susceptibility, carbonate and total organic C content, core-scanning and quantitative XRF, stable isotopes of ostracod shells, charcoal counts, Cedrus pollen abundance, and a first set of diatom data, we reconstruct Western Mediterranean hydro-climatic variability, seasonality and forcing mechanisms during the last 12,000 yr. A robust chronological model based on AMS 14C dated pollen concentrates supports our high-resolution multi-proxy study. Long-term trends reveal low lake levels at the end of the Younger Dryas, during the mid-Holocene interval 6.6 to 5.4 cal ka BP, and during the last 3000 years. In contrast, lake levels are mostly high during the Early and Mid-Holocene. The record also shows sub-millennial- to centennial-scale decreases in Western Mediterranean winter rain at 11.4, 10.3, 9.2, 8.2, 7.2, 6.6, 6.0, 5.4, 5.0, 4.4, 3.5, 2.9, 2.2, 1.9, 1.7, 1.5, 1.0, 0.7, and 0.2 cal ka BP. Early Holocene winter rain minima are in phase with cooling events and millennial-scale meltwater discharges in the sub-polar North Atlantic. Our proxy parameters do not show so far a clear impact of Saharan air masses on Mediterranean hydro-climate in North Africa. However, a significant hydro-climatic shift at the end of the African Humid Period (∼5 ka) indicates a change in climate forcing mechanisms. The Late Holocene climate variability in the Middle Atlas features a multi-centennial-scale NAO-type pattern, with Atlantic cooling and Western Mediterranean winter rain maxima generally associated with solar minima.

Unsupervised Change Detection for Geological and Ecological Monitoring via Remote Sensing: Application on a Volcanic Area

NASA Astrophysics Data System (ADS)

Falco, N.; Pedersen, G. B. M.; Vilmunandardóttir, O. K.; Belart, J. M. M. C.; Sigurmundsson, F. S.; Benediktsson, J. A.

2016-12-01

The project "Environmental Mapping and Monitoring of Iceland by Remote Sensing (EMMIRS)" aims at providing fast and reliable mapping and monitoring techniques on a big spatial scale with a high temporal resolution of the Icelandic landscape. Such mapping and monitoring will be crucial to both mitigate and understand the scale of processes and their often complex interlinked feedback mechanisms.In the EMMIRS project, the Hekla volcano area is one of the main sites under study, where the volcanic eruptions, extreme weather and human activities had an extensive impact on the landscape degradation. The development of innovative remote sensing approaches to compute earth observation variables as automatically as possible is one of the main tasks of the EMMIRS project. Furthermore, a temporal remote sensing archive is created and composed by images acquired by different sensors (Landsat, RapidEye, ASTER and SPOT5). Moreover, historical aerial stereo photos allowed decadal reconstruction of the landscape by reconstruction of digital elevation models. Here, we propose a novel architecture for automatic unsupervised change detection analysis able to ingest multi-source data in order to detect landscape changes in the Hekla area. The change detection analysis is based on multi-scale analysis, which allows the identification of changes at different level of abstraction, from pixel-level to region-level. For this purpose, operators defined in mathematical morphology framework are implemented to model the contextual information, represented by the neighbour system of a pixel, allowing the identification of changes related to both geometrical and spectral domains. Automatic radiometric normalization strategy is also implemented as pre-processing step, aiming at minimizing the effect of different acquisition conditions. The proposed architecture is tested on multi-temporal data sets acquired over different time periods coinciding with the last three eruptions (1980-1981, 1991, 2000) occurred on Hekla volcano. The results reveal emplacement of new lava flows and the initial vegetation succession, providing insightful information on the evolving of vegetation in such environment. Shadow and snow patch changes are resolved in post-processing by exploiting the available spectral information.

Network design and quality checks in automatic orientation of close-range photogrammetric blocks.

PubMed

Dall'Asta, Elisa; Thoeni, Klaus; Santise, Marina; Forlani, Gianfranco; Giacomini, Anna; Roncella, Riccardo

2015-04-03

Due to the recent improvements of automatic measurement procedures in photogrammetry, multi-view 3D reconstruction technologies are becoming a favourite survey tool. Rapidly widening structure-from-motion (SfM) software packages offer significantly easier image processing workflows than traditional photogrammetry packages. However, while most orientation and surface reconstruction strategies will almost always succeed in any given task, estimating the quality of the result is, to some extent, still an open issue. An assessment of the precision and reliability of block orientation is necessary and should be included in every processing pipeline. Such a need was clearly felt from the results of close-range photogrammetric surveys of in situ full-scale and laboratory-scale experiments. In order to study the impact of the block control and the camera network design on the block orientation accuracy, a series of Monte Carlo simulations was performed. Two image block configurations were investigated: a single pseudo-normal strip and a circular highly-convergent block. The influence of surveying and data processing choices, such as the number and accuracy of the ground control points, autofocus and camera calibration was investigated. The research highlights the most significant aspects and processes to be taken into account for adequate in situ and laboratory surveys, when modern SfM software packages are used, and evaluates their effect on the quality of the results of the surface reconstruction.

Accelerating Magnetic Resonance Fingerprinting (MRF) using t-Blipped Simultaneous Multi-Slice (SMS) acquisition

PubMed Central

Ye, Huihui; Ma, Dan; Jiang, Yun; Cauley, Stephen F.; Du, Yiping; Wald, Lawrence L.; Griswold, Mark A.; Setsompop, Kawin

2015-01-01

Purpose We incorporate Simultaneous Multi-Slice (SMS) acquisition into MR Fingerprinting (MRF) to accelerate the MRF acquisition. Methods The t-Blipped SMS-MRF method is achieved by adding a Gz blip before each data acquisition window and balancing it with a Gz blip of opposing polarity at the end of each TR. Thus the signal from different simultaneously excited slices are encoded with different phases without disturbing the signal evolution. Further, by varying the Gz blip area and/or polarity as a function of TR, the slices’ differential phase can also be made to vary as a function of time. For reconstruction of t-Blipped SMS-MRF data, we demonstrate a combined slice-direction SENSE and modified dictionary matching method. Results In Monte Carlo simulation, the parameter mapping from Multi-band factor (MB)=2 t-Blipped SMS-MRF shows good accuracy and precision when compared to results from reference conventional MRF data with concordance correlation coefficients (CCC) of 0.96 for T1 estimates and 0.90 for T2 estimates. For in vivo experiments, T1 and T2 maps from MB=2 t-Blipped SMS-MRF have a high agreement with ones from conventional MRF. Conclusions The MB=2 t-Blipped SMS-MRF acquisition/reconstruction method has been demonstrated and validated to provide more rapid parameter mapping in the MRF framework. PMID:26059430

A modified conjugate gradient method based on the Tikhonov system for computerized tomography (CT).

PubMed

Wang, Qi; Wang, Huaxiang

2011-04-01

During the past few decades, computerized tomography (CT) was widely used for non-destructive testing (NDT) and non-destructive examination (NDE) in the industrial area because of its characteristics of non-invasiveness and visibility. Recently, CT technology has been applied to multi-phase flow measurement. Using the principle of radiation attenuation measurements along different directions through the investigated object with a special reconstruction algorithm, cross-sectional information of the scanned object can be worked out. It is a typical inverse problem and has always been a challenge for its nonlinearity and ill-conditions. The Tikhonov regulation method is widely used for similar ill-posed problems. However, the conventional Tikhonov method does not provide reconstructions with qualities good enough, the relative errors between the reconstructed images and the real distribution should be further reduced. In this paper, a modified conjugate gradient (CG) method is applied to a Tikhonov system (MCGT method) for reconstructing CT images. The computational load is dominated by the number of independent measurements m, and a preconditioner is imported to lower the condition number of the Tikhonov system. Both simulation and experiment results indicate that the proposed method can reduce the computational time and improve the quality of image reconstruction. Copyright © 2010 ISA. Published by Elsevier Ltd. All rights reserved.

Reconstruction and separation of vibratory field using structural holography

NASA Astrophysics Data System (ADS)

Chesnais, C.; Totaro, N.; Thomas, J.-H.; Guyader, J.-L.

2017-02-01

A method for reconstructing and separating vibratory field on a plate-like structure is presented. The method, called "Structural Holography" is derived from classical Near-field Acoustic Holography (NAH) but in the vibratory domain. In this case, the plate displacement is measured on one-dimensional lines (the holograms) and used to reconstruct the entire two-dimensional displacement field. As a consequence, remote measurements on non directly accessible zones are possible with Structural Holography. Moreover, as it is based on the decomposition of the field into forth and back waves, Structural Holography permits to separate forces in the case of multi-sources excitation. The theoretical background of the Structural Holography method is described first. Then, to illustrate the process and the possibilities of Structural Holography, the academic test case of an infinite plate excited by few point forces is presented. With the principle of vibratory field separation, the displacement fields produced by each point force separately is reconstructed. However, the displacement field is not always meaningful and some additional treatments are mandatory to localize the position of point forces for example. From the simple example of an infinite plate, a post-processing based on the reconstruction of the structural intensity field is thus proposed. Finally, Structural Holography is generalized to finite plates and applied to real experimental measurements

Multi-scale structural community organisation of the human genome.

PubMed

Boulos, Rasha E; Tremblay, Nicolas; Arneodo, Alain; Borgnat, Pierre; Audit, Benjamin

2017-04-11

Structural interaction frequency matrices between all genome loci are now experimentally achievable thanks to high-throughput chromosome conformation capture technologies. This ensues a new methodological challenge for computational biology which consists in objectively extracting from these data the structural motifs characteristic of genome organisation. We deployed the fast multi-scale community mining algorithm based on spectral graph wavelets to characterise the networks of intra-chromosomal interactions in human cell lines. We observed that there exist structural domains of all sizes up to chromosome length and demonstrated that the set of structural communities forms a hierarchy of chromosome segments. Hence, at all scales, chromosome folding predominantly involves interactions between neighbouring sites rather than the formation of links between distant loci. Multi-scale structural decomposition of human chromosomes provides an original framework to question structural organisation and its relationship to functional regulation across the scales. By construction the proposed methodology is independent of the precise assembly of the reference genome and is thus directly applicable to genomes whose assembly is not fully determined.

PaCER - A fully automated method for electrode trajectory and contact reconstruction in deep brain stimulation.

PubMed

Husch, Andreas; V Petersen, Mikkel; Gemmar, Peter; Goncalves, Jorge; Hertel, Frank

2018-01-01

Deep brain stimulation (DBS) is a neurosurgical intervention where electrodes are permanently implanted into the brain in order to modulate pathologic neural activity. The post-operative reconstruction of the DBS electrodes is important for an efficient stimulation parameter tuning. A major limitation of existing approaches for electrode reconstruction from post-operative imaging that prevents the clinical routine use is that they are manual or semi-automatic, and thus both time-consuming and subjective. Moreover, the existing methods rely on a simplified model of a straight line electrode trajectory, rather than the more realistic curved trajectory. The main contribution of this paper is that for the first time we present a highly accurate and fully automated method for electrode reconstruction that considers curved trajectories. The robustness of our proposed method is demonstrated using a multi-center clinical dataset consisting of N  = 44 electrodes. In all cases the electrode trajectories were successfully identified and reconstructed. In addition, the accuracy is demonstrated quantitatively using a high-accuracy phantom with known ground truth. In the phantom experiment, the method could detect individual electrode contacts with high accuracy and the trajectory reconstruction reached an error level below 100 μm (0.046 ± 0.025 mm). An implementation of the method is made publicly available such that it can directly be used by researchers or clinicians. This constitutes an important step towards future integration of lead reconstruction into standard clinical care.

Simultaneous multi-component seismic denoising and reconstruction via K-SVD

NASA Astrophysics Data System (ADS)

Hou, Sian; Zhang, Feng; Li, Xiangyang; Zhao, Qiang; Dai, Hengchang

2018-06-01

Data denoising and reconstruction play an increasingly significant role in seismic prospecting for their value in enhancing effective signals, dealing with surface obstacles and reducing acquisition costs. In this paper, we propose a novel method to denoise and reconstruct multicomponent seismic data simultaneously. This method lies within the framework of machine learning and the key points are defining a suitable weight function and a modified inner product operator. The purpose of these two processes are to perform missing data machine learning when the random noise deviation is unknown, and building a mathematical relationship for each component to incorporate all the information of multi-component data. Two examples, using synthetic and real multicomponent data, demonstrate that the new method is a feasible alternative for multi-component seismic data processing.

Multi-phase classification by a least-squares support vector machine approach in tomography images of geological samples

NASA Astrophysics Data System (ADS)

Khan, Faisal; Enzmann, Frieder; Kersten, Michael

2016-03-01

Image processing of X-ray-computed polychromatic cone-beam micro-tomography (μXCT) data of geological samples mainly involves artefact reduction and phase segmentation. For the former, the main beam-hardening (BH) artefact is removed by applying a best-fit quadratic surface algorithm to a given image data set (reconstructed slice), which minimizes the BH offsets of the attenuation data points from that surface. A Matlab code for this approach is provided in the Appendix. The final BH-corrected image is extracted from the residual data or from the difference between the surface elevation values and the original grey-scale values. For the segmentation, we propose a novel least-squares support vector machine (LS-SVM, an algorithm for pixel-based multi-phase classification) approach. A receiver operating characteristic (ROC) analysis was performed on BH-corrected and uncorrected samples to show that BH correction is in fact an important prerequisite for accurate multi-phase classification. The combination of the two approaches was thus used to classify successfully three different more or less complex multi-phase rock core samples.

Ocean-Ice Sheet Interactions in the Norwegian Sea and Teleconnections to Low Latitude Hydrology and Atmospheric Circulation

NASA Astrophysics Data System (ADS)

Brendryen, J.; Hannisdal, B.; Haaga, K. A.; Haflidason, H.; Castro, D. D.; Grasmo, K. J.; Sejrup, H. P.; Edwards, R. L.; Cheng, H.; Kelly, M. J.; Lu, Y.

2016-12-01

Abrupt millennial scale climatic events known as Dansgaard-Oeschger events are a defining feature of the Quaternary climate system dynamics in the North Atlantic and beyond. We present a high-resolution multi-proxy record of ocean-ice sheet interactions in the Norwegian Sea spanning the interval between 50 and 150 ka BP. A comparison with low latitude records indicates a very close connection between the high northern latitude ocean-ice sheet interactions and large scale changes in low latitude atmospheric circulation and hydrology even on sub-millennial scales. The records are placed on a common precise radiometric chronology based on correlations to U/Th dated speleothem records from China and the Alps. This enables a comparison of the records to orbital and other climatically important parameters such as U/Th dated sea-level data from corals and speleothems. We explore the drive-response relationships in these coupled systems with the information transfer (IT) and the convergent cross mapping (CCM) analytical techniques. These methods employ conceptually different approaches to detect the relative strength and directionality of potentially chaotic and nonlinearly coupled systems. IT is a non-parametric measure of information transfer between data records based on transfer entropy, while CCM relies on delay reconstructions using Takens' theorem. This approach enables us to address how the climate system processes interact and how this interaction is affected by external forcing from for example greenhouse gases and orbital variability.

Algorithmic aspects for the reconstruction of spatio-spectral data cubes in the perspective of the SKA

NASA Astrophysics Data System (ADS)

Mary, D.; Ferrari, A.; Ferrari, C.; Deguignet, J.; Vannier, M.

2016-12-01

With millions of receivers leading to TerraByte data cubes, the story of the giant SKA telescope is also that of collaborative efforts from radioastronomy, signal processing, optimization and computer sciences. Reconstructing SKA cubes poses two challenges. First, the majority of existing algorithms work in 2D and cannot be directly translated into 3D. Second, the reconstruction implies solving an inverse problem and it is not clear what ultimate limit we can expect on the error of this solution. This study addresses (of course partially) both challenges. We consider an extremely simple data acquisition model, and we focus on strategies making it possible to implement 3D reconstruction algorithms that use state-of-the-art image/spectral regularization. The proposed approach has two main features: (i) reduced memory storage with respect to a previous approach; (ii) efficient parallelization and ventilation of the computational load over the spectral bands. This work will allow to implement and compare various 3D reconstruction approaches in a large scale framework.

Six centuries of May-July precipitation in Cyprus from tree rings

NASA Astrophysics Data System (ADS)

Touchan, Ramzi; Christou, Andreas K.; Meko, David M.

2014-12-01

A May-July precipitation nested reconstruction for the period AD 1415-2010 was developed from multi-century tree-ring records of Pinus nigra, Pinus brutia, and Cedrus brevifolia for Cyprus. Calibration and verification statistics for the period 1917-2010 show a good level of skill, and split-sample validation over 1917-2010 supports temporal stability of the tree-ring signal for precipitation. Smoothed annual time series of reconstructed precipitation and a tally of drought events in a moving time window indicate that the calibration period is not representative of the full range of drought variability. While convective precipitation in the warm season may be driven strongly by local factors, composite maps of geopotential height anomaly for dry years and wet years support large-scale atmospheric-flow influence related to height anomalies over the broader region of northeast Africa and the eastern Mediterranean. Emerging positive trend in reconstruction residuals may be an early sign of exacerbation of drought stress on trees by recent warming in May-July. Future warming expected from increases in greenhouse gases poses a threat to forest resources in Cyprus and elsewhere in the Mediterranean.

High-resolution multiproxy climate reconstruction for southern South America since 1000 AD: LOTRED-SA, a new IGBP-PAGES initiative

NASA Astrophysics Data System (ADS)

Kiefer, T.

2006-12-01

Regional high-resolution multi-proxy climate reconstructions and associated uncertainties for the last ca. 1000 years is a priority area of future research within the Past Global Changes project of the International Geosphere Biosphere Programme (IGBP-PAGES). Considerable progress has been made in the reconstruction techniques, in the handling of a wide range of high- and low-frequency proxy data, and in the quantity and quality of proxy data sets available at continental and northern hemispheric or global scale. Regional reconstructions are particularly important since regional climate change and extremes exhibit much larger amplitudes than hemispherical and global reconstructions. LOTRED-SA (Long-Term climate REconstruction and Dynamics of southern South America is a new collaborative long-term initiative under the umbrella of PAGES and will involve many research groups from different countries. The initiative seeks (i) to collate the large number of disperse already existing and new paleoclimate data sets (documentary data, early instrumental data, data from tree rings, glaciers and ice cores, high resolution marine and lake sediments, pollen data of peat cores etc.) for the last ca. 1000 years available for South America, and (ii) to use the Mann et al. (1998, Nature), Luterbacher et al. (2004, Science) and Moberg et al. (2005, Nature) methodologies to work towards a regional reconstruction at different temporal and spatial resolution with associated uncertainties for southern South America. This contribution reports on the state-of-the-art and the scientific highlights of the first LOTRED-SA science conference (October 2006 in Mendoza, Argentina).

DOE Office of Scientific and Technical Information (OSTI.GOV)

Krupar, V.; Eastwood, J. P.; Kruparova, O.

Coronal mass ejections (CMEs) are large-scale eruptions of magnetized plasma that may cause severe geomagnetic storms if Earth directed. Here, we report a rare instance with comprehensive in situ and remote sensing observations of a CME combining white-light, radio, and plasma measurements from four different vantage points. For the first time, we have successfully applied a radio direction-finding technique to an interplanetary type II burst detected by two identical widely separated radio receivers. The derived locations of the type II and type III bursts are in general agreement with the white-light CME reconstruction. We find that the radio emission arisesmore » from the flanks of the CME and are most likely associated with the CME-driven shock. Our work demonstrates the complementarity between radio triangulation and 3D reconstruction techniques for space weather applications.« less

Accurate reconstruction in digital holographic microscopy using antialiasing shift-invariant contourlet transform

NASA Astrophysics Data System (ADS)

Zhang, Xiaolei; Zhang, Xiangchao; Xu, Min; Zhang, Hao; Jiang, Xiangqian

2018-03-01

The measurement of microstructured components is a challenging task in optical engineering. Digital holographic microscopy has attracted intensive attention due to its remarkable capability of measuring complex surfaces. However, speckles arise in the recorded interferometric holograms, and they will degrade the reconstructed wavefronts. Existing speckle removal methods suffer from the problems of frequency aliasing and phase distortions. A reconstruction method based on the antialiasing shift-invariant contourlet transform (ASCT) is developed. Salient edges and corners have sparse representations in the transform domain of ASCT, and speckles can be recognized and removed effectively. As subsampling in the scale and directional filtering schemes is avoided, the problems of frequency aliasing and phase distortions occurring in the conventional multiscale transforms can be effectively overcome, thereby improving the accuracy of wavefront reconstruction. As a result, the proposed method is promising for the digital holographic measurement of complex structures.

Engine cylinder pressure reconstruction using crank kinematics and recurrently-trained neural networks

NASA Astrophysics Data System (ADS)

Bennett, C.; Dunne, J. F.; Trimby, S.; Richardson, D.

2017-02-01

A recurrent non-linear autoregressive with exogenous input (NARX) neural network is proposed, and a suitable fully-recurrent training methodology is adapted and tuned, for reconstructing cylinder pressure in multi-cylinder IC engines using measured crank kinematics. This type of indirect sensing is important for cost effective closed-loop combustion control and for On-Board Diagnostics. The challenge addressed is to accurately predict cylinder pressure traces within the cycle under generalisation conditions: i.e. using data not previously seen by the network during training. This involves direct construction and calibration of a suitable inverse crank dynamic model, which owing to singular behaviour at top-dead-centre (TDC), has proved difficult via physical model construction, calibration, and inversion. The NARX architecture is specialised and adapted to cylinder pressure reconstruction, using a fully-recurrent training methodology which is needed because the alternatives are too slow and unreliable for practical network training on production engines. The fully-recurrent Robust Adaptive Gradient Descent (RAGD) algorithm, is tuned initially using synthesised crank kinematics, and then tested on real engine data to assess the reconstruction capability. Real data is obtained from a 1.125 l, 3-cylinder, in-line, direct injection spark ignition (DISI) engine involving synchronised measurements of crank kinematics and cylinder pressure across a range of steady-state speed and load conditions. The paper shows that a RAGD-trained NARX network using both crank velocity and crank acceleration as input information, provides fast and robust training. By using the optimum epoch identified during RAGD training, acceptably accurate cylinder pressures, and especially accurate location-of-peak-pressure, can be reconstructed robustly under generalisation conditions, making it the most practical NARX configuration and recurrent training methodology for use on production engines.

Updates to Multi-Dimensional Flux Reconstruction for Hypersonic Simulations on Tetrahedral Grids

NASA Technical Reports Server (NTRS)

Gnoffo, Peter A.

2010-01-01

The quality of simulated hypersonic stagnation region heating with tetrahedral meshes is investigated by using an updated three-dimensional, upwind reconstruction algorithm for the inviscid flux vector. An earlier implementation of this algorithm provided improved symmetry characteristics on tetrahedral grids compared to conventional reconstruction methods. The original formulation however displayed quantitative differences in heating and shear that were as large as 25% compared to a benchmark, structured-grid solution. The primary cause of this discrepancy is found to be an inherent inconsistency in the formulation of the flux limiter. The inconsistency is removed by employing a Green-Gauss formulation of primitive gradients at nodes to replace the previous Gram-Schmidt algorithm. Current results are now in good agreement with benchmark solutions for two challenge problems: (1) hypersonic flow over a three-dimensional cylindrical section with special attention to the uniformity of the solution in the spanwise direction and (2) hypersonic flow over a three-dimensional sphere. The tetrahedral cells used in the simulation are derived from a structured grid where cell faces are bisected across the diagonal resulting in a consistent pattern of diagonals running in a biased direction across the otherwise symmetric domain. This grid is known to accentuate problems in both shock capturing and stagnation region heating encountered with conventional, quasi-one-dimensional inviscid flux reconstruction algorithms. Therefore the test problems provide a sensitive indicator for algorithmic effects on heating. Additional simulations on a sharp, double cone and the shuttle orbiter are then presented to demonstrate the capabilities of the new algorithm on more geometrically complex flows with tetrahedral grids. These results provide the first indication that pure tetrahedral elements utilizing the updated, three-dimensional, upwind reconstruction algorithm may be used for the simulation of heating and shear in hypersonic flows in upwind, finite volume formulations.

Reconstruction of genome-scale human metabolic models using omics data.

PubMed

Ryu, Jae Yong; Kim, Hyun Uk; Lee, Sang Yup

2015-08-01

The impact of genome-scale human metabolic models on human systems biology and medical sciences is becoming greater, thanks to increasing volumes of model building platforms and publicly available omics data. The genome-scale human metabolic models started with Recon 1 in 2007, and have since been used to describe metabolic phenotypes of healthy and diseased human tissues and cells, and to predict therapeutic targets. Here we review recent trends in genome-scale human metabolic modeling, including various generic and tissue/cell type-specific human metabolic models developed to date, and methods, databases and platforms used to construct them. For generic human metabolic models, we pay attention to Recon 2 and HMR 2.0 with emphasis on data sources used to construct them. Draft and high-quality tissue/cell type-specific human metabolic models have been generated using these generic human metabolic models. Integration of tissue/cell type-specific omics data with the generic human metabolic models is the key step, and we discuss omics data and their integration methods to achieve this task. The initial version of the tissue/cell type-specific human metabolic models can further be computationally refined through gap filling, reaction directionality assignment and the subcellular localization of metabolic reactions. We review relevant tools for this model refinement procedure as well. Finally, we suggest the direction of further studies on reconstructing an improved human metabolic model.

Radio measurements of the energy and the depth of the shower maximum of cosmic-ray air showers by Tunka-Rex

DOE Office of Scientific and Technical Information (OSTI.GOV)

Bezyazeekov, P.A.; Budnev, N.M.; Gress, O.A.

2016-01-01

We reconstructed the energy and the position of the shower maximum of air showers with energies E ∼> 100 PeV applying a method using radio measurements performed with Tunka-Rex. An event-to-event comparison to air-Cherenkov measurements of the same air showers with the Tunka-133 photomultiplier array confirms that the radio reconstruction works reliably. The Tunka-Rex reconstruction methods and absolute scales have been tuned on CoREAS simulations and yield energy and X{sub max} values consistent with the Tunka-133 measurements. The results of two independent measurement seasons agree within statistical uncertainties, which gives additional confidence in the radio reconstruction. The energy precision of Tunka-Rex is comparablemore » to the Tunka-133 precision of 15%, and exhibits a 20% uncertainty on the absolute scale dominated by the amplitude calibration of the antennas. For X{sub max}, this is the first direct experimental correlation of radio measurements with a different, established method. At the moment, the X{sub max} resolution of Tunka-Rex is approximately 40 g/cm{sup 2}. This resolution can probably be improved by deploying additional antennas and by further development of the reconstruction methods, since the present analysis does not yet reveal any principle limitations.« less

A Multi-Scale Algorithm for Graffito Advertisement Detection from Images of Real Estate

NASA Astrophysics Data System (ADS)

Yang, Jun; Zhu, Shi-Jiao

There is a significant need to detect and extract the graffito advertisement embedded in the housing images automatically. However, it is a hard job to separate the advertisement region well since housing images generally have complex background. In this paper, a detecting algorithm which uses multi-scale Gabor filters to identify graffito regions is proposed. Firstly, multi-scale Gabor filters with different directions are applied to housing images, then the approach uses these frequency data to find likely graffito regions using the relationship of different channels, it exploits the ability of different filters technique to solve the detection problem with low computational efforts. Lastly, the method is tested on several real estate images which are embedded graffito advertisement to verify its robustness and efficiency. The experiments demonstrate graffito regions can be detected quite well.

Stationary Wavelet-based Two-directional Two-dimensional Principal Component Analysis for EMG Signal Classification

NASA Astrophysics Data System (ADS)

Ji, Yi; Sun, Shanlin; Xie, Hong-Bo

2017-06-01

Discrete wavelet transform (WT) followed by principal component analysis (PCA) has been a powerful approach for the analysis of biomedical signals. Wavelet coefficients at various scales and channels were usually transformed into a one-dimensional array, causing issues such as the curse of dimensionality dilemma and small sample size problem. In addition, lack of time-shift invariance of WT coefficients can be modeled as noise and degrades the classifier performance. In this study, we present a stationary wavelet-based two-directional two-dimensional principal component analysis (SW2D2PCA) method for the efficient and effective extraction of essential feature information from signals. Time-invariant multi-scale matrices are constructed in the first step. The two-directional two-dimensional principal component analysis then operates on the multi-scale matrices to reduce the dimension, rather than vectors in conventional PCA. Results are presented from an experiment to classify eight hand motions using 4-channel electromyographic (EMG) signals recorded in healthy subjects and amputees, which illustrates the efficiency and effectiveness of the proposed method for biomedical signal analysis.

Using 3D spatial correlations to improve the noise robustness of multi component analysis of 3D multi echo quantitative T2 relaxometry data.

PubMed

Kumar, Dushyant; Hariharan, Hari; Faizy, Tobias D; Borchert, Patrick; Siemonsen, Susanne; Fiehler, Jens; Reddy, Ravinder; Sedlacik, Jan

2018-05-12

We present a computationally feasible and iterative multi-voxel spatially regularized algorithm for myelin water fraction (MWF) reconstruction. This method utilizes 3D spatial correlations present in anatomical/pathological tissues and underlying B1 + -inhomogeneity or flip angle inhomogeneity to enhance the noise robustness of the reconstruction while intrinsically accounting for stimulated echo contributions using T2-distribution data alone. Simulated data and in vivo data acquired using 3D non-selective multi-echo spin echo (3DNS-MESE) were used to compare the reconstruction quality of the proposed approach against those of the popular algorithm (the method by Prasloski et al.) and our previously proposed 2D multi-slice spatial regularization spatial regularization approach. We also investigated whether the inter-sequence correlations and agreements improved as a result of the proposed approach. MWF-quantifications from two sequences, 3DNS-MESE vs 3DNS-gradient and spin echo (3DNS-GRASE), were compared for both reconstruction approaches to assess correlations and agreements between inter-sequence MWF-value pairs. MWF values from whole-brain data of six volunteers and two multiple sclerosis patients are being reported as well. In comparison with competing approaches such as Prasloski's method or our previously proposed 2D multi-slice spatial regularization method, the proposed method showed better agreements with simulated truths using regression analyses and Bland-Altman analyses. For 3DNS-MESE data, MWF-maps reconstructed using the proposed algorithm provided better depictions of white matter structures in subcortical areas adjoining gray matter which agreed more closely with corresponding contrasts on T2-weighted images than MWF-maps reconstructed with the method by Prasloski et al. We also achieved a higher level of correlations and agreements between inter-sequence (3DNS-MESE vs 3DNS-GRASE) MWF-value pairs. The proposed algorithm provides more noise-robust fits to T2-decay data and improves MWF-quantifications in white matter structures especially in the sub-cortical white matter and major white matter tract regions. Copyright © 2018 Elsevier Inc. All rights reserved.

Superiorization-based multi-energy CT image reconstruction

PubMed Central

Yang, Q; Cong, W; Wang, G

2017-01-01

The recently-developed superiorization approach is efficient and robust for solving various constrained optimization problems. This methodology can be applied to multi-energy CT image reconstruction with the regularization in terms of the prior rank, intensity and sparsity model (PRISM). In this paper, we propose a superiorized version of the simultaneous algebraic reconstruction technique (SART) based on the PRISM model. Then, we compare the proposed superiorized algorithm with the Split-Bregman algorithm in numerical experiments. The results show that both the Superiorized-SART and the Split-Bregman algorithms generate good results with weak noise and reduced artefacts. PMID:28983142

Interior tomography in microscopic CT with image reconstruction constrained by full field of view scan at low spatial resolution

NASA Astrophysics Data System (ADS)

Luo, Shouhua; Shen, Tao; Sun, Yi; Li, Jing; Li, Guang; Tang, Xiangyang

2018-04-01

In high resolution (microscopic) CT applications, the scan field of view should cover the entire specimen or sample to allow complete data acquisition and image reconstruction. However, truncation may occur in projection data and results in artifacts in reconstructed images. In this study, we propose a low resolution image constrained reconstruction algorithm (LRICR) for interior tomography in microscopic CT at high resolution. In general, the multi-resolution acquisition based methods can be employed to solve the data truncation problem if the project data acquired at low resolution are utilized to fill up the truncated projection data acquired at high resolution. However, most existing methods place quite strict restrictions on the data acquisition geometry, which greatly limits their utility in practice. In the proposed LRICR algorithm, full and partial data acquisition (scan) at low and high resolutions, respectively, are carried out. Using the image reconstructed from sparse projection data acquired at low resolution as the prior, a microscopic image at high resolution is reconstructed from the truncated projection data acquired at high resolution. Two synthesized digital phantoms, a raw bamboo culm and a specimen of mouse femur, were utilized to evaluate and verify performance of the proposed LRICR algorithm. Compared with the conventional TV minimization based algorithm and the multi-resolution scout-reconstruction algorithm, the proposed LRICR algorithm shows significant improvement in reduction of the artifacts caused by data truncation, providing a practical solution for high quality and reliable interior tomography in microscopic CT applications. The proposed LRICR algorithm outperforms the multi-resolution scout-reconstruction method and the TV minimization based reconstruction for interior tomography in microscopic CT.

Deep Wideband Single Pointings and Mosaics in Radio Interferometry: How Accurately Do We Reconstruct Intensities and Spectral Indices of Faint Sources?

NASA Astrophysics Data System (ADS)

Rau, U.; Bhatnagar, S.; Owen, F. N.

2016-11-01

Many deep wideband wide-field radio interferometric surveys are being designed to accurately measure intensities, spectral indices, and polarization properties of faint source populations. In this paper, we compare various wideband imaging methods to evaluate the accuracy to which intensities and spectral indices of sources close to the confusion limit can be reconstructed. We simulated a wideband single-pointing (C-array, L-Band (1-2 GHz)) and 46-pointing mosaic (D-array, C-Band (4-8 GHz)) JVLA observation using a realistic brightness distribution ranging from 1 μJy to 100 mJy and time-, frequency-, polarization-, and direction-dependent instrumental effects. The main results from these comparisons are (a) errors in the reconstructed intensities and spectral indices are larger for weaker sources even in the absence of simulated noise, (b) errors are systematically lower for joint reconstruction methods (such as Multi-Term Multi-Frequency-Synthesis (MT-MFS)) along with A-Projection for accurate primary beam correction, and (c) use of MT-MFS for image reconstruction eliminates Clean-bias (which is present otherwise). Auxiliary tests include solutions for deficiencies of data partitioning methods (e.g., the use of masks to remove clean bias and hybrid methods to remove sidelobes from sources left un-deconvolved), the effect of sources not at pixel centers, and the consequences of various other numerical approximations within software implementations. This paper also demonstrates the level of detail at which such simulations must be done in order to reflect reality, enable one to systematically identify specific reasons for every trend that is observed, and to estimate scientifically defensible imaging performance metrics and the associated computational complexity of the algorithms/analysis procedures. The National Radio Astronomy Observatory is a facility of the National Science Foundation operated under cooperative agreement by Associated Universities, Inc.

Universal Spatial Correlation Functions for Describing and Reconstructing Soil Microstructure

PubMed Central

Skvortsova, Elena B.; Mallants, Dirk

2015-01-01

Structural features of porous materials such as soil define the majority of its physical properties, including water infiltration and redistribution, multi-phase flow (e.g. simultaneous water/air flow, or gas exchange between biologically active soil root zone and atmosphere) and solute transport. To characterize soil microstructure, conventional soil science uses such metrics as pore size and pore-size distributions and thin section-derived morphological indicators. However, these descriptors provide only limited amount of information about the complex arrangement of soil structure and have limited capability to reconstruct structural features or predict physical properties. We introduce three different spatial correlation functions as a comprehensive tool to characterize soil microstructure: 1) two-point probability functions, 2) linear functions, and 3) two-point cluster functions. This novel approach was tested on thin-sections (2.21×2.21 cm2) representing eight soils with different pore space configurations. The two-point probability and linear correlation functions were subsequently used as a part of simulated annealing optimization procedures to reconstruct soil structure. Comparison of original and reconstructed images was based on morphological characteristics, cluster correlation functions, total number of pores and pore-size distribution. Results showed excellent agreement for soils with isolated pores, but relatively poor correspondence for soils exhibiting dual-porosity features (i.e. superposition of pores and micro-cracks). Insufficient information content in the correlation function sets used for reconstruction may have contributed to the observed discrepancies. Improved reconstructions may be obtained by adding cluster and other correlation functions into reconstruction sets. Correlation functions and the associated stochastic reconstruction algorithms introduced here are universally applicable in soil science, such as for soil classification, pore-scale modelling of soil properties, soil degradation monitoring, and description of spatial dynamics of soil microbial activity. PMID:26010779

Universal spatial correlation functions for describing and reconstructing soil microstructure.

PubMed

Karsanina, Marina V; Gerke, Kirill M; Skvortsova, Elena B; Mallants, Dirk

2015-01-01

Structural features of porous materials such as soil define the majority of its physical properties, including water infiltration and redistribution, multi-phase flow (e.g. simultaneous water/air flow, or gas exchange between biologically active soil root zone and atmosphere) and solute transport. To characterize soil microstructure, conventional soil science uses such metrics as pore size and pore-size distributions and thin section-derived morphological indicators. However, these descriptors provide only limited amount of information about the complex arrangement of soil structure and have limited capability to reconstruct structural features or predict physical properties. We introduce three different spatial correlation functions as a comprehensive tool to characterize soil microstructure: 1) two-point probability functions, 2) linear functions, and 3) two-point cluster functions. This novel approach was tested on thin-sections (2.21×2.21 cm2) representing eight soils with different pore space configurations. The two-point probability and linear correlation functions were subsequently used as a part of simulated annealing optimization procedures to reconstruct soil structure. Comparison of original and reconstructed images was based on morphological characteristics, cluster correlation functions, total number of pores and pore-size distribution. Results showed excellent agreement for soils with isolated pores, but relatively poor correspondence for soils exhibiting dual-porosity features (i.e. superposition of pores and micro-cracks). Insufficient information content in the correlation function sets used for reconstruction may have contributed to the observed discrepancies. Improved reconstructions may be obtained by adding cluster and other correlation functions into reconstruction sets. Correlation functions and the associated stochastic reconstruction algorithms introduced here are universally applicable in soil science, such as for soil classification, pore-scale modelling of soil properties, soil degradation monitoring, and description of spatial dynamics of soil microbial activity.

Plant trait detection with multi-scale spectrometry

NASA Astrophysics Data System (ADS)

Gamon, J. A.; Wang, R.

2017-12-01

Proximal and remote sensing using imaging spectrometry offers new opportunities for detecting plant traits, with benefits for phenotyping, productivity estimation, stress detection, and biodiversity studies. Using proximal and airborne spectrometry, we evaluated variation in plant optical properties at various spatial and spectral scales with the goal of identifying optimal scales for distinguishing plant traits related to photosynthetic function. Using directed approaches based on physiological vegetation indices, and statistical approaches based on spectral information content, we explored alternate ways of distinguishing plant traits with imaging spectrometry. With both leaf traits and canopy structure contributing to the signals, results exhibit a strong scale dependence. Our results demonstrate the benefits of multi-scale experimental approaches within a clear conceptual framework when applying remote sensing methods to plant trait detection for phenotyping, productivity, and biodiversity studies.

A calibrated iterative reconstruction for quantitative photoacoustic tomography using multi-angle light-sheet illuminations

NASA Astrophysics Data System (ADS)

Wang, Yihan; Lu, Tong; Zhang, Songhe; Song, Shaoze; Wang, Bingyuan; Li, Jiao; Zhao, Huijuan; Gao, Feng

2018-02-01

Quantitative photoacoustic tomography (q-PAT) is a nontrivial technique can be used to reconstruct the absorption image with a high spatial resolution. Several attempts have been investigated by setting point sources or fixed-angle illuminations. However, in practical applications, these schemes normally suffer from low signal-to-noise ratio (SNR) or poor quantification especially for large-size domains, due to the limitation of the ANSI-safety incidence and incompleteness in the data acquisition. We herein present a q-PAT implementation that uses multi-angle light-sheet illuminations and a calibrated iterative multi-angle reconstruction. The approach can acquire more complete information on the intrinsic absorption and SNR-boosted photoacoustic signals at selected planes from the multi-angle wide-field excitations of light-sheet. Therefore, the sliced absorption maps over whole body can be recovered in a measurementflexible, noise-robust and computation-economic way. The proposed approach is validated by the phantom experiment, exhibiting promising performances in image fidelity and quantitative accuracy.

Missouri University Multi-Plane Imager (MUMPI): A high sensitivity rapid dynamic ECT brain imager

DOE Office of Scientific and Technical Information (OSTI.GOV)

Logan, K.W.; Holmes, R.A.

1984-01-01

The authors have designed a unique ECT imaging device that can record rapid dynamic images of brain perfusion. The Missouri University Multi-Plane Imager (MUMPI) uses a single crystal detector that produces four orthogonal two-dimensional images simultaneously. Multiple slice images are reconstructed from counts recorded from stepwise or continuous collimator rotation. Four simultaneous 2-d image fields may also be recorded and reviewed. The cylindrical sodium iodide crystal and the rotating collimator concentrically surround the source volume being imaged with the collimator the only moving part. The design and function parameters of MUMPI have been compared to other competitive tomographic head imagingmore » devices. MUMPI's principal advantages are: 1) simultaneous direct acquisition of four two-dimensional images; 2) extremely rapid project set acquisition for ECT reconstruction; and 3) instrument practicality and economy due to single detector design and the absence of heavy mechanical moving components (only collimator rotation is required). MUMPI should be ideal for imaging neutral lipophilic chelates such as Tc-99m-PnAO which passively diffuses across the intact blood-brain-barrier and rapidly clears from brain tissue.« less

Multi-camera volumetric PIV for the study of jumping fish

NASA Astrophysics Data System (ADS)

Mendelson, Leah; Techet, Alexandra H.

2018-01-01

Archer fish accurately jump multiple body lengths for aerial prey from directly below the free surface. Multiple fins provide combinations of propulsion and stabilization, enabling prey capture success. Volumetric flow field measurements are crucial to characterizing multi-propulsor interactions during this highly three-dimensional maneuver; however, the fish's behavior also drives unique experimental constraints. Measurements must be obtained in close proximity to the water's surface and in regions of the flow field which are partially-occluded by the fish body. Aerial jump trajectories must also be known to assess performance. This article describes experiment setup and processing modifications to the three-dimensional synthetic aperture particle image velocimetry (SAPIV) technique to address these challenges and facilitate experimental measurements on live jumping fish. The performance of traditional SAPIV algorithms in partially-occluded regions is characterized, and an improved non-iterative reconstruction routine for SAPIV around bodies is introduced. This reconstruction procedure is combined with three-dimensional imaging on both sides of the free surface to reveal the fish's three-dimensional wake, including a series of propulsive vortex rings generated by the tail. In addition, wake measurements from the anal and dorsal fins indicate their stabilizing and thrust-producing contributions as the archer fish jumps.

Parallelizing ATLAS Reconstruction and Simulation: Issues and Optimization Solutions for Scaling on Multi- and Many-CPU Platforms

NASA Astrophysics Data System (ADS)

Leggett, C.; Binet, S.; Jackson, K.; Levinthal, D.; Tatarkhanov, M.; Yao, Y.

2011-12-01

Thermal limitations have forced CPU manufacturers to shift from simply increasing clock speeds to improve processor performance, to producing chip designs with multi- and many-core architectures. Further the cores themselves can run multiple threads as a zero overhead context switch allowing low level resource sharing (Intel Hyperthreading). To maximize bandwidth and minimize memory latency, memory access has become non uniform (NUMA). As manufacturers add more cores to each chip, a careful understanding of the underlying architecture is required in order to fully utilize the available resources. We present AthenaMP and the Atlas event loop manager, the driver of the simulation and reconstruction engines, which have been rewritten to make use of multiple cores, by means of event based parallelism, and final stage I/O synchronization. However, initial studies on 8 andl6 core Intel architectures have shown marked non-linearities as parallel process counts increase, with as much as 30% reductions in event throughput in some scenarios. Since the Intel Nehalem architecture (both Gainestown and Westmere) will be the most common choice for the next round of hardware procurements, an understanding of these scaling issues is essential. Using hardware based event counters and Intel's Performance Tuning Utility, we have studied the performance bottlenecks at the hardware level, and discovered optimization schemes to maximize processor throughput. We have also produced optimization mechanisms, common to all large experiments, that address the extreme nature of today's HEP code, which due to it's size, places huge burdens on the memory infrastructure of today's processors.

Network representations of immune system complexity

PubMed Central

Subramanian, Naeha; Torabi-Parizi, Parizad; Gottschalk, Rachel A.; Germain, Ronald N.; Dutta, Bhaskar

2015-01-01

The mammalian immune system is a dynamic multi-scale system composed of a hierarchically organized set of molecular, cellular and organismal networks that act in concert to promote effective host defense. These networks range from those involving gene regulatory and protein-protein interactions underlying intracellular signaling pathways and single cell responses to increasingly complex networks of in vivo cellular interaction, positioning and migration that determine the overall immune response of an organism. Immunity is thus not the product of simple signaling events but rather non-linear behaviors arising from dynamic, feedback-regulated interactions among many components. One of the major goals of systems immunology is to quantitatively measure these complex multi-scale spatial and temporal interactions, permitting development of computational models that can be used to predict responses to perturbation. Recent technological advances permit collection of comprehensive datasets at multiple molecular and cellular levels while advances in network biology support representation of the relationships of components at each level as physical or functional interaction networks. The latter facilitate effective visualization of patterns and recognition of emergent properties arising from the many interactions of genes, molecules, and cells of the immune system. We illustrate the power of integrating ‘omics’ and network modeling approaches for unbiased reconstruction of signaling and transcriptional networks with a focus on applications involving the innate immune system. We further discuss future possibilities for reconstruction of increasingly complex cellular and organism-level networks and development of sophisticated computational tools for prediction of emergent immune behavior arising from the concerted action of these networks. PMID:25625853

Estimation of NH3 Bi-Directional Flux from Managed Agricultural Soils

EPA Science Inventory

The Community Multi-Scale Air Quality model (CMAQ v4.7) contains a bi-directional ammonia (NH₃) flux option that computes emission and deposition of ammonia derived from commercial fertilizer via a temperature dependent parameterization of canopy and soil compensation ...

A comparison of multi-view 3D reconstruction of a rock wall using several cameras and a laser scanner

NASA Astrophysics Data System (ADS)

Thoeni, K.; Giacomini, A.; Murtagh, R.; Kniest, E.

2014-06-01

This work presents a comparative study between multi-view 3D reconstruction using various digital cameras and a terrestrial laser scanner (TLS). Five different digital cameras were used in order to estimate the limits related to the camera type and to establish the minimum camera requirements to obtain comparable results to the ones of the TLS. The cameras used for this study range from commercial grade to professional grade and included a GoPro Hero 1080 (5 Mp), iPhone 4S (8 Mp), Panasonic Lumix LX5 (9.5 Mp), Panasonic Lumix ZS20 (14.1 Mp) and Canon EOS 7D (18 Mp). The TLS used for this work was a FARO Focus 3D laser scanner with a range accuracy of ±2 mm. The study area is a small rock wall of about 6 m height and 20 m length. The wall is partly smooth with some evident geological features, such as non-persistent joints and sharp edges. Eight control points were placed on the wall and their coordinates were measured by using a total station. These coordinates were then used to georeference all models. A similar number of images was acquired from a distance of between approximately 5 to 10 m, depending on field of view of each camera. The commercial software package PhotoScan was used to process the images, georeference and scale the models, and to generate the dense point clouds. Finally, the open-source package CloudCompare was used to assess the accuracy of the multi-view results. Each point cloud obtained from a specific camera was compared to the point cloud obtained with the TLS. The latter is taken as ground truth. The result is a coloured point cloud for each camera showing the deviation in relation to the TLS data. The main goal of this study is to quantify the quality of the multi-view 3D reconstruction results obtained with various cameras as objectively as possible and to evaluate its applicability to geotechnical problems.

Multi-scale continuum modeling of biological processes: from molecular electro-diffusion to sub-cellular signaling transduction

NASA Astrophysics Data System (ADS)

Cheng, Y.; Kekenes-Huskey, P.; Hake, J. E.; Holst, M. J.; McCammon, J. A.; Michailova, A. P.

2012-01-01

This paper presents a brief review of multi-scale modeling at the molecular to cellular scale, with new results for heart muscle cells. A finite element-based simulation package (SMOL) was used to investigate the signaling transduction at molecular and sub-cellular scales (http://mccammon.ucsd.edu/smol/, http://FETK.org) by numerical solution of the time-dependent Smoluchowski equations and a reaction-diffusion system. At the molecular scale, SMOL has yielded experimentally validated estimates of the diffusion-limited association rates for the binding of acetylcholine to mouse acetylcholinesterase using crystallographic structural data. The predicted rate constants exhibit increasingly delayed steady-state times, with increasing ionic strength, and demonstrate the role of an enzyme's electrostatic potential in influencing ligand binding. At the sub-cellular scale, an extension of SMOL solves a nonlinear, reaction-diffusion system describing Ca2+ ligand buffering and diffusion in experimentally derived rodent ventricular myocyte geometries. Results reveal the important role of mobile and stationary Ca2+ buffers, including Ca2+ indicator dye. We found that alterations in Ca2+-binding and dissociation rates of troponin C (TnC) and total TnC concentration modulate sub-cellular Ca2+ signals. The model predicts that reduced off-rate in the whole troponin complex (TnC, TnI, TnT) versus reconstructed thin filaments (Tn, Tm, actin) alters cytosolic Ca2+ dynamics under control conditions or in disease-linked TnC mutations. The ultimate goal of these studies is to develop scalable methods and theories for the integration of molecular-scale information into simulations of cellular-scale systems.

Multi-Scale Microstructural Thermoelectric Materials: Transport Behavior, Non-Equilibrium Preparation, and Applications.

PubMed

Su, Xianli; Wei, Ping; Li, Han; Liu, Wei; Yan, Yonggao; Li, Peng; Su, Chuqi; Xie, Changjun; Zhao, Wenyu; Zhai, Pengcheng; Zhang, Qingjie; Tang, Xinfeng; Uher, Ctirad

2017-05-01

Considering only about one third of the world's energy consumption is effectively utilized for functional uses, and the remaining is dissipated as waste heat, thermoelectric (TE) materials, which offer a direct and clean thermal-to-electric conversion pathway, have generated a tremendous worldwide interest. The last two decades have witnessed a remarkable development in TE materials. This Review summarizes the efforts devoted to the study of non-equilibrium synthesis of TE materials with multi-scale structures, their transport behavior, and areas of applications. Studies that work towards the ultimate goal of developing highly efficient TE materials possessing multi-scale architectures are highlighted, encompassing the optimization of TE performance via engineering the structures with different dimensional aspects spanning from the atomic and molecular scales, to nanometer sizes, and to the mesoscale. In consideration of the practical applications of high-performance TE materials, the non-equilibrium approaches offer a fast and controllable fabrication of multi-scale microstructures, and their scale up to industrial-size manufacturing is emphasized here. Finally, the design of two integrated power generating TE systems are described-a solar thermoelectric-photovoltaic hybrid system and a vehicle waste heat harvesting system-that represent perhaps the most important applications of thermoelectricity in the energy conversion area. © 2017 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

Centennial-scale links between Atlantic Ocean dynamics and hydroclimate over the last 4400 years: Insights from the northern Gulf of Mexico

NASA Astrophysics Data System (ADS)

Thirumalai, K.; Quinn, T. M.; Okumura, Y.; Richey, J. N.; Partin, J. W.; Poore, R. Z.

2015-12-01

Surface circulation in the Atlantic Ocean is an important mediator of global climate and yet its variability is poorly constrained on centennial timescales. Changes in the Atlantic meridional overturning circulation (AMOC) have been implicated in late Holocene climate variability in the Western Hemisphere, although the relationship between AMOC variability and hydroclimate is uncertain due to the lack of sufficiently highly resolved proxy records. Here we present a replicated reconstruction of sea-surface temperature (SST) and salinity (SSS) from the Garrison Basin in the northern Gulf of Mexico (NGOM) spanning the last 4,400 years to better constrain past sea-surface conditions. We generated time series of paired Mg/Ca (SST proxy) and δ18O (SST and SSS proxy) variations in planktic foraminifer Globigerinoides ruber (white variety) from three multi-cores collected in 2010. Using a Monte Carlo-based technique we produce a stacked record from the three multi-cores and constrain analytical, calibration, chronological, and sampling uncertainties. We apply this technique to existing paired Mg/Ca- δ18O studies in the Gulf of Mexico and Atlantic Ocean to facilitate comparison between time-uncertain proxy reconstructions. The Garrison Basin stack exhibits large centennial-scale variability (σSST~0.6°C; δ18Osw~0.17‰) and indicates a substantially cool (0.9±0.5°C) and fresh (0.26±0.1‰) Little Ice Age (LIA; 1450-1850 A.D.), corroborating extant records from the Gulf of Mexico. Focusing on the last millennium, we analyze a suite of oceanic and terrestrial proxy records to demonstrate a centennial-scale link between salt advection in the Atlantic Ocean, a diagnostic parameter of ocean circulation, and hydroclimate in the adjacent continents. The ensuing multiproxy relationships seem to be consistent with spatial field correlations of limited salinity and rainfall instrumental/reanalysis data, which suggest that NGOM salinity varies with large-scale Atlantic Ocean circulation and continental precipitation. Our results imply significant centennial-scale variability over the late Holocene and are consistent with limited observational analysis indicating a slowdown of AMOC during the LIA.

Telescopic multi-resolution augmented reality

NASA Astrophysics Data System (ADS)

Jenkins, Jeffrey; Frenchi, Christopher; Szu, Harold

2014-05-01

To ensure a self-consistent scaling approximation, the underlying microscopic fluctuation components can naturally influence macroscopic means, which may give rise to emergent observable phenomena. In this paper, we describe a consistent macroscopic (cm-scale), mesoscopic (micron-scale), and microscopic (nano-scale) approach to introduce Telescopic Multi-Resolution (TMR) into current Augmented Reality (AR) visualization technology. We propose to couple TMR-AR by introducing an energy-matter interaction engine framework that is based on known Physics, Biology, Chemistry principles. An immediate payoff of TMR-AR is a self-consistent approximation of the interaction between microscopic observables and their direct effect on the macroscopic system that is driven by real-world measurements. Such an interdisciplinary approach enables us to achieve more than multiple scale, telescopic visualization of real and virtual information but also conducting thought experiments through AR. As a result of the consistency, this framework allows us to explore a large dimensionality parameter space of measured and unmeasured regions. Towards this direction, we explore how to build learnable libraries of biological, physical, and chemical mechanisms. Fusing analytical sensors with TMR-AR libraries provides a robust framework to optimize testing and evaluation through data-driven or virtual synthetic simulations. Visualizing mechanisms of interactions requires identification of observable image features that can indicate the presence of information in multiple spatial and temporal scales of analog data. The AR methodology was originally developed to enhance pilot-training as well as `make believe' entertainment industries in a user-friendly digital environment We believe TMR-AR can someday help us conduct thought experiments scientifically, to be pedagogically visualized in a zoom-in-and-out, consistent, multi-scale approximations.

Stable source reconstruction from a finite number of measurements in the multi-frequency inverse source problem

NASA Astrophysics Data System (ADS)

Karamehmedović, Mirza; Kirkeby, Adrian; Knudsen, Kim

2018-06-01

We consider the multi-frequency inverse source problem for the scalar Helmholtz equation in the plane. The goal is to reconstruct the source term in the equation from measurements of the solution on a surface outside the support of the source. We study the problem in a certain finite dimensional setting: from measurements made at a finite set of frequencies we uniquely determine and reconstruct sources in a subspace spanned by finitely many Fourier–Bessel functions. Further, we obtain a constructive criterion for identifying a minimal set of measurement frequencies sufficient for reconstruction, and under an additional, mild assumption, the reconstruction method is shown to be stable. Our analysis is based on a singular value decomposition of the source-to-measurement forward operators and the distribution of positive zeros of the Bessel functions of the first kind. The reconstruction method is implemented numerically and our theoretical findings are supported by numerical experiments.

Revisiting the Robustness of PET-Based Textural Features in the Context of Multi-Centric Trials

PubMed Central

Bailly, Clément; Bodet-Milin, Caroline; Couespel, Solène; Necib, Hatem; Kraeber-Bodéré, Françoise; Ansquer, Catherine; Carlier, Thomas

2016-01-01

Purpose This study aimed to investigate the variability of textural features (TF) as a function of acquisition and reconstruction parameters within the context of multi-centric trials. Methods The robustness of 15 selected TFs were studied as a function of the number of iterations, the post-filtering level, input data noise, the reconstruction algorithm and the matrix size. A combination of several reconstruction and acquisition settings was devised to mimic multi-centric conditions. We retrospectively studied data from 26 patients enrolled in a diagnostic study that aimed to evaluate the performance of PET/CT 68Ga-DOTANOC in gastro-entero-pancreatic neuroendocrine tumors. Forty-one tumors were extracted and served as the database. The coefficient of variation (COV) or the absolute deviation (for the noise study) was derived and compared statistically with SUVmax and SUVmean results. Results The majority of investigated TFs can be used in a multi-centric context when each parameter is considered individually. The impact of voxel size and noise in the input data were predominant as only 4 TFs presented a high/intermediate robustness against SUV-based metrics (Entropy, Homogeneity, RP and ZP). When combining several reconstruction settings to mimic multi-centric conditions, most of the investigated TFs were robust enough against SUVmax except Correlation, Contrast, LGRE, LGZE and LZLGE. Conclusion Considering previously published results on either reproducibility or sensitivity against delineation approach and our findings, it is feasible to consider Homogeneity, Entropy, Dissimilarity, HGRE, HGZE and ZP as relevant for being used in multi-centric trials. PMID:27467882

Synthesis of underreported small-scale fisheries catch in Pacific island waters

NASA Astrophysics Data System (ADS)

Zeller, D.; Harper, S.; Zylich, K.; Pauly, D.

2015-03-01

We synthesize fisheries catch reconstruction studies for 25 Pacific island countries, states and territories, which compare estimates of total domestic catches with officially reported catch data. We exclude data for the large-scale tuna fleets, which have largely foreign beneficial ownership, even when flying Pacific flags. However, we recognize the considerable financial contributions derived from foreign access or charter fees for Pacific host countries. The reconstructions for the 25 entities from 1950 to 2010 suggested that total domestic catches were 2.5 times the data reported to FAO. This discrepancy was largest in early periods (1950: 6.4 times), while for 2010, total catches were 1.7 times the reported data. There was a significant difference in trend between reported and reconstructed catches since 2000, with reconstructed catches declining strongly since their peak in 2000. Total catches increased from 110,000 t yr-1 in 1950 (of which 17,400 t were reported) to a peak of over 250,000 t yr-1 in 2000, before declining to around 200,000 t yr-1 by 2010. This decrease is driven by a declining artisanal (small-scale commercial) catch, which was not compensated for by increasing domestic industrial (large-scale commercial) catches. The artisanal fisheries appear to be declining from a peak of 97,000 t yr-1 in 1992 to less than 50,000 t yr-1 by 2010. However, total catches were dominated by subsistence (small-scale, non-commercial) fisheries, which accounted for 69 % of total catches, with the majority missing from the reported data. Artisanal catches accounted for 22 %, while truly domestic industrial fisheries accounted for only 6 % of total catches. The smallest component is the recreational (small-scale, non-commercial and largely for leisure) sector (2 %), which, although small in catch, is likely of economic importance in some areas due to its direct link to tourism income.

From Solidification Processing to Microstructure to Mechanical Properties: A Multi-scale X-ray Study of an Al-Cu Alloy Sample

DOE Office of Scientific and Technical Information (OSTI.GOV)

Tourret, D.; Mertens, J. C. E.; Lieberman, E.

We follow an Al-12 at. pct Cu alloy sample from the liquid state to mechanical failure, using in situ X-ray radiography during directional solidification and tensile testing, as well as three-dimensional computed tomography of the microstructure before and after mechanical testing. The solidification processing stage is simulated with a multi-scale dendritic needle network model, and the micromechanical behavior of the solidified microstructure is simulated using voxelized tomography data and an elasto-viscoplastic fast Fourier transform model. This study demonstrates the feasibility of direct in situ monitoring of a metal alloy microstructure from the liquid processing stage up to its mechanical failure,more » supported by quantitative simulations of microstructure formation and its mechanical behavior.« less

From Solidification Processing to Microstructure to Mechanical Properties: A Multi-scale X-ray Study of an Al-Cu Alloy Sample

DOE PAGES

Tourret, D.; Mertens, J. C. E.; Lieberman, E.; ...

2017-09-13

We follow an Al-12 at. pct Cu alloy sample from the liquid state to mechanical failure, using in situ X-ray radiography during directional solidification and tensile testing, as well as three-dimensional computed tomography of the microstructure before and after mechanical testing. The solidification processing stage is simulated with a multi-scale dendritic needle network model, and the micromechanical behavior of the solidified microstructure is simulated using voxelized tomography data and an elasto-viscoplastic fast Fourier transform model. This study demonstrates the feasibility of direct in situ monitoring of a metal alloy microstructure from the liquid processing stage up to its mechanical failure,more » supported by quantitative simulations of microstructure formation and its mechanical behavior.« less

From Solidification Processing to Microstructure to Mechanical Properties: A Multi-scale X-ray Study of an Al-Cu Alloy Sample

NASA Astrophysics Data System (ADS)

Tourret, D.; Mertens, J. C. E.; Lieberman, E.; Imhoff, S. D.; Gibbs, J. W.; Henderson, K.; Fezzaa, K.; Deriy, A. L.; Sun, T.; Lebensohn, R. A.; Patterson, B. M.; Clarke, A. J.

2017-11-01

We follow an Al-12 at. pct Cu alloy sample from the liquid state to mechanical failure, using in situ X-ray radiography during directional solidification and tensile testing, as well as three-dimensional computed tomography of the microstructure before and after mechanical testing. The solidification processing stage is simulated with a multi-scale dendritic needle network model, and the micromechanical behavior of the solidified microstructure is simulated using voxelized tomography data and an elasto-viscoplastic fast Fourier transform model. This study demonstrates the feasibility of direct in situ monitoring of a metal alloy microstructure from the liquid processing stage up to its mechanical failure, supported by quantitative simulations of microstructure formation and its mechanical behavior.

Analysis of Fundus Fluorescein Angiogram Based on the Hessian Matrix of Directional Curvelet Sub-bands and Distance Regularized Level Set Evolution.

PubMed

Soltanipour, Asieh; Sadri, Saeed; Rabbani, Hossein; Akhlaghi, Mohammad Reza

2015-01-01

This paper presents a new procedure for automatic extraction of the blood vessels and optic disk (OD) in fundus fluorescein angiogram (FFA). In order to extract blood vessel centerlines, the algorithm of vessel extraction starts with the analysis of directional images resulting from sub-bands of fast discrete curvelet transform (FDCT) in the similar directions and different scales. For this purpose, each directional image is processed by using information of the first order derivative and eigenvalues obtained from the Hessian matrix. The final vessel segmentation is obtained using a simple region growing algorithm iteratively, which merges centerline images with the contents of images resulting from modified top-hat transform followed by bit plane slicing. After extracting blood vessels from FFA image, candidates regions for OD are enhanced by removing blood vessels from the FFA image, using multi-structure elements morphology, and modification of FDCT coefficients. Then, canny edge detector and Hough transform are applied to the reconstructed image to extract the boundary of candidate regions. At the next step, the information of the main arc of the retinal vessels surrounding the OD region is used to extract the actual location of the OD. Finally, the OD boundary is detected by applying distance regularized level set evolution. The proposed method was tested on the FFA images from angiography unit of Isfahan Feiz Hospital, containing 70 FFA images from different diabetic retinopathy stages. The experimental results show the accuracy more than 93% for vessel segmentation and more than 87% for OD boundary extraction.

Analysis of Fundus Fluorescein Angiogram Based on the Hessian Matrix of Directional Curvelet Sub-bands and Distance Regularized Level Set Evolution

PubMed Central

Soltanipour, Asieh; Sadri, Saeed; Rabbani, Hossein; Akhlaghi, Mohammad Reza

2015-01-01

This paper presents a new procedure for automatic extraction of the blood vessels and optic disk (OD) in fundus fluorescein angiogram (FFA). In order to extract blood vessel centerlines, the algorithm of vessel extraction starts with the analysis of directional images resulting from sub-bands of fast discrete curvelet transform (FDCT) in the similar directions and different scales. For this purpose, each directional image is processed by using information of the first order derivative and eigenvalues obtained from the Hessian matrix. The final vessel segmentation is obtained using a simple region growing algorithm iteratively, which merges centerline images with the contents of images resulting from modified top-hat transform followed by bit plane slicing. After extracting blood vessels from FFA image, candidates regions for OD are enhanced by removing blood vessels from the FFA image, using multi-structure elements morphology, and modification of FDCT coefficients. Then, canny edge detector and Hough transform are applied to the reconstructed image to extract the boundary of candidate regions. At the next step, the information of the main arc of the retinal vessels surrounding the OD region is used to extract the actual location of the OD. Finally, the OD boundary is detected by applying distance regularized level set evolution. The proposed method was tested on the FFA images from angiography unit of Isfahan Feiz Hospital, containing 70 FFA images from different diabetic retinopathy stages. The experimental results show the accuracy more than 93% for vessel segmentation and more than 87% for OD boundary extraction. PMID:26284170

Geomorphometric multi-scale analysis for the recognition of Moon surface features using multi-resolution DTMs

NASA Astrophysics Data System (ADS)

Li, Ke; Chen, Jianping; Sofia, Giulia; Tarolli, Paolo

2014-05-01

Moon surface features have great significance in understanding and reconstructing the lunar geological evolution. Linear structures like rilles and ridges are closely related to the internal forced tectonic movement. The craters widely distributed on the moon are also the key research targets for external forced geological evolution. The extremely rare availability of samples and the difficulty for field works make remote sensing the most important approach for planetary studies. New and advanced lunar probes launched by China, U.S., Japan and India provide nowadays a lot of high-quality data, especially in the form of high-resolution Digital Terrain Models (DTMs), bringing new opportunities and challenges for feature extraction on the moon. The aim of this study is to recognize and extract lunar features using geomorphometric analysis based on multi-scale parameters and multi-resolution DTMs. The considered digital datasets include CE1-LAM (Chang'E One, Laser AltiMeter) data with resolution of 500m/pix, LRO-WAC (Lunar Reconnaissance Orbiter, Wide Angle Camera) data with resolution of 100m/pix, LRO-LOLA (Lunar Reconnaissance Orbiter, Lunar Orbiter Laser Altimeter) data with resolution of 60m/pix, and LRO-NAC (Lunar Reconnaissance Orbiter, Narrow Angle Camera) data with resolution of 2-5m/pix. We considered surface derivatives to recognize the linear structures including Rilles and Ridges. Different window scales and thresholds for are considered for feature extraction. We also calculated the roughness index to identify the erosion/deposits area within craters. The results underline the suitability of the adopted methods for feature recognition on the moon surface. The roughness index is found to be a useful tool to distinguish new craters, with higher roughness, from the old craters, which present a smooth and less rough surface.

Simulating New Drop Test Vehicles and Test Techniques for the Orion CEV Parachute Assembly System

NASA Technical Reports Server (NTRS)

Morris, Aaron L.; Fraire, Usbaldo, Jr.; Bledsoe, Kristin J.; Ray, Eric; Moore, Jim W.; Olson, Leah M.

2011-01-01

The Crew Exploration Vehicle Parachute Assembly System (CPAS) project is engaged in a multi-year design and test campaign to qualify a parachute recovery system for human use on the Orion Spacecraft. Test and simulation techniques have evolved concurrently to keep up with the demands of a challenging and complex system. The primary simulations used for preflight predictions and post-test data reconstructions are Decelerator System Simulation (DSS), Decelerator System Simulation Application (DSSA), and Drop Test Vehicle Simulation (DTV-SIM). The goal of this paper is to provide a roadmap to future programs on the test technique challenges and obstacles involved in executing a large-scale, multi-year parachute test program. A focus on flight simulation modeling and correlation to test techniques executed to obtain parachute performance parameters are presented.

Physics Model-Based Scatter Correction in Multi-Source Interior Computed Tomography.

PubMed

Gong, Hao; Li, Bin; Jia, Xun; Cao, Guohua

2018-02-01

Multi-source interior computed tomography (CT) has a great potential to provide ultra-fast and organ-oriented imaging at low radiation dose. However, X-ray cross scattering from multiple simultaneously activated X-ray imaging chains compromises imaging quality. Previously, we published two hardware-based scatter correction methods for multi-source interior CT. Here, we propose a software-based scatter correction method, with the benefit of no need for hardware modifications. The new method is based on a physics model and an iterative framework. The physics model was derived analytically, and was used to calculate X-ray scattering signals in both forward direction and cross directions in multi-source interior CT. The physics model was integrated to an iterative scatter correction framework to reduce scatter artifacts. The method was applied to phantom data from both Monte Carlo simulations and physical experimentation that were designed to emulate the image acquisition in a multi-source interior CT architecture recently proposed by our team. The proposed scatter correction method reduced scatter artifacts significantly, even with only one iteration. Within a few iterations, the reconstructed images fast converged toward the "scatter-free" reference images. After applying the scatter correction method, the maximum CT number error at the region-of-interests (ROIs) was reduced to 46 HU in numerical phantom dataset and 48 HU in physical phantom dataset respectively, and the contrast-noise-ratio at those ROIs increased by up to 44.3% and up to 19.7%, respectively. The proposed physics model-based iterative scatter correction method could be useful for scatter correction in dual-source or multi-source CT.

Optimal multi-type sensor placement for response and excitation reconstruction

NASA Astrophysics Data System (ADS)

Zhang, C. D.; Xu, Y. L.

2016-01-01

The need to perform dynamic response reconstruction always arises as the measurement of structural response is often limited to a few locations, especially for a large civil structure. Besides, it is usually very difficult, if not impossible, to measure external excitations under the operation condition of a structure. This study presents an algorithm for optimal placement of multi-type sensors, including strain gauges, displacement transducers and accelerometers, for the best reconstruction of responses of key structural components where there are no sensors installed and the best estimation of external excitations acting on the structure at the same time. The algorithm is developed in the framework of Kalman filter with unknown excitation, in which minimum-variance unbiased estimates of the generalized state of the structure and the external excitations are obtained by virtue of limited sensor measurements. The structural responses of key locations without sensors can then be reconstructed with the estimated generalized state and excitation. The asymptotic stability feature of the filter is utilized for optimal sensor placement. The number and spatial location of the multi-type sensors are determined by adding the optimal sensor which gains the maximal reduction of the estimation error of reconstructed responses. For the given mode number in response reconstruction and the given locations of external excitations, the optimal multi-sensor placement achieved by the proposed method is independent of the type and time evolution of external excitation. A simply-supported overhanging steel beam under multiple types of excitation is numerically studied to demonstrate the feasibility and superiority of the proposed method, and the experimental work is then carried out to testify the effectiveness of the proposed method.

Non-iterative volumetric particle reconstruction near moving bodies

NASA Astrophysics Data System (ADS)

Mendelson, Leah; Techet, Alexandra

2017-11-01

When multi-camera 3D PIV experiments are performed around a moving body, the body often obscures visibility of regions of interest in the flow field in a subset of cameras. We evaluate the performance of non-iterative particle reconstruction algorithms used for synthetic aperture PIV (SAPIV) in these partially-occluded regions. We show that when partial occlusions are present, the quality and availability of 3D tracer particle information depends on the number of cameras and reconstruction procedure used. Based on these findings, we introduce an improved non-iterative reconstruction routine for SAPIV around bodies. The reconstruction procedure combines binary masks, already required for reconstruction of the body's 3D visual hull, and a minimum line-of-sight algorithm. This approach accounts for partial occlusions without performing separate processing for each possible subset of cameras. We combine this reconstruction procedure with three-dimensional imaging on both sides of the free surface to reveal multi-fin wake interactions generated by a jumping archer fish. Sufficient particle reconstruction in near-body regions is crucial to resolving the wake structures of upstream fins (i.e., dorsal and anal fins) before and during interactions with the caudal tail.

PET image reconstruction using multi-parametric anato-functional priors

NASA Astrophysics Data System (ADS)

Mehranian, Abolfazl; Belzunce, Martin A.; Niccolini, Flavia; Politis, Marios; Prieto, Claudia; Turkheimer, Federico; Hammers, Alexander; Reader, Andrew J.

2017-08-01

In this study, we investigate the application of multi-parametric anato-functional (MR-PET) priors for the maximum a posteriori (MAP) reconstruction of brain PET data in order to address the limitations of the conventional anatomical priors in the presence of PET-MR mismatches. In addition to partial volume correction benefits, the suitability of these priors for reconstruction of low-count PET data is also introduced and demonstrated, comparing to standard maximum-likelihood (ML) reconstruction of high-count data. The conventional local Tikhonov and total variation (TV) priors and current state-of-the-art anatomical priors including the Kaipio, non-local Tikhonov prior with Bowsher and Gaussian similarity kernels are investigated and presented in a unified framework. The Gaussian kernels are calculated using both voxel- and patch-based feature vectors. To cope with PET and MR mismatches, the Bowsher and Gaussian priors are extended to multi-parametric priors. In addition, we propose a modified joint Burg entropy prior that by definition exploits all parametric information in the MAP reconstruction of PET data. The performance of the priors was extensively evaluated using 3D simulations and two clinical brain datasets of [18F]florbetaben and [18F]FDG radiotracers. For simulations, several anato-functional mismatches were intentionally introduced between the PET and MR images, and furthermore, for the FDG clinical dataset, two PET-unique active tumours were embedded in the PET data. Our simulation results showed that the joint Burg entropy prior far outperformed the conventional anatomical priors in terms of preserving PET unique lesions, while still reconstructing functional boundaries with corresponding MR boundaries. In addition, the multi-parametric extension of the Gaussian and Bowsher priors led to enhanced preservation of edge and PET unique features and also an improved bias-variance performance. In agreement with the simulation results, the clinical results also showed that the Gaussian prior with voxel-based feature vectors, the Bowsher and the joint Burg entropy priors were the best performing priors. However, for the FDG dataset with simulated tumours, the TV and proposed priors were capable of preserving the PET-unique tumours. Finally, an important outcome was the demonstration that the MAP reconstruction of a low-count FDG PET dataset using the proposed joint entropy prior can lead to comparable image quality to a conventional ML reconstruction with up to 5 times more counts. In conclusion, multi-parametric anato-functional priors provide a solution to address the pitfalls of the conventional priors and are therefore likely to increase the diagnostic confidence in MR-guided PET image reconstructions.

Metabolic Reconstruction of Setaria italica: A Systems Biology Approach for Integrating Tissue-Specific Omics and Pathway Analysis of Bioenergy Grasses.

PubMed

de Oliveira Dal'Molin, Cristiana G; Orellana, Camila; Gebbie, Leigh; Steen, Jennifer; Hodson, Mark P; Chrysanthopoulos, Panagiotis; Plan, Manuel R; McQualter, Richard; Palfreyman, Robin W; Nielsen, Lars K

2016-01-01

The urgent need for major gains in industrial crops productivity and in biofuel production from bioenergy grasses have reinforced attention on understanding C4 photosynthesis. Systems biology studies of C4 model plants may reveal important features of C4 metabolism. Here we chose foxtail millet (Setaria italica), as a C4 model plant and developed protocols to perform systems biology studies. As part of the systems approach, we have developed and used a genome-scale metabolic reconstruction in combination with the use of multi-omics technologies to gain more insights into the metabolism of S. italica. mRNA, protein, and metabolite abundances, were measured in mature and immature stem/leaf phytomers, and the multi-omics data were integrated into the metabolic reconstruction framework to capture key metabolic features in different developmental stages of the plant. RNA-Seq reads were mapped to the S. italica resulting for 83% coverage of the protein coding genes of S. italica. Besides revealing similarities and differences in central metabolism of mature and immature tissues, transcriptome analysis indicates significant gene expression of two malic enzyme isoforms (NADP- ME and NAD-ME). Although much greater expression levels of NADP-ME genes are observed and confirmed by the correspondent protein abundances in the samples, the expression of multiple genes combined to the significant abundance of metabolites that participates in C4 metabolism of NAD-ME and NADP-ME subtypes suggest that S. italica may use mixed decarboxylation modes of C4 photosynthetic pathways under different plant developmental stages. The overall analysis also indicates different levels of regulation in mature and immature tissues in carbon fixation, glycolysis, TCA cycle, amino acids, fatty acids, lignin, and cellulose syntheses. Altogether, the multi-omics analysis reveals different biological entities and their interrelation and regulation over plant development. With this study, we demonstrated that this systems approach is powerful enough to complement the functional metabolic annotation of bioenergy grasses.

Metabolic Reconstruction of Setaria italica: A Systems Biology Approach for Integrating Tissue-Specific Omics and Pathway Analysis of Bioenergy Grasses

PubMed Central

de Oliveira Dal'Molin, Cristiana G.; Orellana, Camila; Gebbie, Leigh; Steen, Jennifer; Hodson, Mark P.; Chrysanthopoulos, Panagiotis; Plan, Manuel R.; McQualter, Richard; Palfreyman, Robin W.; Nielsen, Lars K.

2016-01-01

The urgent need for major gains in industrial crops productivity and in biofuel production from bioenergy grasses have reinforced attention on understanding C4 photosynthesis. Systems biology studies of C4 model plants may reveal important features of C4 metabolism. Here we chose foxtail millet (Setaria italica), as a C4 model plant and developed protocols to perform systems biology studies. As part of the systems approach, we have developed and used a genome-scale metabolic reconstruction in combination with the use of multi-omics technologies to gain more insights into the metabolism of S. italica. mRNA, protein, and metabolite abundances, were measured in mature and immature stem/leaf phytomers, and the multi-omics data were integrated into the metabolic reconstruction framework to capture key metabolic features in different developmental stages of the plant. RNA-Seq reads were mapped to the S. italica resulting for 83% coverage of the protein coding genes of S. italica. Besides revealing similarities and differences in central metabolism of mature and immature tissues, transcriptome analysis indicates significant gene expression of two malic enzyme isoforms (NADP- ME and NAD-ME). Although much greater expression levels of NADP-ME genes are observed and confirmed by the correspondent protein abundances in the samples, the expression of multiple genes combined to the significant abundance of metabolites that participates in C4 metabolism of NAD-ME and NADP-ME subtypes suggest that S. italica may use mixed decarboxylation modes of C4 photosynthetic pathways under different plant developmental stages. The overall analysis also indicates different levels of regulation in mature and immature tissues in carbon fixation, glycolysis, TCA cycle, amino acids, fatty acids, lignin, and cellulose syntheses. Altogether, the multi-omics analysis reveals different biological entities and their interrelation and regulation over plant development. With this study, we demonstrated that this systems approach is powerful enough to complement the functional metabolic annotation of bioenergy grasses. PMID:27559337

The bivalve Glycymeris longior as an environmental archive for the Mar Argentino, southern South Atlantic

NASA Astrophysics Data System (ADS)

del Socorro Doldan, María; Morsan, Enrique Mario; Giménez, Lucas; Zaidman, Paula Cecilia

2017-04-01

Southern Hemisphere lacks of suitable high-resolution long datasets for the marine environment. This is translated in poor understanding of climate dynamics and processes at regional and continental-scale. We assessed the potential of Glycymeris longior as an environmental indicator for the mid-latitudes of South Atlantic by applying sclerochronological techniques on sample sets collected from San Matías Gulf, Mar Argentino, southern South Atlantic. We present a reconstruction of marine environmental variability of SMG for the period 1890-2016, covering 125 years. The reconstruction is based on the growth increment series for the first absolutely-dated annually-resolved multi-decadal G. longior bivalve on Sothern Atlantic. Shells were collected in 1918, 1933, 1945, 1983, 1989, 2009, 2011, 2015 and 2016. Sample depth varies between collection years. Age of the individuals was estimated from the hinge region of the shell. G. longior forms an annual narrow growth line. Maximal longevity was 40 years old. A strong common environmental signal is apparent in the increment widths. Correlations between the growth increment indices and regional temperature series (sea surface temperatures, continental temperatures) and other proxies were made. Preliminary results indicate that G.longior sclerochronologies, combined with low-frequency proxies can facilitate reconstructions of oceanographic variability. We discuss multi-decadal climate variability. Given the ability to generate annually-resolved chronologies G. longior is likely to be used as a climate recorder in southern South America. Hence, G. longior shells from Pleistocene marine deposits from Patagonia, Argentina, have a considerable potential to contain information of past climate for mid-latitudes of South Atlantic.

CLANIMAE: Climatic and Anthropogenic Impacts on African Ecosystems

NASA Astrophysics Data System (ADS)

Verschuren, D.; André, L.; Mahy, G.; Cocquyt, C.; Plisnier, P.-D.; Gelorini, V.; Rumes, B.; Lebrun, J.; Bock, L.; Marchant, R.

2009-04-01

Global studies of historical land use focusing on the large-scale landscape change that can potentially affect global climate (via effects on surface albedo, aerosols, and the carbon cycle) have concluded that the impact of pre-colonial East African cultures on regional ecosystems was limited, due to very low mean population density. This contrasts with the paradigm in East African archaeology and paleoecology that the onset of anthropogenic deforestation started at least 2500 years ago, following the introduction of iron metallurgy by Bantu immigrants. This conflict highlights the present lack of real data on historical climate-environment-human interactions in East Africa, which are eminently relevant to sustainable natural resource management and biodiversity conservation in a future of continued population growth and global climate change. CLANIMAE responds to the urgent need of a correct long-term perspective to today's climate-environment-human interactions in East Africa, by reconstructing simultaneously the histories of past climate change and of vegetation and water-quality changes over the last 2500 years, through multi-disciplinary analysis of dated lake-sediment records. The climate reconstructions integrate information on biological, geochemical and sedimentological indicators of past changes in the water balance of the study lakes, which cover the climatological gradient from (sub-)humid western Uganda to semi-arid eastern Kenya. Reconstruction of past terrestrial vegetation dynamics is based on analyses of fossil plant pollen and phytoliths, plus the fossil spores of fungi associated with the excrements of large domestic animals as indicators of lake use by pastoralists. The evolution of water quality through time is reconstructed using silicon isotopes in diatom algae as proxy indicator for past phytoplankton productivity, and paleoecological analyses of fossil diatoms and aquatic macrophytes, following calibration of diatom and macrophyte species distribution against lake trophic status and turbidity in the modern-day regional lake gradient. The integrated paleoecological research method of this project addresses the question of past climate-environment-human relationships at the time scale at which the relevant processes have actually occurred. This will allow us to 1) separate the influences of natural climate variability and human activity on East African ecosystems, 2) determine the exact timing and relative magnitude of indigenous (pre-20th century) anthropogenic land clearance compared to recent landscape alteration, 3) determine the severity of lake water-quality losses due to siltation and excess nutrient input directly linked to deforestation and agriculture, compared to those associated with natural ecosystem variability, and 4) assess the resilience of African ecosystems, and prospects for the restoration of disturbed ecosystems if human pressure were to be reversed.

A statistical study on the F2 layer vertical variation during nighttime medium-scale traveling ionospheric disturbances

NASA Astrophysics Data System (ADS)

Ssessanga, Nicholas; Kim, Yong Ha; Jeong, Se-Heon

2017-03-01

A statistical study on the relationship between the perturbation component (ΔTEC (total electron content)) and the F2 layer peak height (hmF2) during nighttime medium-scale traveling ionospheric disturbances is presented. The results are obtained by using a time-dependent computerized ionospheric tomography (CIT) technique. This was realized by using slant total electron content observations from a dense Global Positioning System receiver network over Japan (with more than 1000 receivers), together with a multiplicative algebraic reconstruction technique. Reconstructions from CIT were validated by using ionosonde and occultation measurements. A total of 36 different time snapshots of the ionosphere when medium-scale traveling ionospheric disturbances (MSTIDs) were eminent were analyzed. These were obtained from a data set covering years from 2011 to 2014. The reconstructed surface wavefronts of ΔTEC and hmF2 structure were found to be aligned along the northwest-southeast direction. These results confirm that nighttime MSTIDs are driven by electrodynamic forces related to Perkins instability which explains the northwest-southeast wavefront alignment based on the F region electrodynamics. Furthermore, from the statistical analysis hmF2 varied quasiperiodically in altitude with dominant peak-to-peak amplitudes between 10 and 40 km. In addition, ΔTEC and hmF2 were 60% anticorrelated.

Objective spatiotemporal proxy-model comparisons of the Asian monsoon for the last millennium

NASA Astrophysics Data System (ADS)

Anchukaitis, K. J.; Cook, E. R.; Ammann, C. M.; Buckley, B. M.; D'Arrigo, R. D.; Jacoby, G.; Wright, W. E.; Davi, N.; Li, J.

2008-12-01

The Asian monsoon system can be studied using a complementary proxy/simulation approach which evaluates climate models using estimates of past precipitation and temperature, and which subsequently applies the best understanding of the physics of the climate system as captured in general circulation models to evaluate the broad-scale dynamics behind regional paleoclimate reconstructions. Here, we use a millennial-length climate field reconstruction of monsoon season summer (JJA) drought, developed from tree- ring proxies, with coupled climate simulations from NCAR CSM1.4 and CCSM3 to evaluate the cause of large- scale persistent droughts over the last one thousand years. Direct comparisons are made between the external forced response within the climate model and the spatiotemporal field reconstruction. In order to identify patterns of drought associated with internal variability in the climate system, we use a model/proxy analog technique which objectively selects epochs in the model that most closely reproduce those observed in the reconstructions. The concomitant ocean-atmosphere dynamics are then interpreted in order to identify and understand the internal climate system forcing of low frequency monsoon variability. We examine specific periods of extensive or intensive regional drought in the 15th, 17th, and 18th centuries, many of which are coincident with major cultural changes in the region.

Using Direct Behavior Rating--Single Item Scales to Assess Student Behavior within Multi-Tiered Systems of Support

ERIC Educational Resources Information Center

Miller, Faith G.; Patwa, Shamim S.; Chafouleas, Sandra M.

2014-01-01

An increased emphasis on collecting and using data in schools has occurred, in part, because of the implementation of multi-tiered systems of support (MTSS). Commonly referred to as response to intervention in the academic domain and school-wide positive behavioral interventions and supports in the behavioral domain, these initiatives have a…

3D virtual human atria: A computational platform for studying clinical atrial fibrillation.

PubMed

Aslanidi, Oleg V; Colman, Michael A; Stott, Jonathan; Dobrzynski, Halina; Boyett, Mark R; Holden, Arun V; Zhang, Henggui

2011-10-01

Despite a vast amount of experimental and clinical data on the underlying ionic, cellular and tissue substrates, the mechanisms of common atrial arrhythmias (such as atrial fibrillation, AF) arising from the functional interactions at the whole atria level remain unclear. Computational modelling provides a quantitative framework for integrating such multi-scale data and understanding the arrhythmogenic behaviour that emerges from the collective spatio-temporal dynamics in all parts of the heart. In this study, we have developed a multi-scale hierarchy of biophysically detailed computational models for the human atria--the 3D virtual human atria. Primarily, diffusion tensor MRI reconstruction of the tissue geometry and fibre orientation in the human sinoatrial node (SAN) and surrounding atrial muscle was integrated into the 3D model of the whole atria dissected from the Visible Human dataset. The anatomical models were combined with the heterogeneous atrial action potential (AP) models, and used to simulate the AP conduction in the human atria under various conditions: SAN pacemaking and atrial activation in the normal rhythm, break-down of regular AP wave-fronts during rapid atrial pacing, and the genesis of multiple re-entrant wavelets characteristic of AF. Contributions of different properties of the tissue to mechanisms of the normal rhythm and arrhythmogenesis were investigated. Primarily, the simulations showed that tissue heterogeneity caused the break-down of the normal AP wave-fronts at rapid pacing rates, which initiated a pair of re-entrant spiral waves; and tissue anisotropy resulted in a further break-down of the spiral waves into multiple meandering wavelets characteristic of AF. The 3D virtual atria model itself was incorporated into the torso model to simulate the body surface ECG patterns in the normal and arrhythmic conditions. Therefore, a state-of-the-art computational platform has been developed, which can be used for studying multi-scale electrical phenomena during atrial conduction and AF arrhythmogenesis. Results of such simulations can be directly compared with electrophysiological and endocardial mapping data, as well as clinical ECG recordings. The virtual human atria can provide in-depth insights into 3D excitation propagation processes within atrial walls of a whole heart in vivo, which is beyond the current technical capabilities of experimental or clinical set-ups. Copyright © 2011 Elsevier Ltd. All rights reserved.

Population-scale three-dimensional reconstruction and quantitative profiling of microglia arbors

PubMed Central

Rey-Villamizar, Nicolas; Merouane, Amine; Lu, Yanbin; Mukherjee, Amit; Trett, Kristen; Chong, Peter; Harris, Carolyn; Shain, William; Roysam, Badrinath

2015-01-01

Motivation: The arbor morphologies of brain microglia are important indicators of cell activation. This article fills the need for accurate, robust, adaptive and scalable methods for reconstructing 3-D microglial arbors and quantitatively mapping microglia activation states over extended brain tissue regions. Results: Thick rat brain sections (100–300 µm) were multiplex immunolabeled for IBA1 and Hoechst, and imaged by step-and-image confocal microscopy with automated 3-D image mosaicing, producing seamless images of extended brain regions (e.g. 5903 × 9874 × 229 voxels). An over-complete dictionary-based model was learned for the image-specific local structure of microglial processes. The microglial arbors were reconstructed seamlessly using an automated and scalable algorithm that exploits microglia-specific constraints. This method detected 80.1 and 92.8% more centered arbor points, and 53.5 and 55.5% fewer spurious points than existing vesselness and LoG-based methods, respectively, and the traces were 13.1 and 15.5% more accurate based on the DIADEM metric. The arbor morphologies were quantified using Scorcioni’s L-measure. Coifman’s harmonic co-clustering revealed four morphologically distinct classes that concord with known microglia activation patterns. This enabled us to map spatial distributions of microglial activation and cell abundances. Availability and implementation: Experimental protocols, sample datasets, scalable open-source multi-threaded software implementation (C++, MATLAB) in the electronic supplement, and website (www.farsight-toolkit.org). http://www.farsight-toolkit.org/wiki/Population-scale_Three-dimensional_Reconstruction_and_Quanti-tative_Profiling_of_Microglia_Arbors Contact: broysam@central.uh.edu Supplementary information: Supplementary data are available at Bioinformatics online. PMID:25701570

Beam-hardening correction by a surface fitting and phase classification by a least square support vector machine approach for tomography images of geological samples

NASA Astrophysics Data System (ADS)

Khan, F.; Enzmann, F.; Kersten, M.

2015-12-01

In X-ray computed microtomography (μXCT) image processing is the most important operation prior to image analysis. Such processing mainly involves artefact reduction and image segmentation. We propose a new two-stage post-reconstruction procedure of an image of a geological rock core obtained by polychromatic cone-beam μXCT technology. In the first stage, the beam-hardening (BH) is removed applying a best-fit quadratic surface algorithm to a given image data set (reconstructed slice), which minimizes the BH offsets of the attenuation data points from that surface. The final BH-corrected image is extracted from the residual data, or the difference between the surface elevation values and the original grey-scale values. For the second stage, we propose using a least square support vector machine (a non-linear classifier algorithm) to segment the BH-corrected data as a pixel-based multi-classification task. A combination of the two approaches was used to classify a complex multi-mineral rock sample. The Matlab code for this approach is provided in the Appendix. A minor drawback is that the proposed segmentation algorithm may become computationally demanding in the case of a high dimensional training data set.

Compressed-Sensing Multi-Spectral Imaging of the Post-Operative Spine

PubMed Central

Worters, Pauline W.; Sung, Kyunghyun; Stevens, Kathryn J.; Koch, Kevin M.; Hargreaves, Brian A.

2012-01-01

Purpose To apply compressed sensing (CS) to in vivo multi-spectral imaging (MSI), which uses additional encoding to avoid MRI artifacts near metal, and demonstrate the feasibility of CS-MSI in post-operative spinal imaging. Materials and Methods Thirteen subjects referred for spinal MRI were examined using T2-weighted MSI. A CS undersampling factor was first determined using a structural similarity index as a metric for image quality. Next, these fully sampled datasets were retrospectively undersampled using a variable-density random sampling scheme and reconstructed using an iterative soft-thresholding method. The fully- and under-sampled images were compared by using a 5-point scale. Prospectively undersampled CS-MSI data were also acquired from two subjects to ensure that the prospective random sampling did not affect the image quality. Results A two-fold outer reduction factor was deemed feasible for the spinal datasets. CS-MSI images were shown to be equivalent or better than the original MSI images in all categories: nerve visualization: p = 0.00018; image artifact: p = 0.00031; image quality: p = 0.0030. No alteration of image quality and T2 contrast was observed from prospectively undersampled CS-MSI. Conclusion This study shows that the inherently sparse nature of MSI data allows modest undersampling followed by CS reconstruction with no loss of diagnostic quality. PMID:22791572

A 2000-yr-long multi-proxy lacustrine record from eastern Baffin Island, Arctic Canada reveals first millennium AD cold period

NASA Astrophysics Data System (ADS)

Thomas, Elizabeth K.; Briner, Jason P.; Axford, Yarrow; Francis, Donna R.; Miller, Gifford H.; Walker, Ian R.

2011-05-01

We generate a multi-proxy sub-centennial-scale reconstruction of environmental change during the past two millennia from Itilliq Lake, Baffin Island, Arctic Canada. Our reconstruction arises from a finely subsectioned 210Pb- and 14C-dated surface sediment core and includes measures of organic matter (e.g., chlorophyll a; carbon-nitrogen ratio) and insect (Diptera: Chironomidae) assemblages. Within the past millennium, the least productive, and by inference coldest, conditions occurred ca. AD 1700-1850, late in the Little Ice Age. The 2000-yr sediment record also reveals an episode of reduced organic matter deposition during the 6th-7th century AD; combined with the few other records comparable in resolution that span this time interval from Baffin Island, we suggest that this cold episode was experienced regionally. A comparable cold climatic episode occurred in Alaska and western Canada at this time, suggesting that the first millennium AD cold climate anomaly may have occurred throughout the Arctic. Dramatic increases in aquatic biological productivity at multiple trophic levels are indicated by increased chlorophyll a concentrations since AD 1800 and chironomid concentrations since AD 1900, both of which have risen to levels unprecedented over the past 2000 yr.

Multi-scale Rule-of-Mixtures Model of Carbon Nanotube/Carbon Fiber/Epoxy Lamina

NASA Technical Reports Server (NTRS)

Frankland, Sarah-Jane V.; Roddick, Jaret C.; Gates, Thomas S.

2005-01-01

A unidirectional carbon fiber/epoxy lamina in which the carbon fibers are coated with single-walled carbon nanotubes is modeled with a multi-scale method, the atomistically informed rule-of-mixtures. This multi-scale model is designed to include the effect of the carbon nanotubes on the constitutive properties of the lamina. It included concepts from the molecular dynamics/equivalent continuum methods, micromechanics, and the strength of materials. Within the model both the nanotube volume fraction and nanotube distribution were varied. It was found that for a lamina with 60% carbon fiber volume fraction, the Young's modulus in the fiber direction varied with changes in the nanotube distribution, from 138.8 to 140 GPa with nanotube volume fractions ranging from 0.0001 to 0.0125. The presence of nanotube near the surface of the carbon fiber is therefore expected to have a small, but positive, effect on the constitutive properties of the lamina.

Non-rigid Motion Correction in 3D Using Autofocusing with Localized Linear Translations

PubMed Central

Cheng, Joseph Y.; Alley, Marcus T.; Cunningham, Charles H.; Vasanawala, Shreyas S.; Pauly, John M.; Lustig, Michael

2012-01-01

MR scans are sensitive to motion effects due to the scan duration. To properly suppress artifacts from non-rigid body motion, complex models with elements such as translation, rotation, shear, and scaling have been incorporated into the reconstruction pipeline. However, these techniques are computationally intensive and difficult to implement for online reconstruction. On a sufficiently small spatial scale, the different types of motion can be well-approximated as simple linear translations. This formulation allows for a practical autofocusing algorithm that locally minimizes a given motion metric – more specifically, the proposed localized gradient-entropy metric. To reduce the vast search space for an optimal solution, possible motion paths are limited to the motion measured from multi-channel navigator data. The novel navigation strategy is based on the so-called “Butterfly” navigators which are modifications to the spin-warp sequence that provide intrinsic translational motion information with negligible overhead. With a 32-channel abdominal coil, sufficient number of motion measurements were found to approximate possible linear motion paths for every image voxel. The correction scheme was applied to free-breathing abdominal patient studies. In these scans, a reduction in artifacts from complex, non-rigid motion was observed. PMID:22307933

The Hydrodynamics and Odorant Transport Phenomena of Olfaction in the Hammerhead Shark

NASA Astrophysics Data System (ADS)

Rygg, Alex; Craven, Brent

2013-11-01

The hammerhead shark possesses a unique head morphology that is thought to facilitate enhanced olfactory performance. The olfactory organs, located at the distal ends of the cephalofoil, contain numerous lamellae that increase the surface area for olfaction. Functionally, for the shark to detect chemical stimuli, water-borne odors must reach the olfactory sensory epithelium that lines these lamellae. Thus, odorant transport from the aquatic environment to the sensory epithelium is the first critical step in olfaction. Here we investigate the hydrodynamics and odorant transport phenomena of olfaction in the hammerhead shark based on an anatomically-accurate reconstruction of the head and olfactory chamber from high-resolution micro-CT and MRI scans of a cadaver specimen. Computational fluid dynamics (CFD) simulations of water flow in the reconstructed model reveal the external and internal hydrodynamics of olfaction during swimming. Odorant transport in the olfactory organ is investigated using a multi-scale approach, whereby molecular dynamics (MD) simulations are used to calculate odorant partition coefficients that are subsequently utilized in macro-scale CFD simulations of odorant deposition. The hydrodynamic and odorant transport results are used to elucidate several important features of olfactory function in the hammerhead shark.

A Skilful Marine Sclerochronological Network Based Reconstruction of North Atlantic Subpolar Gyre Dynamics

NASA Astrophysics Data System (ADS)

Reynolds, D.; Hall, I. R.; Slater, S. M.; Scourse, J. D.; Wanamaker, A. D.; Halloran, P. R.; Garry, F. K.

2017-12-01

Spatial network analyses of precisely dated, and annually resolved, tree-ring proxy records have facilitated robust reconstructions of past atmospheric climate variability and the associated mechanisms and forcings that drive it. In contrast, a lack of similarly dated marine archives has constrained the use of such techniques in the marine realm, despite the potential for developing a more robust understanding of the role basin scale ocean dynamics play in the global climate system. Here we show that a spatial network of marine molluscan sclerochronological oxygen isotope (δ18Oshell) series spanning the North Atlantic region provides a skilful reconstruction of basin scale North Atlantic sea surface temperatures (SSTs). Our analyses demonstrate that the composite marine series (referred to as δ18Oproxy_PC1) is significantly sensitive to inter-annual variability in North Atlantic SSTs (R=-0.61 P<0.01) and surface air temperatures (SATs; R=-0.67, P<0.01) over the 20th century. Subpolar gyre (SPG) SSTs dominates variability in the δ18Oproxy_PC1 series at sub-centennial frequencies (R=-0.51, P<0.01). Comparison of the δ18Oproxy_PC1 series against variability in the strength of the European Slope Current and maximum North Atlantic meridional overturning circulation derived from numeric climate models (CMIP5), indicates that variability in the SPG region, associated with the strength of the surface currents of the North Atlantic, are playing a significant role in shaping the multi-decadal scale SST variability over the industrial era. These analyses demonstrate that spatial networks developed from sclerochronological archives can provide powerful baseline archives of past ocean variability that can facilitate the development of a quantitative understanding for the role the oceans play in the global climate systems and constraining uncertainties in numeric climate models.

The impact of AMO and NAO in Western Iberia during the Late Holocene

NASA Astrophysics Data System (ADS)

Hernandez, A.; Leira, M.; Trigo, R.; Vázquez-Loureiro, D.; Carballeira, R.; Sáez, A.

2016-12-01

High mountain lakes in the Iberian Peninsula are particularly sensitive to the influence of North Atlantic large-scale modes of climate variability due to their geographical position and the reduced anthropic disturbances. In this context, Serra da Estrela (Portugal), the westernmost range of the Sistema Central, constitutes a physical barrier to air masses coming from the Atlantic Ocean. However, long-term climate reconstructions have not yet been conducted. We present a climate reconstruction of this region based on facies analysis, X-ray fluorescence core scanning, elemental and isotope geochemistry on bulk organic matter and a preliminary study of diatom assemblages from the sedimentary record of Lake Peixão (1677 m a.s.l.; Serra da Estrela) for the last ca. 3500 years. A multivariate statistical analysis has been performed to recognize the main environmental factors controlling the sedimentary infill. Our results reveal that two main processes explain the 70% of the total variance. Thus, changes in primary productivity, reflected in organic matter accumulation, and variations in runoff, related to external particles input, explain 53% and 17% respectively. Additionally, evidence of changes in productivity and water level regime recorded as variations in diatom assemblages correlate well with our interpretations. A comparison between the lake productivity changes and previous Atlantic Multidecadal Oscillation (AMO) reconstructions shows a good correlation, suggesting this climate mode as the main driver over lacustrine primary productivity at multi-decadal scales. In turn, changes in terrigenous inputs, linked to precipitation, seem to be more influenced by the winter North Atlantic Oscillation (NAO) variability. Hence, our results highlight that although the climate regime in this area is clearly influenced by the NAO, the AMO also plays a key role at long-term time-scales.

Future Directions for Space Transportation and Propulsion at NASA

NASA Technical Reports Server (NTRS)

Sackheim, Robert L.

2005-01-01

Contents include the following: Oxygen Compatible Materials. Manufacturing Technology Demonstrations. Turbopump Inducer Waterflow Test. Turbine Damping "Whirligig" Test. Single Element Preburner and Main Injector Test. 40K Multi-Element Preburner and MI. Full-Scale Battleship Preburner. Prototype Preburner Test Article. Full-Scale Prototype TCA. Turbopump Hot-Fire Test Article. Prototype Engine. Validated Analytical Models.

Multi-objective based spectral unmixing for hyperspectral images

NASA Astrophysics Data System (ADS)

Xu, Xia; Shi, Zhenwei

2017-02-01

Sparse hyperspectral unmixing assumes that each observed pixel can be expressed by a linear combination of several pure spectra in a priori library. Sparse unmixing is challenging, since it is usually transformed to a NP-hard l0 norm based optimization problem. Existing methods usually utilize a relaxation to the original l0 norm. However, the relaxation may bring in sensitive weighted parameters and additional calculation error. In this paper, we propose a novel multi-objective based algorithm to solve the sparse unmixing problem without any relaxation. We transform sparse unmixing to a multi-objective optimization problem, which contains two correlative objectives: minimizing the reconstruction error and controlling the endmember sparsity. To improve the efficiency of multi-objective optimization, a population-based randomly flipping strategy is designed. Moreover, we theoretically prove that the proposed method is able to recover a guaranteed approximate solution from the spectral library within limited iterations. The proposed method can directly deal with l0 norm via binary coding for the spectral signatures in the library. Experiments on both synthetic and real hyperspectral datasets demonstrate the effectiveness of the proposed method.

Based on a multi-agent system for multi-scale simulation and application of household's LUCC: a case study for Mengcha village, Mizhi county, Shaanxi province.

PubMed

Chen, Hai; Liang, Xiaoying; Li, Rui

2013-01-01

Multi-Agent Systems (MAS) offer a conceptual approach to include multi-actor decision making into models of land use change. Through the simulation based on the MAS, this paper tries to show the application of MAS in the micro scale LUCC, and reveal the transformation mechanism of difference scale. This paper starts with a description of the context of MAS research. Then, it adopts the Nested Spatial Choice (NSC) method to construct the multi-scale LUCC decision-making model. And a case study for Mengcha village, Mizhi County, Shaanxi Province is reported. Finally, the potentials and drawbacks of the following approach is discussed and concluded. From our design and implementation of the MAS in multi-scale model, a number of observations and conclusions can be drawn on the implementation and future research directions. (1) The use of the LUCC decision-making and multi-scale transformation framework provides, according to us, a more realistic modeling of multi-scale decision making process. (2) By using continuous function, rather than discrete function, to construct the decision-making of the households is more realistic to reflect the effect. (3) In this paper, attempts have been made to give a quantitative analysis to research the household interaction. And it provides the premise and foundation for researching the communication and learning among the households. (4) The scale transformation architecture constructed in this paper helps to accumulate theory and experience for the interaction research between the micro land use decision-making and the macro land use landscape pattern. Our future research work will focus on: (1) how to rational use risk aversion principle, and put the rule on rotation between household parcels into model. (2) Exploring the methods aiming at researching the household decision-making over a long period, it allows us to find the bridge between the long-term LUCC data and the short-term household decision-making. (3) Researching the quantitative method and model, especially the scenario analysis model which may reflect the interaction among different household types.

Comparison of coherently coupled multi-cavity and quantum dot embedded single cavity systems.

PubMed

Kocaman, Serdar; Sayan, Gönül Turhan

2016-12-12

Temporal group delays originating from the optical analogue to electromagnetically induced transparency (EIT) are compared in two systems. Similar transmission characteristics are observed between a coherently coupled high-Q multi-cavity array and a single quantum dot (QD) embedded cavity in the weak coupling regime. However, theoretically generated group delay values for the multi-cavity case are around two times higher. Both configurations allow direct scalability for chip-scale optical pulse trapping and coupled-cavity quantum electrodynamics (QED).

Molecular pedigree reconstruction and estimation of evolutionary parameters in a wild Atlantic salmon river system with incomplete sampling: a power analysis

PubMed Central

2014-01-01

Background Pedigree reconstruction using genetic analysis provides a useful means to estimate fundamental population biology parameters relating to population demography, trait heritability and individual fitness when combined with other sources of data. However, there remain limitations to pedigree reconstruction in wild populations, particularly in systems where parent-offspring relationships cannot be directly observed, there is incomplete sampling of individuals, or molecular parentage inference relies on low quality DNA from archived material. While much can still be inferred from incomplete or sparse pedigrees, it is crucial to evaluate the quality and power of available genetic information a priori to testing specific biological hypotheses. Here, we used microsatellite markers to reconstruct a multi-generation pedigree of wild Atlantic salmon (Salmo salar L.) using archived scale samples collected with a total trapping system within a river over a 10 year period. Using a simulation-based approach, we determined the optimal microsatellite marker number for accurate parentage assignment, and evaluated the power of the resulting partial pedigree to investigate important evolutionary and quantitative genetic characteristics of salmon in the system. Results We show that at least 20 microsatellites (ave. 12 alleles/locus) are required to maximise parentage assignment and to improve the power to estimate reproductive success and heritability in this study system. We also show that 1.5 fold differences can be detected between groups simulated to have differing reproductive success, and that it is possible to detect moderate heritability values for continuous traits (h2 ~ 0.40) with more than 80% power when using 28 moderately to highly polymorphic markers. Conclusion The methodologies and work flow described provide a robust approach for evaluating archived samples for pedigree-based research, even where only a proportion of the total population is sampled. The results demonstrate the feasibility of pedigree-based studies to address challenging ecological and evolutionary questions in free-living populations, where genealogies can be traced only using molecular tools, and that significant increases in pedigree assignment power can be achieved by using higher numbers of markers. PMID:24684698

A Multi-Institutional Analysis of the Socioeconomic Determinants of Breast Reconstruction

PubMed Central

Christian, Caprice K.; Niland, Joyce; Edge, Stephen B.; Ottesen, Rebecca A.; Hughes, Melissa E.; Theriault, Richard; Wilson, John; Hergrueter, Charles A.; Weeks, Jane C.

2006-01-01

Objective: To determine the rate of postmastectomy reconstruction and investigate the impact of socioeconomic status on the receipt of reconstruction. Summary Background Data: The National Comprehensive Cancer Network (NCCN) Outcomes Project is a prospective, multi-institutional database that contains data on all newly diagnosed breast cancer patients treated at one of the participating comprehensive cancer centers. Methods: The study cohort consisted of 2174 patients with DCIS and stage I, II, and III invasive breast cancer who underwent mastectomy at one of 8 NCCN centers. Rates of reconstruction were determined. Logistic regression analyses were used to evaluate whether socioeconomic characteristics are associated with breast reconstruction. Results: Overall, 42% of patients had breast reconstruction following mastectomy. Patients with Medicaid and Medicare were less likely to undergo reconstruction than those with managed care insurance; however, there was no difference for indemnity versus managed care insurance. Homemakers and retired patients had fewer reconstructions than those employed outside the home. Patients with a high school education or less were less likely to have reconstruction than those with more education. Race and ethnicity were not significant predictors of reconstruction. Conclusions: The reconstruction rate in this study (42%) is markedly higher than those previously reported. The type of insurance, education level, and employment status of a patient, but not her race or ethnicity, appear to influence the use of breast reconstruction. Because all patients were treated at an NCCN institution, these socioeconomic differences cannot be explained by access to care. PMID:16432358

Multi-Scale Modeling of Liquid Phase Sintering Affected by Gravity: Preliminary Analysis

NASA Technical Reports Server (NTRS)

Olevsky, Eugene; German, Randall M.

2012-01-01

A multi-scale simulation concept taking into account impact of gravity on liquid phase sintering is described. The gravity influence can be included at both the micro- and macro-scales. At the micro-scale, the diffusion mass-transport is directionally modified in the framework of kinetic Monte-Carlo simulations to include the impact of gravity. The micro-scale simulations can provide the values of the constitutive parameters for macroscopic sintering simulations. At the macro-scale, we are attempting to embed a continuum model of sintering into a finite-element framework that includes the gravity forces and substrate friction. If successful, the finite elements analysis will enable predictions relevant to space-based processing, including size and shape and property predictions. Model experiments are underway to support the models via extraction of viscosity moduli versus composition, particle size, heating rate, temperature and time.

Iraq: Recent Developments in Reconstruction Assistance

DTIC Science & Technology

2005-05-12

in Reconstruction Assistance Summary Large-scale reconstruction assistance programs are being undertaken by the United States following the war with... assistance programs , the Coalition Provisional Authority (CPA), dissolved, and sovereignty was returned to Iraq. Security Council Resolution 1546 of June...Assessment.pdf]. Iraq: Recent Developments in Reconstruction Assistance Large-scale reconstruction assistance programs are being undertaken by the United

Causes of global mean surface temperature slowdowns, trends and variations from months to a century, 1891-2015

NASA Astrophysics Data System (ADS)

Folland, C. K.; Boucher, O.; Colman, A.; Parker, D. E.

2017-12-01

The recent slowdown in the warming of global mean surface temperature (GST) has highlighted the influences of natural variability. This talk discusses reconstructions of the variations of GST down to the monthly time scale since 1891 using monthly forcing data. We show that most of the variations in annual, and to some extent sub-annual, GST since 1891 can be reproduced skillfully from known forcing factors external and internal to the climate system. This includes the slowdown in warming over about 1998-2013 where reconstruction skill is particularly high down to the multi-monthly time scale. The relative contributions of the several key forcing factors to GST continually vary, but most of the net warming since 1891 is reconstructed to be attributable to the net forcing due to increasing greenhouse gases and anthropogenic aerosols. Separate analyses are carried out for three periods of GST slowdown:- 1896-1910, 1941-1976, together with 1998-2013 and some of its sub periods. We also study two periods where strong warming occurred, 1911-1940 and 1977-1997. Comparisons are made with the skill of average GST provided by 40 CMIP5 models. In the recent 1998-2013 slowdown, TSI forcing appears to have caused significant cooling, particularly over 2001-2010. This is additional to well documented cooling effects of an increased frequency of La Nina events, a negative Interdecadal Pacific Oscillation and some increases in volcanic forcing. Although there are short-term features of the GST curve since 1891 that cannot be fully explained, the most serious disagreements between the reconstructions and observations occur in the Second World War, especially in 1944-1945. Here observed near worldwide SSTs may be biased significantly too warm. Despite this, our generally high reconstruction skill is consistent with a good understanding of the multiple causes of observed GST variations and the general veracity of the GST record since 1891.

Single-exposure color digital holography

NASA Astrophysics Data System (ADS)

Feng, Shaotong; Wang, Yanhui; Zhu, Zhuqing; Nie, Shouping

2010-11-01

In this paper, we report a method for color image reconstruction by recording only one single multi-wavelength hologram. In the recording process, three lasers of different wavelengths emitting in the red, green and blue regions are used for illuminating on the object and the object diffraction fields will arrive at the hologram plane simultaneously. Three reference beams with different spatial angles will interfere with the corresponding object diffraction fields on the hologram plane, respectively. Finally, a series of sub-holograms incoherently overlapped on the CCD to be recorded as a multi-wavelength hologram. Angular division multiplexing is employed to reference beams so that the spatial spectra of the multiple recordings will be separated in the Fourier plane. In the reconstruction process, the multi-wavelength hologram will be Fourier transformed into its Fourier plane, where the spatial spectra of different wavelengths are separated and can be easily extracted by employing frequency filtering. The extracted spectra are used to reconstruct the corresponding monochromatic complex amplitudes, which will be synthesized to reconstruct the color image. For singleexposure recording technique, it is convenient for applications on the real-time image processing fields. However, the quality of the reconstructed images is affected by speckle noise. How to improve the quality of the images needs for further research.

Connectome imaging for mapping human brain pathways

PubMed Central

Shi, Y; Toga, A W

2017-01-01

With the fast advance of connectome imaging techniques, we have the opportunity of mapping the human brain pathways in vivo at unprecedented resolution. In this article we review the current developments of diffusion magnetic resonance imaging (MRI) for the reconstruction of anatomical pathways in connectome studies. We first introduce the background of diffusion MRI with an emphasis on the technical advances and challenges in state-of-the-art multi-shell acquisition schemes used in the Human Connectome Project. Characterization of the microstructural environment in the human brain is discussed from the tensor model to the general fiber orientation distribution (FOD) models that can resolve crossing fibers in each voxel of the image. Using FOD-based tractography, we describe novel methods for fiber bundle reconstruction and graph-based connectivity analysis. Building upon these novel developments, there have already been successful applications of connectome imaging techniques in reconstructing challenging brain pathways. Examples including retinofugal and brainstem pathways will be reviewed. Finally, we discuss future directions in connectome imaging and its interaction with other aspects of brain imaging research. PMID:28461700

Blob-enhanced reconstruction technique

NASA Astrophysics Data System (ADS)

Castrillo, Giusy; Cafiero, Gioacchino; Discetti, Stefano; Astarita, Tommaso

2016-09-01

A method to enhance the quality of the tomographic reconstruction and, consequently, the 3D velocity measurement accuracy, is presented. The technique is based on integrating information on the objects to be reconstructed within the algebraic reconstruction process. A first guess intensity distribution is produced with a standard algebraic method, then the distribution is rebuilt as a sum of Gaussian blobs, based on location, intensity and size of agglomerates of light intensity surrounding local maxima. The blobs substitution regularizes the particle shape allowing a reduction of the particles discretization errors and of their elongation in the depth direction. The performances of the blob-enhanced reconstruction technique (BERT) are assessed with a 3D synthetic experiment. The results have been compared with those obtained by applying the standard camera simultaneous multiplicative reconstruction technique (CSMART) to the same volume. Several blob-enhanced reconstruction processes, both substituting the blobs at the end of the CSMART algorithm and during the iterations (i.e. using the blob-enhanced reconstruction as predictor for the following iterations), have been tested. The results confirm the enhancement in the velocity measurements accuracy, demonstrating a reduction of the bias error due to the ghost particles. The improvement is more remarkable at the largest tested seeding densities. Additionally, using the blobs distributions as a predictor enables further improvement of the convergence of the reconstruction algorithm, with the improvement being more considerable when substituting the blobs more than once during the process. The BERT process is also applied to multi resolution (MR) CSMART reconstructions, permitting simultaneously to achieve remarkable improvements in the flow field measurements and to benefit from the reduction in computational time due to the MR approach. Finally, BERT is also tested on experimental data, obtaining an increase of the signal-to-noise ratio in the reconstructed flow field and a higher value of the correlation factor in the velocity measurements with respect to the volume to which the particles are not replaced.

Imaging Techniques for Dense 3D reconstruction of Swimming Aquatic Life using Multi-view Stereo

NASA Astrophysics Data System (ADS)

Daily, David; Kiser, Jillian; McQueen, Sarah

2016-11-01

Understanding the movement characteristics of how various species of fish swim is an important step to uncovering how they propel themselves through the water. Previous methods have focused on profile capture methods or sparse 3D manual feature point tracking. This research uses an array of 30 cameras to automatically track hundreds of points on a fish as they swim in 3D using multi-view stereo. Blacktip sharks, sting rays, puffer fish, turtles and more were imaged in collaboration with the National Aquarium in Baltimore, Maryland using the multi-view stereo technique. The processes for data collection, camera synchronization, feature point extraction, 3D reconstruction, 3D alignment, biological considerations, and lessons learned will be presented. Preliminary results of the 3D reconstructions will be shown and future research into mathematically characterizing various bio-locomotive maneuvers will be discussed.

Coarse-grained molecular dynamics simulations for giant protein-DNA complexes

NASA Astrophysics Data System (ADS)

Takada, Shoji

Biomolecules are highly hierarchic and intrinsically flexible. Thus, computational modeling calls for multi-scale methodologies. We have been developing a coarse-grained biomolecular model where on-average 10-20 atoms are grouped into one coarse-grained (CG) particle. Interactions among CG particles are tuned based on atomistic interactions and the fluctuation matching algorithm. CG molecular dynamics methods enable us to simulate much longer time scale motions of much larger molecular systems than fully atomistic models. After broad sampling of structures with CG models, we can easily reconstruct atomistic models, from which one can continue conventional molecular dynamics simulations if desired. Here, we describe our CG modeling methodology for protein-DNA complexes, together with various biological applications, such as the DNA duplication initiation complex, model chromatins, and transcription factor dynamics on chromatin-like environment.

Synergies Between ' and Cavity Formation in HT-9 Following High Dose Neutron Irradiation

DOE Office of Scientific and Technical Information (OSTI.GOV)

Field, Kevin G.; Parish, Chad M.; Saleh, Tarik A.

Candidate cladding materials for advanced nuclear power reactors including fast reactor designs require materials capable of withstanding high dose neutron irradiation at elevated temperatures. One candidate material, HT-9, through various research programs have demonstrated the ability to withstand significant swelling and other radiation-induced degradation mechanisms in the high dose regime (>50 displacements per atom, dpa) at elevated temperatures (>300 C). Here, high efficiency multi-dimensional scanning transmission electron microscopy (STEM) acquisition with the aid of a three-dimensional (3D) reconstruction and modeling technique is used to probe the microstructural features that contribute to the exceptional swelling resistance of HT-9. In particular, themore » synergies between ' and fine-scale and moderate-scale cavity formation is investigated.« less

WE-G-18A-03: Cone Artifacts Correction in Iterative Cone Beam CT Reconstruction

DOE Office of Scientific and Technical Information (OSTI.GOV)

Yan, H; Folkerts, M; Jiang, S

Purpose: For iterative reconstruction (IR) in cone-beam CT (CBCT) imaging, data truncation along the superior-inferior (SI) direction causes severe cone artifacts in the reconstructed CBCT volume images. Not only does it reduce the effective SI coverage of the reconstructed volume, it also hinders the IR algorithm convergence. This is particular a problem for regularization based IR, where smoothing type regularization operations tend to propagate the artifacts to a large area. It is our purpose to develop a practical cone artifacts correction solution. Methods: We found it is the missing data residing in the truncated cone area that leads to inconsistencymore » between the calculated forward projections and measured projections. We overcome this problem by using FDK type reconstruction to estimate the missing data and design weighting factors to compensate the inconsistency caused by the missing data. We validate the proposed methods in our multi-GPU low-dose CBCT reconstruction system on multiple patients' datasets. Results: Compared to the FDK reconstruction with full datasets, while IR is able to reconstruct CBCT images using a subset of projection data, the severe cone artifacts degrade overall image quality. For head-neck case under a full-fan mode, 13 out of 80 slices are contaminated. It is even more severe in pelvis case under half-fan mode, where 36 out of 80 slices are affected, leading to inferior soft-tissue delineation. By applying the proposed method, the cone artifacts are effectively corrected, with a mean intensity difference decreased from ∼497 HU to ∼39HU for those contaminated slices. Conclusion: A practical and effective solution for cone artifacts correction is proposed and validated in CBCT IR algorithm. This study is supported in part by NIH (1R01CA154747-01)« less

Solitons of the Kadomtsev-Petviashvili equation based on lattice Boltzmann model

NASA Astrophysics Data System (ADS)

Wang, Huimin

2017-01-01

In this paper, a lattice Boltzmann model for the Kadomtsev-Petviashvili equation is proposed. By using the Chapman-Enskog expansion and the multi-scale time expansion, a series of partial differential equations in different time scales are obtained. Due to the asymmetry in x direction and y direction of the equation, the moments of the equilibrium distribution function are selected are asymmetric. The numerical results demonstrate the lattice Boltzmann method is an effective method to simulate the solitons of the Kadomtsev-Petviashvili equation.

Shaped versus Round Implants in Breast Reconstruction: A Multi-Institutional Comparison of Surgical and Patient-Reported Outcomes.

PubMed

Khavanin, Nima; Clemens, Mark W; Pusic, Andrea L; Fine, Neil A; Hamill, Jennifer B; Kim, H Myra; Qi, Ji; Wilkins, Edwin G; Kim, John Y S

2017-05-01

Since the 2012 approval of shaped implants, their use in breast reconstruction has increased in the United States. However, large-scale comparisons of complications and patient-reported outcomes are lacking. The authors endeavored to compare surgical and patient-reported outcomes across implant types. The Mastectomy Reconstruction Outcomes Consortium database was queried for expander/implant reconstructions with at least 1-year postexchange follow-up (mean, 18.5 months). Outcomes of interest included postoperative complications, 1-year revisions, and patient-reported outcomes. Bivariate and mixed-effects regression analyses evaluated the effect of implant type on patient outcomes. Overall, 822 patients (73.5 percent) received round and 297 patients (26.5 percent) received shaped implants. Patients undergoing unilateral reconstructions with round implants underwent more contralateral symmetry procedures, including augmentations (round, 18.7 percent; shaped, 6.8 percent; p = 0.003) and reductions (round, 32.2 percent; shaped, 20.5 percent; p = 0.019). Shaped implants were associated with higher rates of infection (shaped, 6.1 percent; round, 2.3 percent; p = 0.002), that remained significant after multivariable adjustment. Other complication rates did not differ significantly between cohorts. Round and shaped implants experienced similar 2-year patient-reported outcome scores. This prospective, multicenter study is the largest evaluating outcomes of shaped versus round implants in breast reconstruction. Although recipients of round implants demonstrated lower infection rates compared with shaped implants, these patients were more likely to undergo contralateral symmetry procedures. Both implant types yielded comparable patient-reported outcome scores. With appropriate patient selection, both shaped and round implants can provide acceptable outcomes in breast reconstruction. Therapeutic, III.

Multi-resolution statistical image reconstruction for mitigation of truncation effects: application to cone-beam CT of the head

NASA Astrophysics Data System (ADS)

Dang, Hao; Webster Stayman, J.; Sisniega, Alejandro; Zbijewski, Wojciech; Xu, Jennifer; Wang, Xiaohui; Foos, David H.; Aygun, Nafi; Koliatsos, Vassilis E.; Siewerdsen, Jeffrey H.

2017-01-01

A prototype cone-beam CT (CBCT) head scanner featuring model-based iterative reconstruction (MBIR) has been recently developed and demonstrated the potential for reliable detection of acute intracranial hemorrhage (ICH), which is vital to diagnosis of traumatic brain injury and hemorrhagic stroke. However, data truncation (e.g. due to the head holder) can result in artifacts that reduce image uniformity and challenge ICH detection. We propose a multi-resolution MBIR method with an extended reconstruction field of view (RFOV) to mitigate truncation effects in CBCT of the head. The image volume includes a fine voxel size in the (inner) nontruncated region and a coarse voxel size in the (outer) truncated region. This multi-resolution scheme allows extension of the RFOV to mitigate truncation effects while introducing minimal increase in computational complexity. The multi-resolution method was incorporated in a penalized weighted least-squares (PWLS) reconstruction framework previously developed for CBCT of the head. Experiments involving an anthropomorphic head phantom with truncation due to a carbon-fiber holder were shown to result in severe artifacts in conventional single-resolution PWLS, whereas extending the RFOV within the multi-resolution framework strongly reduced truncation artifacts. For the same extended RFOV, the multi-resolution approach reduced computation time compared to the single-resolution approach (viz. time reduced by 40.7%, 83.0%, and over 95% for an image volume of 6003, 8003, 10003 voxels). Algorithm parameters (e.g. regularization strength, the ratio of the fine and coarse voxel size, and RFOV size) were investigated to guide reliable parameter selection. The findings provide a promising method for truncation artifact reduction in CBCT and may be useful for other MBIR methods and applications for which truncation is a challenge.

Evaluating the Performance of the Goddard Multi-Scale Modeling Framework against GPM, TRMM and CloudSat/CALIPSO Products

NASA Astrophysics Data System (ADS)

Chern, J. D.; Tao, W. K.; Lang, S. E.; Matsui, T.; Mohr, K. I.

2014-12-01

Four six-month (March-August 2014) experiments with the Goddard Multi-scale Modeling Framework (MMF) were performed to study the impacts of different Goddard one-moment bulk microphysical schemes and large-scale forcings on the performance of the MMF. Recently a new Goddard one-moment bulk microphysics with four-ice classes (cloud ice, snow, graupel, and frozen drops/hail) has been developed based on cloud-resolving model simulations with large-scale forcings from field campaign observations. The new scheme has been successfully implemented to the MMF and two MMF experiments were carried out with this new scheme and the old three-ice classes (cloud ice, snow graupel) scheme. The MMF has global coverage and can rigorously evaluate microphysics performance for different cloud regimes. The results show MMF with the new scheme outperformed the old one. The MMF simulations are also strongly affected by the interaction between large-scale and cloud-scale processes. Two MMF sensitivity experiments with and without nudging large-scale forcings to those of ERA-Interim reanalysis were carried out to study the impacts of large-scale forcings. The model simulated mean and variability of surface precipitation, cloud types, cloud properties such as cloud amount, hydrometeors vertical profiles, and cloud water contents, etc. in different geographic locations and climate regimes are evaluated against GPM, TRMM, CloudSat/CALIPSO satellite observations. The Goddard MMF has also been coupled with the Goddard Satellite Data Simulation Unit (G-SDSU), a system with multi-satellite, multi-sensor, and multi-spectrum satellite simulators. The statistics of MMF simulated radiances and backscattering can be directly compared with satellite observations to assess the strengths and/or deficiencies of MMF simulations and provide guidance on how to improve the MMF and microphysics.

Single and Multiple Object Tracking Using a Multi-Feature Joint Sparse Representation.

PubMed

Hu, Weiming; Li, Wei; Zhang, Xiaoqin; Maybank, Stephen

2015-04-01

In this paper, we propose a tracking algorithm based on a multi-feature joint sparse representation. The templates for the sparse representation can include pixel values, textures, and edges. In the multi-feature joint optimization, noise or occlusion is dealt with using a set of trivial templates. A sparse weight constraint is introduced to dynamically select the relevant templates from the full set of templates. A variance ratio measure is adopted to adaptively adjust the weights of different features. The multi-feature template set is updated adaptively. We further propose an algorithm for tracking multi-objects with occlusion handling based on the multi-feature joint sparse reconstruction. The observation model based on sparse reconstruction automatically focuses on the visible parts of an occluded object by using the information in the trivial templates. The multi-object tracking is simplified into a joint Bayesian inference. The experimental results show the superiority of our algorithm over several state-of-the-art tracking algorithms.

The future of human cerebral cartography: a novel approach

PubMed Central

Frackowiak, Richard; Markram, Henry

2015-01-01

Cerebral cartography can be understood in a limited, static, neuroanatomical sense. Temporal information from electrical recordings contributes information on regional interactions adding a functional dimension. Selective tagging and imaging of molecules adds biochemical contributions. Cartographic detail can also be correlated with normal or abnormal psychological or behavioural data. Modern cerebral cartography is assimilating all these elements. Cartographers continue to collect ever more precise data in the hope that general principles of organization will emerge. However, even detailed cartographic data cannot generate knowledge without a multi-scale framework making it possible to relate individual observations and discoveries. We propose that, in the next quarter century, advances in cartography will result in progressively more accurate drafts of a data-led, multi-scale model of human brain structure and function. These blueprints will result from analysis of large volumes of neuroscientific and clinical data, by a process of reconstruction, modelling and simulation. This strategy will capitalize on remarkable recent developments in informatics and computer science and on the existence of much existing, addressable data and prior, though fragmented, knowledge. The models will instantiate principles that govern how the brain is organized at different levels and how different spatio-temporal scales relate to each other in an organ-centred context. PMID:25823868

SU-F-I-10: Spatially Local Statistics for Adaptive Image Filtering

DOE Office of Scientific and Technical Information (OSTI.GOV)

Iliopoulos, AS; Sun, X; Floros, D

Purpose: To facilitate adaptive image filtering operations, addressing spatial variations in both noise and signal. Such issues are prevalent in cone-beam projections, where physical effects such as X-ray scattering result in spatially variant noise, violating common assumptions of homogeneous noise and challenging conventional filtering approaches to signal extraction and noise suppression. Methods: We present a computational mechanism for probing into and quantifying the spatial variance of noise throughout an image. The mechanism builds a pyramid of local statistics at multiple spatial scales; local statistical information at each scale includes (weighted) mean, median, standard deviation, median absolute deviation, as well asmore » histogram or dynamic range after local mean/median shifting. Based on inter-scale differences of local statistics, the spatial scope of distinguishable noise variation is detected in a semi- or un-supervised manner. Additionally, we propose and demonstrate the incorporation of such information in globally parametrized (i.e., non-adaptive) filters, effectively transforming the latter into spatially adaptive filters. The multi-scale mechanism is materialized by efficient algorithms and implemented in parallel CPU/GPU architectures. Results: We demonstrate the impact of local statistics for adaptive image processing and analysis using cone-beam projections of a Catphan phantom, fitted within an annulus to increase X-ray scattering. The effective spatial scope of local statistics calculations is shown to vary throughout the image domain, necessitating multi-scale noise and signal structure analysis. Filtering results with and without spatial filter adaptation are compared visually, illustrating improvements in imaging signal extraction and noise suppression, and in preserving information in low-contrast regions. Conclusion: Local image statistics can be incorporated in filtering operations to equip them with spatial adaptivity to spatial signal/noise variations. An efficient multi-scale computational mechanism is developed to curtail processing latency. Spatially adaptive filtering may impact subsequent processing tasks such as reconstruction and numerical gradient computations for deformable registration. NIH Grant No. R01-184173.« less

A scanning tunnelling microscopy study of C and N adsorption phases on the vicinal Ni(100) surfaces Ni(810) and Ni(911)

NASA Astrophysics Data System (ADS)

Driver, S. M.; Toomes, R. L.; Woodruff, D. P.

2016-04-01

The influence of N and C chemisorption on the morphology and local structure of nominal Ni(810) and Ni(911) surfaces, both vicinal to (100) but with [001] and [ 01 1 bar ] step directions, respectively, has been investigated using scanning tunnelling microscopy (STM) and low energy electron diffraction. Ni(911) undergoes substantial step bunching in the presence of both adsorbates, with the (911)/N surface showing (411) facets, whereas for Ni(810), multiple steps 2-4 layers high are more typical. STM atomic-scale images show the (2 × 2)pg 'clock' reconstruction on the (100) terraces of the (810) surfaces with both C and N, although a second c(2 × 2) structure, most readily reconciled with a 'rumpling' reconstruction, is also seen on Ni(810)/N. On Ni(911), the clock reconstruction is not seen on the (100) terraces with either adsorbate, and these images are typified by protrusions on a (1 × 1) mesh. This absence of clock reconstruction is attributed to the different constraints imposed on the lateral movements of the surface Ni atoms adjacent to the up-step edge of the terraces with a [ 01 1 bar ] step direction.

Overview of 3D-TRACE, a NASA Initiative in Three-Dimensional Tomography of the Aerosol-Cloud Environment

NASA Astrophysics Data System (ADS)

Davis, Anthony; Diner, David; Yanovsky, Igor; Garay, Michael; Xu, Feng; Bal, Guillaume; Schechner, Yoav; Aides, Amit; Qu, Zheng; Emde, Claudia

2013-04-01

Remote sensing is a key tool for sorting cloud ensembles by dynamical state, aerosol environments by source region, and establishing causal relationships between aerosol amounts, type, and cloud microphysics-the so-called indirect aerosol climate impacts, and one of the main sources of uncertainty in current climate models. Current satellite imagers use data processing approaches that invariably start with cloud detection/masking to isolate aerosol air-masses from clouds, and then rely on one-dimensional (1D) radiative transfer (RT) to interpret the aerosol and cloud measurements in isolation. Not only does this lead to well-documented biases for the estimates of aerosol radiative forcing and cloud optical depths in current missions, but it is fundamentally inadequate for future missions such as EarthCARE where capturing the complex, three-dimensional (3D) interactions between clouds and aerosols is a primary objective. In order to advance the state of the art, the next generation of satellite information processing systems must incorporate technologies that will enable the treatment of the atmosphere as a fully 3D environment, represented more realistically as a continuum. At one end, there is an optically thin background dominated by aerosols and molecular scattering that is strongly stratified and relatively homogeneous in the horizontal. At the other end, there are optically thick embedded elements, clouds and aerosol plumes, which can be more or less uniform and quasi-planar or else highly 3D with boundaries in all directions; in both cases, strong internal variability may be present. To make this paradigm shift possible, we propose to combine the standard models for satellite signal prediction physically grounded in 1D and 3D RT, both scalar and vector, with technologies adapted from biomedical imaging, digital image processing, and computer vision. This will enable us to demonstrate how the 3D distribution of atmospheric constituents, and their associated microphysical properties, can be reconstructed from multi-angle/multi-spectral imaging radiometry and, more and more, polarimetry. Specific technologies of interest are computed tomography (reconstruction from projections), optical tomography (using cross-pixel radiation transport in the diffusion limit), stereoscopy (depth/height retrievals), blind source and scale separation (signal unmixing), and disocclusion (information recovery in the presence of obstructions). Later on, these potentially powerful inverse problem solutions will be fully integrated in a versatile satellite data analysis toolbox. At present, we can report substantial progress at the component level. Specifically, we will focus on the most elementary problems in atmospheric tomography with an emphasis on the vastly under-exploited class of multi-pixel techniques. One basic problem is to infer the outer shape and mean opacity of 3D clouds, along with a bulk measure of cloud particle size. Another is to separate high and low cloud layers based on their characteristically different spatial textures. Yet another is to reconstruct the 3D spatial distribution of aerosol density based on passive imaging. This suite of independent feasibility studies amounts to a compelling proofof- concept for the ambitious 3D-Tomographic Reconstruction of the Aerosol-Cloud Environment (3D-TRACE) project as a whole.

Satellite measurements reveal strong anisotropy in spatial coherence of climate variations over the Tibet Plateau.

PubMed

Chen, Deliang; Tian, Yudong; Yao, Tandong; Ou, Tinghai

2016-08-24

This study uses high-resolution, long-term satellite observations to evaluate the spatial scales of the climate variations across the Tibet Plateau (TP). Both land surface temperature and precipitation observations of more than 10 years were analysed with a special attention to eight existing ice-core sites in the TP. The temporal correlation for the monthly or annual anomalies between any two points decreases exponentially with their spatial distance, and we used the e-folding decay constant to quantify the spatial scales. We found that the spatial scales are strongly direction-dependent, with distinctive patterns in the west-east and south-north orientations, for example. Meanwhile, in the same directions the scales are largely symmetric backward and forward. Focusing on the west-east and south-north directions, we found the spatial coherence in the first is generally stronger than in the second. The annual surface temperature had typical spatial scales of 302-480 km, while the annual precipitation showed smaller scales of 111-182 km. The majority of the eight ice-core sites exhibit scales much smaller than the typical scales over the TP as a whole. These results provide important observational basis for the selection of appropriate downscaling strategies, deployment of climate-data collection networks, and interpreting paleoclimate reconstructions.

Satellite measurements reveal strong anisotropy in spatial coherence of climate variations over the Tibet Plateau

NASA Astrophysics Data System (ADS)

Chen, Deliang; Tian, Yudong; Yao, Tandong; Ou, Tinghai

2016-08-01

This study uses high-resolution, long-term satellite observations to evaluate the spatial scales of the climate variations across the Tibet Plateau (TP). Both land surface temperature and precipitation observations of more than 10 years were analysed with a special attention to eight existing ice-core sites in the TP. The temporal correlation for the monthly or annual anomalies between any two points decreases exponentially with their spatial distance, and we used the e-folding decay constant to quantify the spatial scales. We found that the spatial scales are strongly direction-dependent, with distinctive patterns in the west-east and south-north orientations, for example. Meanwhile, in the same directions the scales are largely symmetric backward and forward. Focusing on the west-east and south-north directions, we found the spatial coherence in the first is generally stronger than in the second. The annual surface temperature had typical spatial scales of 302-480 km, while the annual precipitation showed smaller scales of 111-182 km. The majority of the eight ice-core sites exhibit scales much smaller than the typical scales over the TP as a whole. These results provide important observational basis for the selection of appropriate downscaling strategies, deployment of climate-data collection networks, and interpreting paleoclimate reconstructions.

Satellite measurements reveal strong anisotropy in spatial coherence of climate variations over the Tibet Plateau

PubMed Central

Chen, Deliang; Tian, Yudong; Yao, Tandong; Ou, Tinghai

2016-01-01

This study uses high-resolution, long-term satellite observations to evaluate the spatial scales of the climate variations across the Tibet Plateau (TP). Both land surface temperature and precipitation observations of more than 10 years were analysed with a special attention to eight existing ice-core sites in the TP. The temporal correlation for the monthly or annual anomalies between any two points decreases exponentially with their spatial distance, and we used the e-folding decay constant to quantify the spatial scales. We found that the spatial scales are strongly direction-dependent, with distinctive patterns in the west-east and south-north orientations, for example. Meanwhile, in the same directions the scales are largely symmetric backward and forward. Focusing on the west-east and south-north directions, we found the spatial coherence in the first is generally stronger than in the second. The annual surface temperature had typical spatial scales of 302–480 km, while the annual precipitation showed smaller scales of 111–182 km. The majority of the eight ice-core sites exhibit scales much smaller than the typical scales over the TP as a whole. These results provide important observational basis for the selection of appropriate downscaling strategies, deployment of climate-data collection networks, and interpreting paleoclimate reconstructions. PMID:27553388

Numerical modeling of macrodispersion in heterogeneous media: a comparison of multi-Gaussian and non-multi-Gaussian models

NASA Astrophysics Data System (ADS)

Wen, Xian-Huan; Gómez-Hernández, J. Jaime

1998-03-01

The macrodispersion of an inert solute in a 2-D heterogeneous porous media is estimated numerically in a series of fields of varying heterogeneity. Four different random function (RF) models are used to model log-transmissivity (ln T) spatial variability, and for each of these models, ln T variance is varied from 0.1 to 2.0. The four RF models share the same univariate Gaussian histogram and the same isotropic covariance, but differ from one another in terms of the spatial connectivity patterns at extreme transmissivity values. More specifically, model A is a multivariate Gaussian model for which, by definition, extreme values (both high and low) are spatially uncorrelated. The other three models are non-multi-Gaussian: model B with high connectivity of high extreme values, model C with high connectivity of low extreme values, and model D with high connectivities of both high and low extreme values. Residence time distributions (RTDs) and macrodispersivities (longitudinal and transverse) are computed on ln T fields corresponding to the different RF models, for two different flow directions and at several scales. They are compared with each other, as well as with predicted values based on first-order analytical results. Numerically derived RTDs and macrodispersivities for the multi-Gaussian model are in good agreement with analytically derived values using first-order theories for log-transmissivity variance up to 2.0. The results from the non-multi-Gaussian models differ from each other and deviate largely from the multi-Gaussian results even when ln T variance is small. RTDs in non-multi-Gaussian realizations with high connectivity at high extreme values display earlier breakthrough than in multi-Gaussian realizations, whereas later breakthrough and longer tails are observed for RTDs from non-multi-Gaussian realizations with high connectivity at low extreme values. Longitudinal macrodispersivities in the non-multi-Gaussian realizations are, in general, larger than in the multi-Gaussian ones, while transverse macrodispersivities in the non-multi-Gaussian realizations can be larger or smaller than in the multi-Gaussian ones depending on the type of connectivity at extreme values. Comparing the numerical results for different flow directions, it is confirmed that macrodispersivities in multi-Gaussian realizations with isotropic spatial correlation are not flow direction-dependent. Macrodispersivities in the non-multi-Gaussian realizations, however, are flow direction-dependent although the covariance of ln T is isotropic (the same for all four models). It is important to account for high connectivities at extreme transmissivity values, a likely situation in some geological formations. Some of the discrepancies between first-order-based analytical results and field-scale tracer test data may be due to the existence of highly connected paths of extreme conductivity values.

Multi-scale kinetic description of granular clusters: invariance, balance, and temperature

NASA Astrophysics Data System (ADS)

Capriz, Gianfranco; Mariano, Paolo Maria

2017-12-01

We discuss a multi-scale continuum representation of bodies made of several mass particles flowing independently each other. From an invariance procedure and a nonstandard balance of inertial actions, we derive the balance equations introduced in earlier work directly in pointwise form, essentially on the basis of physical plausibility. In this way, we analyze their foundations. Then, we propose a Boltzmann-type equation for the distribution of kinetic energies within control volumes in space and indicate how such a distribution allows us to propose a definition of (granular) temperature along processes far from equilibrium.

Multi-time-scale hydroclimate dynamics of a regional watershed and links to large-scale atmospheric circulation: Application to the Seine river catchment, France

NASA Astrophysics Data System (ADS)

Massei, N.; Dieppois, B.; Hannah, D. M.; Lavers, D. A.; Fossa, M.; Laignel, B.; Debret, M.

2017-03-01

In the present context of global changes, considerable efforts have been deployed by the hydrological scientific community to improve our understanding of the impacts of climate fluctuations on water resources. Both observational and modeling studies have been extensively employed to characterize hydrological changes and trends, assess the impact of climate variability or provide future scenarios of water resources. In the aim of a better understanding of hydrological changes, it is of crucial importance to determine how and to what extent trends and long-term oscillations detectable in hydrological variables are linked to global climate oscillations. In this work, we develop an approach associating correlation between large and local scales, empirical statistical downscaling and wavelet multiresolution decomposition of monthly precipitation and streamflow over the Seine river watershed, and the North Atlantic sea level pressure (SLP) in order to gain additional insights on the atmospheric patterns associated with the regional hydrology. We hypothesized that: (i) atmospheric patterns may change according to the different temporal wavelengths defining the variability of the signals; and (ii) definition of those hydrological/circulation relationships for each temporal wavelength may improve the determination of large-scale predictors of local variations. The results showed that the links between large and local scales were not necessarily constant according to time-scale (i.e. for the different frequencies characterizing the signals), resulting in changing spatial patterns across scales. This was then taken into account by developing an empirical statistical downscaling (ESD) modeling approach, which integrated discrete wavelet multiresolution analysis for reconstructing monthly regional hydrometeorological processes (predictand: precipitation and streamflow on the Seine river catchment) based on a large-scale predictor (SLP over the Euro-Atlantic sector). This approach basically consisted in three steps: 1 - decomposing large-scale climate and hydrological signals (SLP field, precipitation or streamflow) using discrete wavelet multiresolution analysis, 2 - generating a statistical downscaling model per time-scale, 3 - summing up all scale-dependent models in order to obtain a final reconstruction of the predictand. The results obtained revealed a significant improvement of the reconstructions for both precipitation and streamflow when using the multiresolution ESD model instead of basic ESD. In particular, the multiresolution ESD model handled very well the significant changes in variance through time observed in either precipitation or streamflow. For instance, the post-1980 period, which had been characterized by particularly high amplitudes in interannual-to-interdecadal variability associated with alternating flood and extremely low-flow/drought periods (e.g., winter/spring 2001, summer 2003), could not be reconstructed without integrating wavelet multiresolution analysis into the model. In accordance with previous studies, the wavelet components detected in SLP, precipitation and streamflow on interannual to interdecadal time-scales could be interpreted in terms of influence of the Gulf-Stream oceanic front on atmospheric circulation.

A protocol for generating a high-quality genome-scale metabolic reconstruction.

PubMed

Thiele, Ines; Palsson, Bernhard Ø

2010-01-01

Network reconstructions are a common denominator in systems biology. Bottom-up metabolic network reconstructions have been developed over the last 10 years. These reconstructions represent structured knowledge bases that abstract pertinent information on the biochemical transformations taking place within specific target organisms. The conversion of a reconstruction into a mathematical format facilitates a myriad of computational biological studies, including evaluation of network content, hypothesis testing and generation, analysis of phenotypic characteristics and metabolic engineering. To date, genome-scale metabolic reconstructions for more than 30 organisms have been published and this number is expected to increase rapidly. However, these reconstructions differ in quality and coverage that may minimize their predictive potential and use as knowledge bases. Here we present a comprehensive protocol describing each step necessary to build a high-quality genome-scale metabolic reconstruction, as well as the common trials and tribulations. Therefore, this protocol provides a helpful manual for all stages of the reconstruction process.

A protocol for generating a high-quality genome-scale metabolic reconstruction

PubMed Central

Thiele, Ines; Palsson, Bernhard Ø.

2011-01-01

Network reconstructions are a common denominator in systems biology. Bottom-up metabolic network reconstructions have developed over the past 10 years. These reconstructions represent structured knowledge-bases that abstract pertinent information on the biochemical transformations taking place within specific target organisms. The conversion of a reconstruction into a mathematical format facilitates myriad computational biological studies including evaluation of network content, hypothesis testing and generation, analysis of phenotypic characteristics, and metabolic engineering. To date, genome-scale metabolic reconstructions for more than 30 organisms have been published and this number is expected to increase rapidly. However, these reconstructions differ in quality and coverage that may minimize their predictive potential and use as knowledge-bases. Here, we present a comprehensive protocol describing each step necessary to build a high-quality genome-scale metabolic reconstruction as well as common trials and tribulations. Therefore, this protocol provides a helpful manual for all stages of the reconstruction process. PMID:20057383

The Reconstruction Toolkit (RTK), an open-source cone-beam CT reconstruction toolkit based on the Insight Toolkit (ITK)

NASA Astrophysics Data System (ADS)

Rit, S.; Vila Oliva, M.; Brousmiche, S.; Labarbe, R.; Sarrut, D.; Sharp, G. C.

2014-03-01

We propose the Reconstruction Toolkit (RTK, http://www.openrtk.org), an open-source toolkit for fast cone-beam CT reconstruction, based on the Insight Toolkit (ITK) and using GPU code extracted from Plastimatch. RTK is developed by an open consortium (see affiliations) under the non-contaminating Apache 2.0 license. The quality of the platform is daily checked with regression tests in partnership with Kitware, the company supporting ITK. Several features are already available: Elekta, Varian and IBA inputs, multi-threaded Feldkamp-David-Kress reconstruction on CPU and GPU, Parker short scan weighting, multi-threaded CPU and GPU forward projectors, etc. Each feature is either accessible through command line tools or C++ classes that can be included in independent software. A MIDAS community has been opened to share CatPhan datasets of several vendors (Elekta, Varian and IBA). RTK will be used in the upcoming cone-beam CT scanner developed by IBA for proton therapy rooms. Many features are under development: new input format support, iterative reconstruction, hybrid Monte Carlo / deterministic CBCT simulation, etc. RTK has been built to freely share tomographic reconstruction developments between researchers and is open for new contributions.

Capturing molecular multimode relaxation processes in excitable gases based on decomposition of acoustic relaxation spectra

NASA Astrophysics Data System (ADS)

Zhu, Ming; Liu, Tingting; Wang, Shu; Zhang, Kesheng

2017-08-01

Existing two-frequency reconstructive methods can only capture primary (single) molecular relaxation processes in excitable gases. In this paper, we present a reconstructive method based on the novel decomposition of frequency-dependent acoustic relaxation spectra to capture the entire molecular multimode relaxation process. This decomposition of acoustic relaxation spectra is developed from the frequency-dependent effective specific heat, indicating that a multi-relaxation process is the sum of the interior single-relaxation processes. Based on this decomposition, we can reconstruct the entire multi-relaxation process by capturing the relaxation times and relaxation strengths of N interior single-relaxation processes, using the measurements of acoustic absorption and sound speed at 2N frequencies. Experimental data for the gas mixtures CO2-N2 and CO2-O2 validate our decomposition and reconstruction approach.

Scaling of plasma-body interactions in low Earth orbit

NASA Astrophysics Data System (ADS)

Capon, C. J.; Brown, M.; Boyce, R. R.

2017-04-01

This paper derives the generalised set of dimensionless parameters that scale the interaction of an unmagnetised multi-species plasma with an arbitrarily charged object - the application in this work being to the interaction of the ionosphere with Low Earth Orbiting (LEO) objects. We find that a plasma with K ion species can be described by 1 + 4 K independent dimensionless parameters. These parameters govern the deflection and coupling of ion species k , the relative electrical shielding of the body, electron energy, and scaling of temporal effects. The general shielding length λ ϕ is introduced, which reduces to the Debye length in the high-temperature (weakly coupled) limit. The ability of the scaling parameters to predict the self-similar transformations of single and multi-species plasma interactions is demonstrated numerically using pdFOAM, an electrostatic Particle-in-Cell—Direct Simulation Monte Carlo code. The presented scaling relationships represent a significant generalisation of past work, linking low and high voltage plasma phenomena. Further, the presented parameters capture the scaling of multi-species plasmas with multiply charged ions, demonstrating previously unreported scaling relationship transformations. The implications of this work are not limited to LEO plasma-body interactions but apply to processes governed by the Vlasov-Maxwell equations and represent a framework upon which to incorporate the scaling of additional phenomena, e.g., magnetism and charging.

Imaging reconstruction for infrared interferometry: first images of YSOs environment

NASA Astrophysics Data System (ADS)

Renard, S.; Malbet, F.; Thiébaut, E.; Berger, J.-P.

2008-07-01

The study of protoplanetary disks, where the planets are believed to form, will certainly allow the formation of our Solar System to be understood. To conduct observations of these objects at the milli-arcsecond scale, infrared interferometry provides the right performances for T Tauri, FU Ori or Herbig Ae/Be stars. However, the only information obtained so far are scarce visibility measurements which are directly tested with models. With the outcome of recent interferometers, one can foresee obtaining images reconstructed independently of the models. In fact, several interferometers including IOTA and AMBER on the VLTI already provide the possibility to recombine three telescopes at once and thus to obtain the data necessary to reconstruct images. In this paper, we describe the use of MIRA, an image reconstruction algorithm developed for optical interferometry data (squared visibilities and closure phases) by E. Thiébaut. We foresee also to use the spectral information given by AMBER data to constrain even better the reconstructed images. We describe the use of MIRA to reconstruct images of young stellar objects out of actual data, in particular the multiple system GW Orionis (IOTA, 2004), and discuss the encountered difficulties.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Patterson, Ryan; Backhouse, Christopher; Bays, Kirk

The NOvA long-baseline neutrino experiment uses a fine-grained, low-Z, fully active detector that offers unprecedented electron neutrino identification capabilities for a detector of its scale. In this award’s proposal, the PI outlined the development and implementation of novel techniques for channel readout, detector calibration, and event reconstruction that make full use of the strengths of the NOvA detector technology. In particular, this included designing custom event reconstruction algorithms that utilize the rich information available in the substructure of hadronic and electromagnetic showers. Exploiting this information provides not only substantial improvement in background rejection for the electron neutrino search but alsomore » better shower energy resolution (improving the precision on measured oscillation parameters) and a high-energy electromagnetic calibration source (through neutral pion events). The PI further proposed developing and deploying a new electronics readout scheme compatible with the existing hardware that can reduce near detector event pile-up and can offer powerful timing information to the reconstruction, allowing for cosmic ray muon tagging via track direction determination, among other things. In conjunction with the above, the PI proposed leading the calibration of the NOvA detectors, including characterizing individual electronics channels, correcting for spatial variations across the detector, and establishing absolute event energy scales. All three of these lines of effort have been successfully completed, feeding directly into the NOvA’s recent exciting neutrino oscillation results. The techniques developed under this award are detailed in this final technical report.« less

Positron emission imaging device and method of using the same

DOEpatents

Bingham, Philip R.; Mullens, James Allen

2013-01-15

An imaging system and method of imaging are disclosed. The imaging system can include an external radiation source producing pairs of substantially simultaneous radiation emissions of a picturization emission and a verification emissions at an emission angle. The imaging system can also include a plurality of picturization sensors and at least one verification sensor for detecting the picturization and verification emissions, respectively. The imaging system also includes an object stage is arranged such that a picturization emission can pass through an object supported on said object stage before being detected by one of said plurality of picturization sensors. A coincidence system and a reconstruction system can also be included. The coincidence can receive information from the picturization and verification sensors and determine whether a detected picturization emission is direct radiation or scattered radiation. The reconstruction system can produce a multi-dimensional representation of an object imaged with the imaging system.

Decoding the spatial signatures of multi-scale climate variability - a climate network perspective

NASA Astrophysics Data System (ADS)

Donner, R. V.; Jajcay, N.; Wiedermann, M.; Ekhtiari, N.; Palus, M.

2017-12-01

During the last years, the application of complex networks as a versatile tool for analyzing complex spatio-temporal data has gained increasing interest. Establishing this approach as a new paradigm in climatology has already provided valuable insights into key spatio-temporal climate variability patterns across scales, including novel perspectives on the dynamics of the El Nino Southern Oscillation or the emergence of extreme precipitation patterns in monsoonal regions. In this work, we report first attempts to employ network analysis for disentangling multi-scale climate variability. Specifically, we introduce the concept of scale-specific climate networks, which comprises a sequence of networks representing the statistical association structure between variations at distinct time scales. For this purpose, we consider global surface air temperature reanalysis data and subject the corresponding time series at each grid point to a complex-valued continuous wavelet transform. From this time-scale decomposition, we obtain three types of signals per grid point and scale - amplitude, phase and reconstructed signal, the statistical similarity of which is then represented by three complex networks associated with each scale. We provide a detailed analysis of the resulting connectivity patterns reflecting the spatial organization of climate variability at each chosen time-scale. Global network characteristics like transitivity or network entropy are shown to provide a new view on the (global average) relevance of different time scales in climate dynamics. Beyond expected trends originating from the increasing smoothness of fluctuations at longer scales, network-based statistics reveal different degrees of fragmentation of spatial co-variability patterns at different scales and zonal shifts among the key players of climate variability from tropically to extra-tropically dominated patterns when moving from inter-annual to decadal scales and beyond. The obtained results demonstrate the potential usefulness of systematically exploiting scale-specific climate networks, whose general patterns are in line with existing climatological knowledge, but provide vast opportunities for further quantifications at local, regional and global scales that are yet to be explored.

Reconstruction of Horizontal Plasma Motions at the Photosphere from Intensitygrams: A Comparison Between DeepVel, LCT, FLCT, and CST

NASA Astrophysics Data System (ADS)

Tremblay, Benoit; Roudier, Thierry; Rieutord, Michel; Vincent, Alain

2018-04-01

Direct measurements of plasma motions in the photosphere are limited to the line-of-sight component of the velocity. Several algorithms have therefore been developed to reconstruct the transverse components from observed continuum images or magnetograms. We compare the space and time averages of horizontal velocity fields in the photosphere inferred from pairs of consecutive intensitygrams by the LCT, FLCT, and CST methods and the DeepVel neural network in order to identify the method that is best suited for generating synthetic observations to be used for data assimilation. The Stein and Nordlund ( Astrophys. J. Lett. 753, L13, 2012) magnetoconvection simulation is used to generate synthetic SDO/HMI intensitygrams and reference flows to train DeepVel. Inferred velocity fields show that DeepVel performs best at subgranular and granular scales and is second only to FLCT at mesogranular and supergranular scales.

Pain and brachial plexus lesions: evaluation of initial outcomes after reconstructive microsurgery and validation of a new pain severity scale.

PubMed

Bonilla, Gonzalo; Di Masi, Gilda; Battaglia, Danilo; Otero, José María; Socolovsky, Mariano

2011-01-01

Peripheral nerve lesions usually are associated with neuropathic pain. In the present paper, we describe a simple scale to quantify pain after brachial plexus injuries and apply this scale to a series of patients to determine initial outcomes after reconstructive surgery. Fifty-one patients with traumatic brachial plexus avulsion injuries were treated over the period of one calendar year at one center by the same surgical team. Of these, 28 patients who were available for follow-up reported some degree of neuropathic pain radiating towards the hand or forearm and underwent reconstructive microsurgery and direct pain management, including trunk and nerve neurolysis and repair. A special pain severity rating scale was developed and used to assess patients' pain before and after surgery, over a minimum follow-up of 6 months. An independent researcher, not part of the surgical team, performed all pre- and postoperative evaluations. Of the 28 patients with brachial plexus traction injuries who met eligibility criteria, 93% were male, and most were young (mean age, 27.6 years). The mean preoperative severity of pain using our scale was 30.9 out of a maximum of 37 (± 0.76 SD), which fell to a mean of 6.9 (± 0.68 SD) 6 months post-procedure. On average, pain declined by 78% across the whole series, a decline that was statistically significant (p < .001). Subset analysis revealed similar improvements across all the different parameters of pain. We have designed and tested a simple and reliable method by which to quantify neuropathic pain after traumatic brachial plexus injuries. Initial surgical treatment of the paralysis--including nerve, trunk and root reconstruction, and neurolysis--comprises an effective means by which to initially treat neuropathic pain. Ablative or neuromodulative procedures, like dorsal root entry zone, should be reserved for refractory cases.

Ultrasonic guided wave tomography of pipes: A development of new techniques for the nondestructive evaluation of cylindrical geometries and guided wave multi-mode analysis

NASA Astrophysics Data System (ADS)

Leonard, Kevin Raymond

This dissertation concentrates on the development of two new tomographic techniques that enable wide-area inspection of pipe-like structures. By envisioning a pipe as a plate wrapped around upon itself, the previous Lamb Wave Tomography (LWT) techniques are adapted to cylindrical structures. Helical Ultrasound Tomography (HUT) uses Lamb-like guided wave modes transmitted and received by two circumferential arrays in a single crosshole geometry. Meridional Ultrasound Tomography (MUT) creates the same crosshole geometry with a linear array of transducers along the axis of the cylinder. However, even though these new scanning geometries are similar to plates, additional complexities arise because they are cylindrical structures. First, because it is a single crosshole geometry, the wave vector coverage is poorer than in the full LWT system. Second, since waves can travel in both directions around the circumference of the pipe, modes can also constructively and destructively interfere with each other. These complexities necessitate improved signal processing algorithms to produce accurate and unambiguous tomographic reconstructions. Consequently, this work also describes a new algorithm for improving the extraction of multi-mode arrivals from guided wave signals. Previous work has relied solely on the first arriving mode for the time-of-flight measurements. In order to improve the LWT, HUT and MUT systems reconstructions, improved signal processing methods are needed to extract information about the arrival times of the later arriving modes. Because each mode has different through-thickness displacement values, they are sensitive to different types of flaws, and the information gained from the multi-mode analysis improves understanding of the structural integrity of the inspected material. Both tomographic frequency compounding and mode sorting algorithms are introduced. It is also shown that each of these methods improve the reconstructed images both qualitatively and quantitatively.

Transition between inverse and direct energy cascades in multiscale optical turbulence

DOE PAGES

Malkin, V. M.; Fisch, N. J.

2018-03-06

Transition between inverse and direct energy cascades in multiscale optical turbulence. Multiscale turbulence naturally develops and plays an important role in many fluid, gas, and plasma phenomena. Statistical models of multiscale turbulence usually employ Kolmogorov hypotheses of spectral locality of interactions (meaning that interactions primarily occur between pulsations of comparable scales) and scale-invariance of turbulent pulsations. However, optical turbulence described by the nonlinear Schrodinger equation exhibits breaking of both the Kolmogorov locality and scale-invariance. A weaker form of spectral locality that holds for multi-scale optical turbulence enables a derivation of simplified evolution equations that reduce the problem to a singlemore » scale modeling. We present the derivation of these equations for Kerr media with random inhomogeneities. Then, we find the analytical solution that exhibits a transition between inverse and direct energy cascades in optical turbulence.« less

SMALL-SCALE ANISOTROPIES OF COSMIC RAYS FROM RELATIVE DIFFUSION

DOE Office of Scientific and Technical Information (OSTI.GOV)

Ahlers, Markus; Mertsch, Philipp

2015-12-10

The arrival directions of multi-TeV cosmic rays show significant anisotropies at small angular scales. It has been argued that this small-scale structure can naturally arise from cosmic ray scattering in local turbulent magnetic fields that distort a global dipole anisotropy set by diffusion. We study this effect in terms of the power spectrum of cosmic ray arrival directions and show that the strength of small-scale anisotropies is related to properties of relative diffusion. We provide a formalism for how these power spectra can be inferred from simulations and motivate a simple analytic extension of the ensemble-averaged diffusion equation that canmore » account for the effect.« less

A complete system for 3D reconstruction of roots for phenotypic analysis.

PubMed

Kumar, Pankaj; Cai, Jinhai; Miklavcic, Stanley J

2015-01-01

Here we present a complete system for 3D reconstruction of roots grown in a transparent gel medium or washed and suspended in water. The system is capable of being fully automated as it is self calibrating. The system starts with detection of root tips in root images from an image sequence generated by a turntable motion. Root tips are detected using the statistics of Zernike moments on image patches centred on high curvature points on root boundary and Bayes classification rule. The detected root tips are tracked in the image sequence using a multi-target tracking algorithm. Conics are fitted to the root tip trajectories using a novel ellipse fitting algorithm which weighs the data points by its eccentricity. The conics projected from the circular trajectory have a complex conjugate intersection which are image of the circular points. Circular points constraint the image of the absolute conics which are directly related to the internal parameters of the camera. The pose of the camera is computed from the image of the rotation axis and the horizon. The silhouettes of the roots and camera parameters are used to reconstruction the 3D voxel model of the roots. We show the results of real 3D reconstruction of roots which are detailed and realistic for phenotypic analysis.

Dynamic probe of ZnTe(110) surface by scanning tunneling microscopy

PubMed Central

Kanazawa, Ken; Yoshida, Shoji; Shigekawa, Hidemi; Kuroda, Shinji

2015-01-01

The reconstructed surface structure of the II–VI semiconductor ZnTe (110), which is a promising material in the research field of semiconductor spintronics, was studied by scanning tunneling microscopy/spectroscopy (STM/STS). First, the surface states formed by reconstruction by the charge transfer of dangling bond electrons from cationic Zn to anionic Te atoms, which are similar to those of IV and III–V semiconductors, were confirmed in real space. Secondly, oscillation in tunneling current between binary states, which is considered to reflect a conformational change in the topmost Zn–Te structure between the reconstructed and bulk-like ideal structures, was directly observed by STM. Third, using the technique of charge injection, a surface atomic structure was successfully fabricated, suggesting the possibility of atomic-scale manipulation of this widely applicable surface of ZnTe. PMID:27877752

MATHEMATICS OF SENSING, EXPLOITATION, AND EXECUTION (MSEE) Sensing, Exploitation, and Execution (SEE) on a Foundation for Representation, Inference, and Learning

DTIC Science & Technology

2016-07-01

reconstruction, video synchronization, multi - view tracking, action recognition, reasoning with uncertainty 16. SECURITY CLASSIFICATION OF: 17...3.4.2. Human action recognition across multi - views ......................................................................................... 44 3.4.3...68 4.2.1. Multi - view Multi -object Tracking with 3D cues

Spatial Temporal Mathematics at Scale: An Innovative and Fully Developed Paradigm to Boost Math Achievement among All Learners

ERIC Educational Resources Information Center

Rutherford, Teomara; Kibrick, Melissa; Burchinal, Margaret; Richland, Lindsey; Conley, AnneMarie; Osborne, Keara; Schneider, Stephanie; Duran, Lauren; Coulson, Andrew; Antenore, Fran; Daniels, Abby; Martinez, Michael E.

2010-01-01

This paper describes the background, methodology, preliminary findings, and anticipated future directions of a large-scale multi-year randomized field experiment addressing the efficacy of ST Math [Spatial-Temporal Math], a fully-developed math curriculum that uses interactive animated software. ST Math's unique approach minimizes the use of…

Advancing Accounting Research of Teaching Efficacy: Developing a Scale to Measure Student Attitudes toward Active Learning Experiences

ERIC Educational Resources Information Center

Burney, Laurie; Zascavage, Victoria; Matherly, Michele

2017-01-01

Literature consistently documents a positive, direct effect of students' attitudes on learning (Lizzio, Wilson, & Simons, 2002). Hence, accounting studies describing active learning activities often report student attitudes as evidence of efficacy (e.g., Matherly & Burney, 2013), but rely on single-item instead of multi-item scales. This…

On a Fundamental Evaluation of a Uav Equipped with a Multichannel Laser Scanner

NASA Astrophysics Data System (ADS)

Nakano, K.; Suzuki, H.; Omori, K.; Hayakawa, K.; Kurodai, M.

2018-05-01

Unmanned aerial vehicles (UAVs), which have been widely used in various fields such as archaeology, agriculture, mining, and construction, can acquire high-resolution images at the millimetre scale. It is possible to obtain realistic 3D models using high-overlap images and 3D reconstruction software based on computer vision technologies such as Structure from Motion and Multi-view Stereo. However, it remains difficult to obtain key points from surfaces with limited texture such as new asphalt or concrete, or from areas like forests that may be concealed by vegetation. A promising method for conducting aerial surveys is through the use of UAVs equipped with laser scanners. We conducted a fundamental performance evaluation of the Velodyne VLP-16 multi-channel laser scanner equipped to a DJI Matrice 600 Pro UAV at a construction site. Here, we present our findings with respect to both the geometric and radiometric aspects of the acquired data.

Multi-Mission Simulation and Visualization for Real-Time Telemetry Display, Playback and EDL Event Reconstruction

NASA Technical Reports Server (NTRS)

Pomerantz, M. I.; Lim, C.; Myint, S.; Woodward, G.; Balaram, J.; Kuo, C.

2012-01-01

he Jet Propulsion Laboratory's Entry, Descent and Landing (EDL) Reconstruction Task has developed a software system that provides mission operations personnel and analysts with a real time telemetry-based live display, playback and post-EDL reconstruction capability that leverages the existing high-fidelity, physics-based simulation framework and modern game engine-derived 3D visualization system developed in the JPL Dynamics and Real Time Simulation (DARTS) Lab. Developed as a multi-mission solution, the EDL Telemetry Visualization (ETV) system has been used for a variety of projects including NASA's Mars Science Laboratory (MSL), NASA'S Low Density Supersonic Decelerator (LDSD) and JPL's MoonRise Lunar sample return proposal.

Preliminary experimental results from a MARS Micro-CT system.

PubMed

He, Peng; Yu, Hengyong; Thayer, Patrick; Jin, Xin; Xu, Qiong; Bennett, James; Tappenden, Rachael; Wei, Biao; Goldstein, Aaron; Renaud, Peter; Butler, Anthony; Butler, Phillip; Wang, Ge

2012-01-01

The Medipix All Resolution System (MARS) system is a commercial spectral/multi-energy micro-CT scanner designed and assembled by the MARS Bioimaging, Ltd. in New Zealand. This system utilizes the state-of-the-art Medipix photon-counting, energy-discriminating detector technology developed by a collaboration at European Organization for Nuclear Research (CERN). In this paper, we report our preliminary experimental results using this system, including geometrical alignment, photon energy characterization, protocol optimization, and spectral image reconstruction. We produced our scan datasets with a multi-material phantom, and then applied ordered subset-simultaneous algebraic reconstruction technique (OS-SART) to reconstruct images in different energy ranges and principal component analysis (PCA) to evaluate spectral deviation among the energy ranges.

Bias Field Inconsistency Correction of Motion-Scattered Multislice MRI for Improved 3D Image Reconstruction

PubMed Central

Kim, Kio; Habas, Piotr A.; Rajagopalan, Vidya; Scott, Julia A.; Corbett-Detig, James M.; Rousseau, Francois; Barkovich, A. James; Glenn, Orit A.; Studholme, Colin

2012-01-01

A common solution to clinical MR imaging in the presence of large anatomical motion is to use fast multi-slice 2D studies to reduce slice acquisition time and provide clinically usable slice data. Recently, techniques have been developed which retrospectively correct large scale 3D motion between individual slices allowing the formation of a geometrically correct 3D volume from the multiple slice stacks. One challenge, however, in the final reconstruction process is the possibility of varying intensity bias in the slice data, typically due to the motion of the anatomy relative to imaging coils. As a result, slices which cover the same region of anatomy at different times may exhibit different sensitivity. This bias field inconsistency can induce artifacts in the final 3D reconstruction that can impact both clinical interpretation of key tissue boundaries and the automated analysis of the data. Here we describe a framework to estimate and correct the bias field inconsistency in each slice collectively across all motion corrupted image slices. Experiments using synthetic and clinical data show that the proposed method reduces intensity variability in tissues and improves the distinction between key tissue types. PMID:21511561

Unveiling the signals from extremely noisy microseismic data for high-resolution hydraulic fracturing monitoring.

PubMed

Huang, Weilin; Wang, Runqiu; Li, Huijian; Chen, Yangkang

2017-09-20

Microseismic method is an essential technique for monitoring the dynamic status of hydraulic fracturing during the development of unconventional reservoirs. However, one of the challenges in microseismic monitoring is that those seismic signals generated from micro seismicity have extremely low amplitude. We develop a methodology to unveil the signals that are smeared in the strong ambient noise and thus facilitate a more accurate arrival-time picking that will ultimately improve the localization accuracy. In the proposed technique, we decompose the recorded data into several morphological multi-scale components. In order to unveil weak signal, we propose an orthogonalization operator which acts as a time-varying weighting in the morphological reconstruction. The orthogonalization operator is obtained using an inversion process. This orthogonalized morphological reconstruction can be interpreted as a projection of the higher-dimensional vector. We first test the proposed technique using a synthetic dataset. Then the proposed technique is applied to a field dataset recorded in a project in China, in which the signals induced from hydraulic fracturing are recorded by twelve three-component (3-C) geophones in a monitoring well. The result demonstrates that the orthogonalized morphological reconstruction can make the extremely weak microseismic signals detectable.

Automated 3D architecture reconstruction from photogrammetric structure-and-motion: A case study of the One Pilla pagoda, Hanoi, Vienam

NASA Astrophysics Data System (ADS)

To, T.; Nguyen, D.; Tran, G.

2015-04-01

Heritage system of Vietnam has decline because of poor-conventional condition. For sustainable development, it is required a firmly control, space planning organization, and reasonable investment. Moreover, in the field of Cultural Heritage, the use of automated photogrammetric systems, based on Structure from Motion techniques (SfM), is widely used. With the potential of high-resolution, low-cost, large field of view, easiness, rapidity and completeness, the derivation of 3D metric information from Structure-and- Motion images is receiving great attention. In addition, heritage objects in form of 3D physical models are recorded not only for documentation issues, but also for historical interpretation, restoration, cultural and educational purposes. The study suggests the archaeological documentation of the "One Pilla" pagoda placed in Hanoi capital, Vietnam. The data acquired through digital camera Cannon EOS 550D, CMOS APS-C sensor 22.3 x 14.9 mm. Camera calibration and orientation were carried out by VisualSFM, CMPMVS (Multi-View Reconstruction) and SURE (Photogrammetric Surface Reconstruction from Imagery) software. The final result represents a scaled 3D model of the One Pilla Pagoda and displayed different views in MeshLab software.

Reconstruction of the unknown optimization cost functions from experimental recordings during static multi-finger prehension

PubMed Central

Niu, Xun; Terekhov, Alexander V.; Latash, Mark L.; Zatsiorsky, Vladimir M.

2013-01-01

The goal of the research is to reconstruct the unknown cost (objective) function(s) presumably used by the neural controller for sharing the total force among individual fingers in multi-finger prehension. The cost function was determined from experimental data by applying the recently developed Analytical Inverse Optimization (ANIO) method (Terekhov et al 2010). The core of the ANIO method is the Theorem of Uniqueness that specifies conditions for unique (with some restrictions) estimation of the objective functions. In the experiment, subjects (n=8) grasped an instrumented handle and maintained it at rest in the air with various external torques, loads, and target grasping forces applied to the object. The experimental data recorded from 80 trials showed a tendency to lie on a 2-dimensional hyperplane in the 4-dimensional finger-force space. Because the constraints in each trial were different, such a propensity is a manifestation of a neural mechanism (not the task mechanics). In agreement with the Lagrange principle for the inverse optimization, the plane of experimental observations was close to the plane resulting from the direct optimization. The latter plane was determined using the ANIO method. The unknown cost function was reconstructed successfully for each performer, as well as for the group data. The cost functions were found to be quadratic with non-zero linear terms. The cost functions obtained with the ANIO method yielded more accurate results than other optimization methods. The ANIO method has an evident potential for addressing the problem of optimization in motor control. PMID:22104742

A study of reconstruction accuracy for a cardiac SPECT system with multi-segmental collimation

NASA Astrophysics Data System (ADS)

Yu, D.-C.; Chang, W.; Pan, T.-S.

1997-06-01

To improve the geometric efficiency of cardiac SPECT imaging, the authors previously proposed to use a multi-segmental collimation with a cylindrical geometry. The proposed collimator consists of multiple parallel-hole collimators with most of the segments directed toward a small central region, where the patient's heart should be positioned. This technique provides a significantly increased detection efficiency for the central region, but at the expense of reduced efficiency for the surrounding region. The authors have used computer simulations to evaluate the implication of this technique on the accuracy of the reconstructed cardiac images. Two imaging situations were simulated: 1) the heart well placed inside the central region, and 2) the heart shifted and partially outside the central region. A neighboring high-uptake liver was simulated for both imaging situations. The images were reconstructed and corrected for attenuation with ML-EM and OS-FM methods using a complete attenuation map. The results indicate that errors caused by projection truncation are not significant and are not strongly dependent on the activity of the liver when the heart is well positioned within the central region. When the heart is partially outside the central region, hybrid emission data (a combination of high-count projections from the central region and low-count projections from the background region) can be used to restore the activity of the truncated section of the myocardium. However, the variance of the image in the section of the myocardium outside the central region is increased by 2-3 times when 10% of the collimator segments are used to image the background region.

Micro-CT Characterization on the Meso-Structure of Three-Dimensional Full Five-Directional Braided Composite

NASA Astrophysics Data System (ADS)

Ya, Jixuan; Liu, Zhenguo; Wang, Yuanhang

2017-06-01

The meso-structure is important in predicting mechanical properties of the three-dimensional (3D) braided composite. In this paper, the internal structure and porosity of three-dimensional full five-directional (3DF5D) braided composite is characterized at mesoscopic scale (the scale of the yarns) using micro-computed tomography (micro-CT) non-destructively. Glass fiber yarns as tracer are added into the sample made of carbon fiber to enhance the contrast in the sectional images. The model of tracer yarns is established with 3D reconstruction method to analyze the cross-section and path of yarns. The porosities are reconstructed and characterized in the end. The results demonstrate that the cross sections of braiding yarns and axial yarns change with the regions and the heights in one pitch of 3DF5D braided composites. The path of braiding yarns are various in the different regions while the axial yarns are always straight. Helical indentations appear on the surfaces of the axial yarns because of the squeeze from braiding yarns. Moreover, the porosities in different shapes and sizes are almost located in the matrix and between the yarns.

The Pandora multi-algorithm approach to automated pattern recognition in LAr TPC detectors

NASA Astrophysics Data System (ADS)

Marshall, J. S.; Blake, A. S. T.; Thomson, M. A.; Escudero, L.; de Vries, J.; Weston, J.; MicroBooNE Collaboration

2017-09-01

The development and operation of Liquid Argon Time Projection Chambers (LAr TPCs) for neutrino physics has created a need for new approaches to pattern recognition, in order to fully exploit the superb imaging capabilities offered by this technology. The Pandora Software Development Kit provides functionality to aid the process of designing, implementing and running pattern recognition algorithms. It promotes the use of a multi-algorithm approach to pattern recognition: individual algorithms each address a specific task in a particular topology; a series of many tens of algorithms then carefully builds-up a picture of the event. The input to the Pandora pattern recognition is a list of 2D Hits. The output from the chain of over 70 algorithms is a hierarchy of reconstructed 3D Particles, each with an identified particle type, vertex and direction.

Inlining 3d Reconstruction, Multi-Source Texture Mapping and Semantic Analysis Using Oblique Aerial Imagery

NASA Astrophysics Data System (ADS)

Frommholz, D.; Linkiewicz, M.; Poznanska, A. M.

2016-06-01

This paper proposes an in-line method for the simplified reconstruction of city buildings from nadir and oblique aerial images that at the same time are being used for multi-source texture mapping with minimal resampling. Further, the resulting unrectified texture atlases are analyzed for façade elements like windows to be reintegrated into the original 3D models. Tests on real-world data of Heligoland/ Germany comprising more than 800 buildings exposed a median positional deviation of 0.31 m at the façades compared to the cadastral map, a correctness of 67% for the detected windows and good visual quality when being rendered with GPU-based perspective correction. As part of the process building reconstruction takes the oriented input images and transforms them into dense point clouds by semi-global matching (SGM). The point sets undergo local RANSAC-based regression and topology analysis to detect adjacent planar surfaces and determine their semantics. Based on this information the roof, wall and ground surfaces found get intersected and limited in their extension to form a closed 3D building hull. For texture mapping the hull polygons are projected into each possible input bitmap to find suitable color sources regarding the coverage and resolution. Occlusions are detected by ray-casting a full-scale digital surface model (DSM) of the scene and stored in pixel-precise visibility maps. These maps are used to derive overlap statistics and radiometric adjustment coefficients to be applied when the visible image parts for each building polygon are being copied into a compact texture atlas without resampling whenever possible. The atlas bitmap is passed to a commercial object-based image analysis (OBIA) tool running a custom rule set to identify windows on the contained façade patches. Following multi-resolution segmentation and classification based on brightness and contrast differences potential window objects are evaluated against geometric constraints and conditionally grown, fused and filtered morphologically. The output polygons are vectorized and reintegrated into the previously reconstructed buildings by sparsely ray-tracing their vertices. Finally the enhanced 3D models get stored as textured geometry for visualization and semantically annotated "LOD-2.5" CityGML objects for GIS applications.

South America Monsoon variability on millennial to multi-centennial time scale during the Holocene in central eastern Brazil

NASA Astrophysics Data System (ADS)

Strikis, N. M.; Cruz, F. W.; Cheng, H.; Karmann, I.; Vuille, M.; Edwards, R.; Wang, X.; Paula, M. S.; Novello, V. F.; Auler, A.

2011-12-01

A paleoprecipitation reconstruction based on high resolution and well-dated speleothem oxygen isotope records shows that the monsoon precipitation over central eastern Brazil underwent to strong variations on millennial to multi-centennial time-scales during the Holocene. This new record indicates that abrupt events of increase in monsoon precipitation are correlated to Bond events 6, 5 and 4 and also with 8.2 ky event during the early and mid-Holocene, with a mean amplitude of 1.5 % (PDB). The pacing and structure of such events are general consistent with variations in solar activity suggested by atmospheric Δ14 C records. In the late-Holocene, abrupt events of increase in monsoon precipitation peaking at 3.2, 2.7 and 2.3 ky B.P. are approximately synchronous with periods of low solar minima. In this regard, the most prominent event occurred during the late Holocene occurred at ~2.7 ky B.P. In addition, these positive anomalies of the precipitation recorded in central eastern Brazil are also in good agreement with variations in Titicaca lake level. The good correspondence between the speleothem and marine records imply that the variations in the north Atlantic sea surface temperature is the main forcing for abrupt millennial to multi-centennial precipitations variation within the region under influence of South American Monsoon.

Multi-sensor image registration based on algebraic projective invariants.

PubMed

Li, Bin; Wang, Wei; Ye, Hao

2013-04-22

A new automatic feature-based registration algorithm is presented for multi-sensor images with projective deformation. Contours are firstly extracted from both reference and sensed images as basic features in the proposed method. Since it is difficult to design a projective-invariant descriptor from the contour information directly, a new feature named Five Sequential Corners (FSC) is constructed based on the corners detected from the extracted contours. By introducing algebraic projective invariants, we design a descriptor for each FSC that is ensured to be robust against projective deformation. Further, no gray scale related information is required in calculating the descriptor, thus it is also robust against the gray scale discrepancy between the multi-sensor image pairs. Experimental results utilizing real image pairs are presented to show the merits of the proposed registration method.

Laser 3D micro-manufacturing

NASA Astrophysics Data System (ADS)

Piqué, Alberto; Auyeung, Raymond C. Y.; Kim, Heungsoo; Charipar, Nicholas A.; Mathews, Scott A.

2016-06-01

Laser-based materials processing techniques are gaining widespread use in micro-manufacturing applications. The use of laser microfabrication techniques enables the processing of micro- and nanostructures from a wide range of materials and geometries without the need for masking and etching steps commonly associated with photolithography. This review aims to describe the broad applications space covered by laser-based micro- and nanoprocessing techniques and the benefits offered by the use of lasers in micro-manufacturing processes. Given their non-lithographic nature, these processes are also referred to as laser direct-write and constitute some of the earliest demonstrations of 3D printing or additive manufacturing at the microscale. As this review will show, the use of lasers enables precise control of the various types of processing steps—from subtractive to additive—over a wide range of scales with an extensive materials palette. Overall, laser-based direct-write techniques offer multiple modes of operation including the removal (via ablative processes) and addition (via photopolymerization or printing) of most classes of materials using the same equipment in many cases. The versatility provided by these multi-function, multi-material and multi-scale laser micro-manufacturing processes cannot be matched by photolithography nor with other direct-write microfabrication techniques and offer unique opportunities for current and future 3D micro-manufacturing applications.

Model simulations and proxy-based reconstructions for the European region in the past millennium (Invited)

NASA Astrophysics Data System (ADS)

Zorita, E.

2009-12-01

One of the objectives when comparing simulations of past climates to proxy-based climate reconstructions is to asses the skill of climate models to simulate climate change. This comparison may accomplished at large spatial scales, for instance the evolution of simulated and reconstructed Northern Hemisphere annual temperature, or at regional or point scales. In both approaches a 'fair' comparison has to take into account different aspects that affect the inevitable uncertainties and biases in the simulations and in the reconstructions. These efforts face a trade-off: climate models are believed to be more skillful at large hemispheric scales, but climate reconstructions are these scales are burdened by the spatial distribution of available proxies and by methodological issues surrounding the statistical method used to translate the proxy information into large-spatial averages. Furthermore, the internal climatic noise at large hemispheric scales is low, so that the sampling uncertainty tends to be also low. On the other hand, the skill of climate models at regional scales is limited by the coarse spatial resolution, which hinders a faithful representation of aspects important for the regional climate. At small spatial scales, the reconstruction of past climate probably faces less methodological problems if information from different proxies is available. The internal climatic variability at regional scales is, however, high. In this contribution some examples of the different issues faced when comparing simulation and reconstructions at small spatial scales in the past millennium are discussed. These examples comprise reconstructions from dendrochronological data and from historical documentary data in Europe and climate simulations with global and regional models. These examples indicate that the centennial climate variations can offer a reasonable target to assess the skill of global climate models and of proxy-based reconstructions, even at small spatial scales. However, as the focus shifts towards higher frequency variability, decadal or multidecadal, the need for larger simulation ensembles becomes more evident. Nevertheless,the comparison at these time scales may expose some lines of research on the origin of multidecadal regional climate variability.

North Atlantic sea-level variability during the last millennium

NASA Astrophysics Data System (ADS)

Gehrels, Roland; Long, Antony; Saher, Margot; Barlow, Natasha; Blaauw, Maarten; Haigh, Ivan; Woodworth, Philip

2014-05-01

Climate modelling studies have demonstrated that spatial and temporal sea-level variability observed in North Atlantic tide-gauge records is controlled by a complex array of processes, including ice-ocean mass exchange, freshwater forcing, steric changes, changes in wind fields, and variations in the speed of the Gulf Stream. Longer records of sea-level change, also covering the pre-industrial period, are important as a 'natural' and long-term baseline against which to test model performance and to place recent and future sea-level changes and ice-sheet change into a long-term context. Such records can only be reliably and continuously reconstructed from proxy methods. Salt marshes are capable of recording decimetre-scale sea-level variations with high precision and accuracy. In this paper we present four new high-resolution proxy records of (sub-) decadal sea-level variability reconstructed from salt-marsh sediments in Iceland, Nova Scotia, Maine and Connecticut that span the past 400 to 900 years. Our records, based on more than 100 new radiocarbon analyses, Pb-210 and Cs-137 measurements as well as other biological and geochemical age markers, together with hundreds of new microfossil observations from contemporary and fossil salt marshes, capture not only the rapid 20th century sea-level rise, but also small-scale (decimetre, multi-decadal) sea-level fluctuations during preceding centuries. We show that in Iceland three periods of rapid sea-level rise are synchronous with the three largest positive shifts of the reconstructed North Atlantic Oscillation (NAO) index. Along the North American east coast we compare our data with salt-marsh records from New Jersey, North Carolina and Florida and observe a trend of increased pre-industrial sea-level variability from south to north (Florida to Nova Scotia). Mass changes and freshwater forcing cannot explain this pattern. Based on comparisons with instrumental sea-level data and modelling studies we hypothesise that multi-decadal to centennial changes in wind and air pressure are more important than mass flux from land-based ice as drivers of North Atlantic sea-level variability during the last millennium.

Model-Based Heterogeneous Data Fusion for Reliable Force Estimation in Dynamic Structures under Uncertainties

PubMed Central

Khodabandeloo, Babak; Melvin, Dyan; Jo, Hongki

2017-01-01

Direct measurements of external forces acting on a structure are infeasible in many cases. The Augmented Kalman Filter (AKF) has several attractive features that can be utilized to solve the inverse problem of identifying applied forces, as it requires the dynamic model and the measured responses of structure at only a few locations. But, the AKF intrinsically suffers from numerical instabilities when accelerations, which are the most common response measurements in structural dynamics, are the only measured responses. Although displacement measurements can be used to overcome the instability issue, the absolute displacement measurements are challenging and expensive for full-scale dynamic structures. In this paper, a reliable model-based data fusion approach to reconstruct dynamic forces applied to structures using heterogeneous structural measurements (i.e., strains and accelerations) in combination with AKF is investigated. The way of incorporating multi-sensor measurements in the AKF is formulated. Then the formulation is implemented and validated through numerical examples considering possible uncertainties in numerical modeling and sensor measurement. A planar truss example was chosen to clearly explain the formulation, while the method and formulation are applicable to other structures as well. PMID:29149088

Theoretical Analysis of Penalized Maximum-Likelihood Patlak Parametric Image Reconstruction in Dynamic PET for Lesion Detection.

PubMed

Yang, Li; Wang, Guobao; Qi, Jinyi

2016-04-01

Detecting cancerous lesions is a major clinical application of emission tomography. In a previous work, we studied penalized maximum-likelihood (PML) image reconstruction for lesion detection in static PET. Here we extend our theoretical analysis of static PET reconstruction to dynamic PET. We study both the conventional indirect reconstruction and direct reconstruction for Patlak parametric image estimation. In indirect reconstruction, Patlak parametric images are generated by first reconstructing a sequence of dynamic PET images, and then performing Patlak analysis on the time activity curves (TACs) pixel-by-pixel. In direct reconstruction, Patlak parametric images are estimated directly from raw sinogram data by incorporating the Patlak model into the image reconstruction procedure. PML reconstruction is used in both the indirect and direct reconstruction methods. We use a channelized Hotelling observer (CHO) to assess lesion detectability in Patlak parametric images. Simplified expressions for evaluating the lesion detectability have been derived and applied to the selection of the regularization parameter value to maximize detection performance. The proposed method is validated using computer-based Monte Carlo simulations. Good agreements between the theoretical predictions and the Monte Carlo results are observed. Both theoretical predictions and Monte Carlo simulation results show the benefit of the indirect and direct methods under optimized regularization parameters in dynamic PET reconstruction for lesion detection, when compared with the conventional static PET reconstruction.

Real time reconstruction of quasiperiodic multi parameter physiological signals

NASA Astrophysics Data System (ADS)

Ganeshapillai, Gartheeban; Guttag, John

2012-12-01

A modern intensive care unit (ICU) has automated analysis systems that depend on continuous uninterrupted real time monitoring of physiological signals such as electrocardiogram (ECG), arterial blood pressure (ABP), and photo-plethysmogram (PPG). These signals are often corrupted by noise, artifacts, and missing data. We present an automated learning framework for real time reconstruction of corrupted multi-parameter nonstationary quasiperiodic physiological signals. The key idea is to learn a patient-specific model of the relationships between signals, and then reconstruct corrupted segments using the information available in correlated signals. We evaluated our method on MIT-BIH arrhythmia data, a two-channel ECG dataset with many clinically significant arrhythmias, and on the CinC challenge 2010 data, a multi-parameter dataset containing ECG, ABP, and PPG. For each, we evaluated both the residual distance between the original signals and the reconstructed signals, and the performance of a heartbeat classifier on a reconstructed ECG signal. At an SNR of 0 dB, the average residual distance on the CinC data was roughly 3% of the energy in the signal, and on the arrhythmia database it was roughly 16%. The difference is attributable to the large amount of diversity in the arrhythmia database. Remarkably, despite the relatively high residual difference, the classification accuracy on the arrhythmia database was still 98%, indicating that our method restored the physiologically important aspects of the signal.

Recovering the full velocity and density fields from large-scale redshift-distance samples

NASA Technical Reports Server (NTRS)

Bertschinger, Edmund; Dekel, Avishai

1989-01-01

A new method for extracting the large-scale three-dimensional velocity and mass density fields from measurements of the radial peculiar velocities is presented. Galaxies are assumed to trace the velocity field rather than the mass. The key assumption made is that the Lagrangian velocity field has negligible vorticity, as might be expected from perturbations that grew by gravitational instability. By applying the method to cosmological N-body simulations, it is demonstrated that it accurately reconstructs the velocity field. This technique promises a direct determination of the mass density field and the initial conditions for the formation of large-scale structure from galaxy peculiar velocity surveys.

Dictionary Learning on the Manifold of Square Root Densities and Application to Reconstruction of Diffusion Propagator Fields*

PubMed Central

Sun, Jiaqi; Xie, Yuchen; Ye, Wenxing; Ho, Jeffrey; Entezari, Alireza; Blackband, Stephen J.

2013-01-01

In this paper, we present a novel dictionary learning framework for data lying on the manifold of square root densities and apply it to the reconstruction of diffusion propagator (DP) fields given a multi-shell diffusion MRI data set. Unlike most of the existing dictionary learning algorithms which rely on the assumption that the data points are vectors in some Euclidean space, our dictionary learning algorithm is designed to incorporate the intrinsic geometric structure of manifolds and performs better than traditional dictionary learning approaches when applied to data lying on the manifold of square root densities. Non-negativity as well as smoothness across the whole field of the reconstructed DPs is guaranteed in our approach. We demonstrate the advantage of our approach by comparing it with an existing dictionary based reconstruction method on synthetic and real multi-shell MRI data. PMID:24684004

The late Holocene kauri chronology: assessing the potential of a 4500-year record for palaeoclimate reconstruction

NASA Astrophysics Data System (ADS)

Boswijk, G.; Fowler, A. M.; Palmer, J. G.; Fenwick, P.; Hogg, A.; Lorrey, A.; Wunder, J.

2014-04-01

Millennial and multi-millennial tree-ring chronologies can provide useful proxy records of past climate, giving insight into a more complete range of natural climate variability prior to the 20th century. Since the 1980s a multi-millennial tree-ring chronology has been developed from kauri (Agathis australis) from the upper North Island, New Zealand. Previous work has demonstrated the sensitivity of kauri to the El Niño-Southern Oscillation (ENSO). Here we present recent additions and extensions to the late Holocene kauri chronology (LHKC), and assess the potential of a composite master chronology, AGAUc13, for palaeoclimate reconstruction. The updated composite kauri chronology now spans 4491 years (2488 BCE-2002 CE) and includes data from 18 modern sites, 25 archaeological sites, and 18 sub-fossil (swamp) kauri sites. Consideration of the composition and statistical quality of AGAUc13 suggests the LHKC has utility for palaeoclimate reconstruction but there are caveats. These include: (a) differences in character between the three assemblages including growth rate and sensitivity; (b) low sample depth and low statistical quality in the 10th-13th century CE, when the record transitions from modern and archaeological material to the swamp kauri; (c) a potential difference in amplitude of the signal in the swamp kauri; (d) a westerly bias in site distribution prior to 911 CE; (e) variable statistical quality across the entire record associated with variable replication; and (f) complex changes in sample depth and tree age and size which may influence centennial scale trends in the data. Further tree ring data are required to improve statistical quality, particularly in the first half of the second millennium CE.

Multi-scale calculation based on dual domain material point method combined with molecular dynamics

DOE Office of Scientific and Technical Information (OSTI.GOV)

Dhakal, Tilak Raj

This dissertation combines the dual domain material point method (DDMP) with molecular dynamics (MD) in an attempt to create a multi-scale numerical method to simulate materials undergoing large deformations with high strain rates. In these types of problems, the material is often in a thermodynamically non-equilibrium state, and conventional constitutive relations are often not available. In this method, the closure quantities, such as stress, at each material point are calculated from a MD simulation of a group of atoms surrounding the material point. Rather than restricting the multi-scale simulation in a small spatial region, such as phase interfaces, or crackmore » tips, this multi-scale method can be used to consider non-equilibrium thermodynamic e ects in a macroscopic domain. This method takes advantage that the material points only communicate with mesh nodes, not among themselves; therefore MD simulations for material points can be performed independently in parallel. First, using a one-dimensional shock problem as an example, the numerical properties of the original material point method (MPM), the generalized interpolation material point (GIMP) method, the convected particle domain interpolation (CPDI) method, and the DDMP method are investigated. Among these methods, only the DDMP method converges as the number of particles increases, but the large number of particles needed for convergence makes the method very expensive especially in our multi-scale method where we calculate stress in each material point using MD simulation. To improve DDMP, the sub-point method is introduced in this dissertation, which provides high quality numerical solutions with a very small number of particles. The multi-scale method based on DDMP with sub-points is successfully implemented for a one dimensional problem of shock wave propagation in a cerium crystal. The MD simulation to calculate stress in each material point is performed in GPU using CUDA to accelerate the computation. The numerical properties of the multiscale method are investigated as well as the results from this multi-scale calculation are compared of particles needed for convergence makes the method very expensive especially in our multi-scale method where we calculate stress in each material point using MD simulation. To improve DDMP, the sub-point method is introduced in this dissertation, which provides high quality numerical solutions with a very small number of particles. The multi-scale method based on DDMP with sub-points is successfully implemented for a one dimensional problem of shock wave propagation in a cerium crystal. The MD simulation to calculate stress in each material point is performed in GPU using CUDA to accelerate the computation. The numerical properties of the multiscale method are investigated as well as the results from this multi-scale calculation are compared with direct MD simulation results to demonstrate the feasibility of the method. Also, the multi-scale method is applied for a two dimensional problem of jet formation around copper notch under a strong impact.« less

Fabrication of multi-scale periodic surface structures on Ti-6Al-4V by direct laser writing and direct laser interference patterning for modified wettability applications

NASA Astrophysics Data System (ADS)

Huerta-Murillo, D.; Aguilar-Morales, A. I.; Alamri, S.; Cardoso, J. T.; Jagdheesh, R.; Lasagni, A. F.; Ocaña, J. L.

2017-11-01

In this work, hierarchical surface patterns fabricated on Ti-6Al-4V alloy combining two laser micro-machining techniques are presented. The used technologies are based on nanosecond Direct Laser Writing and picosecond Direct Laser Interference Patterning. Squared shape micro-cells with different hatch distances were produced by Direct Laser Writing with depths values in the micro-scale, forming a well-defined closed packet. Subsequently, cross-like periodic patterns were fabricated by means of Direct Laser Interference Patterning using a two-beam configuration, generating a dual-scale periodic surface structure in both micro- and nano-scale due to the formation of Laser-Induced Periodic Surface Structure after the picosecond process. As a result a triple hierarchical periodic surface structure was generated. The surface morphology of the irradiated area was characterized with scanning electron microscopy and confocal microscopy. Additionally, static contact angle measurements were made to analyze the wettability behavior of the structures, showing a hydrophobic behavior for the hierarchical structures.

A 500 year climate reconstruction of Southwest Germany based on documentary and direct data with a special focus on high resolute reconstructed extreme rain events

NASA Astrophysics Data System (ADS)

Dostal, P.; Seidel, J.; Imbery, F.

2010-09-01

A 500 year climate reconstruction of Southwest Germany based on documentary and direct data with a special focus on high resolute reconstructed extreme rain events Against the background of an increasing world population and the changes that this is causing to the earth, the increasing industrialisation resulting in more emissions of greenhouse gases, it is indispensable to differentiate between natural and anthropogenic climate changes. This applies equally to global as well as regional climates. Due to the fact, that the weather data measurement series in the upper Rhine valley go back a maximum of 150 years, it is not possible to use this data to grasp long term climate fluctuations. For example, the current climate is integrated in long scale climate cycles which last thousands of years. To describe these changes accurately, it is necessary to reconstruct the climate beyond that of instrumental series measurements. With the application of direct and indirect data (proxy data) a climate reconstruction will be attempted for the area of region TriRhena. With the application of documentary data it is possible to reconstruct the climate prior to instrumental measurements. These historical records are made up of, for e.g. weather descriptions, information about the wine harvest and other agricultural products, as well as their price fluctuations. Using this data it is possible to calculate meteorological parameters creating an index of air temperature and precipitation values. Climate is an integration of weather and therefore its worth to set the focus also on single interesting weather events. Especially extreme events can contribute to the thesis "learning from the past for a better future". Aim of the research is to identify and apply extreme flood events of the past 500 years as a basis for further analysis like a contribution to improve current flood hazard maps. The data which will be presented were extracted from historical records such as local annuals and chronologies from 1500-1900 and supplemented by instrumental observations since 1755.

Reconstructing past fire regimes: methods, applications, and relevance to fire management and conservation

NASA Astrophysics Data System (ADS)

Conedera, Marco; Tinner, Willy; Neff, Christophe; Meurer, Manfred; Dickens, Angela F.; Krebs, Patrik

2009-03-01

Biomass burning and resulting fire regimes are major drivers of vegetation changes and of ecosystem dynamics. Understanding past fire dynamics and their relationship to these factors is thus a key factor in preserving and managing present biodiversity and ecosystem functions. Unfortunately, our understanding of the disturbance dynamics of past fires is incomplete, and many open questions exist relevant to these concepts and the related methods. In this paper we describe the present status of the fire-regime concept, discuss the notion of the fire continuum and related proxies, and review the most important existing approaches for reconstructing fire history at centennial to millennial scales. We conclude with a short discussion of selected directions for future research that may lead to a better understanding of past fire-regime dynamics. In particular, we suggest that emphasis should be laid on (1) discriminating natural from anthropogenic fire-regime types, (2) improving combined analysis of fire and vegetation reconstructions to study long-term fire ecology, and (3) overcoming problems in defining temporal and spatial scales of reference, which would allow better use of past records to gain important insights for landscape, fire and forest management.

Climatic Impacts of a Volcanic Double Event: 536/540 CE

NASA Astrophysics Data System (ADS)

Toohey, M.; Krüger, K.; Sigl, M.; Stordal, F.; Svensen, H.

2015-12-01

Volcanic activity in and around the year 536 CE led to the coldest decade of the Common Era, and has been speculatively linked to large-scale societal crises around the world. Using a coupled aerosol-climate model, with eruption parameters constrained by recently re-dated ice core records and historical observations of the aerosol cloud, we reconstruct the radiative forcing resulting from a sequence of two major volcanic eruptions in 536 and 540 CE. Comparing with a reconstruction of volcanic forcing over the past 1200 years, we estimate that the decadal-scale Northern Hemisphere (NH) extra-tropical radiative forcing from this volcanic "double event" was larger than that of any known period. Earth system model simulations including the volcanic forcing are used to explore the temperature and precipitation anomalies associated with the eruptions, and compared to available proxy records, including maximum latewood density (MXD) temperature reconstructions. Special attention is placed on the decadal persistence of the cooling signal in tree rings, and whether the climate model simulations reproduce such long-term climate anomalies. Finally, the climate model results will be used to explore the probability of socioeconomic crisis resulting directly from the volcanic radiative forcing in different regions of the world.

Two-probe STM experiments at the atomic level.

PubMed

Kolmer, Marek; Olszowski, Piotr; Zuzak, Rafal; Godlewski, Szymon; Joachim, Christian; Szymonski, Marek

2017-11-08

Direct characterization of planar atomic or molecular scale devices and circuits on a supporting surface by multi-probe measurements requires unprecedented stability of single atom contacts and manipulation of scanning probes over large, nanometer scale area with atomic precision. In this work, we describe the full methodology behind atomically defined two-probe scanning tunneling microscopy (STM) experiments performed on a model system: dangling bond dimer wire supported on a hydrogenated germanium (0 0 1) surface. We show that 70 nm long atomic wire can be simultaneously approached by two independent STM scanners with exact probe to probe distance reaching down to 30 nm. This allows direct wire characterization by two-probe I-V characteristics at distances below 50 nm. Our technical results presented in this work open a new area for multi-probe research, which can be now performed with precision so far accessible only by single-probe scanning probe microscopy (SPM) experiments.

Image characterization by fractal descriptors in variational mode decomposition domain: Application to brain magnetic resonance

NASA Astrophysics Data System (ADS)

Lahmiri, Salim

2016-08-01

The main purpose of this work is to explore the usefulness of fractal descriptors estimated in multi-resolution domains to characterize biomedical digital image texture. In this regard, three multi-resolution techniques are considered: the well-known discrete wavelet transform (DWT) and the empirical mode decomposition (EMD), and; the newly introduced; variational mode decomposition mode (VMD). The original image is decomposed by the DWT, EMD, and VMD into different scales. Then, Fourier spectrum based fractal descriptors is estimated at specific scales and directions to characterize the image. The support vector machine (SVM) was used to perform supervised classification. The empirical study was applied to the problem of distinguishing between normal and abnormal brain magnetic resonance images (MRI) affected with Alzheimer disease (AD). Our results demonstrate that fractal descriptors estimated in VMD domain outperform those estimated in DWT and EMD domains; and also those directly estimated from the original image.

Multi-level methods and approximating distribution functions

DOE Office of Scientific and Technical Information (OSTI.GOV)

Wilson, D., E-mail: daniel.wilson@dtc.ox.ac.uk; Baker, R. E.

2016-07-15

Biochemical reaction networks are often modelled using discrete-state, continuous-time Markov chains. System statistics of these Markov chains usually cannot be calculated analytically and therefore estimates must be generated via simulation techniques. There is a well documented class of simulation techniques known as exact stochastic simulation algorithms, an example of which is Gillespie’s direct method. These algorithms often come with high computational costs, therefore approximate stochastic simulation algorithms such as the tau-leap method are used. However, in order to minimise the bias in the estimates generated using them, a relatively small value of tau is needed, rendering the computational costs comparablemore » to Gillespie’s direct method. The multi-level Monte Carlo method (Anderson and Higham, Multiscale Model. Simul. 10:146–179, 2012) provides a reduction in computational costs whilst minimising or even eliminating the bias in the estimates of system statistics. This is achieved by first crudely approximating required statistics with many sample paths of low accuracy. Then correction terms are added until a required level of accuracy is reached. Recent literature has primarily focussed on implementing the multi-level method efficiently to estimate a single system statistic. However, it is clearly also of interest to be able to approximate entire probability distributions of species counts. We present two novel methods that combine known techniques for distribution reconstruction with the multi-level method. We demonstrate the potential of our methods using a number of examples.« less

Transition between inverse and direct energy cascades in multiscale optical turbulence.

PubMed

Malkin, V M; Fisch, N J

2018-03-01

Multiscale turbulence naturally develops and plays an important role in many fluid, gas, and plasma phenomena. Statistical models of multiscale turbulence usually employ Kolmogorov hypotheses of spectral locality of interactions (meaning that interactions primarily occur between pulsations of comparable scales) and scale-invariance of turbulent pulsations. However, optical turbulence described by the nonlinear Schrodinger equation exhibits breaking of both the Kolmogorov locality and scale-invariance. A weaker form of spectral locality that holds for multi-scale optical turbulence enables a derivation of simplified evolution equations that reduce the problem to a single scale modeling. We present the derivation of these equations for Kerr media with random inhomogeneities. Then, we find the analytical solution that exhibits a transition between inverse and direct energy cascades in optical turbulence.

Transition between inverse and direct energy cascades in multiscale optical turbulence

NASA Astrophysics Data System (ADS)

Malkin, V. M.; Fisch, N. J.

2018-03-01

Multiscale turbulence naturally develops and plays an important role in many fluid, gas, and plasma phenomena. Statistical models of multiscale turbulence usually employ Kolmogorov hypotheses of spectral locality of interactions (meaning that interactions primarily occur between pulsations of comparable scales) and scale-invariance of turbulent pulsations. However, optical turbulence described by the nonlinear Schrodinger equation exhibits breaking of both the Kolmogorov locality and scale-invariance. A weaker form of spectral locality that holds for multi-scale optical turbulence enables a derivation of simplified evolution equations that reduce the problem to a single scale modeling. We present the derivation of these equations for Kerr media with random inhomogeneities. Then, we find the analytical solution that exhibits a transition between inverse and direct energy cascades in optical turbulence.

Integrated network analysis and effective tools in plant systems biology

PubMed Central

Fukushima, Atsushi; Kanaya, Shigehiko; Nishida, Kozo

2014-01-01

One of the ultimate goals in plant systems biology is to elucidate the genotype-phenotype relationship in plant cellular systems. Integrated network analysis that combines omics data with mathematical models has received particular attention. Here we focus on the latest cutting-edge computational advances that facilitate their combination. We highlight (1) network visualization tools, (2) pathway analyses, (3) genome-scale metabolic reconstruction, and (4) the integration of high-throughput experimental data and mathematical models. Multi-omics data that contain the genome, transcriptome, proteome, and metabolome and mathematical models are expected to integrate and expand our knowledge of complex plant metabolisms. PMID:25408696

Exploiting sparsity and low-rank structure for the recovery of multi-slice breast MRIs with reduced sampling error.

PubMed

Yin, X X; Ng, B W-H; Ramamohanarao, K; Baghai-Wadji, A; Abbott, D

2012-09-01

It has been shown that, magnetic resonance images (MRIs) with sparsity representation in a transformed domain, e.g. spatial finite-differences (FD), or discrete cosine transform (DCT), can be restored from undersampled k-space via applying current compressive sampling theory. The paper presents a model-based method for the restoration of MRIs. The reduced-order model, in which a full-system-response is projected onto a subspace of lower dimensionality, has been used to accelerate image reconstruction by reducing the size of the involved linear system. In this paper, the singular value threshold (SVT) technique is applied as a denoising scheme to reduce and select the model order of the inverse Fourier transform image, and to restore multi-slice breast MRIs that have been compressively sampled in k-space. The restored MRIs with SVT for denoising show reduced sampling errors compared to the direct MRI restoration methods via spatial FD, or DCT. Compressive sampling is a technique for finding sparse solutions to underdetermined linear systems. The sparsity that is implicit in MRIs is to explore the solution to MRI reconstruction after transformation from significantly undersampled k-space. The challenge, however, is that, since some incoherent artifacts result from the random undersampling, noise-like interference is added to the image with sparse representation. These recovery algorithms in the literature are not capable of fully removing the artifacts. It is necessary to introduce a denoising procedure to improve the quality of image recovery. This paper applies a singular value threshold algorithm to reduce the model order of image basis functions, which allows further improvement of the quality of image reconstruction with removal of noise artifacts. The principle of the denoising scheme is to reconstruct the sparse MRI matrices optimally with a lower rank via selecting smaller number of dominant singular values. The singular value threshold algorithm is performed by minimizing the nuclear norm of difference between the sampled image and the recovered image. It has been illustrated that this algorithm improves the ability of previous image reconstruction algorithms to remove noise artifacts while significantly improving the quality of MRI recovery.

An ensemble approach to reconstructing 20th century climate trends in data-sparse regions of the tropical Pacific using young fossil corals

NASA Astrophysics Data System (ADS)

Hitt, N. T.; Cobb, K. M.; Sayani, H. R.; Grothe, P. R.; Atwood, A. R.; O'Connor, G.; Chen, T.; Hagos, M. M.; Deocampo, D.; Edwards, R. L.; Cheng, H.; Lu, Y.; Thompson, D. M.

2016-12-01

Sea-surface temperature (SST) variability in the central tropical Pacific drives global-scale responses through atmospheric teleconnections, so the response of this region to anthropogenic forcing has important implications for regional climate responses in many areas. However, quantification of anthropogenic SST trends in the central tropical Pacific is complicated by the fact that instrumental SST observations in this region are extremely limited prior to 1950, with trends of opposite sign observed across the various gridded instrumental datasets (Deser et al., 2010). Researchers have turned to multi-century coral records to reconstruct ocean temperatures through time, but the paucity of such records prohibits the generation of uncertainty estimates. In this study, we use a large collection of U/Th-dated fossil corals that to investigate a new ensemble approach to reconstructing temperature from the Central Pacific over the late 20th century. Here we combine monthly-resolved d18O and Sr/Ca from 8 5-14 year long coral records from Christmas Island (2°N, 157°W) to quantify temperature and hydrological trends in this region from 1930 to present. We compare our fossil coral ensemble reconstruction to a long modern coral core from this site that extends back to 1940, as well as to gridded SST datasets. We also provide the first well-replicated coral d18O and Sr/Ca records across both the 1997/98 and 2015/2016 El Nino events, comparing the strength of these two events in the context of long-term temperature trends observed in our longer reconstruction. We conclude that the fossil coral ensemble approach provides a robust means of reconstructing 20th century climate trends. Deser et al., 2010, GRL, doi: 10.1029/2010GL043321

Detecting Multi-scale Structures in Chandra Images of Centaurus A

NASA Astrophysics Data System (ADS)

Karovska, M.; Fabbiano, G.; Elvis, M. S.; Evans, I. N.; Kim, D. W.; Prestwich, A. H.; Schwartz, D. A.; Murray, S. S.; Forman, W.; Jones, C.; Kraft, R. P.; Isobe, T.; Cui, W.; Schreier, E. J.

1999-12-01

Centaurus A (NGC 5128) is a giant early-type galaxy with a merger history, containing the nearest radio-bright AGN. Recent Chandra High Resolution Camera (HRC) observations of Cen A reveal X-ray multi-scale structures in this object with unprecedented detail and clarity. We show the results of an analysis of the Chandra data with smoothing and edge enhancement techniques that allow us to enhance and quantify the multi-scale structures present in the HRC images. These techniques include an adaptive smoothing algorithm (Ebeling et al 1999), and a multi-directional gradient detection algorithm (Karovska et al 1994). The Ebeling et al adaptive smoothing algorithm, which is incorporated in the CXC analysis s/w package, is a powerful tool for smoothing images containing complex structures at various spatial scales. The adaptively smoothed images of Centaurus A show simultaneously the high-angular resolution bright structures at scales as small as an arcsecond and the extended faint structures as large as several arc minutes. The large scale structures suggest complex symmetry, including a component possibly associated with the inner radio lobes (as suggested by the ROSAT HRI data, Dobereiner et al 1996), and a separate component with an orthogonal symmetry that may be associated with the galaxy as a whole. The dust lane and the x-ray ridges are very clearly visible. The adaptively smoothed images and the edge-enhanced images also suggest several filamentary features including a large filament-like structure extending as far as about 5 arcminutes to North-West.

Fusion of infrared and visible images based on BEMD and NSDFB

NASA Astrophysics Data System (ADS)

Zhu, Pan; Huang, Zhanhua; Lei, Hai

2016-07-01

This paper presents a new fusion method based on the adaptive multi-scale decomposition of bidimensional empirical mode decomposition (BEMD) and the flexible directional expansion of nonsubsampled directional filter banks (NSDFB) for visible-infrared images. Compared with conventional multi-scale fusion methods, BEMD is non-parametric and completely data-driven, which is relatively more suitable for non-linear signals decomposition and fusion. NSDFB can provide direction filtering on the decomposition levels to capture more geometrical structure of the source images effectively. In our fusion framework, the entropies of the two patterns of source images are firstly calculated and the residue of the image whose entropy is larger is extracted to make it highly relevant with the other source image. Then, the residue and the other source image are decomposed into low-frequency sub-bands and a sequence of high-frequency directional sub-bands in different scales by using BEMD and NSDFB. In this fusion scheme, two relevant fusion rules are used in low-frequency sub-bands and high-frequency directional sub-bands, respectively. Finally, the fused image is obtained by applying corresponding inverse transform. Experimental results indicate that the proposed fusion algorithm can obtain state-of-the-art performance for visible-infrared images fusion in both aspects of objective assessment and subjective visual quality even for the source images obtained in different conditions. Furthermore, the fused results have high contrast, remarkable target information and rich details information that are more suitable for human visual characteristics or machine perception.

First direct constraints on Fierz interference in free-neutron β decay

NASA Astrophysics Data System (ADS)

Hickerson, K. P.; Sun, X.; Bagdasarova, Y.; Bravo-Berguño, D.; Broussard, L. J.; Brown, M. A.-P.; Carr, R.; Currie, S.; Ding, X.; Filippone, B. W.; García, A.; Geltenbort, P.; Hoagland, J.; Holley, A. T.; Hong, R.; Ito, T. M.; Knecht, A.; Liu, C.-Y.; Liu, J. L.; Makela, M.; Mammei, R. R.; Martin, J. W.; Melconian, D.; Mendenhall, M. P.; Moore, S. D.; Morris, C. L.; Pattie, R. W.; Pérez Galván, A.; Picker, R.; Pitt, M. L.; Plaster, B.; Ramsey, J. C.; Rios, R.; Saunders, A.; Seestrom, S. J.; Sharapov, E. I.; Sondheim, W. E.; Tatar, E.; Vogelaar, R. B.; VornDick, B.; Wrede, C.; Young, A. R.; Zeck, B. A.; UCNA Collaboration

2017-10-01

Precision measurements of free-neutron β decay have been used to precisely constrain our understanding of the weak interaction. However, the neutron Fierz interference term bn, which is particularly sensitive to beyond-standard-model tensor currents at the TeV scale, has thus far eluded measurement. Here we report the first direct constraints on this term, finding bn=0.067 ±0 .005stat-0.061+0.090sys , consistent with the standard model. The uncertainty is dominated by absolute energy reconstruction and the linearity of the β spectrometer energy response.

Civil Engineering Applications of Ground Penetrating Radar Recent Advances @ the ELEDIA Research Center

NASA Astrophysics Data System (ADS)

Salucci, Marco; Tenuti, Lorenza; Nardin, Cristina; Oliveri, Giacomo; Viani, Federico; Rocca, Paolo; Massa, Andrea

2014-05-01

The application of non-destructive testing and evaluation (NDT/NDE) methodologies in civil engineering has raised a growing interest during the last years because of its potential impact in several different scenarios. As a consequence, Ground Penetrating Radar (GPR) technologies have been widely adopted as an instrument for the inspection of the structural stability of buildings and for the detection of cracks and voids. In this framework, the development and validation of GPR algorithms and methodologies represents one of the most active research areas within the ELEDIA Research Center of the University of Trento. More in detail, great efforts have been devoted towards the development of inversion techniques based on the integration of deterministic and stochastic search algorithms with multi-focusing strategies. These approaches proved to be effective in mitigating the effects of both nonlinearity and ill-posedness of microwave imaging problems, which represent the well-known issues arising in GPR inverse scattering formulations. More in detail, a regularized multi-resolution approach based on the Inexact Newton Method (INM) has been recently applied to subsurface prospecting, showing a remarkable advantage over a single-resolution implementation [1]. Moreover, the use of multi-frequency or frequency-hopping strategies to exploit the information coming from GPR data collected in time domain and transformed into its frequency components has been proposed as well. In this framework, the effectiveness of the multi-resolution multi-frequency techniques has been proven on synthetic data generated with numerical models such as GprMax [2]. The application of inversion algorithms based on Bayesian Compressive Sampling (BCS) [3][4] to GPR is currently under investigation, as well, in order to exploit their capability to provide satisfactory reconstructions in presence of single and multiple sparse scatterers [3][4]. Furthermore, multi-scaling approaches exploiting level-set-based optimization have been developed for the qualitative reconstruction of multiple and disconnected homogeneous scatterers [5]. Finally, the real-time detection and classification of subsurface scatterers has been investigated by means of learning-by-examples (LBE) techniques, such as Support Vector Machines (SVM) [6]. Acknowledgment - This work was partially supported by COST Action TU1208 'Civil Engineering Applications of Ground Penetrating Radar' References [1] M. Salucci, D. Sartori, N. Anselmi, A. Randazzo, G. Oliveri, and A. Massa, 'Imaging Buried Objects within the Second-Order Born Approximation through a Multiresolution Regularized Inexact-Newton Method', 2013 International Symposium on Electromagnetic Theory (EMTS), (Hiroshima, Japan), May 20-24 2013 (invited). [2] A. Giannopoulos, 'Modelling ground penetrating radar by GprMax', Construct. Build. Mater., vol. 19, no. 10, pp.755 -762 2005 [3] L. Poli, G. Oliveri, P. Rocca, and A. Massa, "Bayesian compressive sensing approaches for the reconstruction of two-dimensional sparse scatterers under TE illumination," IEEE Trans. Geosci. Remote Sensing, vol. 51, no. 5, pp. 2920-2936, May. 2013. [4] L. Poli, G. Oliveri, and A. Massa, "Imaging sparse metallic cylinders through a Local Shape Function Bayesian Compressive Sensing approach," Journal of Optical Society of America A, vol. 30, no. 6, pp. 1261-1272, 2013. [5] M. Benedetti, D. Lesselier, M. Lambert, and A. Massa, "Multiple shapes reconstruction by means of multi-region level sets," IEEE Trans. Geosci. Remote Sensing, vol. 48, no. 5, pp. 2330-2342, May 2010. [6] L. Lizzi, F. Viani, P. Rocca, G. Oliveri, M. Benedetti and A. Massa, "Three-dimensional real-time localization of subsurface objects - From theory to experimental validation," 2009 IEEE International Geoscience and Remote Sensing Symposium, vol. 2, pp. II-121-II-124, 12-17 July 2009.

An iterative reconstruction method for high-pitch helical luggage CT

NASA Astrophysics Data System (ADS)

Xue, Hui; Zhang, Li; Chen, Zhiqiang; Jin, Xin

2012-10-01

X-ray luggage CT is widely used in airports and railway stations for the purpose of detecting contrabands and dangerous goods that may be potential threaten to public safety, playing an important role in homeland security. An X-ray luggage CT is usually in a helical trajectory with a high pitch for achieving a high passing speed of the luggage. The disadvantage of high pitch is that conventional filtered back-projection (FBP) requires a very large slice thickness, leading to bad axial resolution and helical artifacts. Especially when severe data inconsistencies are present in the z-direction, like the ends of a scanning object, the partial volume effect leads to inaccuracy value and may cause a wrong identification. In this paper, an iterative reconstruction method is developed to improve the image quality and accuracy for a large-spacing multi-detector high-pitch helical luggage CT system. In this method, the slice thickness is set to be much smaller than the pitch. Each slice involves projection data collected in a rather small angular range, being an ill-conditioned limited-angle problem. Firstly a low-resolution reconstruction is employed to obtain images, which are used as prior images in the following process. Then iterative reconstruction is performed to obtain high-resolution images. This method enables a high volume coverage speed and a thin reconstruction slice for the helical luggage CT. We validate this method with data collected in a commercial X-ray luggage CT.

Direct and accelerated parameter mapping using the unscented Kalman filter.

PubMed

Zhao, Li; Feng, Xue; Meyer, Craig H

2016-05-01

To accelerate parameter mapping using a new paradigm that combines image reconstruction and model regression as a parameter state-tracking problem. In T2 mapping, the T2 map is first encoded in parameter space by multi-TE measurements and then encoded by Fourier transformation with readout/phase encoding gradients. Using a state transition function and a measurement function, the unscented Kalman filter can describe T2 mapping as a dynamic system and directly estimate the T2 map from the k-space data. The proposed method was validated with a numerical brain phantom and volunteer experiments with a multiple-contrast spin echo sequence. Its performance was compared with a conjugate-gradient nonlinear inversion method at undersampling factors of 2 to 8. An accelerated pulse sequence was developed based on this method to achieve prospective undersampling. Compared with the nonlinear inversion reconstruction, the proposed method had higher precision, improved structural similarity and reduced normalized root mean squared error, with acceleration factors up to 8 in numerical phantom and volunteer studies. This work describes a new perspective on parameter mapping by state tracking. The unscented Kalman filter provides a highly accelerated and efficient paradigm for T2 mapping. © 2015 Wiley Periodicals, Inc.

Single-event transient imaging with an ultra-high-speed temporally compressive multi-aperture CMOS image sensor.

PubMed

Mochizuki, Futa; Kagawa, Keiichiro; Okihara, Shin-ichiro; Seo, Min-Woong; Zhang, Bo; Takasawa, Taishi; Yasutomi, Keita; Kawahito, Shoji

2016-02-22

In the work described in this paper, an image reproduction scheme with an ultra-high-speed temporally compressive multi-aperture CMOS image sensor was demonstrated. The sensor captures an object by compressing a sequence of images with focal-plane temporally random-coded shutters, followed by reconstruction of time-resolved images. Because signals are modulated pixel-by-pixel during capturing, the maximum frame rate is defined only by the charge transfer speed and can thus be higher than those of conventional ultra-high-speed cameras. The frame rate and optical efficiency of the multi-aperture scheme are discussed. To demonstrate the proposed imaging method, a 5×3 multi-aperture image sensor was fabricated. The average rising and falling times of the shutters were 1.53 ns and 1.69 ns, respectively. The maximum skew among the shutters was 3 ns. The sensor observed plasma emission by compressing it to 15 frames, and a series of 32 images at 200 Mfps was reconstructed. In the experiment, by correcting disparities and considering temporal pixel responses, artifacts in the reconstructed images were reduced. An improvement in PSNR from 25.8 dB to 30.8 dB was confirmed in simulations.

Multislice spiral CT simulator for dynamic cardiopulmonary studies

NASA Astrophysics Data System (ADS)

De Francesco, Silvia; Ferreira da Silva, Augusto M.

2002-04-01

We've developed a Multi-slice Spiral CT Simulator modeling the acquisition process of a real tomograph over a 4-dimensional phantom (4D MCAT) of the human thorax. The simulator allows us to visually characterize artifacts due to insufficient temporal sampling and a priori evaluate the quality of the images obtained in cardio-pulmonary studies (both with single-/multi-slice and ECG gated acquisition processes). The simulating environment allows both for conventional and spiral scanning modes and includes a model of noise in the acquisition process. In case of spiral scanning, reconstruction facilities include longitudinal interpolation methods (360LI and 180LI both for single and multi-slice). Then, the reconstruction of the section is performed through FBP. The reconstructed images/volumes are affected by distortion due to insufficient temporal sampling of the moving object. The developed simulating environment allows us to investigate the nature of the distortion characterizing it qualitatively and quantitatively (using, for example, Herman's measures). Much of our work is focused on the determination of adequate temporal sampling and sinogram regularization techniques. At the moment, the simulator model is limited to the case of multi-slice tomograph, being planned as a next step of development the extension to cone beam or area detectors.

Application of composite dictionary multi-atom matching in gear fault diagnosis.

PubMed

Cui, Lingli; Kang, Chenhui; Wang, Huaqing; Chen, Peng

2011-01-01

The sparse decomposition based on matching pursuit is an adaptive sparse expression method for signals. This paper proposes an idea concerning a composite dictionary multi-atom matching decomposition and reconstruction algorithm, and the introduction of threshold de-noising in the reconstruction algorithm. Based on the structural characteristics of gear fault signals, a composite dictionary combining the impulse time-frequency dictionary and the Fourier dictionary was constituted, and a genetic algorithm was applied to search for the best matching atom. The analysis results of gear fault simulation signals indicated the effectiveness of the hard threshold, and the impulse or harmonic characteristic components could be separately extracted. Meanwhile, the robustness of the composite dictionary multi-atom matching algorithm at different noise levels was investigated. Aiming at the effects of data lengths on the calculation efficiency of the algorithm, an improved segmented decomposition and reconstruction algorithm was proposed, and the calculation efficiency of the decomposition algorithm was significantly enhanced. In addition it is shown that the multi-atom matching algorithm was superior to the single-atom matching algorithm in both calculation efficiency and algorithm robustness. Finally, the above algorithm was applied to gear fault engineering signals, and achieved good results.

SU-E-T-154: Establishment and Implement of 3D Image Guided Brachytherapy Planning System

DOE Office of Scientific and Technical Information (OSTI.GOV)

Jiang, S; Zhao, S; Chen, Y

2014-06-01

Purpose: Cannot observe the dose intuitionally is a limitation of the existing 2D pre-implantation dose planning. Meanwhile, a navigation module is essential to improve the accuracy and efficiency of the implantation. Hence a 3D Image Guided Brachytherapy Planning System conducting dose planning and intra-operative navigation based on 3D multi-organs reconstruction is developed. Methods: Multi-organs including the tumor are reconstructed in one sweep of all the segmented images using the multiorgans reconstruction method. The reconstructed organs group establishs a three-dimensional visualized operative environment. The 3D dose maps of the three-dimentional conformal localized dose planning are calculated with Monte Carlo method whilemore » the corresponding isodose lines and isodose surfaces are displayed in a stereo view. The real-time intra-operative navigation is based on an electromagnetic tracking system (ETS) and the fusion between MRI and ultrasound images. Applying Least Square Method, the coordinate registration between 3D models and patient is realized by the ETS which is calibrated by a laser tracker. The system is validated by working on eight patients with prostate cancer. The navigation has passed the precision measurement in the laboratory. Results: The traditional marching cubes (MC) method reconstructs one organ at one time and assembles them together. Compared to MC, presented multi-organs reconstruction method has superiorities in reserving the integrality and connectivity of reconstructed organs. The 3D conformal localized dose planning, realizing the 'exfoliation display' of different isodose surfaces, helps make sure the dose distribution has encompassed the nidus and avoid the injury of healthy tissues. During the navigation, surgeons could observe the coordinate of instruments real-timely employing the ETS. After the calibration, accuracy error of the needle position is less than 2.5mm according to the experiments. Conclusion: The speed and quality of 3D reconstruction, the efficiency in dose planning and accuracy in navigation all can be improved simultaneously.« less

Improved CEEMDAN-wavelet transform de-noising method and its application in well logging noise reduction

NASA Astrophysics Data System (ADS)

Zhang, Jingxia; Guo, Yinghai; Shen, Yulin; Zhao, Difei; Li, Mi

2018-06-01

The use of geophysical logging data to identify lithology is an important groundwork in logging interpretation. Inevitably, noise is mixed in during data collection due to the equipment and other external factors and this will affect the further lithological identification and other logging interpretation. Therefore, to get a more accurate lithological identification it is necessary to adopt de-noising methods. In this study, a new de-noising method, namely improved complete ensemble empirical mode decomposition with adaptive noise (CEEMDAN)-wavelet transform, is proposed, which integrates the superiorities of improved CEEMDAN and wavelet transform. Improved CEEMDAN, an effective self-adaptive multi-scale analysis method, is used to decompose non-stationary signals as the logging data to obtain the intrinsic mode function (IMF) of N different scales and one residual. Moreover, one self-adaptive scale selection method is used to determine the reconstruction scale k. Simultaneously, given the possible frequency aliasing problem between adjacent IMFs, a wavelet transform threshold de-noising method is used to reduce the noise of the (k-1)th IMF. Subsequently, the de-noised logging data are reconstructed by the de-noised (k-1)th IMF and the remaining low-frequency IMFs and the residual. Finally, empirical mode decomposition, improved CEEMDAN, wavelet transform and the proposed method are applied for analysis of the simulation and the actual data. Results show diverse performance of these de-noising methods with regard to accuracy for lithological identification. Compared with the other methods, the proposed method has the best self-adaptability and accuracy in lithological identification.

Alignment of crystal orientations of the multi-domain photonic crystals in Parides sesostris wing scales

PubMed Central

Yoshioka, S.; Fujita, H.; Kinoshita, S.; Matsuhana, B.

2014-01-01

It is known that the wing scales of the emerald-patched cattleheart butterfly, Parides sesostris, contain gyroid-type photonic crystals, which produce a green structural colour. However, the photonic crystal is not a single crystal that spreads over the entire scale, but it is separated into many small domains with different crystal orientations. As a photonic crystal generally has band gaps at different frequencies depending on the direction of light propagation, it seems mysterious that the scale is observed to be uniformly green under an optical microscope despite the multi-domain structure. In this study, we have carefully investigated the structure of the wing scale and discovered that the crystal orientations of different domains are not perfectly random, but there is a preferred crystal orientation that is aligned along the surface normal of the scale. This finding suggests that there is an additional factor during the developmental process of the microstructure that regulates the crystal orientation. PMID:24352678

Consistent cortical reconstruction and multi-atlas brain segmentation.

PubMed

Huo, Yuankai; Plassard, Andrew J; Carass, Aaron; Resnick, Susan M; Pham, Dzung L; Prince, Jerry L; Landman, Bennett A

2016-09-01

Whole brain segmentation and cortical surface reconstruction are two essential techniques for investigating the human brain. Spatial inconsistences, which can hinder further integrated analyses of brain structure, can result due to these two tasks typically being conducted independently of each other. FreeSurfer obtains self-consistent whole brain segmentations and cortical surfaces. It starts with subcortical segmentation, then carries out cortical surface reconstruction, and ends with cortical segmentation and labeling. However, this "segmentation to surface to parcellation" strategy has shown limitations in various cohorts such as older populations with large ventricles. In this work, we propose a novel "multi-atlas segmentation to surface" method called Multi-atlas CRUISE (MaCRUISE), which achieves self-consistent whole brain segmentations and cortical surfaces by combining multi-atlas segmentation with the cortical reconstruction method CRUISE. A modification called MaCRUISE(+) is designed to perform well when white matter lesions are present. Comparing to the benchmarks CRUISE and FreeSurfer, the surface accuracy of MaCRUISE and MaCRUISE(+) is validated using two independent datasets with expertly placed cortical landmarks. A third independent dataset with expertly delineated volumetric labels is employed to compare segmentation performance. Finally, 200MR volumetric images from an older adult sample are used to assess the robustness of MaCRUISE and FreeSurfer. The advantages of MaCRUISE are: (1) MaCRUISE constructs self-consistent voxelwise segmentations and cortical surfaces, while MaCRUISE(+) is robust to white matter pathology. (2) MaCRUISE achieves more accurate whole brain segmentations than independently conducting the multi-atlas segmentation. (3) MaCRUISE is comparable in accuracy to FreeSurfer (when FreeSurfer does not exhibit global failures) while achieving greater robustness across an older adult population. MaCRUISE has been made freely available in open source. Copyright © 2016 Elsevier Inc. All rights reserved.

Pressure Variations in Metamorphic Rocks: Implications for the Interpretation of Petrographic Observations

NASA Astrophysics Data System (ADS)

Tajčmanová, Lucie

2014-05-01

Metamorphic petrologists and structural geologists, using direct measurements, bring the only direct observational constrains for validating geodynamic models. Therefore, petrological and structural geological observations are essential for the quality and reproducibility of geodynamic reconstructions and models. One of the important assumptions for geodynamic reconstructions arises from the pressure and temperature estimates in the petrology analysis. Pressure is commonly converted to depth through the equation for lithostatic pressure and so the original position of the rock sample within the Earth's interior can be constrained. The current assumption that the studied sample corresponds to uniform pressure may not be correct, and if so, it has serious implications. Increasing evidence from analytical data shows that pressure is not constant even on a grain scale, posing new challenges because, if ignored, it leads to an incorrect use of petrology data in constraining geodynamic models. Well known examples of the preservation of coesite and diamond in a host mineral like garnet show that high pressure inclusions are preserved during decompression. Tajčmanová et al. (2014) has shown that grain-scale pressure variations can develop and that these pressure variations allow compositional zoning in minerals preserved over geological time scales. A new unconventional barometric method based on equilibrium under pressure variations has been developed . Such pressure variations are also connected with differences in fluid pressure in open systems and can be thus observed at all scales. Tajčmanová L., Podladchikov Y., Powell R., Moulas E., Vrijmoed J. and Connolly J. (2014). Grain scale pressure variations and chemical equilibrium in high-grade metamorphic rocks.Journal of Metamorphic Geology, doi:10.1111/jmg.12066 This work was supported by ERC starting grant 335577 to Lucie Tajcmanova

Nonnegative definite EAP and ODF estimation via a unified multi-shell HARDI reconstruction.

PubMed

Cheng, Jian; Jiang, Tianzi; Deriche, Rachid

2012-01-01

In High Angular Resolution Diffusion Imaging (HARDI), Orientation Distribution Function (ODF) and Ensemble Average Propagator (EAP) are two important Probability Density Functions (PDFs) which reflect the water diffusion and fiber orientations. Spherical Polar Fourier Imaging (SPFI) is a recent model-free multi-shell HARDI method which estimates both EAP and ODF from the diffusion signals with multiple b values. As physical PDFs, ODFs and EAPs are nonnegative definite respectively in their domains S2 and R3. However, existing ODF/EAP estimation methods like SPFI seldom consider this natural constraint. Although some works considered the nonnegative constraint on the given discrete samples of ODF/EAP, the estimated ODF/EAP is not guaranteed to be nonnegative definite in the whole continuous domain. The Riemannian framework for ODFs and EAPs has been proposed via the square root parameterization based on pre-estimated ODFs and EAPs by other methods like SPFI. However, there is no work on how to estimate the square root of ODF/EAP called as the wavefuntion directly from diffusion signals. In this paper, based on the Riemannian framework for ODFs/EAPs and Spherical Polar Fourier (SPF) basis representation, we propose a unified model-free multi-shell HARDI method, named as Square Root Parameterized Estimation (SRPE), to simultaneously estimate both the wavefunction of EAPs and the nonnegative definite ODFs and EAPs from diffusion signals. The experiments on synthetic data and real data showed SRPE is more robust to noise and has better EAP reconstruction than SPFI, especially for EAP profiles at large radius.

Data-driven sensor placement from coherent fluid structures

NASA Astrophysics Data System (ADS)

Manohar, Krithika; Kaiser, Eurika; Brunton, Bingni W.; Kutz, J. Nathan; Brunton, Steven L.

2017-11-01

Optimal sensor placement is a central challenge in the prediction, estimation and control of fluid flows. We reinterpret sensor placement as optimizing discrete samples of coherent fluid structures for full state reconstruction. This permits a drastic reduction in the number of sensors required for faithful reconstruction, since complex fluid interactions can often be described by a small number of coherent structures. Our work optimizes point sensors using the pivoted matrix QR factorization to sample coherent structures directly computed from flow data. We apply this sampling technique in conjunction with various data-driven modal identification methods, including the proper orthogonal decomposition (POD) and dynamic mode decomposition (DMD). In contrast to POD-based sensors, DMD demonstrably enables the optimization of sensors for prediction in systems exhibiting multiple scales of dynamics. Finally, reconstruction accuracy from pivot sensors is shown to be competitive with sensors obtained using traditional computationally prohibitive optimization methods.

A Systematic Review and Head-to-Head Meta-Analysis of Outcomes following Direct-to-Implant versus Conventional Two-Stage Implant Reconstruction.

PubMed

Basta, Marten N; Gerety, Patrick A; Serletti, Joseph M; Kovach, Stephen J; Fischer, John P

2015-12-01

Innovative approaches to reconstruction have ushered in an era of breast reconstruction in which direct-to-implant procedures can provide an immediately reconstructed breast. Balancing the benefits against its technical challenges is vital. The authors evaluated the safety and efficacy of using direct-to-implant versus conventional two-stage reconstruction through a systematic meta-analysis. A literature search identified all articles published after 1999 involving prosthetic-based breast reconstruction as a two-stage tissue expander/implant or direct-to-implant technique. The primary outcomes of interest, including implant loss, capsular contracture, reoperation, and infection, were analyzed by means of head-to-head meta-analysis. Thirteen studies involving 5216 breast reconstructions were included. The average patient age was 47.2 ± 1.0 years, the average body mass index was 24.9 ± 0.8 mg/k2, and the average follow-up was 40.8 months. Wound infection, seroma, and capsular contracture risk were similar between groups. However, direct-to-implant reconstruction was associated with a higher risk for skin flap necrosis (OR, 1.43; p = 0.01; I2 = 51 percent) and reoperation (OR, 1.25; p = 0.04; I2 = 43 percent). Ultimately, the risk for implant loss was nearly two-fold higher with direct-to-implant reconstruction compared with tissue expander/implant reconstruction (OR, 1.87; p = 0.04; I2 = 33 percent). Although direct-to-implant and two-stage tissue expander/implant reconstruction are successful approaches, this meta-analysis demonstrates significantly greater risk of flap necrosis and implant failure with direct-to-implant reconstruction. The authors' findings suggest that the critical component of patient selection is judgment of mastectomy flap tissue quality. These findings can enhance the risk counseling process and highlight the need for additional investigations to optimize outcomes.

Iraq: Recent Developments in Reconstruction Assistance

DTIC Science & Technology

2005-03-23

Developments in Reconstruction Assistance Summary Large-scale reconstruction assistance programs are being undertaken by the United States following the war...currently the case. The House approved the measure on March 16. On June 28, 2004, the entity implementing assistance programs , the Coalition Provisional...Large-scale reconstruction assistance programs are being undertaken by the United States in Iraq. This report describes recent developments in this

Southwestern USA Drought over Multiple Millennia

NASA Astrophysics Data System (ADS)

Salzer, M. W.; Kipfmueller, K. F.

2014-12-01

Severe to extreme drought conditions currently exist across much of the American West. There is increasing concern that climate change may be worsening droughts in the West and particularly the Southwest. Thus, it is important to understand the role of natural variability and to place current conditions in a long-term context. We present a tree-ring derived reconstruction of regional-scale precipitation for the Southwestern USA over several millennia. A network of 48 tree-ring chronologies from California, Nevada, Utah, Arizona, New Mexico, and Colorado was used. All of the chronologies are at least 1,000 years long. The network was subjected to data reduction through PCA and a "nested" multiple linear regression reconstruction approach. The regression model was able to capture 72% of the variance in September-August precipitation over the last 1,000 years and 53% of the variance over the first millennium of the Common Era. Variance captured and spatial coverage further declined back in time as the shorter chronologies dropped out of the model, eventually reaching 24% of variance captured at 3250 BC. Results show regional droughts on decadal- to multi-decadal scales have been prominent and persistent phenomena in the region over the last several millennia. Anthropogenic warming is likely to exacerbate the effects of future droughts on human and other biotic populations.

Laser Scanning Holographic Lithography for Flexible 3D Fabrication of Multi-Scale Integrated Nano-structures and Optical Biosensors

PubMed Central

Yuan, Liang (Leon); Herman, Peter R.

2016-01-01

Three-dimensional (3D) periodic nanostructures underpin a promising research direction on the frontiers of nanoscience and technology to generate advanced materials for exploiting novel photonic crystal (PC) and nanofluidic functionalities. However, formation of uniform and defect-free 3D periodic structures over large areas that can further integrate into multifunctional devices has remained a major challenge. Here, we introduce a laser scanning holographic method for 3D exposure in thick photoresist that combines the unique advantages of large area 3D holographic interference lithography (HIL) with the flexible patterning of laser direct writing to form both micro- and nano-structures in a single exposure step. Phase mask interference patterns accumulated over multiple overlapping scans are shown to stitch seamlessly and form uniform 3D nanostructure with beam size scaled to small 200 μm diameter. In this way, laser scanning is presented as a facile means to embed 3D PC structure within microfluidic channels for integration into an optofluidic lab-on-chip, demonstrating a new laser HIL writing approach for creating multi-scale integrated microsystems. PMID:26922872

Multi-Scale Analyses of Three Dimensional Woven Composite 3D Shell With a Cut Out Circle

NASA Astrophysics Data System (ADS)

Nguyen, Duc Hai; Wang, Hu

2018-06-01

A composite material are made by combining two or more constituent materials to obtain the desired material properties of each product type. The matrix material which can be polymer and fiber is used as reinforcing material. Currently, the polymer matrix is widely used in many different fields with differently designed structures such as automotive structures and aviation, aerospace, marine, etc. because of their excellent mechanical properties; in addition, they possess the high level of hardness and durability together with a significant reduction in weight compared to traditional materials. However, during design process of structure, there will be many interruptions created for the purpose of assembling the structures together or for many other design purposes. Therefore, when this structure is subject to load-bearing, its failure occurs at these interruptions due to stress concentration. This paper proposes multi-scale modeling and optimization strategies in evaluation of the effectiveness of fiber orientation in an E-glass/Epoxy woven composite 3D shell with circular holes at the center investigated by FEA results. A multi-scale model approach was developed to predict the mechanical behavior of woven composite 3D shell with circular holes at the center with different designs of material and structural parameters. Based on the analysis result of laminae, we have found that the 3D shell with fiber direction of 450 shows the best stress and strain bearing capacity. Thus combining several layers of 450 fiber direction in a multi-layer composite 3D shell reduces the stresses concentrated on the cuts of the structures.

ACCURATE CHEMICAL MASTER EQUATION SOLUTION USING MULTI-FINITE BUFFERS

PubMed Central

Cao, Youfang; Terebus, Anna; Liang, Jie

2016-01-01

The discrete chemical master equation (dCME) provides a fundamental framework for studying stochasticity in mesoscopic networks. Because of the multi-scale nature of many networks where reaction rates have large disparity, directly solving dCMEs is intractable due to the exploding size of the state space. It is important to truncate the state space effectively with quantified errors, so accurate solutions can be computed. It is also important to know if all major probabilistic peaks have been computed. Here we introduce the Accurate CME (ACME) algorithm for obtaining direct solutions to dCMEs. With multi-finite buffers for reducing the state space by O(n!), exact steady-state and time-evolving network probability landscapes can be computed. We further describe a theoretical framework of aggregating microstates into a smaller number of macrostates by decomposing a network into independent aggregated birth and death processes, and give an a priori method for rapidly determining steady-state truncation errors. The maximal sizes of the finite buffers for a given error tolerance can also be pre-computed without costly trial solutions of dCMEs. We show exactly computed probability landscapes of three multi-scale networks, namely, a 6-node toggle switch, 11-node phage-lambda epigenetic circuit, and 16-node MAPK cascade network, the latter two with no known solutions. We also show how probabilities of rare events can be computed from first-passage times, another class of unsolved problems challenging for simulation-based techniques due to large separations in time scales. Overall, the ACME method enables accurate and efficient solutions of the dCME for a large class of networks. PMID:27761104

The use of AlloDerm in postmastectomy alloplastic breast reconstruction: part II. A cost analysis.

PubMed

Jansen, Leigh A; Macadam, Sheina A

2011-06-01

Increasingly, AlloDerm is being used in alloplastic breast reconstruction, and has been the subject of a recent systematic review. The authors' objective was to perform a cost analysis comparing direct-to-implant with AlloDerm reconstruction to two-stage non-AlloDerm reconstruction. Seven clinically important health outcomes and their probabilities for both types of reconstruction were derived from the recent review. A decision analytic model from the Canadian provincial payer's perspective was constructed based on these health states. Direct medical costs were estimated from a university-based hospital, yielding expected costs for direct-to-implant reconstruction with AlloDerm and two-stage non-AlloDerm reconstruction. Sensitivity analyses were conducted. Baseline and expected costs were calculated for direct-to-implant AlloDerm and two-stage non-AlloDerm reconstruction. Direct-to-implant reconstruction with AlloDerm was found to be less expensive in the baseline ($10,240 versus $10,584) and expected cost ($10,734 versus $11,251) using a 6 × 16-cm AlloDerm sheet. With a 6 × 12-cm sheet, expected cost falls to $9673. By increasing direct-to-implant operative time from 2 hours to 2.5 hours, expected cost rises to $11,784. If capsular contracture rate requiring revision is set at 15 percent for both procedures, expected costs are $10,926 and $11,251 for direct-to-implant and two-stage procedures, respectively. If the capsular contracture rate is lowered for either procedure, this has minimal impact on expected cost. Although AlloDerm is expensive, it appears to be cost-effective if used for direct-to-implant breast reconstruction. The methods used here may be extrapolated to different centers incorporating local costs and complication rates. A formal randomized controlled trial, including costs, is recommended.

Alkenone temperature of 84 core tops and Holocene sediments in the southeastern Yellow Sea

NASA Astrophysics Data System (ADS)

Bae, S. W.; Lee, K. E.; Chang, T. S.

2016-12-01

The C37 alkenones have been widely used for reconstruction of past sea surface temperatuer (SST) in open ocean, but there is an uncertainty about the applicability of alkenone paleothermometry at marginal sea, especially in the Yellow Sea. To test that, alkenone-based temperatures estimated using 84 surface sediments from the Heuksan Mud Belt (HMB), which is located in the southeastern Yellow Sea, were compared with horizontal, vertical, and seasonal distriubution pattern of in-situ temperature (data from NFRDI in Korea, 2005-2014). In addition, we reconstruct variations in Holocene high-resolution SST from the deep drilled core sediments (HMB-101 and HMB-103) recovered from the HMB. The values of core top alkenone temperatues and its spatial distribution pattern correspond well with those of in-situ temperature in spring to summer at depths of 0-10 m. Especially, the alkenone temperatures of southern part were relatively high compared to those of the northern part and they decreased northward, which is consistent to the general trend of in-situ temperature. These indicate that reconstructed alkenone temperature from the HMB marine sediments seems to represent the SST in spirng to summer. During the Holocene, the alkenone temperatures which were reconstructed from HMB cores ranged from 15.5 to 19 °C. The study area is characterized by high sedimentation rate of approximately 0.2 cm/yr and average temporal resolution of the reconstructed alkenone temperature record is 20 yr. Hence multi-centennial to millennial time scale SST variations during the Holocene will be able to be investigated based on the alkenone record.

Acceleration of the direct reconstruction of linear parametric images using nested algorithms.

PubMed

Wang, Guobao; Qi, Jinyi

2010-03-07

Parametric imaging using dynamic positron emission tomography (PET) provides important information for biological research and clinical diagnosis. Indirect and direct methods have been developed for reconstructing linear parametric images from dynamic PET data. Indirect methods are relatively simple and easy to implement because the image reconstruction and kinetic modeling are performed in two separate steps. Direct methods estimate parametric images directly from raw PET data and are statistically more efficient. However, the convergence rate of direct algorithms can be slow due to the coupling between the reconstruction and kinetic modeling. Here we present two fast gradient-type algorithms for direct reconstruction of linear parametric images. The new algorithms decouple the reconstruction and linear parametric modeling at each iteration by employing the principle of optimization transfer. Convergence speed is accelerated by running more sub-iterations of linear parametric estimation because the computation cost of the linear parametric modeling is much less than that of the image reconstruction. Computer simulation studies demonstrated that the new algorithms converge much faster than the traditional expectation maximization (EM) and the preconditioned conjugate gradient algorithms for dynamic PET.

Sequential Superresolution Imaging of Multiple Targets Using a Single Fluorophore

PubMed Central

Lidke, Diane S.; Lidke, Keith A.

2015-01-01

Fluorescence superresolution (SR) microscopy, or fluorescence nanoscopy, provides nanometer scale detail of cellular structures and allows for imaging of biological processes at the molecular level. Specific SR imaging methods, such as localization-based imaging, rely on stochastic transitions between on (fluorescent) and off (dark) states of fluorophores. Imaging multiple cellular structures using multi-color imaging is complicated and limited by the differing properties of various organic dyes including their fluorescent state duty cycle, photons per switching event, number of fluorescent cycles before irreversible photobleaching, and overall sensitivity to buffer conditions. In addition, multiple color imaging requires consideration of multiple optical paths or chromatic aberration that can lead to differential aberrations that are important at the nanometer scale. Here, we report a method for sequential labeling and imaging that allows for SR imaging of multiple targets using a single fluorophore with negligible cross-talk between images. Using brightfield image correlation to register and overlay multiple image acquisitions with ~10 nm overlay precision in the x-y imaging plane, we have exploited the optimal properties of AlexaFluor647 for dSTORM to image four distinct cellular proteins. We also visualize the changes in co-localization of the epidermal growth factor (EGF) receptor and clathrin upon EGF addition that are consistent with clathrin-mediated endocytosis. These results are the first to demonstrate sequential SR (s-SR) imaging using direct stochastic reconstruction microscopy (dSTORM), and this method for sequential imaging can be applied to any superresolution technique. PMID:25860558

On the contributions of astroparticle physics to cosmology

NASA Astrophysics Data System (ADS)

Falkenburg, Brigitte

2014-05-01

Studying astroparticle physics sheds new light on scientific explanation and on the ways in which cosmology is empirically underdetermined or not. Astroparticle physics extends the empirical domain of cosmology from purely astronomical data to "multi-messenger astrophysics", i.e., measurements of all kinds of cosmic rays including very high energetic gamma rays, neutrinos, and charged particles. My paper investigates the ways in which these measurements contribute to cosmology and compares them with philosophical views about scientific explanation, the relation between theory and data, and scientific realism. The "standard models" of cosmology and particle physics lack of unified foundations. Both are "piecemeal physics" in Cartwright's sense, but contrary to her metaphysics of a "dappled world" the work in both fields of research aims at unification. Cosmology proceeds "top-down", from models to data and from large scale to small-scale structures of the universe. Astroparticle physics proceeds "bottom-up", from data taking to models and from subatomic particles to large-scale structures of the universe. In order to reconstruct the causal stories of cosmic rays and the nature of their sources, several pragmatic unifying strategies are employed. Standard views about scientific explanation and scientific realism do not cope with these "bottom-up" strategies and the way in which they contribute to cosmology. In addition it has to be noted that the shift to "multi-messenger astrophysics" transforms the relation between cosmological theory and astrophysical data in a mutually holistic way.

Toward a Multi-scale Phase Transition Kinetics Methodology: From Non-Equilibrium Statistical Mechanics to Hydrodynamics

NASA Astrophysics Data System (ADS)

Belof, Jonathan; Orlikowski, Daniel; Wu, Christine; McLaughlin, Keith

2013-06-01

Shock and ramp compression experiments are allowing us to probe condensed matter under extreme conditions where phase transitions and other non-equilibrium aspects can now be directly observed, but first principles simulation of kinetics remains a challenge. A multi-scale approach is presented here, with non-equilibrium statistical mechanical quantities calculated by molecular dynamics (MD) and then leveraged to inform a classical nucleation and growth kinetics model at the hydrodynamic scale. Of central interest is the free energy barrier for the formation of a critical nucleus, with direct NEMD presenting the challenge of relatively long timescales necessary to resolve nucleation. Rather than attempt to resolve the time-dependent nucleation sequence directly, the methodology derived here is built upon the non-equilibrium work theorem in order to bias the formation of a critical nucleus and thus construct the nucleation and growth rates. Having determined these kinetic terms from MD, a hydrodynamics implementation of Kolmogorov-Johnson-Mehl-Avrami (KJMA) kinetics and metastabilty is applied to the dynamic compressive freezing of water and compared with recent ramp compression experiments [Dolan et al., Nature (2007)] Lawrence Livermore National Laboratory is operated by Lawrence Livermore National Security, LLC, for the U.S. Department of Energy, National Nuclear Security Administration under Contract DE-AC52-07NA27344.

Multi-oriented windowed harmonic phase reconstruction for robust cardiac strain imaging.

PubMed

Cordero-Grande, Lucilio; Royuela-del-Val, Javier; Sanz-Estébanez, Santiago; Martín-Fernández, Marcos; Alberola-López, Carlos

2016-04-01

The purpose of this paper is to develop a method for direct estimation of the cardiac strain tensor by extending the harmonic phase reconstruction on tagged magnetic resonance images to obtain more precise and robust measurements. The extension relies on the reconstruction of the local phase of the image by means of the windowed Fourier transform and the acquisition of an overdetermined set of stripe orientations in order to avoid the phase interferences from structures outside the myocardium and the instabilities arising from the application of a gradient operator. Results have shown that increasing the number of acquired orientations provides a significant improvement in the reproducibility of the strain measurements and that the acquisition of an extended set of orientations also improves the reproducibility when compared with acquiring repeated samples from a smaller set of orientations. Additionally, biases in local phase estimation when using the original harmonic phase formulation are greatly diminished by the one here proposed. The ideas here presented allow the design of new methods for motion sensitive magnetic resonance imaging, which could simultaneously improve the resolution, robustness and accuracy of motion estimates. Copyright © 2015 Elsevier B.V. All rights reserved.

High-resolution, multi-proxy characterization of the event deposit generated by the catastrophic events associated with the Mw 6.2 earthquake of 21 April 2007 in Aysén fjord (Chile)

NASA Astrophysics Data System (ADS)

De Batist, M. A.; Van Daele, M. E.; Cnudde, V.; Duyck, P.; Tjallingii, R. H.; Pino, M.; Urrutia, R.

2012-12-01

In 2007, a seismic swarm with more than 7000 recorded earthquakes affected the region around Aysén fjord, Chile (45°25'S). The series of seismic events reached a maximum on 21 April 2007, with an Mw 6.2 earthquake. Intensities as high as VIII to IX on the Modified Mercalli scale were reported around the epicenter. Multiple debris flows, rock slides and rock avalanches were triggered along the fjord's coastline, and several of these caused impact waves or tsunamis with wave heights of up to 6 m, which inundated the fjord shorelines and caused heavy damage and 10 casualties. In order to characterize in detail the imprint left by this series of catastrophic events in the sedimentary record of the fjord, we conducted a multi-disciplinary survey of the inner fjord region in December 2009. Multibeam bathymetry and high-resolution reflection seismic data reveal that large parts of the fjord basin floor, mostly at the foot of the fjord's steep underwater slopes, are covered by recent mass-wasting deposits or consist of mass-wasting-induced deformed basin-plain sediments. A series of short sediment cores collected throughout the inner fjord contain also the more distal deposits of this significant basin-wide mass-wasting event. By combining classical sedimentological techniques (i.e. grain-size analysis, LOI and magnetic susceptibility measurements, all at high resolution) with X-ray CT scanning and XRF scanning we were able to demonstrate that the event deposits encountered in the cores have a very complex signature and actually consist of a succession of several sub-deposits, comprising distal mass-flow deposits from different source areas (as evidenced by XRF-derived geochemical provenance indications) and with a different flow direction (as evidenced by CT-derived 3D flow-direction indications, such as imbricated rip-up mud clasts, cross and convolute laminations) and tsunami- or seiche-generated deposits. This allowed us to reconstruct the succession of sedimentary events that affected the inner fjord region and got imprinted in the fjord's sedimentary record. The improved characterization of such a complex event deposit may help to reconstruct the exact nature and basin-wide effects of past similar events (i.e. the seismic data show clear evidence of 3-4 similar prehistoric events) and to establish a reliable hazard assessment for the region.

Meta-analysis for psychological impact of breast reconstruction in patients with breast cancer.

PubMed

Chen, Wanjing; Lv, Xiaoai; Xu, Xiaohong; Gao, Xiufei; Wang, Bei

2018-07-01

This meta-analysis aimed to evaluate the impact of breast reconstruction on the psychological aspects in patients with breast cancer. A literature search on PubMed, Embase, ScienceDirect and Google scholar databases was conducted up to September 2017. The pooled risk radio (RR) or standard mean difference (SMD) and the corresponding 95% confidence intervals (CIs) were calculated using the RevMan 5.3 software. A total of 5 studies were included in this meta-analysis. There were 551 breast cancer patients receiving mastectomy plus breast reconstruction and 574 breast cancer patients receiving mastectomy alone. The results showed that breast reconstruction can significantly decrease the incidence of anxiety (RR = 0.62, 95% CI 0.47-0.82, P = 0.0006)/depression (RR = 0.54, 95% CI 0.32-0.93, P = 0.02) and scale score for evaluating anxiety (SMD = - 0.20, 95% CI - 0.37 to - 0.03, P = 0.02)/depression (SMD = - 0.22, 95% CI - 0.39 to - 0.66, P = 0.007) compared with mastectomy alone. Breast reconstruction after mastectomy was benefit for improving the psychological damages in patients with breast cancer.

NeuroLines: A Subway Map Metaphor for Visualizing Nanoscale Neuronal Connectivity.

PubMed

Al-Awami, Ali K; Beyer, Johanna; Strobelt, Hendrik; Kasthuri, Narayanan; Lichtman, Jeff W; Pfister, Hanspeter; Hadwiger, Markus

2014-12-01

We present NeuroLines, a novel visualization technique designed for scalable detailed analysis of neuronal connectivity at the nanoscale level. The topology of 3D brain tissue data is abstracted into a multi-scale, relative distance-preserving subway map visualization that allows domain scientists to conduct an interactive analysis of neurons and their connectivity. Nanoscale connectomics aims at reverse-engineering the wiring of the brain. Reconstructing and analyzing the detailed connectivity of neurons and neurites (axons, dendrites) will be crucial for understanding the brain and its development and diseases. However, the enormous scale and complexity of nanoscale neuronal connectivity pose big challenges to existing visualization techniques in terms of scalability. NeuroLines offers a scalable visualization framework that can interactively render thousands of neurites, and that supports the detailed analysis of neuronal structures and their connectivity. We describe and analyze the design of NeuroLines based on two real-world use-cases of our collaborators in developmental neuroscience, and investigate its scalability to large-scale neuronal connectivity data.

On the estimation of the current density in space plasmas: Multi- versus single-point techniques

NASA Astrophysics Data System (ADS)

Perri, Silvia; Valentini, Francesco; Sorriso-Valvo, Luca; Reda, Antonio; Malara, Francesco

2017-06-01

Thanks to multi-spacecraft mission, it has recently been possible to directly estimate the current density in space plasmas, by using magnetic field time series from four satellites flying in a quasi perfect tetrahedron configuration. The technique developed, commonly called ;curlometer; permits a good estimation of the current density when the magnetic field time series vary linearly in space. This approximation is generally valid for small spacecraft separation. The recent space missions Cluster and Magnetospheric Multiscale (MMS) have provided high resolution measurements with inter-spacecraft separation up to 100 km and 10 km, respectively. The former scale corresponds to the proton gyroradius/ion skin depth in ;typical; solar wind conditions, while the latter to sub-proton scale. However, some works have highlighted an underestimation of the current density via the curlometer technique with respect to the current computed directly from the velocity distribution functions, measured at sub-proton scales resolution with MMS. In this paper we explore the limit of the curlometer technique studying synthetic data sets associated to a cluster of four artificial satellites allowed to fly in a static turbulent field, spanning a wide range of relative separation. This study tries to address the relative importance of measuring plasma moments at very high resolution from a single spacecraft with respect to the multi-spacecraft missions in the current density evaluation.

Recent technologic advances in multi-detector row cardiac CT.

PubMed

Halliburton, Sandra Simon

2009-11-01

Recent technical advances in multi-detector row CT have resulted in lower radiation dose, improved temporal and spatial resolution, decreased scan time, and improved tissue differentiation. Lower radiation doses have resulted from the use of pre-patient z collimators, the availability of thin-slice axial data acquisition, the increased efficiency of ECG-based tube current modulation, and the implementation of iterative reconstruction algorithms. Faster gantry rotation and the simultaneous use of two x-ray sources have led to improvements in temporal resolution, and gains in spatial resolution have been achieved through application of the flying x-ray focal-spot technique in the z-direction. Shorter scan times have resulted from the design of detector arrays with increasing numbers of detector rows and through the simultaneous use of two x-ray sources to allow higher helical pitch. Some improvement in tissue differentiation has been achieved with dual energy CT. This article discusses these recent technical advances in detail.

Mapping from Space - Ontology Based Map Production Using Satellite Imageries

NASA Astrophysics Data System (ADS)

Asefpour Vakilian, A.; Momeni, M.

2013-09-01

Determination of the maximum ability for feature extraction from satellite imageries based on ontology procedure using cartographic feature determination is the main objective of this research. Therefore, a special ontology has been developed to extract maximum volume of information available in different high resolution satellite imageries and compare them to the map information layers required in each specific scale due to unified specification for surveying and mapping. ontology seeks to provide an explicit and comprehensive classification of entities in all sphere of being. This study proposes a new method for automatic maximum map feature extraction and reconstruction of high resolution satellite images. For example, in order to extract building blocks to produce 1 : 5000 scale and smaller maps, the road networks located around the building blocks should be determined. Thus, a new building index has been developed based on concepts obtained from ontology. Building blocks have been extracted with completeness about 83%. Then, road networks have been extracted and reconstructed to create a uniform network with less discontinuity on it. In this case, building blocks have been extracted with proper performance and the false positive value from confusion matrix was reduced by about 7%. Results showed that vegetation cover and water features have been extracted completely (100%) and about 71% of limits have been extracted. Also, the proposed method in this article had the ability to produce a map with largest scale possible from any multi spectral high resolution satellite imagery equal to or smaller than 1 : 5000.

Mapping from Space - Ontology Based Map Production Using Satellite Imageries

NASA Astrophysics Data System (ADS)

Asefpour Vakilian, A.; Momeni, M.

2013-09-01

Determination of the maximum ability for feature extraction from satellite imageries based on ontology procedure using cartographic feature determination is the main objective of this research. Therefore, a special ontology has been developed to extract maximum volume of information available in different high resolution satellite imageries and compare them to the map information layers required in each specific scale due to unified specification for surveying and mapping. ontology seeks to provide an explicit and comprehensive classification of entities in all sphere of being. This study proposes a new method for automatic maximum map feature extraction and reconstruction of high resolution satellite images. For example, in order to extract building blocks to produce 1 : 5000 scale and smaller maps, the road networks located around the building blocks should be determined. Thus, a new building index has been developed based on concepts obtained from ontology. Building blocks have been extracted with completeness about 83 %. Then, road networks have been extracted and reconstructed to create a uniform network with less discontinuity on it. In this case, building blocks have been extracted with proper performance and the false positive value from confusion matrix was reduced by about 7 %. Results showed that vegetation cover and water features have been extracted completely (100 %) and about 71 % of limits have been extracted. Also, the proposed method in this article had the ability to produce a map with largest scale possible from any multi spectral high resolution satellite imagery equal to or smaller than 1 : 5000.

Bioinspired Fabrication of one dimensional graphene fiber with collection of droplets application.

PubMed

Song, Yun-Yun; Liu, Yan; Jiang, Hao-Bo; Li, Shu-Yi; Kaya, Cigdem; Stegmaier, Thomas; Han, Zhi-Wu; Ren, Lu-Quan

2017-09-21

We designed a kind of smart bioinspired fiber with multi-gradient and multi-scale spindle knots by combining polydimethylsiloxane (PDMS) and graphene oxide (GO). Multilayered graphene structures can produce obvious wettability change after laser etching due to increased roughness. We demonstrate that the cooperation between curvature and the controllable wettability play an important role in water gathering, which regulate effectively the motion of tiny water droplets. In addition, due to the effective cooperation of multi-gradient and multi-scale hydrophilic spindle knots, the length of the three-phase contact line (TCL) can be longer, which makes a great contribution to the improvement of collecting efficiency and water-hanging ability. This study offers a novel insight into the design of smart materials that may control the transport of tiny drops reversibly in directions, which could potentially be extended to the realms of in microfluidics, fog harvesting filtration and condensers designs, and further increase water collection efficiency and hanging ability.

Climate effects on fire regimes and tree recruitment in Black Hills ponderosa pine forests.

PubMed

Brown, Peter M

2006-10-01

Climate influences forest structure through effects on both species demography (recruitment and mortality) and disturbance regimes. Here, I compare multi-century chronologies of regional fire years and tree recruitment from ponderosa pine forests in the Black Hills of southwestern South Dakota and northeastern Wyoming to reconstructions of precipitation and global circulation indices. Regional fire years were affected by droughts and variations in both Pacific and Atlantic sea surface temperatures. Fires were synchronous with La Niñas, cool phases of the Pacific Decadal Oscillation (PDO), and warm phases of the Atlantic Multidecadal Oscillation (AMO). These quasi-periodic circulation features are associated with drought conditions over much of the western United States. The opposite pattern (El Niño, warm PDO, cool AMO) was associated with fewer fires than expected. Regional tree recruitment largely occurred during wet periods in precipitation reconstructions, with the most abundant recruitment coeval with an extended pluvial from the late 1700s to early 1800s. Widespread even-aged cohorts likely were not the result of large crown fires causing overstory mortality, but rather were caused by optimal climate conditions that contributed to synchronous regional recruitment and longer intervals between surface fires. Synchronous recruitment driven by climate is an example of the Moran effect. The presence of abundant fire-scarred trees in multi-aged stands supports a prevailing historical model for ponderosa pine forests in which recurrent surface fires affected heterogenous forest structure, although the Black Hills apparently had a greater range of fire behavior and resulting forest structure over multi-decadal time scales than ponderosa pine forests of the Southwest that burned more often.

Analytic TOF PET reconstruction algorithm within DIRECT data partitioning framework

NASA Astrophysics Data System (ADS)

Matej, Samuel; Daube-Witherspoon, Margaret E.; Karp, Joel S.

2016-05-01

Iterative reconstruction algorithms are routinely used for clinical practice; however, analytic algorithms are relevant candidates for quantitative research studies due to their linear behavior. While iterative algorithms also benefit from the inclusion of accurate data and noise models the widespread use of time-of-flight (TOF) scanners with less sensitivity to noise and data imperfections make analytic algorithms even more promising. In our previous work we have developed a novel iterative reconstruction approach (DIRECT: direct image reconstruction for TOF) providing convenient TOF data partitioning framework and leading to very efficient reconstructions. In this work we have expanded DIRECT to include an analytic TOF algorithm with confidence weighting incorporating models of both TOF and spatial resolution kernels. Feasibility studies using simulated and measured data demonstrate that analytic-DIRECT with appropriate resolution and regularization filters is able to provide matched bias versus variance performance to iterative TOF reconstruction with a matched resolution model.

Multi-Excitation Magnetoacoustic Tomography with Magnetic Induction for Bioimpedance Imaging

PubMed Central

Li, Xu; He, Bin

2011-01-01

Magnetoacoustic tomography with magnetic induction (MAT-MI) is an imaging approach proposed to conduct non-invasive electrical conductivity imaging of biological tissue with high spatial resolution. In the present study, based on the analysis of the relationship between the conductivity distribution and the generated MAT-MI acoustic source, we propose a new multi-excitation MAT-MI approach and the corresponding reconstruction algorithms. In the proposed method, multiple magnetic excitations using different coil configurations are employed and ultrasound measurements corresponding to each excitation are collected to derive the conductivity distribution inside the sample. A modified reconstruction algorithm is also proposed for the multi-excitation MAT-MI imaging approach when only limited bandwidth acoustic measurements are available. Computer simulation and phantom experiment studies have been done to demonstrate the merits of the proposed method. It is shown that if unlimited bandwidth acoustic data is available, we can accurately reconstruct the internal conductivity contrast of an object using the proposed method. With limited bandwidth data and the use of the modified algorithm we can reconstruct the relative conductivity contrast of an object instead of only boundaries at the conductivity heterogeneity. Benefits that come with this new method include better differentiation of tissue types with conductivity contrast using the MAT-MI approach, specifically for potential breast cancer screening application in the future. PMID:20529729

A novel multi-planar radiography method for three dimensional pose reconstruction of the patellofemoral and tibiofemoral joints after arthroplasty.

PubMed

Amiri, Shahram; Wilson, David R; Masri, Bassam A; Sharma, Gulshan; Anglin, Carolyn

2011-06-03

Determining the 3D pose of the patella after total knee arthroplasty is challenging. The commonly used single-plane fluoroscopy is prone to large errors in the clinically relevant mediolateral direction. A conventional fixed bi-planar setup is limited in the minimum angular distance between the imaging planes necessary for visualizing the patellar component, and requires a highly flexible setup to adjust for the subject-specific geometries. As an alternative solution, this study investigated the use of a novel multi-planar imaging setup that consists of a C-arm tracked by an external optoelectric tracking system, to acquire calibrated radiographs from multiple orientations. To determine the accuracies, a knee prosthesis was implanted on artificial bones and imaged in simulated 'Supine' and 'Weightbearing' configurations. The results were compared with measures from a coordinate measuring machine as the ground-truth reference. The weightbearing configuration was the preferred imaging direction with RMS errors of 0.48 mm and 1.32 ° for mediolateral shift and tilt of the patella, respectively, the two most clinically relevant measures. The 'imaging accuracies' of the system, defined as the accuracies in 3D reconstruction of a cylindrical ball bearing phantom (so as to avoid the influence of the shape and orientation of the imaging object), showed an order of magnitude (11.5 times) reduction in the out-of-plane RMS errors in comparison to single-plane fluoroscopy. With this new method, complete 3D pose of the patellofemoral and tibiofemoral joints during quasi-static activities can be determined with a many-fold (up to 8 times) (3.4mm) improvement in the out-of-plane accuracies compared to a conventional single-plane fluoroscopy setup. Copyright © 2011 Elsevier Ltd. All rights reserved.

Paleoflow of the Tuff of San Felipe on Isla Angel de la Guarda

NASA Astrophysics Data System (ADS)

Skinner, S. M.; Stock, J. M.; Martin Barajas, A.

2013-05-01

The Tuff of San Felipe is a widespread 12.5 Ma ignimbrite in northwestern Mexico that has a proven potential in reconstructing the rifting history of the Gulf of California. Previous studies have used the Tuff of San Felipe to correlate Isla Tiburon to the Sierra San Felipe on the Baja California Peninsula, and to correlate central Isla Angel de la Guarda to Baja California in the region of Cataviña. However, because only scattered outcrops are preserved in this latter region, paleoflow directions are an important additional constraint for reconstructing its past position relative to Isla Angel de la Guarda. We have confirmed the presence of the Tuff of San Felipe on Isla Angel de la Guarda and collected rocks from 44 sites for paleomagnetic and AMS analysis. Our work on the Tuff of San Felipe has revealed discrepancies in the magnetic fabric, and resulting flow direction, on the scale of hundreds of meters. The lack of a uniform flow direction from a single mesa impairs our ability to correlate offset channelized flows over large distances. To investigate the robustness of the AMS fabric we have performed a spatially dense sampling of the unit. Rigorous rock magnetic experiments will be used to investigate any correlation between changes in the magnetic mineralogy of the samples and any irregularities or constancies in the measured fabrics and flow directions. With this study we aim to characterize the variability of the AMS ellipsoid in natural volcanic samples and the scale at which AMS can be used as a meaningful indicator of paleoflow in the Tuff of San Felipe.

LHCb detector and trigger performance in Run II

NASA Astrophysics Data System (ADS)

Francesca, Dordei

2017-12-01

The LHCb detector is a forward spectrometer at the LHC, designed to perform high precision studies of b- and c- hadrons. In Run II of the LHC, a new scheme for the software trigger at LHCb allows splitting the triggering of events into two stages, giving room to perform the alignment and calibration in real time. In the novel detector alignment and calibration strategy for Run II, data collected at the start of the fill are processed in a few minutes and used to update the alignment, while the calibration constants are evaluated for each run. This allows identical constants to be used in the online and offline reconstruction, thus improving the correlation between triggered and offline selected events. The required computing time constraints are met thanks to a new dedicated framework using the multi-core farm infrastructure for the trigger. The larger timing budget, available in the trigger, allows to perform the same track reconstruction online and offline. This enables LHCb to achieve the best reconstruction performance already in the trigger, and allows physics analyses to be performed directly on the data produced by the trigger reconstruction. The novel real-time processing strategy at LHCb is discussed from both the technical and operational point of view. The overall performance of the LHCb detector on the data of Run II is presented as well.

A Multi-Proxy Approach to Reconstruct Climate Variability in the Western Mediterranean across the Penultimate and Last Glacial Period

NASA Astrophysics Data System (ADS)

Dixit, Y.; Toucanne, S.; Bonnin, L.; Fontanier, C.; Jouet, G.; Tripati, A. K.

2016-12-01

The Mediterranean as a model miniature ocean is an ideal study area for the links between climate change and anoxia. Organic rich-sapropelic deposits punctuate Quaternary sediments series in the basin. These deposits reveal the occurrence of anoxic conditions during times when the circulation of the Mediterranean ocean was deeply perturbed. The `'Nilotic paradigm' proposes anoxia was a direct result of massive inputs of fresh water from the Nile. It is also possible that these sapropels could occur in response to periods of intense rainfall and riverine discharge on the northern Mediterranean coast. To resolve the sequence of events linked to sapropel deposition in the western Mediterranean, we use a multi-proxy (oxygen and carbon isotopes, benthic foraminifera assemblage and trace element geochemistry of foraminifera calcite) approach to examine sediments from the Tyrhennian Sea off the eastern Corsica margin in order to reconstruct climate variability during the penultimate glacial termination, and we compare results to those for the last glacial period. Our preliminary results show increased abundance of epifaunal and deep infaunal benthic species during MIS 5e ( 122-125 kyr BP), accompanied by a rise in Mg/Ca-based sea surface temperature (SST) using G. bulloides. A sharp decline in SST at 135 kyr BP coincides with Heinrich Stadial 5 in the North Atlantic. We will compare the timing of Mg/Ca-based SST minima and reconstructed water d18O variations to Heinrich Stadials in the North Atlantic in order to infer the mechanisms responsible for cooling in the Tyrrhenian Sea. This analysis should shed light on the proposed atmospheric teleconnection causing cooling of western Mediterranean waters via intensification of the Northern Hemisphere high-latitude wind systems.

Multi-proxy palaeoclimate reconstructions from peatlands in southern South America

NASA Astrophysics Data System (ADS)

Roland, Thomas; Hughes, Paul; Mauquoy, Dmitri; van Bellen, Simon; Daley, Tim; Loader, Neil; Street-Perrott, Alayne

2014-05-01

There is a relative paucity of palaeoclimatic archives in South America relative to many other regions of the world. This paucity must be addressed in order to validate climate models and improve our understanding of the global climate system. The southern westerlies represent an important component of climatic variability in the region and, in turn, their migration and changes in their intensity can play a key role in determining whether the Southern Ocean functions as a sink or source of atmospheric carbon dioxide. Increased ventilation of deep waters with elevated concentrations of dissolved inorganic carbon, driven by enhanced Ekman transport, leads to increased outgassing of carbon dioxide. However, as instrumental records are limited to the latter half of the twentieth century, little is known about the long-term variability of the southern Westerlies and their subsequent effects. The Peninsula Brunswick and Isla Grande de Tierra del Fuego are directly situated in the core path of the southern westerlies during the Austral summer and they are ideally suited for studies of past variability in westerly intensity and position. The region's abundant peatlands are capable of recording these long-term changes, as wind intensity and westerly position affects precipitation and temperature, two key drivers (i.e. P-E) of water-table dynamics in ombrotrophic peatlands. Currently, the peatlands of southern Patagonia represent a relatively unexploited resource in terms of palaeoclimate reconstruction. As a result, we have developed a new regional network of multi-proxy (testate amoebae, plant macrofossils, stable isotopes) archives, supported by high-resolution radiocarbon chronologies, to develop quantitative climate reconstructions for southern South America spanning the last ~2000 years using Sphagnum magellanicum-dominated peat deposits.

Direct reconstruction of pharmacokinetic parameters in dynamic fluorescence molecular tomography by the augmented Lagrangian method

NASA Astrophysics Data System (ADS)

Zhu, Dianwen; Zhang, Wei; Zhao, Yue; Li, Changqing

2016-03-01

Dynamic fluorescence molecular tomography (FMT) has the potential to quantify physiological or biochemical information, known as pharmacokinetic parameters, which are important for cancer detection, drug development and delivery etc. To image those parameters, there are indirect methods, which are easier to implement but tend to provide images with low signal-to-noise ratio, and direct methods, which model all the measurement noises together and are statistically more efficient. The direct reconstruction methods in dynamic FMT have attracted a lot of attention recently. However, the coupling of tomographic image reconstruction and nonlinearity of kinetic parameter estimation due to the compartment modeling has imposed a huge computational burden to the direct reconstruction of the kinetic parameters. In this paper, we propose to take advantage of both the direct and indirect reconstruction ideas through a variable splitting strategy under the augmented Lagrangian framework. Each iteration of the direct reconstruction is split into two steps: the dynamic FMT image reconstruction and the node-wise nonlinear least squares fitting of the pharmacokinetic parameter images. Through numerical simulation studies, we have found that the proposed algorithm can achieve good reconstruction results within a small amount of time. This will be the first step for a combined dynamic PET and FMT imaging in the future.

On distributed wavefront reconstruction for large-scale adaptive optics systems.

PubMed

de Visser, Cornelis C; Brunner, Elisabeth; Verhaegen, Michel

2016-05-01

The distributed-spline-based aberration reconstruction (D-SABRE) method is proposed for distributed wavefront reconstruction with applications to large-scale adaptive optics systems. D-SABRE decomposes the wavefront sensor domain into any number of partitions and solves a local wavefront reconstruction problem on each partition using multivariate splines. D-SABRE accuracy is within 1% of a global approach with a speedup that scales quadratically with the number of partitions. The D-SABRE is compared to the distributed cumulative reconstruction (CuRe-D) method in open-loop and closed-loop simulations using the YAO adaptive optics simulation tool. D-SABRE accuracy exceeds CuRe-D for low levels of decomposition, and D-SABRE proved to be more robust to variations in the loop gain.

Climatic history of the northeastern United States during the past 3000 years

USGS Publications Warehouse

Marlon, Jennifer R.; Pederson, Neil; Nolan, Connor; Goring, Simon; Shuman, Bryan; Robertson, Ann; Booth, Robert K.; Bartlein, Patrick J.; Berke, Melissa A.; Clifford, Michael; Cook, Edward; Dieffenbacher-Krall, Ann; Dietze, Michael C.; Hessl, Amy; Hubeny, J. Bradford; Jackson, Stephen T.; Marsicek, Jeremiah; McLachlan, Jason S.; Mock, Cary J.; Moore, David J. P.; Nichols, Jonathan M.; Peteet, Dorothy M.; Schaefer, Kevin; Trouet, Valerie; Umbanhowar, Charles; Williams, John W.; Yu, Zicheng

2017-01-01

Many ecosystem processes that influence Earth system feedbacks, including vegetation growth, water and nutrient cycling, and disturbance regimes, are strongly influenced by multi-decadal to millennial-scale variations in climate that cannot be captured by instrumental climate observations. Paleoclimate information is therefore essential for understanding contemporary ecosystems and their potential trajectories under a variety of future climate conditions. With the exception of fossil pollen records, there are a limited number of northeastern US (NE US) paleoclimate archives that can provide constraints on its temperature and hydroclimate history. Moreover, the records that do exist have not been considered together. Tree-ring data indicate that the 20th century was one of the wettest of the past 500 years in the eastern US (Pederson et al., 2014), and lake-level records suggest it was one of the wettest in the Holocene (Newby et al., 2014); how such results compare with other available data remains unclear, however. Here we conduct a systematic review, assessment, and comparison of paleotemperature and paleohydrological proxies from the NE US for the last 3000 years. Regional temperature reconstructions are consistent with the long-term cooling trend (1000 BCE–1700 CE) evident in hemispheric-scale reconstructions, but hydroclimate reconstructions reveal new information, including an abrupt transition from wet to dry conditions around 550–750 CE. NE US paleo data suggest that conditions during the Medieval Climate Anomaly were warmer and drier than during the Little Ice Age, and drier than today. There is some evidence for an acceleration over the past century of a longer-term wetting trend in the NE US, and coupled with the abrupt shift from a cooling trend to a warming trend from increased greenhouse gases, may have wide-ranging implications for species distributions, ecosystem dynamics, and extreme weather events. More work is needed to gather paleoclimate data in the NE US, make inter-proxy comparisons, and improve estimates of uncertainty in the reconstructions.

Direction of information flow in large-scale resting-state networks is frequency-dependent.

PubMed

Hillebrand, Arjan; Tewarie, Prejaas; van Dellen, Edwin; Yu, Meichen; Carbo, Ellen W S; Douw, Linda; Gouw, Alida A; van Straaten, Elisabeth C W; Stam, Cornelis J

2016-04-05

Normal brain function requires interactions between spatially separated, and functionally specialized, macroscopic regions, yet the directionality of these interactions in large-scale functional networks is unknown. Magnetoencephalography was used to determine the directionality of these interactions, where directionality was inferred from time series of beamformer-reconstructed estimates of neuronal activation, using a recently proposed measure of phase transfer entropy. We observed well-organized posterior-to-anterior patterns of information flow in the higher-frequency bands (alpha1, alpha2, and beta band), dominated by regions in the visual cortex and posterior default mode network. Opposite patterns of anterior-to-posterior flow were found in the theta band, involving mainly regions in the frontal lobe that were sending information to a more distributed network. Many strong information senders in the theta band were also frequent receivers in the alpha2 band, and vice versa. Our results provide evidence that large-scale resting-state patterns of information flow in the human brain form frequency-dependent reentry loops that are dominated by flow from parieto-occipital cortex to integrative frontal areas in the higher-frequency bands, which is mirrored by a theta band anterior-to-posterior flow.

Beyond filtered backprojection: A reconstruction software package for ion beam microtomography data

NASA Astrophysics Data System (ADS)

Habchi, C.; Gordillo, N.; Bourret, S.; Barberet, Ph.; Jovet, C.; Moretto, Ph.; Seznec, H.

2013-01-01

A new version of the TomoRebuild data reduction software package is presented, for the reconstruction of scanning transmission ion microscopy tomography (STIMT) and particle induced X-ray emission tomography (PIXET) images. First, we present a state of the art of the reconstruction codes available for ion beam microtomography. The algorithm proposed here brings several advantages. It is a portable, multi-platform code, designed in C++ with well-separated classes for easier use and evolution. Data reduction is separated in different steps and the intermediate results may be checked if necessary. Although no additional graphic library or numerical tool is required to run the program as a command line, a user friendly interface was designed in Java, as an ImageJ plugin. All experimental and reconstruction parameters may be entered either through this plugin or directly in text format files. A simple standard format is proposed for the input of experimental data. Optional graphic applications using the ROOT interface may be used separately to display and fit energy spectra. Regarding the reconstruction process, the filtered backprojection (FBP) algorithm, already present in the previous version of the code, was optimized so that it is about 10 times as fast. In addition, Maximum Likelihood Expectation Maximization (MLEM) and its accelerated version Ordered Subsets Expectation Maximization (OSEM) algorithms were implemented. A detailed user guide in English is available. A reconstruction example of experimental data from a biological sample is given. It shows the capability of the code to reduce noise in the sinograms and to deal with incomplete data, which puts a new perspective on tomography using low number of projections or limited angle.

Managing microbial communities for sequentially reconstruct genomes from complex metagenomes

NASA Astrophysics Data System (ADS)

Delmont, Tom O.; Vogel, Timothy M.; Simonet, Pascal

2013-04-01

Global understanding on environmental microbial communities is currently limited by the bottleneck of genome reconstruction. Soil is a typical example where individual cells are currently mostly uncultured and metagenomic datasets unassembled. In this study, the microbial community composition of a natural grassland soil was managed under several controlled selective pressures to experiment a "multi-evenness" stratagem for sequentially attempt to reconstruct genomes from a complex metagenome. While lowly represented in the natural community, several newly dominant genomes (an enrichment attaining 105 in some cases) were successfully reconstructed under various "harsh" tested conditions. These genomes belong to several genera including (but not restricted to) Leifsonia, Rhodanobacter, Bacillus, Ktedonobacter, Xanthomonas, Streptomyces and Burkholderia. So far, from 10 to 78% of generated metagenomic datasets were reconstructed, so providing access to more than 88 000 genes of known or unknown functions and to their genetic environment. Adaptative genes directly related to selective pressures were found, mostly in large plasmids. Functions of potential industrial interest (e.g., novel polyketide synthase modules in Streptomyces) were also discovered. Furthermore, an important phage infection snapshot (>1500X of coverage for the most represented phage) was observed among the Streptomyces population (three distinct genomes reconstructed) of a particular enrichment (mercury, 0.02g/kg) during the fourth month of incubation. This "divide and conquer" strategy could be applied to other environments and using auxiliary sequencing approaches like single cell to detect, connect and mine taxa and functions of interest while creating an extensive set of reference genomes from across the planet. Next limit could turn out to become our imagination defining novel selective pressures to sequentially make dominant the 1030 cells of the biosphere.

A Multi-Scale Framework for Multi-Field Analyses of Smart Composites

DTIC Science & Technology

2015-01-15

purchased from Advanced Cerametrics Incorporated, consist of PZT 5A fibers dispersed in an epoxy matrix. Kapton layers and electrode fingers are placed...tests in the longitudinal fiber direction, at different rates and temperatures: 25oC, 50oC, and 75oC. Figure 2 shows examples of PZT Positive... PZT and active fiber composites at various frequencies at temperatures 25oC and 75oC. Figure 4 Hysteretic polarization at room temperature with

Scaling issues in multi-criteria evaluation of combinations of measures for integrated river basin management

NASA Astrophysics Data System (ADS)

Dietrich, Jörg

2016-05-01

In integrated river basin management, measures for reaching the environmental objectives can be evaluated at different scales, and according to multiple criteria of different nature (e.g. ecological, economic, social). Decision makers, including responsible authorities and stakeholders, follow different interests regarding criteria and scales. With a bottom up approach, the multi criteria assessment could produce a different outcome than with a top down approach. The first assigns more power to the local community, which is a common principle of IWRM. On the other hand, the development of an overall catchment strategy could potentially make use of synergetic effects of the measures, which fulfils the cost efficiency requirement at the basin scale but compromises local interests. Within a joint research project for the 5500 km2 Werra river basin in central Germany, measures have been planned to reach environmental objectives of the European Water Framework directive (WFD) regarding ecological continuity and nutrient loads. The main criteria for the evaluation of the measures were costs of implementation, reduction of nutrients, ecological benefit and social acceptance. The multi-criteria evaluation of the catchment strategies showed compensation between positive and negative performance of criteria within the catchment, which in the end reduced the discriminative power of the different strategies. Furthermore, benefit criteria are partially computed for the whole basin only. Both ecological continuity and nutrient load show upstream-downstream effects in opposite direction. The principles of "polluter pays" and "overall cost efficiency" can be followed for the reduction of nutrient losses when financial compensations between upstream and downstream users are made, similar to concepts of emission trading.

A scanning PIV method for fine-scale turbulence measurements

NASA Astrophysics Data System (ADS)

Lawson, John M.; Dawson, James R.

2014-12-01

A hybrid technique is presented that combines scanning PIV with tomographic reconstruction to make spatially and temporally resolved measurements of the fine-scale motions in turbulent flows. The technique uses one or two high-speed cameras to record particle images as a laser sheet is rapidly traversed across a measurement volume. This is combined with a fast method for tomographic reconstruction of the particle field for use in conjunction with PIV cross-correlation. The method was tested numerically using DNS data and with experiments in a large mixing tank that produces axisymmetric homogeneous turbulence at . A parametric investigation identifies the important parameters for a scanning PIV set-up and provides guidance to the interested experimentalist in achieving the best accuracy. Optimal sheet spacings and thicknesses are reported, and it was found that accurate results could be obtained at quite low scanning speeds. The two-camera method is the most robust to noise, permitting accurate measurements of the velocity gradients and direct determination of the dissipation rate.

Imaging reconstruction based on improved wavelet denoising combined with parallel-beam filtered back-projection algorithm

NASA Astrophysics Data System (ADS)

Ren, Zhong; Liu, Guodong; Huang, Zhen

2012-11-01

The image reconstruction is a key step in medical imaging (MI) and its algorithm's performance determinates the quality and resolution of reconstructed image. Although some algorithms have been used, filter back-projection (FBP) algorithm is still the classical and commonly-used algorithm in clinical MI. In FBP algorithm, filtering of original projection data is a key step in order to overcome artifact of the reconstructed image. Since simple using of classical filters, such as Shepp-Logan (SL), Ram-Lak (RL) filter have some drawbacks and limitations in practice, especially for the projection data polluted by non-stationary random noises. So, an improved wavelet denoising combined with parallel-beam FBP algorithm is used to enhance the quality of reconstructed image in this paper. In the experiments, the reconstructed effects were compared between the improved wavelet denoising and others (directly FBP, mean filter combined FBP and median filter combined FBP method). To determine the optimum reconstruction effect, different algorithms, and different wavelet bases combined with three filters were respectively test. Experimental results show the reconstruction effect of improved FBP algorithm is better than that of others. Comparing the results of different algorithms based on two evaluation standards i.e. mean-square error (MSE), peak-to-peak signal-noise ratio (PSNR), it was found that the reconstructed effects of the improved FBP based on db2 and Hanning filter at decomposition scale 2 was best, its MSE value was less and the PSNR value was higher than others. Therefore, this improved FBP algorithm has potential value in the medical imaging.

Reconstruction of three-dimensional porous media using generative adversarial neural networks

NASA Astrophysics Data System (ADS)

Mosser, Lukas; Dubrule, Olivier; Blunt, Martin J.

2017-10-01

To evaluate the variability of multiphase flow properties of porous media at the pore scale, it is necessary to acquire a number of representative samples of the void-solid structure. While modern x-ray computer tomography has made it possible to extract three-dimensional images of the pore space, assessment of the variability in the inherent material properties is often experimentally not feasible. We present a method to reconstruct the solid-void structure of porous media by applying a generative neural network that allows an implicit description of the probability distribution represented by three-dimensional image data sets. We show, by using an adversarial learning approach for neural networks, that this method of unsupervised learning is able to generate representative samples of porous media that honor their statistics. We successfully compare measures of pore morphology, such as the Euler characteristic, two-point statistics, and directional single-phase permeability of synthetic realizations with the calculated properties of a bead pack, Berea sandstone, and Ketton limestone. Results show that generative adversarial networks can be used to reconstruct high-resolution three-dimensional images of porous media at different scales that are representative of the morphology of the images used to train the neural network. The fully convolutional nature of the trained neural network allows the generation of large samples while maintaining computational efficiency. Compared to classical stochastic methods of image reconstruction, the implicit representation of the learned data distribution can be stored and reused to generate multiple realizations of the pore structure very rapidly.

Structural transformation in monolayer materials: a 2D to 1D transformation.

PubMed

Momeni, Kasra; Attariani, Hamed; LeSar, Richard A

2016-07-20

Reducing the dimensions of materials to atomic scales results in a large portion of atoms being at or near the surface, with lower bond order and thus higher energy. At such scales, reduction of the surface energy and surface stresses can be the driving force for the formation of new low-dimensional nanostructures, and may be exhibited through surface relaxation and/or surface reconstruction, which can be utilized for tailoring the properties and phase transformation of nanomaterials without applying any external load. Here we used atomistic simulations and revealed an intrinsic structural transformation in monolayer materials that lowers their dimension from 2D nanosheets to 1D nanostructures to reduce their surface and elastic energies. Experimental evidence of such transformation has also been revealed for one of the predicted nanostructures. Such transformation plays an important role in bi-/multi-layer 2D materials.

Machine Learning Toolkit for Extreme Scale

DOE Office of Scientific and Technical Information (OSTI.GOV)

2014-03-31

Support Vector Machines (SVM) is a popular machine learning technique, which has been applied to a wide range of domains such as science, finance, and social networks for supervised learning. MaTEx undertakes the challenge of designing a scalable parallel SVM training algorithm for large scale systems, which includes commodity multi-core machines, tightly connected supercomputers and cloud computing systems. Several techniques are proposed for improved speed and memory space usage including adaptive and aggressive elimination of samples for faster convergence , and sparse format representation of data samples. Several heuristics for earliest possible to lazy elimination of non-contributing samples are consideredmore » in MaTEx. In many cases, where an early sample elimination might result in a false positive, low overhead mechanisms for reconstruction of key data structures are proposed. The proposed algorithm and heuristics are implemented and evaluated on various publicly available datasets« less

Development and evaluation of a LOR-based image reconstruction with 3D system response modeling for a PET insert with dual-layer offset crystal design.

PubMed

Zhang, Xuezhu; Stortz, Greg; Sossi, Vesna; Thompson, Christopher J; Retière, Fabrice; Kozlowski, Piotr; Thiessen, Jonathan D; Goertzen, Andrew L

2013-12-07

In this study we present a method of 3D system response calculation for analytical computer simulation and statistical image reconstruction for a magnetic resonance imaging (MRI) compatible positron emission tomography (PET) insert system that uses a dual-layer offset (DLO) crystal design. The general analytical system response functions (SRFs) for detector geometric and inter-crystal penetration of coincident crystal pairs are derived first. We implemented a 3D ray-tracing algorithm with 4π sampling for calculating the SRFs of coincident pairs of individual DLO crystals. The determination of which detector blocks are intersected by a gamma ray is made by calculating the intersection of the ray with virtual cylinders with radii just inside the inner surface and just outside the outer-edge of each crystal layer of the detector ring. For efficient ray-tracing computation, the detector block and ray to be traced are then rotated so that the crystals are aligned along the X-axis, facilitating calculation of ray/crystal boundary intersection points. This algorithm can be applied to any system geometry using either single-layer (SL) or multi-layer array design with or without offset crystals. For effective data organization, a direct lines of response (LOR)-based indexed histogram-mode method is also presented in this work. SRF calculation is performed on-the-fly in both forward and back projection procedures during each iteration of image reconstruction, with acceleration through use of eight-fold geometric symmetry and multi-threaded parallel computation. To validate the proposed methods, we performed a series of analytical and Monte Carlo computer simulations for different system geometry and detector designs. The full-width-at-half-maximum of the numerical SRFs in both radial and tangential directions are calculated and compared for various system designs. By inspecting the sinograms obtained for different detector geometries, it can be seen that the DLO crystal design can provide better sampling density than SL or dual-layer no-offset system designs with the same total crystal length. The results of the image reconstruction with SRFs modeling for phantom studies exhibit promising image recovery capability for crystal widths of 1.27-1.43 mm and top/bottom layer lengths of 4/6 mm. In conclusion, we have developed efficient algorithms for system response modeling of our proposed PET insert with DLO crystal arrays. This provides an effective method for both 3D computer simulation and quantitative image reconstruction, and will aid in the optimization of our PET insert system with various crystal designs.

Canadian Arctic sea ice reconstructed from bromine in the Greenland NEEM ice core.

PubMed

Spolaor, Andrea; Vallelonga, Paul; Turetta, Clara; Maffezzoli, Niccolò; Cozzi, Giulio; Gabrieli, Jacopo; Barbante, Carlo; Goto-Azuma, Kumiko; Saiz-Lopez, Alfonso; Cuevas, Carlos A; Dahl-Jensen, Dorthe

2016-09-21

Reconstructing the past variability of Arctic sea ice provides an essential context for recent multi-year sea ice decline, although few quantitative reconstructions cover the Holocene period prior to the earliest historical records 1,200 years ago. Photochemical recycling of bromine is observed over first-year, or seasonal, sea ice in so-called "bromine explosions" and we employ a 1-D chemistry transport model to quantify processes of bromine enrichment over first-year sea ice and depositional transport over multi-year sea ice and land ice. We report bromine enrichment in the Northwest Greenland Eemian NEEM ice core since the end of the Eemian interglacial 120,000 years ago, finding the maximum extension of first-year sea ice occurred approximately 9,000 years ago during the Holocene climate optimum, when Greenland temperatures were 2 to 3 °C above present values. First-year sea ice extent was lowest during the glacial stadials suggesting complete coverage of the Arctic Ocean by multi-year sea ice. These findings demonstrate a clear relationship between temperature and first-year sea ice extent in the Arctic and suggest multi-year sea ice will continue to decline as polar amplification drives Arctic temperatures beyond the 2 °C global average warming target of the recent COP21 Paris climate agreement.

Crops In Silico: Generating Virtual Crops Using an Integrative and Multi-scale Modeling Platform.

PubMed

Marshall-Colon, Amy; Long, Stephen P; Allen, Douglas K; Allen, Gabrielle; Beard, Daniel A; Benes, Bedrich; von Caemmerer, Susanne; Christensen, A J; Cox, Donna J; Hart, John C; Hirst, Peter M; Kannan, Kavya; Katz, Daniel S; Lynch, Jonathan P; Millar, Andrew J; Panneerselvam, Balaji; Price, Nathan D; Prusinkiewicz, Przemyslaw; Raila, David; Shekar, Rachel G; Shrivastava, Stuti; Shukla, Diwakar; Srinivasan, Venkatraman; Stitt, Mark; Turk, Matthew J; Voit, Eberhard O; Wang, Yu; Yin, Xinyou; Zhu, Xin-Guang

2017-01-01

Multi-scale models can facilitate whole plant simulations by linking gene networks, protein synthesis, metabolic pathways, physiology, and growth. Whole plant models can be further integrated with ecosystem, weather, and climate models to predict how various interactions respond to environmental perturbations. These models have the potential to fill in missing mechanistic details and generate new hypotheses to prioritize directed engineering efforts. Outcomes will potentially accelerate improvement of crop yield, sustainability, and increase future food security. It is time for a paradigm shift in plant modeling, from largely isolated efforts to a connected community that takes advantage of advances in high performance computing and mechanistic understanding of plant processes. Tools for guiding future crop breeding and engineering, understanding the implications of discoveries at the molecular level for whole plant behavior, and improved prediction of plant and ecosystem responses to the environment are urgently needed. The purpose of this perspective is to introduce Crops in silico (cropsinsilico.org), an integrative and multi-scale modeling platform, as one solution that combines isolated modeling efforts toward the generation of virtual crops, which is open and accessible to the entire plant biology community. The major challenges involved both in the development and deployment of a shared, multi-scale modeling platform, which are summarized in this prospectus, were recently identified during the first Crops in silico Symposium and Workshop.