Markov random field based automatic image alignment for electron tomography.

PubMed

Amat, Fernando; Moussavi, Farshid; Comolli, Luis R; Elidan, Gal; Downing, Kenneth H; Horowitz, Mark

2008-03-01

We present a method for automatic full-precision alignment of the images in a tomographic tilt series. Full-precision automatic alignment of cryo electron microscopy images has remained a difficult challenge to date, due to the limited electron dose and low image contrast. These facts lead to poor signal to noise ratio (SNR) in the images, which causes automatic feature trackers to generate errors, even with high contrast gold particles as fiducial features. To enable fully automatic alignment for full-precision reconstructions, we frame the problem probabilistically as finding the most likely particle tracks given a set of noisy images, using contextual information to make the solution more robust to the noise in each image. To solve this maximum likelihood problem, we use Markov Random Fields (MRF) to establish the correspondence of features in alignment and robust optimization for projection model estimation. The resulting algorithm, called Robust Alignment and Projection Estimation for Tomographic Reconstruction, or RAPTOR, has not needed any manual intervention for the difficult datasets we have tried, and has provided sub-pixel alignment that is as good as the manual approach by an expert user. We are able to automatically map complete and partial marker trajectories and thus obtain highly accurate image alignment. Our method has been applied to challenging cryo electron tomographic datasets with low SNR from intact bacterial cells, as well as several plastic section and X-ray datasets.

New Possibilities of Positron-Emission Tomography

NASA Astrophysics Data System (ADS)

Volobuev, A. N.

2018-01-01

The reasons for the emergence of the angular distribution of photons generated as a result of annihilation of an electron and a positron in a positron-emission tomograph are investigated. It is shown that the angular distribution of the radiation intensity (i.e., the probability of photon emission at different angles) is a consequence of the Doppler effect in the center-of-mass reference system of the electron and the positron. In the reference frame attached to the electron, the angular distribution of the number of emitted photons does not exists but is replaced by the Doppler shift of the frequency of photons. The results obtained in this study make it possible to extend the potentialities of the positron-emission tomograph in the diagnostics of diseases and to obtain additional mechanical characteristics of human tissues, such as density and viscosity.

System for tomographic determination of the power distribution in electron beams

DOEpatents

Elmer, John W.; Teruya, Alan T.; O'Brien, Dennis W.

1995-01-01

A tomographic technique for measuring the current density distribution in electron beams using electron beam profile data acquired from a modified Faraday cup to create an image of the current density in high and low power beams. The modified Faraday cup includes a narrow slit and is rotated by a stepper motor and can be moved in the x, y and z directions. The beam is swept across the slit perpendicular thereto and controlled by deflection coils, and the slit rotated such that waveforms are taken every few degrees form 0.degree. to 360.degree. and the waveforms are recorded by a digitizing storage oscilloscope. Two-dimensional and three-dimensional images of the current density distribution in the beam can be reconstructed by computer tomography from this information, providing quantitative information about the beam focus and alignment.

System for tomographic determination of the power distribution in electron beams

DOEpatents

Elmer, J.W.; Teruya, A.T.; O`Brien, D.W.

1995-11-21

A tomographic technique for measuring the current density distribution in electron beams using electron beam profile data acquired from a modified Faraday cup to create an image of the current density in high and low power beams. The modified Faraday cup includes a narrow slit and is rotated by a stepper motor and can be moved in the x, y and z directions. The beam is swept across the slit perpendicular thereto and controlled by deflection coils, and the slit rotated such that waveforms are taken every few degrees form 0{degree} to 360{degree} and the waveforms are recorded by a digitizing storage oscilloscope. Two-dimensional and three-dimensional images of the current density distribution in the beam can be reconstructed by computer tomography from this information, providing quantitative information about the beam focus and alignment. 12 figs.

High-pressure freezing for scanning transmission electron tomography analysis of cellular organelles.

PubMed

Walther, Paul; Schmid, Eberhard; Höhn, Katharina

2013-01-01

Using an electron microscope's scanning transmission mode (STEM) for collection of tomographic datasets is advantageous compared to bright field transmission electron microscopic (TEM). For image formation, inelastic scattering does not cause chromatic aberration, since in STEM mode no image forming lenses are used after the beam has passed the sample, in contrast to regular TEM. Therefore, thicker samples can be imaged. It has been experimentally demonstrated that STEM is superior to TEM and energy filtered TEM for tomography of samples as thick as 1 μm. Even when using the best electron microscope, adequate sample preparation is the key for interpretable results. We adapted protocols for high-pressure freezing of cultivated cells from a physiological state. In this chapter, we describe optimized high-pressure freezing and freeze substitution protocols for STEM tomography in order to obtain high membrane contrast.

System for tomographic determination of the power distribution in electron beams

DOEpatents

Elmer, J.W.; Teruya, A.T.; O'Brien, D.W.

1995-01-17

A tomographic technique is disclosed for measuring the current density distribution in electron beams using electron beam profile data acquired from a modified Faraday cup to create an image of the current density in high and low power beams. The modified Faraday cup includes a narrow slit and is rotated by a stepper motor and can be moved in the x, y and z directions. The beam is swept across the slit perpendicular thereto and controlled by deflection coils, and the slit rotated such that waveforms are taken every few degrees form 0[degree] to 360[degree] and the waveforms are recorded by a digitizing storage oscilloscope. Two-dimensional and three-dimensional images of the current density distribution in the beam can be reconstructed by computer tomography from this information, providing quantitative information about the beam focus and alignment. 12 figures.

Synthetic Incoherence via Scanned Gaussian Beams

PubMed Central

Levine, Zachary H.

2006-01-01

Tomography, in most formulations, requires an incoherent signal. For a conventional transmission electron microscope, the coherence of the beam often results in diffraction effects that limit the ability to perform a 3D reconstruction from a tilt series with conventional tomographic reconstruction algorithms. In this paper, an analytic solution is given to a scanned Gaussian beam, which reduces the beam coherence to be effectively incoherent for medium-size (of order 100 voxels thick) tomographic applications. The scanned Gaussian beam leads to more incoherence than hollow-cone illumination. PMID:27274945

Tomographic phase analysis to detect the site of accessory conduction pathway in Wolff-Parkinson-White syndrome

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

Nakajima, K.; Bunko, H.; Tada, A.

1984-01-01

Phase analysis has been applied to Wolff-Parkinson-White syndrome (WPW) to detect the site of accessory conduction pathway (ACP); however, there was a limitation to estimate the precise location of ACP by planar phase analysis. In this study, the authors applied phase analysis to gated blood pool tomography. Twelve patients with WPW who underwent epicardial mapping and surgical division of ACP were studied by both of gated emission computed tomography (GECT) and routine gated blood pool study (GBPS). The GBPS was performed with Tc-99m red blood cells in multiple projections; modified left anterior oblique, right anterior oblique and/or left lateral views.more » In GECT, short axial, horizontal and vertical long axial blood pool images were reconstructed. Phase analysis was performed using fundamental frequency of the Fourier transform in both GECT and GBPS images, and abnormal initial contractions on both the planar and tomographic phase analysis were compared with the location of surgically confirmed ACPs. In planar phase analysis, abnormal initial phase was identified in 7 out of 12 (58%) patients, while in tomographic phase analysis, the localization of ACP was predicted in 11 out of 12 (92%) patients. Tomographic phase analysis is superior to planar phase images in 8 out of 12 patients to estimate the location of ACP. Phase analysis by GECT can avoid overlap of blood pool in cardiac chambers and has advantage to identify the propagation of phase three-dimensionally. Tomographic phase analysis is a good adjunctive method for patients with WPW to estimate the site of ACP.« less

Web-based visualisation and analysis of 3D electron-microscopy data from EMDB and PDB.

PubMed

Lagerstedt, Ingvar; Moore, William J; Patwardhan, Ardan; Sanz-García, Eduardo; Best, Christoph; Swedlow, Jason R; Kleywegt, Gerard J

2013-11-01

The Protein Data Bank in Europe (PDBe) has developed web-based tools for the visualisation and analysis of 3D electron microscopy (3DEM) structures in the Electron Microscopy Data Bank (EMDB) and Protein Data Bank (PDB). The tools include: (1) a volume viewer for 3D visualisation of maps, tomograms and models, (2) a slice viewer for inspecting 2D slices of tomographic reconstructions, and (3) visual analysis pages to facilitate analysis and validation of maps, tomograms and models. These tools were designed to help non-experts and experts alike to get some insight into the content and assess the quality of 3DEM structures in EMDB and PDB without the need to install specialised software or to download large amounts of data from these archives. The technical challenges encountered in developing these tools, as well as the more general considerations when making archived data available to the user community through a web interface, are discussed. Copyright © 2013 The Authors. Published by Elsevier Inc. All rights reserved.

The auroral 6300 A emission - Observations and modeling

NASA Technical Reports Server (NTRS)

Solomon, Stanley C.; Hays, Paul B.; Abreu, Vincent J.

1988-01-01

A tomographic inversion is used to analyze measurements of the auroral atomic oxygen emission line at 6300 A made by the atmosphere explorer visible airglow experiment. A comparison is made between emission altitude profiles and the results from an electron transport and chemical reaction model. Measurements of the energetic electron flux, neutral composition, ion composition, and electron density are incorporated in the model.

Atomic electron tomography: 3D structures without crystals

DOE PAGES

Miao, Jianwei; Ercius, Peter; Billinge, S. J. L.

2016-09-23

Crystallography has been fundamental to the development of many fields of science over the last century. However, much of our modern science and technology relies on materials with defects and disorders, and their three-dimensional (3D) atomic structures are not accessible to crystallography. One method capable of addressing this major challenge is atomic electron tomography. By combining advanced electron microscopes and detectors with powerful data analysis and tomographic reconstruction algorithms, it is now possible to determine the 3D atomic structure of crystal defects such as grain boundaries, stacking faults, dislocations, and point defects, as well as to precisely localize the 3Dmore » coordinates of individual atoms in materials without assuming crystallinity. In this work, we review the recent advances and the interdisciplinary science enabled by this methodology. We also outline further research needed for atomic electron tomography to address long-standing unresolved problems in the physical sciences.« less

Three-dimensional reconstruction for coherent diffraction patterns obtained by XFEL.

PubMed

Nakano, Miki; Miyashita, Osamu; Jonic, Slavica; Song, Changyong; Nam, Daewoong; Joti, Yasumasa; Tama, Florence

2017-07-01

The three-dimensional (3D) structural analysis of single particles using an X-ray free-electron laser (XFEL) is a new structural biology technique that enables observations of molecules that are difficult to crystallize, such as flexible biomolecular complexes and living tissue in the state close to physiological conditions. In order to restore the 3D structure from the diffraction patterns obtained by the XFEL, computational algorithms are necessary as the orientation of the incident beam with respect to the sample needs to be estimated. A program package for XFEL single-particle analysis based on the Xmipp software package, that is commonly used for image processing in 3D cryo-electron microscopy, has been developed. The reconstruction program has been tested using diffraction patterns of an aerosol nanoparticle obtained by tomographic coherent X-ray diffraction microscopy.

Longitudinal phase space tomography using a booster cavity at PITZ

NASA Astrophysics Data System (ADS)

Malyutin, D.; Gross, M.; Isaev, I.; Khojoyan, M.; Kourkafas, G.; Krasilnikov, M.; Marchetti, B.; Otevrel, M.; Stephan, F.; Vashchenko, G.

2017-11-01

The knowledge of the longitudinal phase space (LPS) of electron beams is of great importance for optimizing the performance of high brightness photo injectors. To get the longitudinal phase space of an electron bunch in a linear accelerator a tomographic technique can be used. The method is based on measurements of the bunch momentum spectra while varying the bunch energy chirp. The energy chirp can be varied by one of the RF accelerating structures in the accelerator and the resulting momentum distribution can be measured with a dipole spectrometer further downstream. As a result, the longitudinal phase space can be reconstructed. Application of the tomographic technique for reconstruction of the longitudinal phase space is introduced in detail in this paper. Measurement results from the PITZ facility are shown and analyzed.

Numerical Simulations to Assess ART and MART Performance for Ionospheric Tomography of Chapman Profiles.

PubMed

Prol, Fabricio S; Camargo, Paulo O; Muella, Marcio T A H

2017-01-01

The incomplete geometrical coverage of the Global Navigation Satellite System (GNSS) makes the ionospheric tomographic system an ill-conditioned problem for ionospheric imaging. In order to detect the principal limitations of the ill-conditioned tomographic solutions, numerical simulations of the ionosphere are under constant investigation. In this paper, we show an investigation of the accuracy of Algebraic Reconstruction Technique (ART) and Multiplicative ART (MART) for performing tomographic reconstruction of Chapman profiles using a simulated optimum scenario of GNSS signals tracked by ground-based receivers. Chapman functions were used to represent the ionospheric morphology and a set of analyses was conducted to assess ART and MART performance for estimating the Total Electron Content (TEC) and parameters that describes the Chapman function. The results showed that MART performed better in the reconstruction of the electron density peak and ART gave a better representation for estimating TEC and the shape of the ionosphere. Since we used an optimum scenario of the GNSS signals, the analyses indicate the intrinsic problems that may occur with ART and MART to recover valuable information for many applications of Telecommunication, Spatial Geodesy and Space Weather.

A 3D tomographic reconstruction method to analyze Jupiter's electron-belt emission observations

NASA Astrophysics Data System (ADS)

Santos-Costa, Daniel; Girard, Julien; Tasse, Cyril; Zarka, Philippe; Kita, Hajime; Tsuchiya, Fuminori; Misawa, Hiroaki; Clark, George; Bagenal, Fran; Imai, Masafumi; Becker, Heidi N.; Janssen, Michael A.; Bolton, Scott J.; Levin, Steve M.; Connerney, John E. P.

2017-04-01

Multi-dimensional reconstruction techniques of Jupiter's synchrotron radiation from radio-interferometric observations were first developed by Sault et al. [Astron. Astrophys., 324, 1190-1196, 1997]. The tomographic-like technique introduced 20 years ago had permitted the first 3-dimensional mapping of the brightness distribution around the planet. This technique has demonstrated the advantage to be weakly dependent on planetary field models. It also does not require any knowledge on the energy and spatial distributions of the radiating electrons. On the downside, it is assumed that the volume emissivity of any punctual point source around the planet is isotropic. This assumption becomes incorrect when mapping the brightness distribution for non-equatorial point sources or any point sources from Juno's perspective. In this paper, we present our modeling effort to bypass the isotropy issue. Our approach is to use radio-interferometric observations and determine the 3-D brightness distribution in a cylindrical coordinate system. For each set (z, r), we constrain the longitudinal distribution with a Fourier series and the anisotropy is addressed with a simple periodic function when possible. We develop this new method over a wide range of frequencies using past VLA and LOFAR observations of Jupiter. We plan to test this reconstruction method with observations of Jupiter that are currently being carried out with LOFAR and GMRT in support to the Juno mission. We describe how this new 3D tomographic reconstruction method provides new model constraints on the energy and spatial distributions of Jupiter's ultra-relativistic electrons close to the planet and be used to interpret Juno MWR observations of Jupiter's electron-belt emission and assist in evaluating the background noise from the radiation environment in the atmospheric measurements.

Tomographic diagnostics of nonthermal plasmas

NASA Astrophysics Data System (ADS)

Denisova, Natalia

2009-10-01

In the previous work [1], we discussed a ``technology'' of tomographic method and relations between the tomographic diagnostics in thermal (equilibrium) and nonthermal (nonequilibrium) plasma sources. The conclusion has been made that tomographic reconstruction in thermal plasma sources is the standard procedure at present, which can provide much useful information on the plasma structure and its evolution in time, while the tomographic reconstruction of nonthermal plasma has a great potential at making a contribution to understanding the fundamental problem of substance behavior in strongly nonequilibrium conditions. Using medical terminology, one could say, that tomographic diagnostics of the equilibrium plasma sources studies their ``anatomic'' structure, while reconstruction of the nonequilibrium plasma is similar to the ``physiological'' examination: it is directed to study the physical mechanisms and processes. The present work is focused on nonthermal plasma research. The tomographic diagnostics is directed to study spatial structures formed in the gas discharge plasmas under the influence of electrical and gravitational fields. The ways of plasma ``self-organization'' in changing and extreme conditions are analyzed. The analysis has been made using some examples from our practical tomographic diagnostics of nonthermal plasma sources, such as low-pressure capacitive and inductive discharges. [0pt] [1] Denisova N. Plasma diagnostics using computed tomography method // IEEE Trans. Plasma Sci. 2009 37 4 502.

Tomographic capabilities of the new GEM based SXR diagnostic of WEST

NASA Astrophysics Data System (ADS)

Jardin, A.; Mazon, D.; O'Mullane, M.; Mlynar, J.; Loffelmann, V.; Imrisek, M.; Chernyshova, M.; Czarski, T.; Kasprowicz, G.; Wojenski, A.; Bourdelle, C.; Malard, P.

2016-07-01

The tokamak WEST (Tungsten Environment in Steady-State Tokamak) will start operating by the end of 2016 as a test bed for the ITER divertor components in long pulse operation. In this context, radiative cooling of heavy impurities like tungsten (W) in the Soft X-ray (SXR) range [0.1 keV; 20 keV] is a critical issue for the plasma core performances. Thus reliable tools are required to monitor the local impurity density and avoid W accumulation. The WEST SXR diagnostic will be equipped with two new GEM (Gas Electron Multiplier) based poloidal cameras allowing to perform 2D tomographic reconstructions in tunable energy bands. In this paper tomographic capabilities of the Minimum Fisher Information (MFI) algorithm developed for Tore Supra and upgraded for WEST are investigated, in particular through a set of emissivity phantoms and the standard WEST scenario including reconstruction errors, influence of noise as well as computational time.

An observational study on the Strength and Movement of EIA in the Indian zone - Results from the Indian Tomography Experiment (CRABEX)

NASA Astrophysics Data System (ADS)

Thampi, S. V.; Devasia, C. V.; Ravindran, S.; Pant, T. K.; Sridharan, R.

To investigate the equatorial ionospheric processes like the Equatorial Ionization Anomaly (EIA) and Equatorial Spread F and their inter relationships, a network of five stations receiving the 150 and 400 MHz transmissions from the Low Earth Orbiting Satellites (LEOs) covering the region from Trivandrum (8.5°N, Dip ˜0.3N°) to New Delhi (28°N, Dip ˜20°N) is set up along the 77-78°E longitude. The receivers measure the relative phase of 150 MHz with respect to 400 MHz, which is proportional to the slant relative Total Electron Content (TEC) along the line of sight. These simultaneous TEC measurements are inverted to obtain the tomographic image of the latitudinal distribution of electron densities in the meridional plane. The inversion is done using the Algebraic Reconstruction Technique (ART). In this paper, the tomographic images of the equatorial ionosphere along the 77-78° E meridians are presented. The images indicate the movement of the anomaly crest, as well as the strength of EIA at various local times, which in turn control the over all electrodynamics of the evening time ionosphere, favoring the occurrence of Equatorial Spread F (ESF) irregularities. These features are discussed in detail under varying geophysical conditions. The results of the sensitivity analysis of the inversion algorithm using model ionospheres are also presented.

Three-dimensional fine structure of the organization of microtubules in neurite varicosities by ultra-high voltage electron microscope tomography.

PubMed

Nishida, Tomoki; Yoshimura, Ryoichi; Endo, Yasuhisa

2017-09-01

Neurite varicosities are highly specialized compartments that are involved in neurotransmitter/ neuromodulator release and provide a physiological platform for neural functions. However, it remains unclear how microtubule organization contributes to the form of varicosity. Here, we examine the three-dimensional structure of microtubules in varicosities of a differentiated PC12 neural cell line using ultra-high voltage electron microscope tomography. Three-dimensional imaging showed that a part of the varicosities contained an accumulation of organelles that were separated from parallel microtubule arrays. Further detailed analysis using serial sections and whole-mount tomography revealed microtubules running in a spindle shape of swelling in some other types of varicosities. These electron tomographic results showed that the structural diversity and heterogeneity of microtubule organization supported the form of varicosities, suggesting that a different distribution pattern of microtubules in varicosities is crucial to the regulation of varicosities development.

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

Miao, Jianwei; Ercius, Peter; Billinge, S. J. L.

Crystallography has been fundamental to the development of many fields of science over the last century. However, much of our modern science and technology relies on materials with defects and disorders, and their three-dimensional (3D) atomic structures are not accessible to crystallography. One method capable of addressing this major challenge is atomic electron tomography. By combining advanced electron microscopes and detectors with powerful data analysis and tomographic reconstruction algorithms, it is now possible to determine the 3D atomic structure of crystal defects such as grain boundaries, stacking faults, dislocations, and point defects, as well as to precisely localize the 3Dmore » coordinates of individual atoms in materials without assuming crystallinity. In this work, we review the recent advances and the interdisciplinary science enabled by this methodology. We also outline further research needed for atomic electron tomography to address long-standing unresolved problems in the physical sciences.« less

Earthquake Parameters Inferred from the Hoping River Pseudotachylyte, Taiwan

NASA Astrophysics Data System (ADS)

Korren, C.; Ferre, E. C.; Yeh, E. C.; Chou, Y. M.

2014-12-01

Taiwan, one of the most seismically active areas in the world, repeatedly experiences violent earthquakes, such as the 1999 Mw 7.6 Chi-Chi earthquake, in highly populated areas. The main island of Taiwan lies in the convergent tectonic region between the Eurasian Plate and Philippine Sea Plate. Fault pseudotachylytes form by frictional melting along the fault plane during large seismic slip events and therefore constitute earthquake fossils. The width of a pseudotachylyte generation vein is a crude proxy for earthquake magnitude. The attitude of oblique injection veins primarily reflects slip kinematics. Additional constraints on the seismic slip direction and slip sense can be obtained 1) from the principal axes of the magnetic fabric of generation veins and 2) from 3D tomographic analysis of vein geometry. A new pseudotachylyte locality discovered along the Hoping River offers an unparalleled opportunity to learn more about the Plio-Pleistocene paleoseismology and seismic kinematics of northeastern Taiwan. Field work measured the orientations and relations of structural features yields a complex geometry of generation and injection veins. Pseudotachylytes were sampled for tomographic, magnetic fabric and scanning electron microscope analyses. An oriented block of pseudotachylyte was sliced then stitched into a 3-D tomographic model using the Image-J software image stack plug-in. Tomographic analysis shows pseudotachylyte veins originate from a single slip event at sample size. An average vein thickness ranges from 1 mm proximal to areas with abundant injection veins to 2 mm. The displacement calculated after Sibson's 1975 method, displacement equals the square of vein thickness multiplied by 436 yields a range from 4.36 cm to 17.44 cm. The pseudotachylytes displacement typifies earthquakes less than magnitude 5. However, this crude estimate of displacement requires further discussion. Comparison of the calculated displacements by different methodology may further constrain the values. Improving the accuracy of parameters pertaining to depth, pressure and temperature conditions, faulting style and coseismic fluids will vastly affect these displacement values. Aspects of focal mechanism determination leads to a more comprehensive assessment of both prehistoric and modern seismic risk.

Conical Fourier shell correlation applied to electron tomograms.

PubMed

Diebolder, C A; Faas, F G A; Koster, A J; Koning, R I

2015-05-01

The resolution of electron tomograms is anisotropic due to geometrical constraints during data collection, such as the limited tilt range and single axis tilt series acquisition. Acquisition of dual axis tilt series can decrease these effects. However, in cryo-electron tomography, to limit the electron radiation damage that occurs during imaging, the total dose should not increase and must be fractionated over the two tilt series. Here we set out to determine whether it is beneficial fractionate electron dose for recording dual axis cryo electron tilt series or whether it is better to perform single axis acquisition. To assess the quality of tomographic reconstructions in different directions here we introduce conical Fourier shell correlation (cFSCe/o). Employing cFSCe/o, we compared the resolution isotropy of single-axis and dual-axis (cryo-)electron tomograms using even/odd split data sets. We show that the resolution of dual-axis simulated and cryo-electron tomograms in the plane orthogonal to the electron beam becomes more isotropic compared to single-axis tomograms and high resolution peaks along the tilt axis disappear. cFSCe/o also allowed us to compare different methods for the alignment of dual-axis tomograms. We show that different tomographic reconstruction programs produce different anisotropic resolution in dual axis tomograms. We anticipate that cFSCe/o can also be useful for comparisons of acquisition and reconstruction parameters, and different hardware implementations. Copyright © 2015 Elsevier Inc. All rights reserved.

'Big Bang' tomography as a new route to atomic-resolution electron tomography.

PubMed

Van Dyck, Dirk; Jinschek, Joerg R; Chen, Fu-Rong

2012-06-13

Until now it has not been possible to image at atomic resolution using classical electron tomographic methods, except when the target is a perfectly crystalline nano-object imaged along a few zone axes. The main reasons are that mechanical tilting in an electron microscope with sub-ångström precision over a very large angular range is difficult, that many real-life objects such as dielectric layers in microelectronic devices impose geometrical constraints and that many radiation-sensitive objects such as proteins limit the total electron dose. Hence, there is a need for a new tomographic scheme that is able to deduce three-dimensional information from only one or a few projections. Here we present an electron tomographic method that can be used to determine, from only one viewing direction and with sub-ångström precision, both the position of individual atoms in the plane of observation and their vertical position. The concept is based on the fact that an experimentally reconstructed exit wave consists of the superposition of the spherical waves that have been scattered by the individual atoms of the object. Furthermore, the phase of a Fourier component of a spherical wave increases with the distance of propagation at a known 'phase speed'. If we assume that an atom is a point-like object, the relationship between the phase and the phase speed of each Fourier component is linear, and the distance between the atom and the plane of observation can therefore be determined by linear fitting. This picture has similarities with Big Bang cosmology, in which the Universe expands from a point-like origin such that the distance of any galaxy from the origin is linearly proportional to the speed at which it moves away from the origin (Hubble expansion). The proof of concept of the method has been demonstrated experimentally for graphene with a two-layer structure and it will work optimally for similar layered materials, such as boron nitride and molybdenum disulphide.

Diffractive Optical Elements for Spectral Imaging

NASA Technical Reports Server (NTRS)

Wilson, D.; Maker, P.; Muller, R.; Mourolis, P.; Descour, M.; Volin, C.; Dereniak, E.

2000-01-01

Diffractive optical elements fabricated on flat and non-flat substrates frequently act as dispersive elements in imaging spectrometers. We describe the design and electron-beam fabrication of blazed and computer-generated-hologram gratings for slit and tomographic imaging spectrometer.

Diffractive Optical Elements for Spectral Imaging

NASA Technical Reports Server (NTRS)

Wilson, D.; Maker, P.; Muller, R.; Maker, P.; Mouroulis, P.; Descour, M.; Volin, C.; Dereniak, E.

2000-01-01

Diffractive optical elements fabricated on flat and non-flat substrates frequently act as dispersive elements in imaging spectrometers. We describe the design and electron-beam fabrication of blazed and computer-generated-hologram gratings for slit and tomographic imaging spectrometers.

Laser-wakefield accelerators as hard x-ray sources for 3D medical imaging of human bone

PubMed Central

Cole, J. M.; Wood, J. C.; Lopes, N. C.; Poder, K.; Abel, R. L.; Alatabi, S.; Bryant, J. S. J.; Jin, A.; Kneip, S.; Mecseki, K.; Symes, D. R.; Mangles, S. P. D.; Najmudin, Z.

2015-01-01

A bright μm-sized source of hard synchrotron x-rays (critical energy Ecrit > 30 keV) based on the betatron oscillations of laser wakefield accelerated electrons has been developed. The potential of this source for medical imaging was demonstrated by performing micro-computed tomography of a human femoral trabecular bone sample, allowing full 3D reconstruction to a resolution below 50 μm. The use of a 1 cm long wakefield accelerator means that the length of the beamline (excluding the laser) is dominated by the x-ray imaging distances rather than the electron acceleration distances. The source possesses high peak brightness, which allows each image to be recorded with a single exposure and reduces the time required for a full tomographic scan. These properties make this an interesting laboratory source for many tomographic imaging applications. PMID:26283308

GEM detectors for WEST and potential application for heavy impurity transport studies

NASA Astrophysics Data System (ADS)

Mazon, D.; Jardin, A.; Coston, C.; Faisse, F.; Chernyshova, M.; Czarski, T.; Kasprowicz, G.; Wojenski, A.

2016-08-01

In tokamaks equipped with metallic walls and in particular tungsten, the interplay between particle transport and MagnetoHydroDynamic (MHD) activity might lead to impurities accumulation and finally to sudden plasma termination called disruption. Studying such transport phenomena is thus essential if stationary discharges are to be achieved. On WEST a new SXR diagnostic is developed in collaboration with IPPLM (Poland) and the Warsaw University of Technology, based on a triple Gas Electron Multiplier (GEM) detector. Potential application of the WEST GEM detectors for tomographic reconstruction and subsequent transport analysis is presented.

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

Choong, W. -S.; Abu-Nimeh, F.; Moses, W. W.

Here, we present a 16-channel front-end readout board for the OpenPET electronics system. A major task in developing a nuclear medical imaging system, such as a positron emission computed tomograph (PET) or a single-photon emission computed tomograph (SPECT), is the electronics system. While there are a wide variety of detector and camera design concepts, the relatively simple nature of the acquired data allows for a common set of electronics requirements that can be met by a flexible, scalable, and high-performance OpenPET electronics system. The analog signals from the different types of detectors used in medical imaging share similar characteristics, whichmore » allows for a common analog signal processing. The OpenPET electronics processes the analog signals with Detector Boards. Here we report on the development of a 16-channel Detector Board. Each signal is digitized by a continuously sampled analog-to-digital converter (ADC), which is processed by a field programmable gate array (FPGA) to extract pulse height information. A leading edge discriminator creates a timing edge that is "time stamped" by a time-to-digital converter (TDC) implemented inside the FPGA. In conclusion, this digital information from each channel is sent to an FPGA that services 16 analog channels, and then information from multiple channels is processed by this FPGA to perform logic for crystal lookup, DOI calculation, calibration, etc.« less

5D-intravital tomography as a novel tool for non-invasive in-vivo analysis of human skin

NASA Astrophysics Data System (ADS)

König, Karsten; Weinigel, Martin; Breunig, Hans G.; Gregory, Axel; Fischer, Peter; Kellner-Höfer, Marcel; Bückle, Rainer; Schwarz, Martin; Riemann, Iris; Stracke, Frank; Huck, Volker; Gorzelanny, Christian; Schneider, Stefan W.

2010-02-01

Some years ago, CE-marked clinical multiphoton systems for 3D imaging of human skin with subcellular resolution have been launched. These tomographs provide optical biopsies with submicron resolution based on two-photon excited autofluorescence (NAD(P)H, flavoproteins, keratin, elastin, melanin, porphyrins) and second harmonic generation by collagen. The 3D tomograph was now transferred into a 5D imaging system by the additional detection of the emission spectrum and the fluorescence lifetime based on spatially and spectrally resolved time-resolved single photon counting. The novel 5D intravital tomograph (5D-IVT) was employed for the early detection of atopic dermatitis and the analysis of treatment effects.

Signal processing and general purpose data acquisition system for on-line tomographic measurements

NASA Astrophysics Data System (ADS)

Murari, A.; Martin, P.; Hemming, O.; Manduchi, G.; Marrelli, L.; Taliercio, C.; Hoffmann, A.

1997-01-01

New analog signal conditioning electronics and data acquisition systems have been developed for the soft x-ray and bolometric tomography diagnostic in the reverse field pinch experiment (RFX). For the soft x-ray detectors the analog signal processing includes a fully differential current to voltage conversion, with up to a 200 kHz bandwidth. For the bolometers, a 50 kHz carrier frequency amplifier allows a maximum bandwidth of 10 kHz. In both cases the analog signals are digitized with a 1 MHz sampling rate close to the diagnostic and are transmitted via a transparent asynchronous xmitter/receiver interface (TAXI) link to purpose built Versa Module Europa (VME) modules which perform data acquisition. A software library has been developed for data preprocessing and tomographic reconstruction. It has been written in C language and is self-contained, i.e., no additional mathematical library is required. The package is therefore platform-free: in particular it can perform online analysis in a real-time application, such as continuous display and feedback, and is portable for long duration fusion or other physical experiments. Due to the modular organization of the library, new preprocessing and analysis modules can be easily integrated in the environment. This software is implemented in RFX over three different platforms: open VMS, digital Unix, and VME 68040 CPU.

EEL spectroscopic tomography: towards a new dimension in nanomaterials analysis.

PubMed

Yedra, Lluís; Eljarrat, Alberto; Arenal, Raúl; Pellicer, Eva; Cabo, Moisés; López-Ortega, Alberto; Estrader, Marta; Sort, Jordi; Baró, Maria Dolors; Estradé, Sònia; Peiró, Francesca

2012-11-01

Electron tomography is a widely spread technique for recovering the three dimensional (3D) shape of nanostructured materials. Using a spectroscopic signal to achieve a reconstruction adds a fourth chemical dimension to the 3D structure. Up to date, energy filtering of the images in the transmission electron microscope (EFTEM) is the usual spectroscopic method even if most of the information in the spectrum is lost. Unlike EFTEM tomography, the use of electron energy-loss spectroscopy (EELS) spectrum images (SI) for tomographic reconstruction retains all chemical information, and the possibilities of this new approach still remain to be fully exploited. In this article we prove the feasibility of EEL spectroscopic tomography at low voltages (80 kV) and short acquisition times from data acquired using an aberration corrected instrument and data treatment by Multivariate Analysis (MVA), applied to Fe(x)Co((3-x))O(4)@Co(3)O(4) mesoporous materials. This approach provides a new scope into materials; the recovery of full EELS signal in 3D. Copyright © 2012 Elsevier B.V. All rights reserved.

A front-end readout Detector Board for the OpenPET electronics system

NASA Astrophysics Data System (ADS)

Choong, W.-S.; Abu-Nimeh, F.; Moses, W. W.; Peng, Q.; Vu, C. Q.; Wu, J.-Y.

2015-08-01

We present a 16-channel front-end readout board for the OpenPET electronics system. A major task in developing a nuclear medical imaging system, such as a positron emission computed tomograph (PET) or a single-photon emission computed tomograph (SPECT), is the electronics system. While there are a wide variety of detector and camera design concepts, the relatively simple nature of the acquired data allows for a common set of electronics requirements that can be met by a flexible, scalable, and high-performance OpenPET electronics system. The analog signals from the different types of detectors used in medical imaging share similar characteristics, which allows for a common analog signal processing. The OpenPET electronics processes the analog signals with Detector Boards. Here we report on the development of a 16-channel Detector Board. Each signal is digitized by a continuously sampled analog-to-digital converter (ADC), which is processed by a field programmable gate array (FPGA) to extract pulse height information. A leading edge discriminator creates a timing edge that is ``time stamped'' by a time-to-digital converter (TDC) implemented inside the FPGA . This digital information from each channel is sent to an FPGA that services 16 analog channels, and then information from multiple channels is processed by this FPGA to perform logic for crystal lookup, DOI calculation, calibration, etc.

A front-end readout Detector Board for the OpenPET electronics system

DOE PAGES

Choong, W. -S.; Abu-Nimeh, F.; Moses, W. W.; ...

2015-08-12

Here, we present a 16-channel front-end readout board for the OpenPET electronics system. A major task in developing a nuclear medical imaging system, such as a positron emission computed tomograph (PET) or a single-photon emission computed tomograph (SPECT), is the electronics system. While there are a wide variety of detector and camera design concepts, the relatively simple nature of the acquired data allows for a common set of electronics requirements that can be met by a flexible, scalable, and high-performance OpenPET electronics system. The analog signals from the different types of detectors used in medical imaging share similar characteristics, whichmore » allows for a common analog signal processing. The OpenPET electronics processes the analog signals with Detector Boards. Here we report on the development of a 16-channel Detector Board. Each signal is digitized by a continuously sampled analog-to-digital converter (ADC), which is processed by a field programmable gate array (FPGA) to extract pulse height information. A leading edge discriminator creates a timing edge that is "time stamped" by a time-to-digital converter (TDC) implemented inside the FPGA. In conclusion, this digital information from each channel is sent to an FPGA that services 16 analog channels, and then information from multiple channels is processed by this FPGA to perform logic for crystal lookup, DOI calculation, calibration, etc.« less

Tomographic Positron Annihilation Lifetime Spectroscopy

NASA Astrophysics Data System (ADS)

Wagner, A.; Anwand, W.; Butterling, M.; Fiedler, F.; Fritz, F.; Kempe, M.; Cowan, T. E.

2014-04-01

Positron annihilation lifetime spectroscopy serves as a perfect tool for studies of open-volume defects in solid materials such as vacancies, vacancy agglomerates, and dislocations. Moreover, structures in porous media can be investigated ranging from 0.3 nm to 30 nm employing the variation of the Positronium lifetime with the pore size. While lifetime measurements close to the material's surface can be performed at positron-beam installations bulk materials, fluids, bio-materials or composite structures cannot or only destructively accessed by positron beams. Targeting those problems, a new method of non-destructive positron annihilation lifetime spectroscopy has been developed which features even a 3-dimensional tomographic reconstruction of the spatial lifetime distribution. A beam of intense bremsstrahlung is provided by the superconducting electron linear accelerator ELBE (Electron Linear Accelerator with high Brilliance and low Emittance) at Helmholtz-Zentrum Dresden-Rossendorf. Since the generation of bremsstrahlung and the transport to the sample preserves the sharp timing of the electron beam, positrons generated inside the entire sample volume by pair production feature a sharp start time stamp for lifetime studies. In addition to the existing technique of in-situ production of positrons inside large (cm3) bulk samples using high-energy photons up to 16 MeV from bremsstrahlung production, granular position-sensitive photon detectors have been employed. The detector system will be described and results for experiments using samples with increasing complexity will be presented. The Lu2SiO5:Ce scintillation crystals allow resolving the total energy to 5.1 % (root-mean-square, RMS) and the annihilation lifetime to 225 ps (RMS). 3-dimensional annihilation lifetime maps have been created in an offline-analysis employing well-known techniques from PET.

21 CFR 892.1740 - Tomographic x-ray system.

Code of Federal Regulations, 2013 CFR

2013-04-01

... 21 Food and Drugs 8 2013-04-01 2013-04-01 false Tomographic x-ray system. 892.1740 Section 892.1740 Food and Drugs FOOD AND DRUG ADMINISTRATION, DEPARTMENT OF HEALTH AND HUMAN SERVICES (CONTINUED.... This generic type of device may include signal analysis and display equipment, patient and equipment...

21 CFR 892.1740 - Tomographic x-ray system.

Code of Federal Regulations, 2010 CFR

2010-04-01

... 21 Food and Drugs 8 2010-04-01 2010-04-01 false Tomographic x-ray system. 892.1740 Section 892.1740 Food and Drugs FOOD AND DRUG ADMINISTRATION, DEPARTMENT OF HEALTH AND HUMAN SERVICES (CONTINUED.... This generic type of device may include signal analysis and display equipment, patient and equipment...

21 CFR 892.1740 - Tomographic x-ray system.

Code of Federal Regulations, 2012 CFR

2012-04-01

... 21 Food and Drugs 8 2012-04-01 2012-04-01 false Tomographic x-ray system. 892.1740 Section 892.1740 Food and Drugs FOOD AND DRUG ADMINISTRATION, DEPARTMENT OF HEALTH AND HUMAN SERVICES (CONTINUED.... This generic type of device may include signal analysis and display equipment, patient and equipment...

21 CFR 892.1740 - Tomographic x-ray system.

Code of Federal Regulations, 2011 CFR

2011-04-01

... 21 Food and Drugs 8 2011-04-01 2011-04-01 false Tomographic x-ray system. 892.1740 Section 892.1740 Food and Drugs FOOD AND DRUG ADMINISTRATION, DEPARTMENT OF HEALTH AND HUMAN SERVICES (CONTINUED.... This generic type of device may include signal analysis and display equipment, patient and equipment...

21 CFR 892.1740 - Tomographic x-ray system.

Code of Federal Regulations, 2014 CFR

2014-04-01

... 21 Food and Drugs 8 2014-04-01 2014-04-01 false Tomographic x-ray system. 892.1740 Section 892.1740 Food and Drugs FOOD AND DRUG ADMINISTRATION, DEPARTMENT OF HEALTH AND HUMAN SERVICES (CONTINUED.... This generic type of device may include signal analysis and display equipment, patient and equipment...

Research on ionospheric tomography based on variable pixel height

NASA Astrophysics Data System (ADS)

Zheng, Dunyong; Li, Peiqing; He, Jie; Hu, Wusheng; Li, Chaokui

2016-05-01

A novel ionospheric tomography technique based on variable pixel height was developed for the tomographic reconstruction of the ionospheric electron density distribution. The method considers the height of each pixel as an unknown variable, which is retrieved during the inversion process together with the electron density values. In contrast to conventional computerized ionospheric tomography (CIT), which parameterizes the model with a fixed pixel height, the variable-pixel-height computerized ionospheric tomography (VHCIT) model applies a disturbance to the height of each pixel. In comparison with conventional CIT models, the VHCIT technique achieved superior results in a numerical simulation. A careful validation of the reliability and superiority of VHCIT was performed. According to the results of the statistical analysis of the average root mean square errors, the proposed model offers an improvement by 15% compared with conventional CIT models.

Tomographic Validation of the AWSoM Model of the Inner Corona During Solar Minima

NASA Astrophysics Data System (ADS)

Manchester, W.; Vásquez, A. M.; Lloveras, D. G.; Mac Cormack, C.; Nuevo, F.; Lopez-Fuentes, M.; Frazin, R. A.; van der Holst, B.; Landi, E.; Gombosi, T. I.

2017-12-01

Continuous improvement of MHD three-dimensional (3D) models of the global solar corona, such as the Alfven Wave Solar Model (AWSoM) of the Space Weather Modeling Framework (SWMF), requires testing their ability to reproduce observational constraints at a global scale. To that end, solar rotational tomography based on EUV image time-series can be used to reconstruct the 3D distribution of the electron density and temperature in the inner solar corona (r < 1.25 Rsun). The tomographic results, combined with a global coronal magnetic model, can further provide constraints on the energy input flux required at the coronal base to maintain stable structures. In this work, tomographic reconstructions are used to validate steady-state 3D MHD simulations of the inner corona using the latest version of the AWSoM model. We perform the study for selected rotations representative of solar minimum conditions, when the global structure of the corona is more axisymmetric. We analyse in particular the ability of the MHD simulation to match the tomographic results across the boundary region between the equatorial streamer belt and the surrounding coronal holes. The region is of particular interest as the plasma flow from that zone is thought to be related to the origin of the slow component of the solar wind.

SSULI/SSUSI UV Tomographic Images of Large-Scale Plasma Structuring

NASA Astrophysics Data System (ADS)

Hei, M. A.; Budzien, S. A.; Dymond, K.; Paxton, L. J.; Schaefer, R. K.; Groves, K. M.

2015-12-01

We present a new technique that creates tomographic reconstructions of atmospheric ultraviolet emission based on data from the Special Sensor Ultraviolet Limb Imager (SSULI) and the Special Sensor Ultraviolet Spectrographic Imager (SSUSI), both flown on the Defense Meteorological Satellite Program (DMSP) Block 5D3 series satellites. Until now, the data from these two instruments have been used independently of each other. The new algorithm combines SSULI/SSUSI measurements of 135.6 nm emission using the tomographic technique; the resultant data product - whole-orbit reconstructions of atmospheric volume emission within the satellite orbital plane - is substantially improved over the original data sets. Tests using simulated atmospheric emission verify that the algorithm performs well in a variety of situations, including daytime, nighttime, and even in the challenging terminator regions. A comparison with ALTAIR radar data validates that the volume emission reconstructions can be inverted to yield maps of electron density. The algorithm incorporates several innovative new features, including the use of both SSULI and SSUSI data to create tomographic reconstructions, the use of an inversion algorithm (Richardson-Lucy; RL) that explicitly accounts for the Poisson statistics inherent in optical measurements, and a pseudo-diffusion based regularization scheme implemented between iterations of the RL code. The algorithm also explicitly accounts for extinction due to absorption by molecular oxygen.

SPECTRE (www.noveltis.fr/spectre): a web Service for Ionospheric Products

NASA Astrophysics Data System (ADS)

Jeansou, E.; Crespon, F.; Garcia, R.; Helbert, J.; Moreaux, G.; Lognonne, P.

2005-12-01

The dense GPS networks developed for geodesic applications appear to be very efficient ionospheric sensors because of interaction between plasma and electromagnetic waves. Indeed, the dual frequency receivers provide data from which the Slant Total Electron Content (STEC) can be easily extracted to compute Vertical Total Electron Content (VTEC) maps. The SPECTRE project, Service and Products for ionospheric Electron Content and Tropospheric Refractivity over Europe, is currently a pre-operational service providing VTEC maps with high time and space resolution after 3 days time delay (http://www.noveltis.fr/spectre and http://ganymede.ipgp.jussieu.fr/spectre). This project is a part of SWENET, SpaceWeather European Network, initiated by the European Space Agency. The SPECTRE data products are useful for many applications. We will present these applications in term of interest for the scientific community with a special focus on spaceweather and transient ionospheric perturbations related to Earthquakes. Moreover, the pre-operational extensions of SPECTRE to the californian (SCIGN/BARD) and japanese (GEONET) dense GPS networks will be presented. Then the method of 3D tomography of the electron density from GPS data will be presented and its resolution discussed. The expected improvements of the 3D tomographic images by new tomographic reconstruction algorithms and by the advent of the Galileo system will conclude the presentation.

Demonstration of Confined Electron Gas and Steep-Slope Behavior in Delta-Doped GaAs-AlGaAs Core-Shell Nanowire Transistors.

PubMed

Morkötter, S; Jeon, N; Rudolph, D; Loitsch, B; Spirkoska, D; Hoffmann, E; Döblinger, M; Matich, S; Finley, J J; Lauhon, L J; Abstreiter, G; Koblmüller, G

2015-05-13

Strong surface and impurity scattering in III-V semiconductor-based nanowires (NW) degrade the performance of electronic devices, requiring refined concepts for controlling charge carrier conductivity. Here, we demonstrate remote Si delta (δ)-doping of radial GaAs-AlGaAs core-shell NWs that unambiguously exhibit a strongly confined electron gas with enhanced low-temperature field-effect mobilities up to 5 × 10(3) cm(2) V(-1) s(-1). The spatial separation between the high-mobility free electron gas at the NW core-shell interface and the Si dopants in the shell is directly verified by atom probe tomographic (APT) analysis, band-profile calculations, and transport characterization in advanced field-effect transistor (FET) geometries, demonstrating powerful control over the free electron gas density and conductivity. Multigated NW-FETs allow us to spatially resolve channel width- and crystal phase-dependent variations in electron gas density and mobility along single NW-FETs. Notably, dc output and transfer characteristics of these n-type depletion mode NW-FETs reveal excellent drain current saturation and record low subthreshold slopes of 70 mV/dec at on/off ratios >10(4)-10(5) at room temperature.

A multiresolution inversion for imaging the ionosphere

NASA Astrophysics Data System (ADS)

Yin, Ping; Zheng, Ya-Nan; Mitchell, Cathryn N.; Li, Bo

2017-06-01

Ionospheric tomography has been widely employed in imaging the large-scale ionospheric structures at both quiet and storm times. However, the tomographic algorithms to date have not been very effective in imaging of medium- and small-scale ionospheric structures due to limitations of uneven ground-based data distributions and the algorithm itself. Further, the effect of the density and quantity of Global Navigation Satellite Systems data that could help improve the tomographic results for the certain algorithm remains unclear in much of the literature. In this paper, a new multipass tomographic algorithm is proposed to conduct the inversion using intensive ground GPS observation data and is demonstrated over the U.S. West Coast during the period of 16-18 March 2015 which includes an ionospheric storm period. The characteristics of the multipass inversion algorithm are analyzed by comparing tomographic results with independent ionosonde data and Center for Orbit Determination in Europe total electron content estimates. Then, several ground data sets with different data distributions are grouped from the same data source in order to investigate the impact of the density of ground stations on ionospheric tomography results. Finally, it is concluded that the multipass inversion approach offers an improvement. The ground data density can affect tomographic results but only offers improvements up to a density of around one receiver every 150 to 200 km. When only GPS satellites are tracked there is no clear advantage in increasing the density of receivers beyond this level, although this may change if multiple constellations are monitored from each receiving station in the future.

Refinement procedure for the image alignment in high-resolution electron tomography.

PubMed

Houben, L; Bar Sadan, M

2011-01-01

High-resolution electron tomography from a tilt series of transmission electron microscopy images requires an accurate image alignment procedure in order to maximise the resolution of the tomogram. This is the case in particular for ultra-high resolution where even very small misalignments between individual images can dramatically reduce the fidelity of the resultant reconstruction. A tomographic-reconstruction based and marker-free method is proposed, which uses an iterative optimisation of the tomogram resolution. The method utilises a search algorithm that maximises the contrast in tomogram sub-volumes. Unlike conventional cross-correlation analysis it provides the required correlation over a large tilt angle separation and guarantees a consistent alignment of images for the full range of object tilt angles. An assessment based on experimental reconstructions shows that the marker-free procedure is competitive to the reference of marker-based procedures at lower resolution and yields sub-pixel accuracy even for simulated high-resolution data. Copyright © 2011 Elsevier B.V. All rights reserved.

Cryo-transmission electron tomography of native casein micelles from bovine milk

PubMed Central

Trejo, R.; Dokland, T.; Jurat-Fuentes, J.; Harte, F.

2013-01-01

Caseins are the principal protein components in milk and an important ingredient in the food industry. In liquid milk, caseins are found as micelles of casein proteins and colloidal calcium nanoclusters. Casein micelles were isolated from raw skim milk by size exclusion chromatography and suspended in milk protein-free serum produced by ultrafiltration (molecular weight cut-off of 3 kDa) of raw skim milk. The micelles were imaged by cryo-electron microscopy and subjected to tomographic reconstruction methods to visualize the 3-dimensional and internal organization of native casein micelles. This provided new insights into the internal architecture of the casein micelle that had not been apparent from prior cryo-transmission electron microscopy studies. This analysis demonstrated the presence of water-filled cavities (~20 to 30 nm in diameter), channels (diameter greater than ~5 nm), and several hundred high-density nanoclusters (6 to 12 nm in diameter) within the interior of the micelles. No spherical protein submicellar structures were observed. PMID:22118067

Assessment of Ionospheric Anomaly Prior to the Large Earthquake: 2D and 3D Analysis in Space and Time for the 2011 Tohoku Earthquake (Mw9.0)

NASA Astrophysics Data System (ADS)

Hattori, Katsumi; Hirooka, Shinji; Han, Peng

2016-04-01

The ionospheric anomalies possibly associated with large earthquakes have been reported by many researchers. In this paper, Total Electron Content (TEC) and tomography analyses have been applied to investigate the spatial and temporal distributions of ionospheric electron density prior to the 2011 Off the Pacific Coast of Tohoku earthquake (Mw9.0). Results show significant TEC enhancements and an interesting three dimensional structure prior to the main shock. As for temporal TEC changes, the TEC value increases 3－4 days before the earthquake remarkably, when the geomagnetic condition was relatively quiet. In addition, the abnormal TEC enhancement area in space was stalled above Japan during the period. Tomographic results show that three dimensional distribution of electron density decreases around 250 km altitude above the epicenter (peak is located just the east-region of the epicenter) and increases the mostly entire region between 300 and 400 km.

3D reconstruction of the magnetic vector potential using model based iterative reconstruction

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

Prabhat, K. C.; Aditya Mohan, K.; Phatak, Charudatta

Lorentz transmission electron microscopy (TEM) observations of magnetic nanoparticles contain information on the magnetic and electrostatic potentials. Vector field electron tomography (VFET) can be used to reconstruct electromagnetic potentials of the nanoparticles from their corresponding LTEM images. The VFET approach is based on the conventional filtered back projection approach to tomographic reconstructions and the availability of an incomplete set of measurements due to experimental limitations means that the reconstructed vector fields exhibit significant artifacts. In this paper, we outline a model-based iterative reconstruction (MBIR) algorithm to reconstruct the magnetic vector potential of magnetic nanoparticles. We combine a forward model formore » image formation in TEM experiments with a prior model to formulate the tomographic problem as a maximum a-posteriori probability estimation problem (MAP). The MAP cost function is minimized iteratively to determine the vector potential. Here, a comparative reconstruction study of simulated as well as experimental data sets show that the MBIR approach yields quantifiably better reconstructions than the VFET approach.« less

3D reconstruction of the magnetic vector potential using model based iterative reconstruction.

PubMed

Prabhat, K C; Aditya Mohan, K; Phatak, Charudatta; Bouman, Charles; De Graef, Marc

2017-11-01

Lorentz transmission electron microscopy (TEM) observations of magnetic nanoparticles contain information on the magnetic and electrostatic potentials. Vector field electron tomography (VFET) can be used to reconstruct electromagnetic potentials of the nanoparticles from their corresponding LTEM images. The VFET approach is based on the conventional filtered back projection approach to tomographic reconstructions and the availability of an incomplete set of measurements due to experimental limitations means that the reconstructed vector fields exhibit significant artifacts. In this paper, we outline a model-based iterative reconstruction (MBIR) algorithm to reconstruct the magnetic vector potential of magnetic nanoparticles. We combine a forward model for image formation in TEM experiments with a prior model to formulate the tomographic problem as a maximum a-posteriori probability estimation problem (MAP). The MAP cost function is minimized iteratively to determine the vector potential. A comparative reconstruction study of simulated as well as experimental data sets show that the MBIR approach yields quantifiably better reconstructions than the VFET approach. Copyright © 2017 Elsevier B.V. All rights reserved.

Protein secondary structure determination by constrained single-particle cryo-electron tomography.

PubMed

Bartesaghi, Alberto; Lecumberry, Federico; Sapiro, Guillermo; Subramaniam, Sriram

2012-12-05

Cryo-electron microscopy (cryo-EM) is a powerful technique for 3D structure determination of protein complexes by averaging information from individual molecular images. The resolutions that can be achieved with single-particle cryo-EM are frequently limited by inaccuracies in assigning molecular orientations based solely on 2D projection images. Tomographic data collection schemes, however, provide powerful constraints that can be used to more accurately determine molecular orientations necessary for 3D reconstruction. Here, we propose "constrained single-particle tomography" as a general strategy for 3D structure determination in cryo-EM. A key component of our approach is the effective use of images recorded in tilt series to extract high-resolution information and correct for the contrast transfer function. By incorporating geometric constraints into the refinement to improve orientational accuracy of images, we reduce model bias and overrefinement artifacts and demonstrate that protein structures can be determined at resolutions of ∼8 Å starting from low-dose tomographic tilt series. Copyright © 2012 Elsevier Ltd. All rights reserved.

3D reconstruction of the magnetic vector potential using model based iterative reconstruction

DOE PAGES

Prabhat, K. C.; Aditya Mohan, K.; Phatak, Charudatta; ...

2017-07-03

Lorentz transmission electron microscopy (TEM) observations of magnetic nanoparticles contain information on the magnetic and electrostatic potentials. Vector field electron tomography (VFET) can be used to reconstruct electromagnetic potentials of the nanoparticles from their corresponding LTEM images. The VFET approach is based on the conventional filtered back projection approach to tomographic reconstructions and the availability of an incomplete set of measurements due to experimental limitations means that the reconstructed vector fields exhibit significant artifacts. In this paper, we outline a model-based iterative reconstruction (MBIR) algorithm to reconstruct the magnetic vector potential of magnetic nanoparticles. We combine a forward model formore » image formation in TEM experiments with a prior model to formulate the tomographic problem as a maximum a-posteriori probability estimation problem (MAP). The MAP cost function is minimized iteratively to determine the vector potential. Here, a comparative reconstruction study of simulated as well as experimental data sets show that the MBIR approach yields quantifiably better reconstructions than the VFET approach.« less

Investigating Gravity Waves in Polar Mesospheric Clouds Using Tomographic Reconstructions of AIM Satellite Imagery

NASA Astrophysics Data System (ADS)

Hart, V. P.; Taylor, M. J.; Doyle, T. E.; Zhao, Y.; Pautet, P.-D.; Carruth, B. L.; Rusch, D. W.; Russell, J. M.

2018-01-01

This research presents the first application of tomographic techniques for investigating gravity wave structures in polar mesospheric clouds (PMCs) imaged by the Cloud Imaging and Particle Size instrument on the NASA AIM satellite. Albedo data comprising consecutive PMC scenes were used to tomographically reconstruct a 3-D layer using the Partially Constrained Algebraic Reconstruction Technique algorithm and a previously developed "fanning" technique. For this pilot study, a large region (760 × 148 km) of the PMC layer (altitude 83 km) was sampled with a 2 km horizontal resolution, and an intensity weighted centroid technique was developed to create novel 2-D surface maps, characterizing the individual gravity waves as well as their altitude variability. Spectral analysis of seven selected wave events observed during the Northern Hemisphere 2007 PMC season exhibited dominant horizontal wavelengths of 60-90 km, consistent with previous studies. These tomographic analyses have enabled a broad range of new investigations. For example, a clear spatial anticorrelation was observed between the PMC albedo and wave-induced altitude changes, with higher-albedo structures aligning well with wave troughs, while low-intensity regions aligned with wave crests. This result appears to be consistent with current theories of PMC development in the mesopause region. This new tomographic imaging technique also provides valuable wave amplitude information enabling further mesospheric gravity wave investigations, including quantitative analysis of their hemispheric and interannual characteristics and variations.

Information fusion in regularized inversion of tomographic pumping tests

USGS Publications Warehouse

Bohling, Geoffrey C.; ,

2008-01-01

In this chapter we investigate a simple approach to incorporating geophysical information into the analysis of tomographic pumping tests for characterization of the hydraulic conductivity (K) field in an aquifer. A number of authors have suggested a tomographic approach to the analysis of hydraulic tests in aquifers - essentially simultaneous analysis of multiple tests or stresses on the flow system - in order to improve the resolution of the estimated parameter fields. However, even with a large amount of hydraulic data in hand, the inverse problem is still plagued by non-uniqueness and ill-conditioning and the parameter space for the inversion needs to be constrained in some sensible fashion in order to obtain plausible estimates of aquifer properties. For seismic and radar tomography problems, the parameter space is often constrained through the application of regularization terms that impose penalties on deviations of the estimated parameters from a prior or background model, with the tradeoff between data fit and model norm explored through systematic analysis of results for different levels of weighting on the regularization terms. In this study we apply systematic regularized inversion to analysis of tomographic pumping tests in an alluvial aquifer, taking advantage of the steady-shape flow regime exhibited in these tests to expedite the inversion process. In addition, we explore the possibility of incorporating geophysical information into the inversion through a regularization term relating the estimated K distribution to ground penetrating radar velocity and attenuation distributions through a smoothing spline model. ?? 2008 Springer-Verlag Berlin Heidelberg.

TMDs and GPDs at a future Electron-Ion Collider

DOE PAGES

Ent, Rolf

2016-06-21

With two options studied at Brookhaven National Lab and Jefferson Laboratory the U.S., an Electron-Ion Collider (EIC) of energy √s=20-100 GeV was under design. Furthermore, the recent 2015 US Nuclear Science Long-Range Planning effort included a future EIC as a recommendation for future construction. The EIC will be unique in colliding polarised electrons off polarised protons and light nuclei, providing the spin degrees of freedom essential to pursue its physics program driven by spin structure, multi-dimensional tomographic images of protons and nuclei, and discovery of the role of collective effects of gluons in nuclei. The foreseen luminosity of the EIC,more » coupled with its energy variability and reach, will allow unprecedented three-dimensional imaging of the gluon and sea quark distributions, via both TMDs and GPDs, and to explore correlations amongst them. Its hermetic detection capability of correlated fragments promises to similar allow for precise tomographic images of the quark-gluon landscape in nuclei, transcending from light few-body nuclei to the heaviest nuclei, and could uncover how the TMD and GPD landscape changes when gluons display an anticipated collective behavior at the higher energies.« less

Simultaneous determination of sample thickness, tilt, and electron mean free path using tomographic tilt images based on Beer-Lambert law

PubMed Central

Yan, Rui; Edwards, Thomas J.; Pankratz, Logan M.; Kuhn, Richard J.; Lanman, Jason K.; Liu, Jun; Jiang, Wen

2015-01-01

Cryo-electron tomography (cryo-ET) is an emerging technique that can elucidate the architecture of macromolecular complexes and cellular ultrastructure in a near-native state. Some important sample parameters, such as thickness and tilt, are needed for 3-D reconstruction. However, these parameters can currently only be determined using trial 3-D reconstructions. Accurate electron mean free path plays a significant role in modeling image formation process essential for simulation of electron microscopy images and model-based iterative 3-D reconstruction methods; however, their values are voltage and sample dependent and have only been experimentally measured for a limited number of sample conditions. Here, we report a computational method, tomoThickness, based on the Beer-Lambert law, to simultaneously determine the sample thickness, tilt and electron inelastic mean free path by solving an overdetermined nonlinear least square optimization problem utilizing the strong constraints of tilt relationships. The method has been extensively tested with both stained and cryo datasets. The fitted electron mean free paths are consistent with reported experimental measurements. The accurate thickness estimation eliminates the need for a generous assignment of Z-dimension size of the tomogram. Interestingly, we have also found that nearly all samples are a few degrees tilted relative to the electron beam. Compensation of the intrinsic sample tilt can result in horizontal structure and reduced Z-dimension of tomograms. Our fast, pre-reconstruction method can thus provide important sample parameters that can help improve performance of tomographic reconstruction of a wide range of samples. PMID:26433027

Simultaneous determination of sample thickness, tilt, and electron mean free path using tomographic tilt images based on Beer-Lambert law.

PubMed

Yan, Rui; Edwards, Thomas J; Pankratz, Logan M; Kuhn, Richard J; Lanman, Jason K; Liu, Jun; Jiang, Wen

2015-11-01

Cryo-electron tomography (cryo-ET) is an emerging technique that can elucidate the architecture of macromolecular complexes and cellular ultrastructure in a near-native state. Some important sample parameters, such as thickness and tilt, are needed for 3-D reconstruction. However, these parameters can currently only be determined using trial 3-D reconstructions. Accurate electron mean free path plays a significant role in modeling image formation process essential for simulation of electron microscopy images and model-based iterative 3-D reconstruction methods; however, their values are voltage and sample dependent and have only been experimentally measured for a limited number of sample conditions. Here, we report a computational method, tomoThickness, based on the Beer-Lambert law, to simultaneously determine the sample thickness, tilt and electron inelastic mean free path by solving an overdetermined nonlinear least square optimization problem utilizing the strong constraints of tilt relationships. The method has been extensively tested with both stained and cryo datasets. The fitted electron mean free paths are consistent with reported experimental measurements. The accurate thickness estimation eliminates the need for a generous assignment of Z-dimension size of the tomogram. Interestingly, we have also found that nearly all samples are a few degrees tilted relative to the electron beam. Compensation of the intrinsic sample tilt can result in horizontal structure and reduced Z-dimension of tomograms. Our fast, pre-reconstruction method can thus provide important sample parameters that can help improve performance of tomographic reconstruction of a wide range of samples. Copyright © 2015 Elsevier Inc. All rights reserved.

Bright-field electron tomography of individual inorganic fullerene-like structures

NASA Astrophysics Data System (ADS)

Bar Sadan, Maya; Wolf, Sharon G.; Houben, Lothar

2010-03-01

Nanotubes and fullerene-like nanoparticles of various inorganic layered compounds have been studied extensively in recent years. Their characterisation on the atomic scale has proven essential for progress in synthesis as well as for the theoretical modelling of their physical properties. We show that with electron tomography it is possible to achieve a reliable reconstruction of the 3D structure of nested WS2 or MoS2 fullerene-like and nanotube structures with sub-nanometre resolution using electron microscopes that are not aberration-corrected. Model-based simulations were used to identify imaging parameters, under which structural features such as the shell structure can be retained in the tomogram reconstructed from bright-field micrographs. The isolation of a particle out of an agglomerate for the analysis of a single structure and its interconnection with other particles is facilitated through the tomograms. The internal structure of the layers within the particle alongside the shape and content of its internal void are reconstructed. The tomographic reconstruction yields insights regarding the growth process as well as structural defects, such as non-continuous layers, which relate to the lubrication properties.Nanotubes and fullerene-like nanoparticles of various inorganic layered compounds have been studied extensively in recent years. Their characterisation on the atomic scale has proven essential for progress in synthesis as well as for the theoretical modelling of their physical properties. We show that with electron tomography it is possible to achieve a reliable reconstruction of the 3D structure of nested WS2 or MoS2 fullerene-like and nanotube structures with sub-nanometre resolution using electron microscopes that are not aberration-corrected. Model-based simulations were used to identify imaging parameters, under which structural features such as the shell structure can be retained in the tomogram reconstructed from bright-field micrographs. The isolation of a particle out of an agglomerate for the analysis of a single structure and its interconnection with other particles is facilitated through the tomograms. The internal structure of the layers within the particle alongside the shape and content of its internal void are reconstructed. The tomographic reconstruction yields insights regarding the growth process as well as structural defects, such as non-continuous layers, which relate to the lubrication properties. Electronic supplementary information (ESI) available: Figs. S1 and S2 and movies S1-S6. See DOI: 10.1039/b9nr00251k

Chamber dimensions and functional assessment with coronary computed tomographic angiography as compared to echocardiography using American Society of Echocardiography guidelines

PubMed Central

Rose, Michael; Rubal, Bernard; Hulten, Edward; Slim, Jennifer N; Steel, Kevin; Furgerson, James L; Villines, Todd C

2014-01-01

Background: The correlation between normal cardiac chamber linear dimensions measured during retrospective coronary computed tomographic angiography as compared to transthoracic echocardiography using the American Society of Echocardiography guidelines is not well established. Methods: We performed a review from January 2005 to July 2011 to identify subjects with retrospective electrocardiogram-gated coronary computed tomographic angiography scans for chest pain and transthoracic echocardiography with normal cardiac structures performed within 90 days. Dimensions were manually calculated in both imaging modalities in accordance with the American Society of Echocardiography published guidelines. Left ventricular ejection fraction was calculated on echocardiography manually using the Simpson’s formula and by coronary computed tomographic angiography using the end-systolic and end-diastolic volumes. Results: We reviewed 532 studies, rejected 412 and had 120 cases for review with a median time between studies of 7 days (interquartile range (IQR25,75) = 0–22 days) with no correlation between the measurements made by coronary computed tomographic angiography and transthoracic echocardiography using Bland–Altman analysis. We generated coronary computed tomographic angiography cardiac dimension reference ranges for both genders for our population. Conclusion: Our findings represent a step towards generating cardiac chamber dimensions’ reference ranges for coronary computed tomographic angiography as compared to transthoracic echocardiography in patients with normal cardiac morphology and function using the American Society of Echocardiography guideline measurements that are commonly used by cardiologists. PMID:26770706

High-Latitude Ionospheric Imaging using Canadian High Arctic Ionospheric Network (CHAIN)

NASA Astrophysics Data System (ADS)

Meziane, K.; Jayachandran, P. T.; Hamza, A. M.; MacDougall, J. W.

2013-12-01

Understanding the polar cap dynamics is a fundamental problem in solar-terrestrial physics; any breakthroughs would have to take into account the interactions that take place at the interfaces between the Solar Wind and the Magnetosphere and between the latter and the ionosphere, respectively. Over the past decade a significant number of ground-based GPS receivers and digital ionosondes have been deployed in the polar cap and auroral region. This deployment has allowed the harvest of much needed data, otherwise not available, which in turn helps understand the dynamics of the polar ionospheric regions. A technique, used consistently by researchers in the field, consists of inverting the Total Electron Content (TEC) along the ray path obtained from a system of GPS receivers. In the present study, a combination of tomography and ionosonde data from the CHAIN network is used to examine the dynamics of polar cap patches. First, the TEC derived from GPS receivers through tomographic reconstruction is directly compared with ionosonde data. The comparison includes periods of quite and disturbed geomagnetic activity. We then use the vertical density profiles derived from the CHAIN ionosondes as initial seeds for the reconstruction of the tomographic images of the polar cap regions. Precise electron density peaks obtained through the tomographic reconstruction fall within a range that is consistent with direct CHAIN measurements when certain conditions are met. An assessment of the performance of the resulting combination of GPS and ionosonde data is performed, and conclusions are presented.

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.

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.

Evaluation of a Multicore-Optimized Implementation for Tomographic Reconstruction

PubMed Central

Agulleiro, Jose-Ignacio; Fernández, José Jesús

2012-01-01

Tomography allows elucidation of the three-dimensional structure of an object from a set of projection images. In life sciences, electron microscope tomography is providing invaluable information about the cell structure at a resolution of a few nanometres. Here, large images are required to combine wide fields of view with high resolution requirements. The computational complexity of the algorithms along with the large image size then turns tomographic reconstruction into a computationally demanding problem. Traditionally, high-performance computing techniques have been applied to cope with such demands on supercomputers, distributed systems and computer clusters. In the last few years, the trend has turned towards graphics processing units (GPUs). Here we present a detailed description and a thorough evaluation of an alternative approach that relies on exploitation of the power available in modern multicore computers. The combination of single-core code optimization, vector processing, multithreading and efficient disk I/O operations succeeds in providing fast tomographic reconstructions on standard computers. The approach turns out to be competitive with the fastest GPU-based solutions thus far. PMID:23139768

An Analysis for Capital Expenditure Decisions at a Naval Regional Medical Center.

DTIC Science & Technology

1981-12-01

Service Equipment Review Committee 1. Portable defibrilator Computed tomographic scanner and cardioscope 2. ECG cart Automated blood cell counter 3. Gas...system sterilizer Gas system sterilizer 4. Automated blood cell Portable defibrilator and counter cardioscope 5. Computed tomographic ECG cart scanner...dictating and automated typing) systems. e. Filing equipment f. Automatic data processing equipment including data communications equipment. g

Analysis of 21-cm tomographic data

NASA Astrophysics Data System (ADS)

Mellema, Garrelt; Giri, Sambit; Ghara, Raghuna

2018-05-01

The future SKA1-Low radio telescope will be powerful enough to produce tomographic images of the 21-cm signal from the Epoch of Reionization. Here we address how to identify ionized regions in such data sets, taking into account the resolution and noise levels associated with SKA1-Low. We describe three methods of which one, superpixel oversegmentation, consistently performs best.

Computed tomographic-based quantification of emphysema and correlation to pulmonary function and mechanics.

PubMed

Washko, George R; Criner, Gerald J; Mohsenifar, Zab; Sciurba, Frank C; Sharafkhaneh, Amir; Make, Barry J; Hoffman, Eric A; Reilly, John J

2008-06-01

Computed tomographic based indices of emphysematous lung destruction may highlight differences in disease pathogenesis and further enable the classification of subjects with Chronic Obstructive Pulmonary Disease. While there are multiple techniques that can be utilized for such radiographic analysis, there is very little published information comparing the performance of these methods in a clinical case series. Our objective was to examine several quantitative and semi-quantitative methods for the assessment of the burden of emphysema apparent on computed tomographic scans and compare their ability to predict lung mechanics and function. Automated densitometric analysis was performed on 1094 computed tomographic scans collected upon enrollment into the National Emphysema Treatment Trial. Trained radiologists performed an additional visual grading of emphysema on high resolution CT scans. Full pulmonary function test results were available for correlation, with a subset of subjects having additional measurements of lung static recoil. There was a wide range of emphysematous lung destruction apparent on the CT scans and univariate correlations to measures of lung function were of modest strength. No single method of CT scan analysis clearly outperformed the rest of the group. Quantification of the burden of emphysematous lung destruction apparent on CT scan is a weak predictor of lung function and mechanics in severe COPD with no uniformly superior method found to perform this analysis. The CT based quantification of emphysema may augment pulmonary function testing in the characterization of COPD by providing complementary phenotypic information.

Electron tomographic analysis of cytokinesis in the brown alga Silvetia babingtonii (Fucales, Phaeophyceae).

PubMed

Nagasato, Chikako; Kajimura, Naoko; Terauchi, Makoto; Mineyuki, Yoshinobu; Motomura, Taizo

2014-11-01

In brown algae, membrane resources for the new cell partition during cytokinesis are mainly flat cisternae (FCs) and Golgi-derived vesicles. We used electron tomography coupled with rapid freezing/freeze substitution of zygotes to clarify the structure of transient membrane compartments during cytokinesis in Silvetia zygotes. After mitosis, an amorphous membranous structure, considered to be an FC intermediate was observed near endoplasmic reticulum clusters, lying between two daughter nuclei. FCs were arrayed at the cytokinetic plane, and a tubular membranous network was formed around them. This network might be formed by the consecutive fusion of spherical vesicles that are linked to the edges of FCs to form a membranous network (MN). At the initial stage of the formation of a membranous sac (MS) from the MN, the MS had flat and swollen parts, with the latter showing membranous tunnels. Coated pits were detected with high frequency at the swollen parts of the MS. This observation indicated that membranous tunnels disappeared by recycling of excess membrane via endocytosis, and the swollen part became flat. The MN appeared at the edges of the growing MS. MN and the MN-MS complex were observed along the cytokinetic plane in several spaces. The MS expanded by the incorporation of MN or other MS in its neighborhood. With the maturation of the new cell partition membrane, the thickness of the MS became constant and the membrane cavity disappeared. The changes in the surface area and volume of the transient membrane compartment during cytokinesis were analyzed from the tomographic data.

Electron tomographic analysis of gap junctions in lateral giant fibers of crayfish.

PubMed

Ohta, Yasumi; Nishikawa, Kouki; Hiroaki, Yoko; Fujiyoshi, Yoshinori

2011-07-01

Innexin-gap junctions in crayfish lateral giant fibers (LGFs) have an important role in escape behavior as a key component of rapid signal transduction. Knowledge of the structure and function of characteristic vesicles on the both sides of the gap junction, however, is limited. We used electron tomography to analyze the three-dimensional structure of crayfish gap junctions and gap junctional vesicles (GJVs). Tomographic analyses showed that some vesicles were anchored to innexons and almost all vesicles were connected by thin filaments. High densities inside the GJVs and projecting densities on the GJV membranes were observed in fixed and stained samples. Because the densities inside synaptic vesicles were dependent on the fixative conditions, different fixative conditions were used to elucidate the molecules included in the GJVs. The projecting densities on the GJVs were studied by immunoelectron microscopy with anti-vesicular monoamine transporter (anti-VMAT) and anti-vesicular nucleotide transporter (anti-VNUT) antibodies. Some of the projecting densities were labeled by anti-VNUT, but not anti-VMAT. Three-dimensional analyses of GJVs and excitatory chemical synaptic vesicles (CSVs) revealed clear differences in their sizes and central densities. Furthermore, the imaging data obtained under different fixative conditions and the immunolabeling results, in which GJVs were positively labeled for anti-VNUT but excitatory CSVs were not, support our model that GJVs contain nucleotides and excitatory CSVs do not. We propose a model in which characteristic GJVs containing nucleotides play an important role in the signal processing in gap junctions of crayfish LGFs. Copyright © 2011 Elsevier Inc. All rights reserved.

Combined PET/MRI scanner

DOEpatents

Schlyer, David; Woody, Craig L.; Rooney, William; Vaska, Paul; Stoll, Sean; Pratte, Jean-Francois; O'Connor, Paul

2007-10-23

A combined PET/MRI scanner generally includes a magnet for producing a magnetic field suitable for magnetic resonance imaging, a radiofrequency (RF) coil disposed within the magnetic field produced by the magnet and a ring tomograph disposed within the magnetic field produced by the magnet. The ring tomograph includes a scintillator layer for outputting at least one photon in response to an annihilation event, a detection array coupled to the scintillator layer for detecting the at least one photon outputted by the scintillator layer and for outputting a detection signal in response to the detected photon and a front-end electronic array coupled to the detection array for receiving the detection signal, wherein the front-end array has a preamplifier and a shaper network for conditioning the detection signal.

Advanced Ultrasonic Tomograph of Children's Bones

NASA Astrophysics Data System (ADS)

Lasaygues, Philippe; Lefebvre, Jean-Pierre; Guillermin, Régine; Kaftandjian, Valérie; Berteau, Jean-Philippe; Pithioux, Martine; Petit, Philippe

This study deals with the development of an experimental device for performing ultrasonic computed tomography (UCT) on bone in pediatric degrees. The children's bone tomographs obtained in this study, were based on the use of a multiplexed 2-D ring antenna (1 MHz and 3 MHz) designed for performing electronic and mechanical scanning. Although this approach is known to be a potentially valuable means of imaging objects with similar acoustical impedances, problems arise when quantitative images of more highly contrasted media such as bones are required. Various strategies and various mathematical procedures for modeling the wave propagation based on Born approximations have been developed at our laboratory, which are suitable for use with pediatric cases. Inversions of the experimental data obtained are presented.

Image Reconstruction is a New Frontier of Machine Learning.

PubMed

Wang, Ge; Ye, Jong Chu; Mueller, Klaus; Fessler, Jeffrey A

2018-06-01

Over past several years, machine learning, or more generally artificial intelligence, has generated overwhelming research interest and attracted unprecedented public attention. As tomographic imaging researchers, we share the excitement from our imaging perspective [item 1) in the Appendix], and organized this special issue dedicated to the theme of "Machine learning for image reconstruction." This special issue is a sister issue of the special issue published in May 2016 of this journal with the theme "Deep learning in medical imaging" [item 2) in the Appendix]. While the previous special issue targeted medical image processing/analysis, this special issue focuses on data-driven tomographic reconstruction. These two special issues are highly complementary, since image reconstruction and image analysis are two of the main pillars for medical imaging. Together we cover the whole workflow of medical imaging: from tomographic raw data/features to reconstructed images and then extracted diagnostic features/readings.

Use of sonic tomography to detect and quantify wood decay in living trees1

PubMed Central

Gilbert, Gregory S.; Ballesteros, Javier O.; Barrios-Rodriguez, Cesar A.; Bonadies, Ernesto F.; Cedeño-Sánchez, Marjorie L.; Fossatti-Caballero, Nohely J.; Trejos-Rodríguez, Mariam M.; Pérez-Suñiga, José Moises; Holub-Young, Katharine S.; Henn, Laura A. W.; Thompson, Jennifer B.; García-López, Cesar G.; Romo, Amanda C.; Johnston, Daniel C.; Barrick, Pablo P.; Jordan, Fulvia A.; Hershcovich, Shiran; Russo, Natalie; Sánchez, Juan David; Fábrega, Juan Pablo; Lumpkin, Raleigh; McWilliams, Hunter A.; Chester, Kathleen N.; Burgos, Alana C.; Wong, E. Beatriz; Diab, Jonathan H.; Renteria, Sonia A.; Harrower, Jennifer T.; Hooton, Douglas A.; Glenn, Travis C.; Faircloth, Brant C.; Hubbell, Stephen P.

2016-01-01

Premise of the study: Field methodology and image analysis protocols using acoustic tomography were developed and evaluated as a tool to estimate the amount of internal decay and damage of living trees, with special attention to tropical rainforest trees with irregular trunk shapes. Methods and Results: Living trunks of a diversity of tree species in tropical rainforests in the Republic of Panama were scanned using an Argus Electronic PiCUS 3 Sonic Tomograph and evaluated for the amount and patterns of internal decay. A protocol using ImageJ analysis software was used to quantify the proportions of intact and compromised wood. The protocols provide replicable estimates of internal decay and cavities for trees of varying shapes, wood density, and bark thickness. Conclusions: Sonic tomography, coupled with image analysis, provides an efficient, noninvasive approach to evaluate decay patterns and structural integrity of even irregularly shaped living trees. PMID:28101433

Correlative Microscopy of Vitreous Sections Provides Insights into BAR-Domain Organization In Situ.

PubMed

Bharat, Tanmay A M; Hoffmann, Patrick C; Kukulski, Wanda

2018-04-10

Electron microscopy imaging of macromolecular complexes in their native cellular context is limited by the inherent difficulty to acquire high-resolution tomographic data from thick cells and to specifically identify elusive structures within crowded cellular environments. Here, we combined cryo-fluorescence microscopy with electron cryo-tomography of vitreous sections into a coherent correlative microscopy workflow, ideal for detection and structural analysis of elusive protein assemblies in situ. We used this workflow to address an open question on BAR-domain coating of yeast plasma membrane compartments known as eisosomes. BAR domains can sense or induce membrane curvature, and form scaffold-like membrane coats in vitro. Our results demonstrate that in cells, the BAR protein Pil1 localizes to eisosomes of varying membrane curvature. Sub-tomogram analysis revealed a dense protein coat on curved eisosomes, which was not present on shallow eisosomes, indicating that while BAR domains can assemble at shallow membranes in vivo, scaffold formation is tightly coupled to curvature generation. Copyright © 2018 MRC Laboratory of Molecular Biology. Published by Elsevier Ltd.. All rights reserved.

On a gas electron multiplier based synthetic diagnostic for soft x-ray tomography on WEST with focus on impurity transport studies

NASA Astrophysics Data System (ADS)

Jardin, A.; Mazon, D.; Malard, P.; O'Mullane, M.; Chernyshova, M.; Czarski, T.; Malinowski, K.; Kasprowicz, G.; Wojenski, A.; Pozniak, K.

2017-08-01

The tokamak WEST aims at testing ITER divertor high heat flux component technology in long pulse operation. Unfortunately, heavy impurities like tungsten (W) sputtered from the plasma facing components can pollute the plasma core by radiation cooling in the soft x-ray (SXR) range, which is detrimental for the energy confinement and plasma stability. SXR diagnostics give valuable information to monitor impurities and study their transport. The WEST SXR diagnostic is composed of two new cameras based on the Gas Electron Multiplier (GEM) technology. The WEST GEM cameras will be used for impurity transport studies by performing 2D tomographic reconstructions with spectral resolution in tunable energy bands. In this paper, we characterize the GEM spectral response and investigate W density reconstruction thanks to a synthetic diagnostic recently developed and coupled with a tomography algorithm based on the minimum Fisher information (MFI) inversion method. The synthetic diagnostic includes the SXR source from a given plasma scenario, the photoionization, electron cloud transport and avalanche in the detection volume using Magboltz, and tomographic reconstruction of the radiation from the GEM signal. Preliminary studies of the effect of transport on the W ionization equilibrium and on the reconstruction capabilities are also presented.

CoCrMo cellular structures made by Electron Beam Melting studied by local tomography and finite element modelling

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

Petit, Clémence; Maire, Eric, E-mail: eric.maire@insa-lyon.fr; Meille, Sylvain

The work focuses on the structural and mechanical characterization of Co-Cr-Mo cellular samples with cubic pore structure made by Electron Beam Melting (EBM). X-ray tomography was used to characterize the architecture of the sample. High resolution images were also obtained thanks to local tomography in which the specimen is placed close to the X-ray source. These images enabled to observe some defects due to the fabrication process: small pores in the solid phase, partially melted particles attached to the surface. Then, in situ compression tests were performed in the tomograph. The images of the deformed sample show a progressive bucklingmore » of the vertical struts leading to final fracture. The deformation initiated where the defects were present in the strut i.e. in regions with reduced local thickness. The finite element modelling confirmed the high stress concentrations of these weak points leading to the fracture of the sample. - Highlights: • CoCrMo samples fabricated by Electron Beam Melting (EBM) process are considered. • X-ray Computed Tomography is used to observe the structure of the sample. • The mechanical properties are tested thanks to an in situ test in the tomograph. • A finite element model is developed to model the mechanical behaviour.« less

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

Ent, Rolf

With two options studied at Brookhaven National Lab and Jefferson Laboratory the U.S., an Electron-Ion Collider (EIC) of energy √s=20-100 GeV was under design. Furthermore, the recent 2015 US Nuclear Science Long-Range Planning effort included a future EIC as a recommendation for future construction. The EIC will be unique in colliding polarised electrons off polarised protons and light nuclei, providing the spin degrees of freedom essential to pursue its physics program driven by spin structure, multi-dimensional tomographic images of protons and nuclei, and discovery of the role of collective effects of gluons in nuclei. The foreseen luminosity of the EIC,more » coupled with its energy variability and reach, will allow unprecedented three-dimensional imaging of the gluon and sea quark distributions, via both TMDs and GPDs, and to explore correlations amongst them. Its hermetic detection capability of correlated fragments promises to similar allow for precise tomographic images of the quark-gluon landscape in nuclei, transcending from light few-body nuclei to the heaviest nuclei, and could uncover how the TMD and GPD landscape changes when gluons display an anticipated collective behavior at the higher energies.« less

An Energy-Based Three-Dimensional Segmentation Approach for the Quantitative Interpretation of Electron Tomograms

PubMed Central

Bartesaghi, Alberto; Sapiro, Guillermo; Subramaniam, Sriram

2006-01-01

Electron tomography allows for the determination of the three-dimensional structures of cells and tissues at resolutions significantly higher than that which is possible with optical microscopy. Electron tomograms contain, in principle, vast amounts of information on the locations and architectures of large numbers of subcellular assemblies and organelles. The development of reliable quantitative approaches for the analysis of features in tomograms is an important problem, and a challenging prospect due to the low signal-to-noise ratios that are inherent to biological electron microscopic images. This is, in part, a consequence of the tremendous complexity of biological specimens. We report on a new method for the automated segmentation of HIV particles and selected cellular compartments in electron tomograms recorded from fixed, plastic-embedded sections derived from HIV-infected human macrophages. Individual features in the tomogram are segmented using a novel robust algorithm that finds their boundaries as global minimal surfaces in a metric space defined by image features. The optimization is carried out in a transformed spherical domain with the center an interior point of the particle of interest, providing a proper setting for the fast and accurate minimization of the segmentation energy. This method provides tools for the semi-automated detection and statistical evaluation of HIV particles at different stages of assembly in the cells and presents opportunities for correlation with biochemical markers of HIV infection. The segmentation algorithm developed here forms the basis of the automated analysis of electron tomograms and will be especially useful given the rapid increases in the rate of data acquisition. It could also enable studies of much larger data sets, such as those which might be obtained from the tomographic analysis of HIV-infected cells from studies of large populations. PMID:16190467

Bright-field electron tomography of individual inorganic fullerene-like structures.

PubMed

Bar Sadan, Maya; Wolf, Sharon G; Houben, Lothar

2010-03-01

Nanotubes and fullerene-like nanoparticles of various inorganic layered compounds have been studied extensively in recent years. Their characterisation on the atomic scale has proven essential for progress in synthesis as well as for the theoretical modelling of their physical properties. We show that with electron tomography it is possible to achieve a reliable reconstruction of the 3D structure of nested WS(2) or MoS(2) fullerene-like and nanotube structures with sub-nanometre resolution using electron microscopes that are not aberration-corrected. Model-based simulations were used to identify imaging parameters, under which structural features such as the shell structure can be retained in the tomogram reconstructed from bright-field micrographs. The isolation of a particle out of an agglomerate for the analysis of a single structure and its interconnection with other particles is facilitated through the tomograms. The internal structure of the layers within the particle alongside the shape and content of its internal void are reconstructed. The tomographic reconstruction yields insights regarding the growth process as well as structural defects, such as non-continuous layers, which relate to the lubrication properties.

Cryo-transmission electron tomography of native casein micelles from bovine milk.

PubMed

Trejo, R; Dokland, T; Jurat-Fuentes, J; Harte, F

2011-12-01

Caseins are the principal protein components in milk and an important ingredient in the food industry. In liquid milk, caseins are found as micelles of casein proteins and colloidal calcium nanoclusters. Casein micelles were isolated from raw skim milk by size exclusion chromatography and suspended in milk protein-free serum produced by ultrafiltration (molecular weight cut-off of 3 kDa) of raw skim milk. The micelles were imaged by cryo-electron microscopy and subjected to tomographic reconstruction methods to visualize the 3-dimensional and internal organization of native casein micelles. This provided new insights into the internal architecture of the casein micelle that had not been apparent from prior cryo-transmission electron microscopy studies. This analysis demonstrated the presence of water-filled cavities (∼20 to 30 nm in diameter), channels (diameter greater than ∼5 nm), and several hundred high-density nanoclusters (6 to 12 nm in diameter) within the interior of the micelles. No spherical protein submicellar structures were observed. Copyright © 2011 American Dairy Science Association. Published by Elsevier Inc. All rights reserved.

Validation of Ionosonde Electron Density Reconstruction Algorithms with IONOLAB-RAY in Central Europe

NASA Astrophysics Data System (ADS)

Gok, Gokhan; Mosna, Zbysek; Arikan, Feza; Arikan, Orhan; Erdem, Esra

2016-07-01

Ionospheric observation is essentially accomplished by specialized radar systems called ionosondes. The time delay between the transmitted and received signals versus frequency is measured by the ionosondes and the received signals are processed to generate ionogram plots, which show the time delay or reflection height of signals with respect to transmitted frequency. The critical frequencies of ionospheric layers and virtual heights, that provide useful information about ionospheric structurecan be extracted from ionograms . Ionograms also indicate the amount of variability or disturbances in the ionosphere. With special inversion algorithms and tomographical methods, electron density profiles can also be estimated from the ionograms. Although structural pictures of ionosphere in the vertical direction can be observed from ionosonde measurements, some errors may arise due to inaccuracies that arise from signal propagation, modeling, data processing and tomographic reconstruction algorithms. Recently IONOLAB group (www.ionolab.org) developed a new algorithm for effective and accurate extraction of ionospheric parameters and reconstruction of electron density profile from ionograms. The electron density reconstruction algorithm applies advanced optimization techniques to calculate parameters of any existing analytical function which defines electron density with respect to height using ionogram measurement data. The process of reconstructing electron density with respect to height is known as the ionogram scaling or true height analysis. IONOLAB-RAY algorithm is a tool to investigate the propagation path and parameters of HF wave in the ionosphere. The algorithm models the wave propagation using ray representation under geometrical optics approximation. In the algorithm , the structural ionospheric characteristics arerepresented as realistically as possible including anisotropicity, inhomogenity and time dependence in 3-D voxel structure. The algorithm is also used for various purposes including calculation of actual height and generation of ionograms. In this study, the performance of electron density reconstruction algorithm of IONOLAB group and standard electron density profile algorithms of ionosondes are compared with IONOLAB-RAY wave propagation simulation in near vertical incidence. The electron density reconstruction and parameter extraction algorithms of ionosondes are validated with the IONOLAB-RAY results both for quiet anddisturbed ionospheric states in Central Europe using ionosonde stations such as Pruhonice and Juliusruh . It is observed that IONOLAB ionosonde parameter extraction and electron density reconstruction algorithm performs significantly better compared to standard algorithms especially for disturbed ionospheric conditions. IONOLAB-RAY provides an efficient and reliable tool to investigate and validate ionosonde electron density reconstruction algorithms, especially in determination of reflection height (true height) of signals and critical parameters of ionosphere. This study is supported by TUBITAK 114E541, 115E915 and Joint TUBITAK 114E092 and AS CR 14/001 projects.

Reciprocating vs Rotary Instrumentation in Pediatric Endodontics: Cone Beam Computed Tomographic Analysis of Deciduous Root Canals using Two Single-file Systems.

PubMed

Prabhakar, Attiguppe R; Yavagal, Chandrashekar; Dixit, Kratika; Naik, Saraswathi V

2016-01-01

Primary root canals are considered to be most challenging due to their complex anatomy. "Wave one" and "one shape" are single-file systems with reciprocating and rotary motion respectively. The aim of this study was to evaluate and compare dentin thickness, centering ability, canal transportation, and instrumentation time of wave one and one shape files in primary root canals using a cone beam computed tomographic (CBCT) analysis. This is an experimental, in vitro study comparing the two groups. A total of 24 extracted human primary teeth with minimum 7 mm root length were included in the study. Cone beam computed tomographic images were taken before and after the instrumentation for each group. Dentin thickness, centering ability, canal transportation, and instrumentation times were evaluated for each group. A significant difference was found in instrumentation time and canal transportation measures between the two groups. Wave one showed less canal transportation as compared with one shape, and the mean instrumentation time of wave one was significantly less than one shape. Reciprocating single-file systems was found to be faster with much less procedural errors and can hence be recommended for shaping the root canals of primary teeth. How to cite this article: Prabhakar AR, Yavagal C, Dixit K, Naik SV. Reciprocating vs Rotary Instrumentation in Pediatric Endodontics: Cone Beam Computed Tomographic Analysis of Deciduous Root Canals using Two Single-File Systems. Int J Clin Pediatr Dent 2016;9(1):45-49.

Intra-LLSVP Heterogeneity from Spherical Slepian Analysis

NASA Astrophysics Data System (ADS)

Olugboji, T. M.; Moulik, P.; Plattner, A.; Lekic, V.

2017-12-01

The lower mantle structure is dominated by a pair of large, antipodal, low shear velocity provinces (LLSVPs) located beneath Africa and the Pacific Ocean. Though LLSVPs are a dominantly long-wavelength (degree 2) feature detected since the earliest tomographic models, their nature and origin remain enigmatic. A number of hypotheses have been proposed to address their origin, summarized by two end member scenarios: (1) they represent thermochemical piles that are either primordial or have grown over time, such as by the accumulation of subducted oceanic lithosphere, (2) they are purely thermal features, seen through the lens of tomographic imaging. In order to distinguish between these two interpretations of the seismically detected LLSVPs we compare the amplitude and length-scales of velocity heterogeneities within and outside the LLSVPs, and analyze their variation with height above the core-mantle boundary. This requires estimating the wavenumber spectrum of heterogeneity by localizing it from a global tomographic model. Previous researchers have done this by filtering using spatially abrupt windowing functions; however, this procedure leads to unreliable spectral estimates due to their non-compact spatiospectral concentration. Here, we overcome this shortcoming by adopting spherical Slepian analysis that allows us to optimize the trade-off between spatial localization and spectral leakage. We conduct a quantitative analysis of the similarities and differences in the spectrum of heterogeneity across a collection of global tomographic models allowing us to identify robust features that need to be explained by purely thermal or thermochemical geodynamic models, potentially discriminating between these two scenarios.

Electron tomography and 3D molecular simulations of platinum nanocrystals

NASA Astrophysics Data System (ADS)

Florea, Ileana; Demortière, Arnaud; Petit, Christophe; Bulou, Hervé; Hirlimann, Charles; Ersen, Ovidiu

2012-07-01

This work reports on the morphology of individual platinum nanocrystals with sizes of about 5 nm. By using the electron tomography technique that gives 3D spatial selectivity, access to quantitative information in the real space was obtained. The morphology of individual nanoparticles was characterized using HAADF-STEM tomography and it was shown to be close to a truncated octahedron. Using molecular dynamics simulations, this geometrical shape was found to be the one minimizing the nanocrystal energy. Starting from the tomographic reconstruction, 3D crystallographic representations of the studied Pt nanocrystals were obtained at the nanometer scale, allowing the quantification of the relative amount of the crystallographic facets present on the particle surface.This work reports on the morphology of individual platinum nanocrystals with sizes of about 5 nm. By using the electron tomography technique that gives 3D spatial selectivity, access to quantitative information in the real space was obtained. The morphology of individual nanoparticles was characterized using HAADF-STEM tomography and it was shown to be close to a truncated octahedron. Using molecular dynamics simulations, this geometrical shape was found to be the one minimizing the nanocrystal energy. Starting from the tomographic reconstruction, 3D crystallographic representations of the studied Pt nanocrystals were obtained at the nanometer scale, allowing the quantification of the relative amount of the crystallographic facets present on the particle surface. Electronic supplementary information (ESI) available. See DOI: 10.1039/c2nr30990d

Shaping ability of the conventional nickel-titanium and reciprocating nickel-titanium file systems: a comparative study using micro-computed tomography.

PubMed

Hwang, Young-Hye; Bae, Kwang-Shik; Baek, Seung-Ho; Kum, Kee-Yeon; Lee, WooCheol; Shon, Won-Jun; Chang, Seok Woo

2014-08-01

This study used micro-computed tomographic imaging to compare the shaping ability of Mtwo (VDW, Munich, Germany), a conventional nickel-titanium file system, and Reciproc (VDW), a reciprocating file system morphologically similar to Mtwo. Root canal shaping was performed on the mesiobuccal and distobuccal canals of extracted maxillary molars. In the RR group (n = 15), Reciproc was used in a reciprocating motion (150° counterclockwise/30° clockwise, 300 rpm); in the MR group, Mtwo was used in a reciprocating motion (150° clockwise/30° counterclockwise, 300 rpm); and in the MC group, Mtwo was used in a continuous rotating motion (300 rpm). Micro-computed tomographic images taken before and after canal shaping were used to analyze canal volume change and the degree of transportation at the cervical, middle, and apical levels. The time required for canal shaping was recorded. Afterward, each file was analyzed using scanning electron microscopy. No statistically significant differences were found among the 3 groups in the time for canal shaping or canal volume change (P > .05). Transportation values of the RR and MR groups were not significantly different at any level. However, the transportation value of the MC group was significantly higher than both the RR and MR groups at the cervical and apical levels (P < .05). In the scanning electron microscopic analysis, file deformation was observed for 1 file in group RR (1/15), 3 files in group MR (3/15), and 5 files in group MC (5/15). In terms of shaping ability, Mtwo used in a reciprocating motion was not significantly different from the Reciproc system. Copyright © 2014 American Association of Endodontists. Published by Elsevier Inc. All rights reserved.

Medical ultrasonic tomographic system

NASA Technical Reports Server (NTRS)

Heyser, R. C.; Lecroissette, D. H.; Nathan, R.; Wilson, R. L.

1977-01-01

An electro-mechanical scanning assembly was designed and fabricated for the purpose of generating an ultrasound tomogram. A low cost modality was demonstrated in which analog instrumentation methods formed a tomogram on photographic film. Successful tomogram reconstructions were obtained on in vitro test objects by using the attenuation of the fist path ultrasound signal as it passed through the test object. The nearly half century tomographic methods of X-ray analysis were verified as being useful for ultrasound imaging.

Ionospheric Electron Density Measurements Using COSMIC

NASA Astrophysics Data System (ADS)

Dymond, K. F.; Budzien, S. A.; Bernhardt, P. A.; Rocken, C.; Syndergaard, S.

2007-12-01

At 0140 UTC on April 15, 2006, the joint Taiwan-U.S. COSMIC/FORMOSAT-3 (Constellation Observing System for Meteorology, Ionosphere, and Climate and Formosa Satellite mission #3; hereafter COSMIC) mission, a constellation of six micro-satellites, was launched into a 512-km orbit from Vandenberg Air Force Base in California. Using on-board propulsion these satellites have been deployed to their final orbits at 800 km with 30 degrees of separation. This process has taken about 17 months following the launch. There are three instruments aboard each COSMIC satellite: the GPS Occultation Experiment (GOX), the Tri-Band Beacon (TBB), and the Tiny Ionospheric Photometer (TIP). These three instruments constitute a unique suite of instruments for studying the Earth's ionosphere. The GOX instrument operates by inferring the slant total electron content (the integral of the electron density along the line-of-sight) between the COSMIC satellites and the GPS satellites as a function of tangent height above the Earth's limb. These data can be inverted to produce electron density profiles in the E and F regions of the ionosphere. The TBB is a three frequency radio beacon that radiates coherently at 150, 400, and 1067 MHz. When the relative phases of the signals are measured between the COSMIC satellites and ground-based or space-based receivers, the total electron content along the line-of-sight can be determined. By making the measurements from a set of receivers, the two-dimensional distribution of electrons beneath the satellite can be determined using tomographic techniques. The TIP instrument measures the optical signature of the natural decay of the ionosphere produced via ecombination of the O+ ions and electrons. The TIP measurements can be used to characterize the morphology and dynamics of the global ionosphere. Additionally, the TIP measurements can be inverted in conjunction with the GPS occultation measurements, using tomographic techniques, to produce the two- dimensional distribution of electrons beneath the satellite. We present an overview of the COSMIC mission, the instruments, and their application to ionospheric sensing.

J-PET detector system for studies of the electron-positron annihilations

NASA Astrophysics Data System (ADS)

Pawlik-Niedźwiecka, M.; Khreptak, O.; Gajos, A.; Wieczorek, A.; Alfs, D.; Bednarski, T.; Białas, P.; Curceanu, C.; Czerwiński, E.; Dulski, K.; Głowacz, B.; Gupta-Sharma, N.; Gorgol, M.; Hiesmayr, B. C.; Jasińska, B.; Kamińska, D.; Korcyl, G.; Kowalski, P.; Krzmień, W.; Krawczyk, N.; Kubicz, E.; Mohammed, M.; Niedźwiecki, Sz.; Raczyński, L.; Rudy, Z.; Silarski, M.; Wiślicki, W.; Zgardzińska, B.; Zieliński, M.; Moskal, P.

2016-11-01

Jagiellonian Positron Emission Tomograph (J-PET) has been recently constructed at the Jagiellonian University as a prototype of a cost-effective scanner for the metabolic imaging of the whole human body. J-PET detector is optimized for the measurement of momentum and polarization of photons from the electron-positron annihilations. It is built out of strips of plastic scintillators, forming three cylindrical layers. As detector of gamma quanta it will be used for studies of discrete symmetries and multiparticle entanglement of photons originating from the decays of ortho-positronium atoms.

Tunable diode laser absorption spectroscopy-based tomography system for on-line monitoring of two-dimensional distributions of temperature and H2O mole fraction.

PubMed

Xu, Lijun; Liu, Chang; Jing, Wenyang; Cao, Zhang; Xue, Xin; Lin, Yuzhen

2016-01-01

To monitor two-dimensional (2D) distributions of temperature and H2O mole fraction, an on-line tomography system based on tunable diode laser absorption spectroscopy (TDLAS) was developed. To the best of the authors' knowledge, this is the first report on a multi-view TDLAS-based system for simultaneous tomographic visualization of temperature and H2O mole fraction in real time. The system consists of two distributed feedback (DFB) laser diodes, a tomographic sensor, electronic circuits, and a computer. The central frequencies of the two DFB laser diodes are at 7444.36 cm(-1) (1343.3 nm) and 7185.6 cm(-1) (1391.67 nm), respectively. The tomographic sensor is used to generate fan-beam illumination from five views and to produce 60 ray measurements. The electronic circuits not only provide stable temperature and precise current controlling signals for the laser diodes but also can accurately sample the transmitted laser intensities and extract integrated absorbances in real time. Finally, the integrated absorbances are transferred to the computer, in which the 2D distributions of temperature and H2O mole fraction are reconstructed by using a modified Landweber algorithm. In the experiments, the TDLAS-based tomography system was validated by using asymmetric premixed flames with fixed and time-varying equivalent ratios, respectively. The results demonstrate that the system is able to reconstruct the profiles of the 2D distributions of temperature and H2O mole fraction of the flame and effectively capture the dynamics of the combustion process, which exhibits good potential for flame monitoring and on-line combustion diagnosis.

Tunable diode laser absorption spectroscopy-based tomography system for on-line monitoring of two-dimensional distributions of temperature and H2O mole fraction

NASA Astrophysics Data System (ADS)

Xu, Lijun; Liu, Chang; Jing, Wenyang; Cao, Zhang; Xue, Xin; Lin, Yuzhen

2016-01-01

To monitor two-dimensional (2D) distributions of temperature and H2O mole fraction, an on-line tomography system based on tunable diode laser absorption spectroscopy (TDLAS) was developed. To the best of the authors' knowledge, this is the first report on a multi-view TDLAS-based system for simultaneous tomographic visualization of temperature and H2O mole fraction in real time. The system consists of two distributed feedback (DFB) laser diodes, a tomographic sensor, electronic circuits, and a computer. The central frequencies of the two DFB laser diodes are at 7444.36 cm-1 (1343.3 nm) and 7185.6 cm-1 (1391.67 nm), respectively. The tomographic sensor is used to generate fan-beam illumination from five views and to produce 60 ray measurements. The electronic circuits not only provide stable temperature and precise current controlling signals for the laser diodes but also can accurately sample the transmitted laser intensities and extract integrated absorbances in real time. Finally, the integrated absorbances are transferred to the computer, in which the 2D distributions of temperature and H2O mole fraction are reconstructed by using a modified Landweber algorithm. In the experiments, the TDLAS-based tomography system was validated by using asymmetric premixed flames with fixed and time-varying equivalent ratios, respectively. The results demonstrate that the system is able to reconstruct the profiles of the 2D distributions of temperature and H2O mole fraction of the flame and effectively capture the dynamics of the combustion process, which exhibits good potential for flame monitoring and on-line combustion diagnosis.

String-averaging incremental subgradients for constrained convex optimization with applications to reconstruction of tomographic images

NASA Astrophysics Data System (ADS)

Massambone de Oliveira, Rafael; Salomão Helou, Elias; Fontoura Costa, Eduardo

2016-11-01

We present a method for non-smooth convex minimization which is based on subgradient directions and string-averaging techniques. In this approach, the set of available data is split into sequences (strings) and a given iterate is processed independently along each string, possibly in parallel, by an incremental subgradient method (ISM). The end-points of all strings are averaged to form the next iterate. The method is useful to solve sparse and large-scale non-smooth convex optimization problems, such as those arising in tomographic imaging. A convergence analysis is provided under realistic, standard conditions. Numerical tests are performed in a tomographic image reconstruction application, showing good performance for the convergence speed when measured as the decrease ratio of the objective function, in comparison to classical ISM.

Reciprocating vs Rotary Instrumentation in Pediatric Endodontics: Cone Beam Computed Tomographic Analysis of Deciduous Root Canals using Two Single-file Systems

PubMed Central

Prabhakar, Attiguppe R; Yavagal, Chandrashekar; Naik, Saraswathi V

2016-01-01

ABSTRACT Background: Primary root canals are considered to be most challenging due to their complex anatomy. "Wave one" and "one shape" are single-file systems with reciprocating and rotary motion respectively. The aim of this study was to evaluate and compare dentin thickness, centering ability, canal transportation, and instrumentation time of wave one and one shape files in primary root canals using a cone beam computed tomographic (CBCT) analysis. Study design: This is an experimental, in vitro study comparing the two groups. Materials and methods: A total of 24 extracted human primary teeth with minimum 7 mm root length were included in the study. Cone beam computed tomographic images were taken before and after the instrumentation for each group. Dentin thickness, centering ability, canal transportation, and instrumentation times were evaluated for each group. Results: A significant difference was found in instrumentation time and canal transportation measures between the two groups. Wave one showed less canal transportation as compared with one shape, and the mean instrumentation time of wave one was significantly less than one shape. Conclusion: Reciprocating single-file systems was found to be faster with much less procedural errors and can hence be recommended for shaping the root canals of primary teeth. How to cite this article: Prabhakar AR, Yavagal C, Dixit K, Naik SV. Reciprocating vs Rotary Instrumentation in Pediatric Endodontics: Cone Beam Computed Tomographic Analysis of Deciduous Root Canals using Two Single-File Systems. Int J Clin Pediatr Dent 2016;9(1):45-49. PMID:27274155

Scanning transmission electron microscopy through-focal tilt-series on biological specimens.

PubMed

Trepout, Sylvain; Messaoudi, Cédric; Perrot, Sylvie; Bastin, Philippe; Marco, Sergio

2015-10-01

Since scanning transmission electron microscopy can produce high signal-to-noise ratio bright-field images of thick (≥500 nm) specimens, this tool is emerging as the method of choice to study thick biological samples via tomographic approaches. However, in a convergent-beam configuration, the depth of field is limited because only a thin portion of the specimen (from a few nanometres to tens of nanometres depending on the convergence angle) can be imaged in focus. A method known as through-focal imaging enables recovery of the full depth of information by combining images acquired at different levels of focus. In this work, we compare tomographic reconstruction with the through-focal tilt-series approach (a multifocal series of images per tilt angle) with reconstruction with the classic tilt-series acquisition scheme (one single-focus image per tilt angle). We visualised the base of the flagellum in the protist Trypanosoma brucei via an acquisition and image-processing method tailored to obtain quantitative and qualitative descriptors of reconstruction volumes. Reconstructions using through-focal imaging contained more contrast and more details for thick (≥500 nm) biological samples. Copyright © 2015 Elsevier Ltd. All rights reserved.

Comparison of mathematic models for assessment of glomerular filtration rate with electron-beam CT in pigs.

PubMed

Daghini, Elena; Juillard, Laurent; Haas, John A; Krier, James D; Romero, Juan C; Lerman, Lilach O

2007-02-01

To prospectively compare in pigs three mathematic models for assessment of glomerular filtration rate (GFR) on electron-beam (EB) computed tomographic (CT) images, with concurrent inulin clearance serving as the reference standard. This study was approved by the institutional animal care and use committee. Inulin clearance was measured in nine pigs (18 kidneys) and compared with single-kidney GFR assessed from renal time-attenuation curves (TACs) obtained with EB CT before and after infusion of the vasodilator acetylcholine. CT-derived GFR was calculated with the original and modified Patlak methods and with previously validated extended gamma variate modeling of first-pass cortical TACs. Statistical analysis was performed to assess correlation between CT methods and inulin clearance for estimation of GFR with least-squares regression analysis and Bland-Altman graphical representation. Comparisons within groups were performed with a paired t test. GFR assessed with the original Patlak method indicated poor correlation with inulin clearance, whereas GFR assessed with the modified Patlak method (P < .001, r = 0.75) and with gamma variate modeling (P < .001, r = 0.79) correlated significantly with inulin clearance and indicated an increase in response to acetylcholine. CT-derived estimates of GFR can be significantly improved by modifications in image analysis methods (eg, use of a cortical region of interest). (c) RSNA, 2007.

Clathrin-independent carriers form a high capacity endocytic sorting system at the leading edge of migrating cells

PubMed Central

Howes, Mark T.; Kirkham, Matthew; Riches, James; Cortese, Katia; Walser, Piers J.; Simpson, Fiona; Hill, Michelle M.; Jones, Alun; Lundmark, Richard; Lindsay, Margaret R.; Hernandez-Deviez, Delia J.; Hadzic, Gordana; McCluskey, Adam; Bashir, Rumasia; Liu, Libin; Pilch, Paul; McMahon, Harvey; Robinson, Phillip J.; Hancock, John F.; Mayor, Satyajit

2010-01-01

Although the importance of clathrin- and caveolin-independent endocytic pathways has recently emerged, key aspects of these routes remain unknown. Using quantitative ultrastructural approaches, we show that clathrin-independent carriers (CLICs) account for approximately three times the volume internalized by the clathrin-mediated endocytic pathway, forming the major pathway involved in uptake of fluid and bulk membrane in fibroblasts. Electron tomographic analysis of the 3D morphology of the earliest carriers shows that they are multidomain organelles that form a complex sorting station as they mature. Proteomic analysis provides direct links between CLICs, cellular adhesion turnover, and migration. Consistent with this, CLIC-mediated endocytosis of key cargo proteins, CD44 and Thy-1, is polarized at the leading edge of migrating fibroblasts, while transient ablation of CLICs impairs their ability to migrate. These studies provide the first quantitative ultrastructural analysis and molecular characterization of the major endocytic pathway in fibroblasts, a pathway that provides rapid membrane turnover at the leading edge of migrating cells. PMID:20713605

Comparison of three‐dimensional analysis and stereological techniques for quantifying lithium‐ion battery electrode microstructures

PubMed Central

TAIWO, OLUWADAMILOLA O.; FINEGAN, DONAL P.; EASTWOOD, DAVID S.; FIFE, JULIE L.; BROWN, LEON D.; DARR, JAWWAD A.; LEE, PETER D.; BRETT, DANIEL J.L.

2016-01-01

Summary Lithium‐ion battery performance is intrinsically linked to electrode microstructure. Quantitative measurement of key structural parameters of lithium‐ion battery electrode microstructures will enable optimization as well as motivate systematic numerical studies for the improvement of battery performance. With the rapid development of 3‐D imaging techniques, quantitative assessment of 3‐D microstructures from 2‐D image sections by stereological methods appears outmoded; however, in spite of the proliferation of tomographic imaging techniques, it remains significantly easier to obtain two‐dimensional (2‐D) data sets. In this study, stereological prediction and three‐dimensional (3‐D) analysis techniques for quantitative assessment of key geometric parameters for characterizing battery electrode microstructures are examined and compared. Lithium‐ion battery electrodes were imaged using synchrotron‐based X‐ray tomographic microscopy. For each electrode sample investigated, stereological analysis was performed on reconstructed 2‐D image sections generated from tomographic imaging, whereas direct 3‐D analysis was performed on reconstructed image volumes. The analysis showed that geometric parameter estimation using 2‐D image sections is bound to be associated with ambiguity and that volume‐based 3‐D characterization of nonconvex, irregular and interconnected particles can be used to more accurately quantify spatially‐dependent parameters, such as tortuosity and pore‐phase connectivity. PMID:26999804

Comparison of three-dimensional analysis and stereological techniques for quantifying lithium-ion battery electrode microstructures.

PubMed

Taiwo, Oluwadamilola O; Finegan, Donal P; Eastwood, David S; Fife, Julie L; Brown, Leon D; Darr, Jawwad A; Lee, Peter D; Brett, Daniel J L; Shearing, Paul R

2016-09-01

Lithium-ion battery performance is intrinsically linked to electrode microstructure. Quantitative measurement of key structural parameters of lithium-ion battery electrode microstructures will enable optimization as well as motivate systematic numerical studies for the improvement of battery performance. With the rapid development of 3-D imaging techniques, quantitative assessment of 3-D microstructures from 2-D image sections by stereological methods appears outmoded; however, in spite of the proliferation of tomographic imaging techniques, it remains significantly easier to obtain two-dimensional (2-D) data sets. In this study, stereological prediction and three-dimensional (3-D) analysis techniques for quantitative assessment of key geometric parameters for characterizing battery electrode microstructures are examined and compared. Lithium-ion battery electrodes were imaged using synchrotron-based X-ray tomographic microscopy. For each electrode sample investigated, stereological analysis was performed on reconstructed 2-D image sections generated from tomographic imaging, whereas direct 3-D analysis was performed on reconstructed image volumes. The analysis showed that geometric parameter estimation using 2-D image sections is bound to be associated with ambiguity and that volume-based 3-D characterization of nonconvex, irregular and interconnected particles can be used to more accurately quantify spatially-dependent parameters, such as tortuosity and pore-phase connectivity. © 2016 The Authors. Journal of Microscopy published by John Wiley & Sons Ltd on behalf of Royal Microscopical Society.

Imaging of turbulent structures and tomographic reconstruction of TORPEX plasma emissivity

NASA Astrophysics Data System (ADS)

Iraji, D.; Furno, I.; Fasoli, A.; Theiler, C.

2010-12-01

In the TORPEX [A. Fasoli et al., Phys. Plasmas 13, 055902 (2006)], a simple magnetized plasma device, low frequency electrostatic fluctuations associated with interchange waves, are routinely measured by means of extensive sets of Langmuir probes. To complement the electrostatic probe measurements of plasma turbulence and study of plasma structures smaller than the spatial resolution of probes array, a nonperturbative direct imaging system has been developed on TORPEX, including a fast framing Photron-APX-RS camera and an image intensifier unit. From the line-integrated camera images, we compute the poloidal emissivity profile of the plasma by applying a tomographic reconstruction technique using a pixel method and solving an overdetermined set of equations by singular value decomposition. This allows comparing statistical, spectral, and spatial properties of visible light radiation with electrostatic fluctuations. The shape and position of the time-averaged reconstructed plasma emissivity are observed to be similar to those of the ion saturation current profile. In the core plasma, excluding the electron cyclotron and upper hybrid resonant layers, the mean value of the plasma emissivity is observed to vary with (Te)α(ne)β, in which α =0.25-0.7 and β =0.8-1.4, in agreement with collisional radiative model. The tomographic reconstruction is applied to the fast camera movie acquired with 50 kframes/s rate and 2 μs of exposure time to obtain the temporal evolutions of the emissivity fluctuations. Conditional average sampling is also applied to visualize and measure sizes of structures associated with the interchange mode. The ω-time and the two-dimensional k-space Fourier analysis of the reconstructed emissivity fluctuations show the same interchange mode that is detected in the ω and k spectra of the ion saturation current fluctuations measured by probes. Small scale turbulent plasma structures can be detected and tracked in the reconstructed emissivity movies with the spatial resolution down to 2 cm, well beyond the spatial resolution of the probe array.

Measurement of radioactivity concentration in blood by using newly developed ToT LuAG-APD based small animal PET tomograph.

PubMed

Malik, Azhar H; Shimazoe, Kenji; Takahashi, Hiroyuki

2013-01-01

In order to obtain plasma time activity curve (PTAC), input function for almost all quantitative PET studies, patient blood is sampled manually from the artery or vein which has various drawbacks. Recently a novel compact Time over Threshold (ToT) based Pr:LuAG-APD animal PET tomograph is developed in our laboratory which has 10% energy resolution, 4.2 ns time resolution and 1.76 mm spatial resolution. The measured value of spatial resolution shows much promise for imaging the blood vascular, i.e; artery of diameter 2.3-2.4mm, and hence, to measure PTAC for quantitative PET studies. To find the measurement time required to obtain reasonable counts for image reconstruction, the most important parameter is the sensitivity of the system. Usually small animal PET systems are characterized by using a point source in air. We used Electron Gamma Shower 5 (EGS5) code to simulate a point source at different positions inside the sensitive volume of tomograph and the axial and radial variations in the sensitivity are studied in air and phantom equivalent water cylinder. An average sensitivity difference of 34% in axial direction and 24.6% in radial direction is observed when point source is displaced inside water cylinder instead of air.

Non-contact continuous-wave diffuse optical tomographic system to capture vascular dynamics in the foot

NASA Astrophysics Data System (ADS)

Hoi, Jennifer W.; Kim, Hyun K.; Khalil, Michael A.; Fong, Christopher J.; Marone, Alessandro; Shrikhande, Gautam; Hielscher, Andreas H.

2015-03-01

Dynamic optical tomographic imaging has shown promise in diagnosing and monitoring peripheral arterial disease (PAD), which affects 8 to 12 million in the United States. PAD is the narrowing of the arteries that supply blood to the lower extremities. Prolonged reduced blood flow to the foot leads to ulcers and gangrene, which makes placement of optical fibers for contact-based optical tomography systems difficult and cumbersome. Since many diabetic PAD patients have foot wounds, a non-contact interface is highly desirable. We present a novel non-contact dynamic continuous-wave optical tomographic imaging system that images the vasculature in the foot for evaluating PAD. The system images at up to 1Hz by delivering 2 wavelengths of light to the top of the foot at up to 20 source positions through collimated source fibers. Transmitted light is collected with an electron multiplying charge couple device (EMCCD) camera. We demonstrate that the system can resolve absorbers at various locations in a phantom study and show the system's first clinical 3D images of total hemoglobin changes in the foot during venous occlusion at the thigh. Our initial results indicate that this system is effective in capturing the vascular dynamics within the foot and can be used to diagnose and monitor treatment of PAD in diabetic patients.

Asymmetric molecular-orbital tomography by manipulating electron trajectories

NASA Astrophysics Data System (ADS)

Wang, Bincheng; Zhang, Qingbin; Zhu, Xiaosong; Lan, Pengfei; Rezvani, Seyed Ali; Lu, Peixiang

2017-11-01

We present a scheme for tomographic imaging of asymmetric molecular orbital based on high-order harmonic generation with a two-color orthogonally polarized multicycle laser field. With the two-dimensional manipulation of the electron trajectories, the electrons can recollide with the target molecule from two noncollinear directions, and then the dipole moment generated from the single direction can be obtained to reconstructed the asymmetric molecular orbital. The recollision is independent from the molecular structure and the angular dependence of the ionization rate in the external field. For this reason, this scheme can avoid the negative effects arising from the modification of the angle-dependent ionization rate induced by Stark shift and be applied to various molecules.

Computed tomographic analysis of temporal maxillary stability and pterygomaxillary generate formation following pediatric Le Fort III distraction advancement.

PubMed

Hopper, Richard A; Sandercoe, Gavin; Woo, Albert; Watts, Robyn; Kelley, Patrick; Ettinger, Russell E; Saltzman, Babette

2010-11-01

Le Fort III distraction requires generation of bone in the pterygomaxillary region. The authors performed retrospective digital analysis on temporal fine-cut computed tomographic images to quantify both radiographic evidence of pterygomaxillary region bone formation and relative maxillary stability. Fifteen patients with syndromic midface hypoplasia were included in the study. The average age of the patients was 8.7 years; 11 had either Crouzon or Apert syndrome. The average displacement of the maxilla during distraction was 16.2 mm (range, 7 to 31 mm). Digital analysis was performed on fine-cut computed tomographic scans before surgery, at device removal, and at annual follow-up. Seven patients also had mid-consolidation computed tomographic scans. Relative maxillary stability and density of radiographic bone in the pterygomaxillary region were calculated between each scan. There was no evidence of clinically significant maxillary relapse, rotation, or growth between the end of consolidation and 1-year follow-up, other than a relatively small 2-mm subnasal maxillary vertical growth. There was an average radiographic ossification of 0.5 mm/mm advancement at the time of device removal, with a 25th percentile value of 0.3 mm/mm. The time during consolidation that each patient reached the 25th percentile of pterygomaxillary region bone density observed in this series of clinically stable advancements ranged from 1.3 to 9.8 weeks (average, 3.7 weeks). There was high variability in the amount of bone formed in the pterygomaxillary region associated with clinical stability of the advanced Le Fort III segment. These data suggest that a subsection of patients generate the minimal amount of pterygomaxillary region bone formation associated with advancement stability as early as 4 weeks into consolidation.

Trace: a high-throughput tomographic reconstruction engine for large-scale datasets.

PubMed

Bicer, Tekin; Gürsoy, Doğa; Andrade, Vincent De; Kettimuthu, Rajkumar; Scullin, William; Carlo, Francesco De; Foster, Ian T

2017-01-01

Modern synchrotron light sources and detectors produce data at such scale and complexity that large-scale computation is required to unleash their full power. One of the widely used imaging techniques that generates data at tens of gigabytes per second is computed tomography (CT). Although CT experiments result in rapid data generation, the analysis and reconstruction of the collected data may require hours or even days of computation time with a medium-sized workstation, which hinders the scientific progress that relies on the results of analysis. We present Trace, a data-intensive computing engine that we have developed to enable high-performance implementation of iterative tomographic reconstruction algorithms for parallel computers. Trace provides fine-grained reconstruction of tomography datasets using both (thread-level) shared memory and (process-level) distributed memory parallelization. Trace utilizes a special data structure called replicated reconstruction object to maximize application performance. We also present the optimizations that we apply to the replicated reconstruction objects and evaluate them using tomography datasets collected at the Advanced Photon Source. Our experimental evaluations show that our optimizations and parallelization techniques can provide 158× speedup using 32 compute nodes (384 cores) over a single-core configuration and decrease the end-to-end processing time of a large sinogram (with 4501 × 1 × 22,400 dimensions) from 12.5 h to <5 min per iteration. The proposed tomographic reconstruction engine can efficiently process large-scale tomographic data using many compute nodes and minimize reconstruction times.

Correlative Fluorescence and Electron Microscopy in 3D-Scanning Electron Microscope Perspective.

PubMed

Franks, Jonathan; Wallace, Callen T; Shibata, Masateru; Suga, Mitsuo; Erdman, Natasha; Stolz, Donna B; Watkins, Simon C

2017-04-03

The ability to correlate fluorescence microscopy (FM) and electron microscopy (EM) data obtained on biological (cell and tissue) specimens is essential to bridge the resolution gap between the data obtained by these different imaging techniques. In the past such correlations were limited to either EM navigation in two dimensions to the locations previously highlighted by fluorescence markers, or subsequent high-resolution acquisition of tomographic information using a TEM. We present a novel approach whereby a sample previously investigated by FM is embedded and subjected to sequential mechanical polishing and backscatter imaging by scanning electron microscope. The resulting three dimensional EM tomogram of the sample can be directly correlated to the FM data. © 2017 by John Wiley & Sons, Inc. Copyright © 2017 John Wiley & Sons, Inc.

Volume Segmentation and Ghost Particles

NASA Astrophysics Data System (ADS)

Ziskin, Isaac; Adrian, Ronald

2011-11-01

Volume Segmentation Tomographic PIV (VS-TPIV) is a type of tomographic PIV in which images of particles in a relatively thick volume are segmented into images on a set of much thinner volumes that may be approximated as planes, as in 2D planar PIV. The planes of images can be analysed by standard mono-PIV, and the volume of flow vectors can be recreated by assembling the planes of vectors. The interrogation process is similar to a Holographic PIV analysis, except that the planes of image data are extracted from two-dimensional camera images of the volume of particles instead of three-dimensional holographic images. Like the tomographic PIV method using the MART algorithm, Volume Segmentation requires at least two cameras and works best with three or four. Unlike the MART method, Volume Segmentation does not require reconstruction of individual particle images one pixel at a time and it does not require an iterative process, so it operates much faster. As in all tomographic reconstruction strategies, ambiguities known as ghost particles are produced in the segmentation process. The effect of these ghost particles on the PIV measurement is discussed. This research was supported by Contract 79419-001-09, Los Alamos National Laboratory.

Creating three-dimensional tooth models from tomographic images.

PubMed

Lima da Silva, Isaac Newton; Barbosa, Gustavo Frainer; Soares, Rodrigo Borowski Grecco; Beltrao, Maria Cecilia Gomes; Spohr, Ana Maria; Mota, Eduardo Golcalves; Oshima, Hugo Mitsuo Silva; Burnett, Luiz Henrique

2008-01-01

The use of Finite Element Analysis (FEA) is becoming very frequent in Dentistry. However, most of the three-dimensional models presented by the literature for teeth are limited in terms of geometry. Discrepancy in shape and dimensions can cause wrong results to occur. Sharp cusps and faceted contour can produce stress concentrations, which are incoherent with the reality. The aim of this study was the processing of tomographic images in order to develop an advanced three-dimensional reconstruction of the anatomy of a molar tooth and the integration of the resulting solid with commercially available CAD/CAE software. Computed tomographic images were obtained from 0.5 mm thick slices of mandibular molar and transferred to commercial cad software. Once the point cloud data have been generated, the work on these points started to get to the solid model of the tooth with Pro/Engineer software. The obtained tooth model showed very accurate shape and dimensions, as it was obtained from real tooth data with error of 0.0 to -0.8 mm. The methodology presented was efficient for creating a biomodel of a tooth from tomographic images that realistically represented its anatomy.

Relative arrival-time upper-mantle tomography and the elusive background mean

NASA Astrophysics Data System (ADS)

Bastow, Ian D.

2012-08-01

The interpretation of seismic tomographic images of upper-mantle seismic wave speed structure is often a matter of considerable debate because the observations can usually be explained by a range of hypotheses, including variable temperature, composition, anisotropy, and the presence of partial melt. An additional problem, often overlooked in tomographic studies using relative as opposed to absolute arrival-times, is the issue of the resulting velocity model's zero mean. In shield areas, for example, relative arrival-time analysis strips off a background mean velocity structure that is markedly fast compared to the global average. Conversely, in active areas, the background mean is often markedly slow compared to the global average. Appreciation of this issue is vital when interpreting seismic tomographic images: 'high' and 'low' velocity anomalies should not necessarily be interpreted, respectively, as 'fast' and 'slow' compared to 'normal mantle'. This issue has been discussed in the seismological literature in detail over the years, yet subsequent tomography studies have still fallen into the trap of mis-interpreting their velocity models. I highlight here some recent examples of this and provide a simple strategy to address the problem using constraints from a recent global tomographic model, and insights from catalogues of absolute traveltime anomalies. Consultation of such absolute measures of seismic wave speed should be routine during regional tomographic studies, if only for the benefit of the broader Earth Science community, who readily follow the red = hot and slow, blue = cold and fast rule of thumb when interpreting the images for themselves.

Arterial Obstruction on Computed Tomographic or Magnetic Resonance Angiography and Response to Intravenous Thrombolytics in Ischemic Stroke

PubMed Central

Mair, Grant; von Kummer, Rüdiger; Adami, Alessandro; White, Philip M.; Adams, Matthew E.; Yan, Bernard; Demchuk, Andrew M.; Farrall, Andrew J.; Sellar, Robin J.; Sakka, Eleni; Palmer, Jeb; Perry, David; Lindley, Richard I.; Sandercock, Peter A.G.

2017-01-01

Background and Purpose— Computed tomographic angiography and magnetic resonance angiography are used increasingly to assess arterial patency in patients with ischemic stroke. We determined which baseline angiography features predict response to intravenous thrombolytics in ischemic stroke using randomized controlled trial data. Methods— We analyzed angiograms from the IST-3 (Third International Stroke Trial), an international, multicenter, prospective, randomized controlled trial of intravenous alteplase. Readers, masked to clinical, treatment, and outcome data, assessed prerandomization computed tomographic angiography and magnetic resonance angiography for presence, extent, location, and completeness of obstruction and collaterals. We compared angiography findings to 6-month functional outcome (Oxford Handicap Scale) and tested for interactions with alteplase, using ordinal regression in adjusted analyses. We also meta-analyzed all available angiography data from other randomized controlled trials of intravenous thrombolytics. Results— In IST-3, 300 patients had prerandomization angiography (computed tomographic angiography=271 and magnetic resonance angiography=29). On multivariable analysis, more extensive angiographic obstruction and poor collaterals independently predicted poor outcome (P<0.01). We identified no significant interaction between angiography findings and alteplase effect on Oxford Handicap Scale (P≥0.075) in IST-3. In meta-analysis (5 trials of alteplase or desmoteplase, including IST-3, n=591), there was a significantly increased benefit of thrombolytics on outcome (odds ratio>1 indicates benefit) in patients with (odds ratio, 2.07; 95% confidence interval, 1.18–3.64; P=0.011) versus without (odds ratio, 0.88; 95% confidence interval, 0.58–1.35; P=0.566) arterial obstruction (P for interaction 0.017). Conclusions— Intravenous thrombolytics provide benefit to stroke patients with computed tomographic angiography or magnetic resonance angiography evidence of arterial obstruction, but the sample was underpowered to demonstrate significant treatment benefit or harm among patients with apparently patent arteries. Clinical Trial Registration— URL: http://www.isrctn.com. Unique identifier: ISRCTN25765518. PMID:28008093

Optimization of tomographic reconstruction workflows on geographically distributed resources

DOE PAGES

Bicer, Tekin; Gursoy, Doga; Kettimuthu, Rajkumar; ...

2016-01-01

New technological advancements in synchrotron light sources enable data acquisitions at unprecedented levels. This emergent trend affects not only the size of the generated data but also the need for larger computational resources. Although beamline scientists and users have access to local computational resources, these are typically limited and can result in extended execution times. Applications that are based on iterative processing as in tomographic reconstruction methods require high-performance compute clusters for timely analysis of data. Here, time-sensitive analysis and processing of Advanced Photon Source data on geographically distributed resources are focused on. Two main challenges are considered: (i) modelingmore » of the performance of tomographic reconstruction workflows and (ii) transparent execution of these workflows on distributed resources. For the former, three main stages are considered: (i) data transfer between storage and computational resources, (i) wait/queue time of reconstruction jobs at compute resources, and (iii) computation of reconstruction tasks. These performance models allow evaluation and estimation of the execution time of any given iterative tomographic reconstruction workflow that runs on geographically distributed resources. For the latter challenge, a workflow management system is built, which can automate the execution of workflows and minimize the user interaction with the underlying infrastructure. The system utilizes Globus to perform secure and efficient data transfer operations. The proposed models and the workflow management system are evaluated by using three high-performance computing and two storage resources, all of which are geographically distributed. Workflows were created with different computational requirements using two compute-intensive tomographic reconstruction algorithms. Experimental evaluation shows that the proposed models and system can be used for selecting the optimum resources, which in turn can provide up to 3.13× speedup (on experimented resources). Furthermore, the error rates of the models range between 2.1 and 23.3% (considering workflow execution times), where the accuracy of the model estimations increases with higher computational demands in reconstruction tasks.« less

The analysis of a rocket tomography measurement of the N2+3914A emission and N2 ionization rates in an auroral arc

NASA Technical Reports Server (NTRS)

Mcdade, Ian C.

1991-01-01

Techniques were developed for recovering two-dimensional distributions of auroral volume emission rates from rocket photometer measurements made in a tomographic spin scan mode. These tomographic inversion procedures are based upon an algebraic reconstruction technique (ART) and utilize two different iterative relaxation techniques for solving the problems associated with noise in the observational data. One of the inversion algorithms is based upon a least squares method and the other on a maximum probability approach. The performance of the inversion algorithms, and the limitations of the rocket tomography technique, were critically assessed using various factors such as (1) statistical and non-statistical noise in the observational data, (2) rocket penetration of the auroral form, (3) background sources of emission, (4) smearing due to the photometer field of view, and (5) temporal variations in the auroral form. These tests show that the inversion procedures may be successfully applied to rocket observations made in medium intensity aurora with standard rocket photometer instruments. The inversion procedures have been used to recover two-dimensional distributions of auroral emission rates and ionization rates from an existing set of N2+3914A rocket photometer measurements which were made in a tomographic spin scan mode during the ARIES auroral campaign. The two-dimensional distributions of the 3914A volume emission rates recoverd from the inversion of the rocket data compare very well with the distributions that were inferred from ground-based measurements using triangulation-tomography techniques and the N2 ionization rates derived from the rocket tomography results are in very good agreement with the in situ particle measurements that were made during the flight. Three pre-prints describing the tomographic inversion techniques and the tomographic analysis of the ARIES rocket data are included as appendices.

Optimization of tomographic reconstruction workflows on geographically distributed resources

PubMed Central

Bicer, Tekin; Gürsoy, Doǧa; Kettimuthu, Rajkumar; De Carlo, Francesco; Foster, Ian T.

2016-01-01

New technological advancements in synchrotron light sources enable data acquisitions at unprecedented levels. This emergent trend affects not only the size of the generated data but also the need for larger computational resources. Although beamline scientists and users have access to local computational resources, these are typically limited and can result in extended execution times. Applications that are based on iterative processing as in tomographic reconstruction methods require high-performance compute clusters for timely analysis of data. Here, time-sensitive analysis and processing of Advanced Photon Source data on geographically distributed resources are focused on. Two main challenges are considered: (i) modeling of the performance of tomographic reconstruction workflows and (ii) transparent execution of these workflows on distributed resources. For the former, three main stages are considered: (i) data transfer between storage and computational resources, (i) wait/queue time of reconstruction jobs at compute resources, and (iii) computation of reconstruction tasks. These performance models allow evaluation and estimation of the execution time of any given iterative tomographic reconstruction workflow that runs on geographically distributed resources. For the latter challenge, a workflow management system is built, which can automate the execution of workflows and minimize the user interaction with the underlying infrastructure. The system utilizes Globus to perform secure and efficient data transfer operations. The proposed models and the workflow management system are evaluated by using three high-performance computing and two storage resources, all of which are geographically distributed. Workflows were created with different computational requirements using two compute-intensive tomographic reconstruction algorithms. Experimental evaluation shows that the proposed models and system can be used for selecting the optimum resources, which in turn can provide up to 3.13× speedup (on experimented resources). Moreover, the error rates of the models range between 2.1 and 23.3% (considering workflow execution times), where the accuracy of the model estimations increases with higher computational demands in reconstruction tasks. PMID:27359149

Optimization of tomographic reconstruction workflows on geographically distributed resources

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

Bicer, Tekin; Gursoy, Doga; Kettimuthu, Rajkumar

New technological advancements in synchrotron light sources enable data acquisitions at unprecedented levels. This emergent trend affects not only the size of the generated data but also the need for larger computational resources. Although beamline scientists and users have access to local computational resources, these are typically limited and can result in extended execution times. Applications that are based on iterative processing as in tomographic reconstruction methods require high-performance compute clusters for timely analysis of data. Here, time-sensitive analysis and processing of Advanced Photon Source data on geographically distributed resources are focused on. Two main challenges are considered: (i) modelingmore » of the performance of tomographic reconstruction workflows and (ii) transparent execution of these workflows on distributed resources. For the former, three main stages are considered: (i) data transfer between storage and computational resources, (i) wait/queue time of reconstruction jobs at compute resources, and (iii) computation of reconstruction tasks. These performance models allow evaluation and estimation of the execution time of any given iterative tomographic reconstruction workflow that runs on geographically distributed resources. For the latter challenge, a workflow management system is built, which can automate the execution of workflows and minimize the user interaction with the underlying infrastructure. The system utilizes Globus to perform secure and efficient data transfer operations. The proposed models and the workflow management system are evaluated by using three high-performance computing and two storage resources, all of which are geographically distributed. Workflows were created with different computational requirements using two compute-intensive tomographic reconstruction algorithms. Experimental evaluation shows that the proposed models and system can be used for selecting the optimum resources, which in turn can provide up to 3.13× speedup (on experimented resources). Furthermore, the error rates of the models range between 2.1 and 23.3% (considering workflow execution times), where the accuracy of the model estimations increases with higher computational demands in reconstruction tasks.« less

Arterial Obstruction on Computed Tomographic or Magnetic Resonance Angiography and Response to Intravenous Thrombolytics in Ischemic Stroke.

PubMed

Mair, Grant; von Kummer, Rüdiger; Adami, Alessandro; White, Philip M; Adams, Matthew E; Yan, Bernard; Demchuk, Andrew M; Farrall, Andrew J; Sellar, Robin J; Sakka, Eleni; Palmer, Jeb; Perry, David; Lindley, Richard I; Sandercock, Peter A G; Wardlaw, Joanna M

2017-02-01

Computed tomographic angiography and magnetic resonance angiography are used increasingly to assess arterial patency in patients with ischemic stroke. We determined which baseline angiography features predict response to intravenous thrombolytics in ischemic stroke using randomized controlled trial data. We analyzed angiograms from the IST-3 (Third International Stroke Trial), an international, multicenter, prospective, randomized controlled trial of intravenous alteplase. Readers, masked to clinical, treatment, and outcome data, assessed prerandomization computed tomographic angiography and magnetic resonance angiography for presence, extent, location, and completeness of obstruction and collaterals. We compared angiography findings to 6-month functional outcome (Oxford Handicap Scale) and tested for interactions with alteplase, using ordinal regression in adjusted analyses. We also meta-analyzed all available angiography data from other randomized controlled trials of intravenous thrombolytics. In IST-3, 300 patients had prerandomization angiography (computed tomographic angiography=271 and magnetic resonance angiography=29). On multivariable analysis, more extensive angiographic obstruction and poor collaterals independently predicted poor outcome (P<0.01). We identified no significant interaction between angiography findings and alteplase effect on Oxford Handicap Scale (P≥0.075) in IST-3. In meta-analysis (5 trials of alteplase or desmoteplase, including IST-3, n=591), there was a significantly increased benefit of thrombolytics on outcome (odds ratio>1 indicates benefit) in patients with (odds ratio, 2.07; 95% confidence interval, 1.18-3.64; P=0.011) versus without (odds ratio, 0.88; 95% confidence interval, 0.58-1.35; P=0.566) arterial obstruction (P for interaction 0.017). Intravenous thrombolytics provide benefit to stroke patients with computed tomographic angiography or magnetic resonance angiography evidence of arterial obstruction, but the sample was underpowered to demonstrate significant treatment benefit or harm among patients with apparently patent arteries. URL: http://www.isrctn.com. Unique identifier: ISRCTN25765518. © 2016 The Authors.

Analysis of an Optimized MLOS Tomographic Reconstruction Algorithm and Comparison to the MART Reconstruction Algorithm

NASA Astrophysics Data System (ADS)

La Foy, Roderick; Vlachos, Pavlos

2011-11-01

An optimally designed MLOS tomographic reconstruction algorithm for use in 3D PIV and PTV applications is analyzed. Using a set of optimized reconstruction parameters, the reconstructions produced by the MLOS algorithm are shown to be comparable to reconstructions produced by the MART algorithm for a range of camera geometries, camera numbers, and particle seeding densities. The resultant velocity field error calculated using PIV and PTV algorithms is further minimized by applying both pre and post processing to the reconstructed data sets.

Tomographic assessment of the spine in children with spondylocostal dysotosis syndrome.

PubMed

Kaissi, Ali Al; Klaushofer, Klaus; Grill, Franz

2010-01-01

The aim of this study was to perform a detailed tomographic analysis of the skull base, craniocervical junction, and the entire spine in seven patients with spondylocostal dysostosis syndrome. Detailed scanning images have been organized in accordance with the most prominent clinical pathology. The reasons behind plagiocephaly, torticollis, short immobile neck, scoliosis and rigid back have been detected. Radiographic documentation was insufficient modality. Detailed computed tomography scans provided excellent delineation of the osseous abnormality pattern in our patients. This article throws light on the most serious osseous manifestations of spondylocostal dysostosissyndrome.

Analysis of computer images in the presence of metals

NASA Astrophysics Data System (ADS)

Buzmakov, Alexey; Ingacheva, Anastasia; Prun, Victor; Nikolaev, Dmitry; Chukalina, Marina; Ferrero, Claudio; Asadchikov, Victor

2018-04-01

Artifacts caused by intensely absorbing inclusions are encountered in computed tomography via polychromatic scanning and may obscure or simulate pathologies in medical applications. To improve the quality of reconstruction if high-Z inclusions in presence, previously we proposed and tested with synthetic data an iterative technique with soft penalty mimicking linear inequalities on the photon-starved rays. This note reports a test at the tomographic laboratory set-up at the Institute of Crystallography FSRC "Crystallography and Photonics" RAS in which tomographic scans were successfully made of temporary tooth without inclusion and with Pb inclusion.

Experimental and theoretical analysis for improved microscope design of optical projection tomographic microscopy.

PubMed

Coe, Ryan L; Seibel, Eric J

2013-09-01

We present theoretical and experimental results of axial displacement of objects relative to a fixed condenser focal plane (FP) in optical projection tomographic microscopy (OPTM). OPTM produces three-dimensional, reconstructed images of single cells from two-dimensional projections. The cell rotates in a microcapillary to acquire projections from different perspectives where the objective FP is scanned through the cell while the condenser FP remains fixed at the center of the microcapillary. This work uses a combination of experimental and theoretical methods to improve the OPTM instrument design.

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

Segal-Peretz, Tamar; Zhou, Chun; Ren, Jiaxing

The three-dimensional assembly of poly (styrene-b-methyl methacrylate) (PS-b-PMMA) in chemoepitaxy and graphoepitaxy directed self-assembly (DSA) was investigated using scanning transmission electron microscopy (STEM) tomography. The tomographic characterization revealed hidden morphologies and defects at the BCP- chemical pattern interface in lamellar DSA, and probed the formation of cylinders at the bottom of cylindrical DSA for contact hole shrink. Lastly, future work will include control over 3D assembly in sub-10 nm processes.

Cryo-Electron Tomography for Structural Characterization of Macromolecular Complexes

PubMed Central

Cope, Julia; Heumann, John; Hoenger, Andreas

2011-01-01

Cryo-electron tomography (cryo-ET) is an emerging 3-D reconstruction technology that combines the principles of tomographic 3-D reconstruction with the unmatched structural preservation of biological material embedded in vitreous ice. Cryo-ET is particularly suited to investigating cell-biological samples and large macromolecular structures that are too polymorphic to be reconstructed by classical averaging-based 3-D reconstruction procedures. This unit aims to make cryo-ET accessible to newcomers and discusses the specialized equipment required, as well as the relevant advantages and hurdles associated with sample preparation by vitrification and cryo-ET. Protocols describe specimen preparation, data recording and 3-D data reconstruction for cryo-ET, with a special focus on macromolecular complexes. A step-by-step procedure for specimen vitrification by plunge freezing is provided, followed by the general practicalities of tilt-series acquisition for cryo-ET, including advice on how to select an area appropriate for acquiring a tilt series. A brief introduction to the underlying computational reconstruction principles applied in tomography is described, along with instructions for reconstructing a tomogram from cryo-tilt series data. Finally, a method is detailed for extracting small subvolumes containing identical macromolecular structures from tomograms for alignment and averaging as a means to increase the signal-to-noise ratio and eliminate missing wedge effects inherent in tomographic reconstructions. PMID:21842467

Characterization of microwave plasma in a multicusp using 2D emission based tomography: Bessel modes and wave absorption

NASA Astrophysics Data System (ADS)

Rathore, Kavita; Bhattacharjee, Sudeep; Munshi, Prabhat

2017-06-01

A tomographic method based on the Fourier transform is used for characterizing a microwave plasma in a multicusp (MC), in order to obtain 2D distribution of plasma emissions, plasma (electron) density (Ne) and temperature (Te). The microwave plasma in the MC is characterized as a function of microwave power, gas pressure, and axial distance. The experimentally obtained 2D emission profiles show that the plasma emissions are generated in a circular ring shape. There are usually two bright rings, one at the plasma core and another near the boundary. The experimental results are validated using a numerical code that solves Maxwell's equations inside a waveguide filled with a plasma in a magnetic field, with collisions included. It is inferred that the dark and bright circular ring patterns are a result of superposition of Bessel modes (TE11 and TE21) of the wave electric field inside the plasma filled MC, which are in reasonable agreement with the plasma emission profiles. The tomographically obtained Ne and Te profiles indicate higher densities in the plasma core (˜1010 cm-3) and enhanced electron temperature in the ECR region (˜13 eV), which are in agreement with earlier results using a Langmuir probe and optical emission spectroscopy (OES) diagnostics.

Noninvasive coronary artery angiography using electron beam computed tomography

NASA Astrophysics Data System (ADS)

Rumberger, John A.; Rensing, Benno J.; Reed, Judd E.; Ritman, Erik L.; Sheedy, Patrick F., II

1996-04-01

Electron beam computed tomography (EBCT), also known as ultrafast-CT or cine-CT, uses a unique scanning architecture which allows for multiple high spatial resolution electrocardiographic triggered images of the beating heart. A recent study has demonstrated the feasibility of qualitative comparisons between EBCT derived 3D coronary angiograms and invasive angiography. Stenoses of the proximal portions of the left anterior descending and right coronary arteries were readily identified, but description of atherosclerotic narrowing in the left circumflex artery (and distal epicardial disease) was not possible with any degree of confidence. Although these preliminary studies support the notion that this approach has potential, the images overall were suboptimal for clinical application as an adjunct to invasive angiography. Furthermore, these studies did not examine different methods of EBCT scan acquisition, tomographic slice thicknesses, extent of scan overlap, or other segmentation, thresholding, and interpolation algorithms. Our laboratory has initiated investigation of these aspects and limitations of EBCT coronary angiography. Specific areas of research include defining effects of cardiac orientation; defining the effects of tomographic slice thickness and intensity (gradient) versus positional (shaped based) interpolation; and defining applicability of imaging each of the major epicardial coronary arteries for quantitative definition of vessel size, cross-sectional area, taper, and discrete vessel narrowing.

X-ray tomographic microscopy analysis of the dendrite orientation transition in Al-Zn

NASA Astrophysics Data System (ADS)

Friedli, Jonathan; Fife, Julie L.; Di Napoli, Paolo; Rappaz, Michel

2012-07-01

Recently, Gonzales and Rappaz [Met. Mat. Trans. A37:2797, 2006] showed the influence of an increasing zinc content on the growth directions of aluminum dendrites. langle100rangle and langle110rangle dendrites were observed below 25wt.% and above 55wt.% zinc, respectively, whereas textured seaweeds and langle320rangle dendrites were observed at intermediate compositions. Considering the complexity of these structures, it is necessary to first characterize them in further details and second, to model them using the phase field method. The so-called Dendrite Orientation Transition (DOT) was thus reinvestigated in quenched Bridgman solidification samples. The combination of X-ray tomographic microscopy and electron backscattered diffraction (EBSD) analysis on a whole range of compositions, from 5 to 90wt.% Zn, allowed insights with unprecedented details about texture, growth directions and mechanisms of the aforementioned structures. We show that seaweeds rather than dendrites are found at all intermediate compositions. Their growth was confirmed to be constrained within a (100) symmetry plane. However, new findings indicate that the observed macroscopic texture does not necessarily correspond to the actual growth directions of the microstructure. Further, it seems to operate by an alternating growth direction mechanism and could be linked to the competition between the langle100rangle and langle110rangle characters of regular dendrites observed at the limits of the DOT. These characters, as well as 3D seaweeds, are observed in phase-field simulations of equiaxed growth and directional solidification, respectively. This study emphasizes the importance of accurate experimental data to validate numerical models and details the progress that such combinations provide for the understanding of growth mechanisms.

In-line three-dimensional holography of nanocrystalline objects at atomic resolution

PubMed Central

Chen, F.-R.; Van Dyck, D.; Kisielowski, C.

2016-01-01

Resolution and sensitivity of the latest generation aberration-corrected transmission electron microscopes allow the vast majority of single atoms to be imaged with sub-Ångstrom resolution and their locations determined in an image plane with a precision that exceeds the 1.9-pm wavelength of 300 kV electrons. Such unprecedented performance allows expansion of electron microscopic investigations with atomic resolution into the third dimension. Here we report a general tomographic method to recover the three-dimensional shape of a crystalline particle from high-resolution images of a single projection without the need for sample rotation. The method is compatible with low dose rate electron microscopy, which improves on signal quality, while minimizing electron beam-induced structure modifications even for small particles or surfaces. We apply it to germanium, gold and magnesium oxide particles, and achieve a depth resolution of 1–2 Å, which is smaller than inter-atomic distances. PMID:26887849

Magnetospheric Radio Tomography: Observables, Algorithms, and Experimental Analysis

NASA Technical Reports Server (NTRS)

Cummer, Steven

2005-01-01

This grant supported research towards developing magnetospheric electron density and magnetic field remote sensing techniques via multistatic radio propagation and tomographic image reconstruction. This work was motivated by the need to better develop the basic technique of magnetospheric radio tomography, which holds substantial promise as a technology uniquely capable of imaging magnetic field and electron density in the magnetosphere on large scales with rapid cadence. Such images would provide an unprecedented and needed view into magnetospheric processes. By highlighting the systems-level interconnectedness of different regions, our understanding of space weather processes and ability to predict them would be dramatically enhanced. Three peer-reviewed publications and 5 conference presentations have resulted from this work, which supported 1 PhD student and 1 postdoctoral researcher. One more paper is in progress and will be submitted shortly. Because the main results of this research have been published or are soon to be published in refereed journal articles listed in the reference section of this document, we provide here an overview of the research and accomplishments without describing all of the details that are contained in the articles.

Using the technique of computed tomography for nondestructive analysis of pharmaceutical dosage forms

NASA Astrophysics Data System (ADS)

de Oliveira, José Martins, Jr.; Mangini, F. Salvador; Carvalho Vila, Marta Maria Duarte; ViníciusChaud, Marco

2013-05-01

This work presents an alternative and non-conventional technique for evaluatingof physic-chemical properties of pharmaceutical dosage forms, i.e. we used computed tomography (CT) technique as a nondestructive technique to visualize internal structures of pharmaceuticals dosage forms and to conduct static and dynamical studies. The studies were conducted involving static and dynamic situations through the use of tomographic images, generated by the scanner at University of Sorocaba - Uniso. We have shown that through the use of tomographic images it is possible to conduct studies of porosity, densities, analysis of morphological parameters and performing studies of dissolution. Our results are in agreement with the literature, showing that CT is a powerful tool for use in the pharmaceutical sciences.

3D tomographic reconstruction of the terrestrial exosphere and its time-dependent coupling to the magnetospheric ring current

NASA Astrophysics Data System (ADS)

Waldrop, L.; Cucho-Padin, G.; Ilie, R.

2017-12-01

Charge exchange collisions between ring current ions and hydrogen (H) atoms in the outer exosphere serve to dissipate magnetospheric energy, particularly during the slow recovery phase of geomagnetic storms, through the generation of energetic neutral atoms (ENAs) which escape the system. As a result, knowledge of the spatial distribution and temporal variability of exospheric H density is critical for reliable interpretation of ENA flux measurements as well as for accurate modeling of the ring current. Although numerous theoretical, numerical, and empirical H distributions have been used for such analyses, their reliance on ad hoc or unphysical assumptions, together with their inherently static formulations, is a source of significant uncertainty. Our recent development of a robust tomographic technique for the model-independent estimation of global exospheric H density from optical remote sensing data overcomes the limitations of past analysis and enables an unprecedented investigation of global exospheric and ring current dynamics. Here, we present sample results of our 3D, time-dependent reconstructions of exospheric structure, derived from measurements of resonantly scattered solar Lyman-alpha (121.6 nm) photons acquired by the Lyman-alpha detectors (LADs) onboard NASA's Two Wide-angle Imaging Neutral-atom Spectrometers (TWINS) mission. We use the Hot Electron and Ion Drift Integrator (HEIDI) kinetic model of the ring current to investigate the charge exchange interactions between the resulting H density distribution and ring current ions and generate synthetic images of ENA flux for comparison with those measured by TWINS.

Advanced Ionospheric Sensing using GROUP-C and LITES aboard the ISS

NASA Astrophysics Data System (ADS)

Budzien, S. A.; Stephan, A. W.; Chakrabarti, S.; Finn, S. C.; Cook, T.; Powell, S. P.; O'Hanlon, B.; Bishop, R. L.

2015-12-01

The GPS Radio Occultation and Ultraviolet Photometer Co-located (GROUP-C) and Limb-imaging Ionospheric and Thermospheric Extreme-ultraviolet Spectrograph (LITES) experiments are manifested for flight aboard the International Space Station (ISS) in 2016 as part of the Space Test Program Houston #5 payload. The two experiments provide technical development and risk-reduction for future DoD space weather sensors suitable for ionospheric specification, space situational awareness, and data products for global ionosphere assimilative models. In addition, the combined instrument complement of these two experiments offers a unique opportunity to study structures of the nighttime ionosphere. GROUP-C includes an advanced GPS receiver providing ionospheric electron density profiles and scintillation measurements and a high-sensitivity far-ultraviolet photometer measuring horizontal ionospheric gradients. LITES is an imaging spectrograph that spans 60-140 nm and will obtain high-cadence limb profiles of the ionosphere and thermosphere from 150-350 km altitude. In the nighttime ionosphere, recombination of O+ and electrons produces optically thin emissions at 91.1 and 135.6 nm that can be used to tomographically reconstruct the two-dimensional plasma distribution in the orbital plane below ISS altitudes. Ionospheric irregularities, such as plasma bubbles and blobs, are transient features of the low and middle latitude ionosphere with important implications for operational systems. Irregularity structures have been studied primarily using ground-based systems, though some spaced-based remote and in-situ sensing has been performed. An ionospheric observatory aboard the ISS would provide new capability to study low- and mid-latitude ionospheric structures on a global scale. By combining for the first time high-sensitivity in-track photometry, vertical ionospheric airglow spectrographic imagery, and recent advancements in UV tomography, high-fidelity tomographic reconstruction of nighttime structures can be performed from the ISS. We discuss the tomographic approach, simulated reconstructions, and value added by including complementary ground-based observations. Acknowledgements: This work is supported by NRL Work Unit 76-1C09-05.

First incoherent scatter radar observations of radio wave pumping in the ionosphere around the second electron gyroharmonic

NASA Astrophysics Data System (ADS)

Kosch, Michael; Bristow, Bill; Gustavsson, Bjorn; Heinselman, Craig; Hughes, John; Isham, Brett; Mutiso, Charles; Nielsen, Kim; Pedersen, Todd; Wang, Weiyuan; Wong, Alfred

We report results from a unique experiment performed at the HIPAS ionospheric modification facility in Alaska. High power radio waves at 2.85 MHz, which corresponds to the second electron gyroharmonic at 240 km altitude, were transmitted into the nighttime ionosphere. Diagnostics included optical equipment at HIPAS and HAARP, 288 km to the south-east, the PFISR radar at Poker Flat, 32 km to the north-west, and the Kodiak SuperDARN radar, 856 km to the south-west. Camera observations of the stimulated optical emissions at 557.7 nm (O1S, threshold 4.2 eV) and 630 nm (O1D, threshold 2 eV) were made, allowing tomographic reconstruction of the volume emission. The first observations of pump-induced 732 nm (O+, threshold 18.6 eV) emissions are reported. Kodiak radar backscatter, which is a proxy for upper-hybrid resonance, shows strong production of striations without a minimum on the second gyroharmonic, confirming previous results. PFISR analysis shows clear evidence of electron temperature enhancements, consistent with previous EISCAT results, maximizing when the pump frequency matches the second gyroharmonic and when double resonance occurs, i.e. the upper-hybrid resonance frequency matches the second gyroharmonic. This is consistent with the optical observations. From the above data, we are able to infer the efficiency of different groups of electron-accelerating mechanisms.

Dynamic Positron Emission Tomography [PET] in Man Using Small Bismuth Germanate Crystals

DOE R&D Accomplishments Database

Derenzo, S. E.; Budinger, T. F.; Huesman, R. H.; Cahoon, J. L.

1982-04-01

Primary considerations for the design of positron emission tomographs for medical studies in humans are the need for high imaging sensitivity, whole organ coverage, good spatial resolution, high maximum data rates, adequate spatial sampling with minimum mechanical motion, shielding against out of plane activity, pulse height discrimination against scattered photons, and timing discrimination against accidental coincidences. We discuss the choice of detectors, sampling motion, shielding, and electronics to meet these objectives.

Microfocus computed tomography in medicine

NASA Astrophysics Data System (ADS)

Obodovskiy, A. V.

2018-02-01

Recent advances in the field of high-frequency power schemes for X-ray devices allow the creation of high-resolution instruments. At the department of electronic devices and Equipment of the St. Petersburg State Electrotechnical University, a model of a microfocus computer tomograph was developed. Used equipment allows to receive projection data with an increase up to 100 times. A distinctive feature of the device is the possibility of implementing various schemes for obtaining projection data.

Toward atomic-scale bright-field electron tomography for the study of fullerene-like nanostructures.

PubMed

Bar Sadan, Maya; Houben, Lothar; Wolf, Sharon G; Enyashin, Andrey; Seifert, Gotthard; Tenne, Reshef; Urban, Knut

2008-03-01

We present the advancement of electron tomography for three-dimensional structure reconstruction of fullerene-like particles toward atomic-scale resolution. The three-dimensional reconstruction of nested molybdenum disulfide nanooctahedra is achieved by the combination of low voltage operation of the electron microscope with aberration-corrected phase contrast imaging. The method enables the study of defects and irregularities in the three-dimensional structure of individual fullerene-like particles on the scale of 2-3 A. Control over shape, size, and atomic architecture is a key issue in synthesis and design of functional nanoparticles. Transmission electron microscopy (TEM) is the primary technique to characterize materials down to the atomic level, albeit the images are two-dimensional projections of the studied objects. Recent advancements in aberration-corrected TEM have demonstrated single atom sensitivity for light elements at subångström resolution. Yet, the resolution of tomographic schemes for three-dimensional structure reconstruction has not surpassed 1 nm3, preventing it from becoming a powerful tool for characterization in the physical sciences on the atomic scale. Here we demonstrate that negative spherical aberration imaging at low acceleration voltage enables tomography down to the atomic scale at reduced radiation damage. First experimental data on the three-dimensional reconstruction of nested molybdenum disulfide nanooctahedra is presented. The method is applicable to the analysis of the atomic architecture of a wide range of nanostructures where strong electron channeling is absent, in particular to carbon fullerenes and inorganic fullerenes.

Tomographic assessment of the spine in children with spondylocostal dysotosis syndrome

PubMed Central

Kaissi, Ali Al; Klaushofer, Klaus; Grill, Franz

2010-01-01

OBJECTIVE: The aim of this study was to perform a detailed tomographic analysis of the skull base, craniocervical junction, and the entire spine in seven patients with spondylocostal dysostosis syndrome. METHOD: Detailed scanning images have been organized in accordance with the most prominent clinical pathology. The reasons behind plagiocephaly, torticollis, short immobile neck, scoliosis and rigid back have been detected. Radiographic documentation was insufficient modality. RESULTS: Detailed computed tomography scans provided excellent delineation of the osseous abnormality pattern in our patients. CONCLUSION: This article throws light on the most serious osseous manifestations of spondylocostal dysostosis syndrome. PMID:21120293

Computed tomographic findings of trichuriasis

PubMed Central

Tokmak, Naime; Koc, Zafer; Ulusan, Serife; Koltas, Ismail Soner; Bal, Nebil

2006-01-01

In this report, we present computed tomographic findings of colonic trichuriasis. The patient was a 75-year-old man who complained of abdominal pain, and weight loss. Diagnosis was achieved by colonoscopic biopsy. Abdominal computed tomography showed irregular and nodular thickening of the wall of the cecum and ascending colon. Although these findings are nonspecific, they may be one of the findings of trichuriasis. These findings, confirmed by pathologic analysis of the biopsied tissue and Kato-Katz parasitological stool flotation technique, revealed adult Trichuris. To our knowledge, this is the first report of colonic trichuriasis indicated by computed tomography. PMID:16830393

Exploring Chondrule and CAI Rims Using Micro- and Nano-Scale Petrological and Compositional Analysis

NASA Astrophysics Data System (ADS)

Cartwright, J. A.; Perez-Huerta, A.; Leitner, J.; Vollmer, C.

2017-12-01

As the major components within chondrites, chondrules (mm-sized droplets of quenched silicate melt) and calcium-aluminum-rich inclusions (CAI, refractory) represent the most abundant and the earliest materials that solidified from the solar nebula. However, the exact formation mechanisms of these clasts, and whether these processes are related, remains unconstrained, despite extensive petrological and compositional study. By taking advantage of recent advances in nano-scale tomographical techniques, we have undertaken a combined micro- and nano-scale study of CAI and chondrule rim morphologies, to investigate their formation mechanisms. The target lithologies for this research are Wark-Lovering rims (WLR), and fine-grained rims (FGR) around CAIs and chondrules respectively, present within many chondrites. The FGRs, which are up to 100 µm thick, are of particular interest as recent studies have identified presolar grains within them. These grains predate the formation of our Solar System, suggesting FGR formation under nebular conditions. By contrast, WLRs are 10-20 µm thick, made of different compositional layers, and likely formed by flash-heating shortly after CAI formation, thus recording nebular conditions. A detailed multi-scale study of these respective rims will enable us to better understand their formation histories and determine the potential for commonality between these two phases, despite reports of an observed formation age difference of up to 2-3 Myr. We are using a combination of complimentary techniques on our selected target areas: 1) Micro-scale characterization using standard microscopic and compositional techniques (SEM-EBSD, EMPA); 2) Nano-scale characterization of structures using transmission electron microscopy (TEM) and elemental, isotopic and tomographic analysis with NanoSIMS and atom probe tomography (APT). Preliminary nano-scale APT analysis of FGR morphologies within the Allende carbonaceous chondrite has successfully discerned complex chondritic mineralogies and compositional differences across boundaries, which is one of the first applications of in-situ APT techniques to chondrites. Further data reduction will allow us to characterize the exact phases present, and further chondrite analyses are in progress.

Automatic alignment for three-dimensional tomographic reconstruction

NASA Astrophysics Data System (ADS)

van Leeuwen, Tristan; Maretzke, Simon; Joost Batenburg, K.

2018-02-01

In tomographic reconstruction, the goal is to reconstruct an unknown object from a collection of line integrals. Given a complete sampling of such line integrals for various angles and directions, explicit inverse formulas exist to reconstruct the object. Given noisy and incomplete measurements, the inverse problem is typically solved through a regularized least-squares approach. A challenge for both approaches is that in practice the exact directions and offsets of the x-rays are only known approximately due to, e.g. calibration errors. Such errors lead to artifacts in the reconstructed image. In the case of sufficient sampling and geometrically simple misalignment, the measurements can be corrected by exploiting so-called consistency conditions. In other cases, such conditions may not apply and we have to solve an additional inverse problem to retrieve the angles and shifts. In this paper we propose a general algorithmic framework for retrieving these parameters in conjunction with an algebraic reconstruction technique. The proposed approach is illustrated by numerical examples for both simulated data and an electron tomography dataset.

Prototype of a Muon Tomography Station with GEM detectors for Detection of Shielded Nuclear Contraband

NASA Astrophysics Data System (ADS)

Staib, Michael; Bhopatkar, Vallary; Bittner, William; Hohlmann, Marcus; Locke, Judson; Twigger, Jessie; Gnanvo, Kondo

2012-03-01

Muon tomography for homeland security aims at detecting well-shielded nuclear contraband in cargo and imaging it in 3D. The technique exploits multiple scattering of atmospheric cosmic ray muons, which is stronger in dense, high-Z materials, e.g. enriched uranium, than in low-Z and medium-Z shielding materials. We have constructed and are operating a compact Muon Tomography Station (MTS) that tracks muons with eight 30 cm x 30 cm Triple Gas Electron Multiplier (GEM) detectors placed on the sides of a cubic-foot imaging volume. A point-of-closest-approach algorithm applied to reconstructed incident and exiting tracks is used to create a tomographic reconstruction of the material within the active volume. We discuss the performance of this MTS prototype including characterization and commissioning of the GEM detectors and the data acquisition systems. We also present experimental tomographic images of small high-Z objects including depleted uranium with and without shielding and discuss the performance of material discrimination using this method.

Time-Dependent Computed Tomographic Perfusion Thresholds for Patients With Acute Ischemic Stroke.

PubMed

d'Esterre, Christopher D; Boesen, Mari E; Ahn, Seong Hwan; Pordeli, Pooneh; Najm, Mohamed; Minhas, Priyanka; Davari, Paniz; Fainardi, Enrico; Rubiera, Marta; Khaw, Alexander V; Zini, Andrea; Frayne, Richard; Hill, Michael D; Demchuk, Andrew M; Sajobi, Tolulope T; Forkert, Nils D; Goyal, Mayank; Lee, Ting Y; Menon, Bijoy K

2015-12-01

Among patients with acute ischemic stroke, we determine computed tomographic perfusion (CTP) thresholds associated with follow-up infarction at different stroke onset-to-CTP and CTP-to-reperfusion times. Acute ischemic stroke patients with occlusion on computed tomographic angiography were acutely imaged with CTP. Noncontrast computed tomography and magnectic resonance diffusion-weighted imaging between 24 and 48 hours were used to delineate follow-up infarction. Reperfusion was assessed on conventional angiogram or 4-hour repeat computed tomographic angiography. Tmax, cerebral blood flow, and cerebral blood volume derived from delay-insensitive CTP postprocessing were analyzed using receiver-operator characteristic curves to derive optimal thresholds for combined patient data (pooled analysis) and individual patients (patient-level analysis) based on time from stroke onset-to-CTP and CTP-to-reperfusion. One-way ANOVA and locally weighted scatterplot smoothing regression was used to test whether the derived optimal CTP thresholds were different by time. One hundred and thirty-two patients were included. Tmax thresholds of >16.2 and >15.8 s and absolute cerebral blood flow thresholds of <8.9 and <7.4 mL·min(-1)·100 g(-1) were associated with infarct if reperfused <90 min from CTP with onset <180 min. The discriminative ability of cerebral blood volume was modest. No statistically significant relationship was noted between stroke onset-to-CTP time and the optimal CTP thresholds for all parameters based on discrete or continuous time analysis (P>0.05). A statistically significant relationship existed between CTP-to-reperfusion time and the optimal thresholds for cerebral blood flow (P<0.001; r=0.59 and 0.77 for gray and white matter, respectively) and Tmax (P<0.001; r=-0.68 and -0.60 for gray and white matter, respectively) parameters. Optimal CTP thresholds associated with follow-up infarction depend on time from imaging to reperfusion. © 2015 American Heart Association, Inc.

Electron beam machining using rotating and shaped beam power distribution

DOEpatents

Elmer, John W.; O'Brien, Dennis W.

1996-01-01

An apparatus and method for electron beam (EB) machining (drilling, cutting and welding) that uses conventional EB guns, power supplies, and welding machine technology without the need for fast bias pulsing technology. The invention involves a magnetic lensing (EB optics) system and electronic controls to: 1) concurrently bend, focus, shape, scan, and rotate the beam to protect the EB gun and to create a desired effective power-density distribution, and 2) rotate or scan this shaped beam in a controlled way. The shaped beam power-density distribution can be measured using a tomographic imaging system. For example, the EB apparatus of this invention has the ability to drill holes in metal having a diameter up to 1000 .mu.m (1 mm or larger), compared to the 250 .mu.m diameter of laser drilling.

A Novel Quantitative Computed Tomographic Analysis Suggests How Sirolimus Stabilizes Progressive Air Trapping in Lymphangioleiomyomatosis

PubMed Central

Kokosi, Maria; Lo, Pechin; Kim, Hyun J.; Ravenel, James G.; Meyer, Cristopher; Goldin, Jonathan; Lee, Hye-Seung; Strange, Charlie; McCormack, Francis X.

2016-01-01

Rationale: The Multicenter International Lymphangioleiomyomatosis Efficacy and Safety of Sirolimus (MILES) trial demonstrated that sirolimus stabilized lung function and improved measures of functional performance and quality of life in patients with lymphangioleiomyomatosis. The physiologic mechanisms of these beneficial actions of sirolimus are incompletely understood. Objectives: To prospectively determine the longitudinal computed tomographic lung imaging correlates of lung function change in MILES patients treated with placebo or sirolimus. Methods: We determined the baseline to 12-month change in computed tomographic image–derived lung volumes and the volume of the lung occupied by cysts in the 31 MILES participants (17 in sirolimus group, 14 in placebo group) with baseline and 12-month scans. Measurements and Main Results: There was a trend toward an increase in median expiratory cyst volume percentage in the placebo group and a reduction in the sirolimus group (+2.68% vs. +0.97%, respectively; P = 0.10). The computed tomographic image–derived residual volume and the ratio of residual volume to total lung capacity increased more in the placebo group than in the sirolimus group (+214.4 ml vs. +2.9 ml [P = 0.054] and +0.05 ml vs. −0.01 ml [P = 0.0498], respectively). A Markov transition chain analysis of respiratory cycle cyst volume changes revealed greater dynamic variation in the sirolimus group than in the placebo group at the 12-month time point. Conclusions: Collectively, these data suggest that sirolimus attenuates progressive gas trapping in lymphangioleiomyomatosis, consistent with a beneficial effect of the drug on airflow obstruction. We speculate that a reduction in lymphangioleiomyomatosis cell burden around small airways and cyst walls alleviates progressive airflow limitation and facilitates cyst emptying. PMID:26799509

A Novel Quantitative Computed Tomographic Analysis Suggests How Sirolimus Stabilizes Progressive Air Trapping in Lymphangioleiomyomatosis.

PubMed

Argula, Rahul G; Kokosi, Maria; Lo, Pechin; Kim, Hyun J; Ravenel, James G; Meyer, Cristopher; Goldin, Jonathan; Lee, Hye-Seung; Strange, Charlie; McCormack, Francis X

2016-03-01

The Multicenter International Lymphangioleiomyomatosis Efficacy and Safety of Sirolimus (MILES) trial demonstrated that sirolimus stabilized lung function and improved measures of functional performance and quality of life in patients with lymphangioleiomyomatosis. The physiologic mechanisms of these beneficial actions of sirolimus are incompletely understood. To prospectively determine the longitudinal computed tomographic lung imaging correlates of lung function change in MILES patients treated with placebo or sirolimus. We determined the baseline to 12-month change in computed tomographic image-derived lung volumes and the volume of the lung occupied by cysts in the 31 MILES participants (17 in sirolimus group, 14 in placebo group) with baseline and 12-month scans. There was a trend toward an increase in median expiratory cyst volume percentage in the placebo group and a reduction in the sirolimus group (+2.68% vs. +0.97%, respectively; P = 0.10). The computed tomographic image-derived residual volume and the ratio of residual volume to total lung capacity increased more in the placebo group than in the sirolimus group (+214.4 ml vs. +2.9 ml [P = 0.054] and +0.05 ml vs. -0.01 ml [P = 0.0498], respectively). A Markov transition chain analysis of respiratory cycle cyst volume changes revealed greater dynamic variation in the sirolimus group than in the placebo group at the 12-month time point. Collectively, these data suggest that sirolimus attenuates progressive gas trapping in lymphangioleiomyomatosis, consistent with a beneficial effect of the drug on airflow obstruction. We speculate that a reduction in lymphangioleiomyomatosis cell burden around small airways and cyst walls alleviates progressive airflow limitation and facilitates cyst emptying.

Spectroscopic micro-tomography of metallic-organic composites by means of photon-counting detectors

NASA Astrophysics Data System (ADS)

Pichotka, M.; Jakubek, J.; Vavrik, D.

2015-12-01

The presumed capabilities of photon counting detectors have aroused major expectations in several fields of research. In the field of nuclear imaging ample benefits over standard detectors are to be expected from photon counting devices. First of all a very high contrast, as has by now been verified in numerous experiments. The spectroscopic capabilities of photon counting detectors further allow material decomposition in computed tomography and therefore inherently adequate beam hardening correction. For these reasons measurement setups featuring standard X-ray tubes combined with photon counting detectors constitute a possible replacement of the much more cost intensive tomographic setups at synchrotron light-sources. The actual application of photon counting detectors in radiographic setups in recent years has been impeded by a number of practical issues, above all by restrictions in the detectors size. Currently two tomographic setups in Czech Republic feature photon counting large-area detectors (LAD) fabricated in Prague. The employed large area hybrid pixel-detector assemblies [1] consisting of 10×10/10×5 Timepix devices have a surface area of 143×143 mm2 / 143×71,5 mm2 respectively, suitable for micro-tomographic applications. In the near future LAD devices featuring the Medipix3 readout chip as well as heavy sensors (CdTe, GaAs) will become available. Data analysis is obtained by a number of in house software tools including iterative multi-energy volume reconstruction.In this paper tomographic analysis of of metallic-organic composites is employed to illustrate the capabilities of our technology. Other than successful material decomposition by spectroscopic tomography we present a method to suppress metal artefacts under certain conditions.

Imaging of turbulent structures and tomographic reconstruction of TORPEX plasma emissivity

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

Iraji, D.; Furno, I.; Fasoli, A.

In the TORPEX [A. Fasoli et al., Phys. Plasmas 13, 055902 (2006)], a simple magnetized plasma device, low frequency electrostatic fluctuations associated with interchange waves, are routinely measured by means of extensive sets of Langmuir probes. To complement the electrostatic probe measurements of plasma turbulence and study of plasma structures smaller than the spatial resolution of probes array, a nonperturbative direct imaging system has been developed on TORPEX, including a fast framing Photron-APX-RS camera and an image intensifier unit. From the line-integrated camera images, we compute the poloidal emissivity profile of the plasma by applying a tomographic reconstruction technique usingmore » a pixel method and solving an overdetermined set of equations by singular value decomposition. This allows comparing statistical, spectral, and spatial properties of visible light radiation with electrostatic fluctuations. The shape and position of the time-averaged reconstructed plasma emissivity are observed to be similar to those of the ion saturation current profile. In the core plasma, excluding the electron cyclotron and upper hybrid resonant layers, the mean value of the plasma emissivity is observed to vary with (T{sub e}){sup {alpha}}(n{sub e}){sup {beta}}, in which {alpha}=0.25-0.7 and {beta}=0.8-1.4, in agreement with collisional radiative model. The tomographic reconstruction is applied to the fast camera movie acquired with 50 kframes/s rate and 2 {mu}s of exposure time to obtain the temporal evolutions of the emissivity fluctuations. Conditional average sampling is also applied to visualize and measure sizes of structures associated with the interchange mode. The {omega}-time and the two-dimensional k-space Fourier analysis of the reconstructed emissivity fluctuations show the same interchange mode that is detected in the {omega} and k spectra of the ion saturation current fluctuations measured by probes. Small scale turbulent plasma structures can be detected and tracked in the reconstructed emissivity movies with the spatial resolution down to 2 cm, well beyond the spatial resolution of the probe array.« less

Space-Based Three-Dimensional Imaging of Equatorial Plasma Bubbles: Advancing the Understanding of Ionospheric Density Depletions and Scintillation

DTIC Science & Technology

2012-03-28

Scintillation 5c. PROGRAM ELEMENT NUMBER 6. AUTHOR(S) 5d. PROJECT NUMBER Comberiate, Joseph M. 5e. TASK NUMBER 5f. WORK...bubble climatology. A tomographic reconstruction technique was modified and applied to SSUSI data to reconstruct three-dimensional cubes of ionospheric... modified and applied to SSUSI data to reconstruct three-dimensional cubes of ionospheric electron density. These data cubes allowed for 3-D imaging of

Noninvasive detection of coronary artery bypass graft patency by intravenous electron beam computed tomographic angiography.

PubMed

Yamakami, Shoji; Toyama, Junji; Okamoto, Mitsuhiro; Matsushita, Toyoaki; Murakami, Yoshimasa; Ogata, Masaki; Ito, Shigenori; Fukutomi, Tatsuya; Okayama, Naotsuka; Itoh, Makoto

2003-11-01

This study evaluates the usefullness of intravenous electron beam computed tomographic angiography (EBA) for the detection of coronary artery bypass graft patency in 43 patients (33 men and 10 women, mean age, 65 years) who had coronary artery bypass graft surgery. EBA was performed a few days before selective bypass graft angiography (SGA). Forty axial cross-sections of angiographic images of the heart were acquired consecutively by an electrocardiographic trigger signal at 40% of the RR interval, which corresponds to the end-systolic phase. EBA data were reconstructed as a three-dimensional shaded surface display of the heart and bypass grafts. Detectability of the patency of bypass gratis was evaluated, taking selective angiographic images of the bypass grafts as a gold standard. One hundred and nine grafts (96%) out of 114 grafts were subjected to evaluation: 37 grafts were left internal mammary artery grafts (LIMA), 7 were right internal mammary artery grafts (RIMA), 6 were gastroepiploic artery grafts (GEA), 7 were free gastroepiploic artery grafts with venous drainage (free-GEA), 7 were radial artery grafts (RAG), and 45 were saphenous vein gratis (SVG). The sensitivity, specificity, positive predictive value, negative predictive value, and accuracy of EBA were 98%, 100%, 100%, 91%, and 98%, respectively. EBA sampled at the end-systolic period was determined to be useful for the detection of coronary artery bypass graft patency and occlusion.

Tomographic inversion techniques incorporating physical constraints for line integrated spectroscopy in stellarators and tokamaks

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

Pablant, N. A.; Bell, R. E.; Bitter, M.

2014-11-15

Accurate tomographic inversion is important for diagnostic systems on stellarators and tokamaks which rely on measurements of line integrated emission spectra. A tomographic inversion technique based on spline optimization with enforcement of constraints is described that can produce unique and physically relevant inversions even in situations with noisy or incomplete input data. This inversion technique is routinely used in the analysis of data from the x-ray imaging crystal spectrometer (XICS) installed at the Large Helical Device. The XICS diagnostic records a 1D image of line integrated emission spectra from impurities in the plasma. Through the use of Doppler spectroscopy andmore » tomographic inversion, XICS can provide profile measurements of the local emissivity, temperature, and plasma flow. Tomographic inversion requires the assumption that these measured quantities are flux surface functions, and that a known plasma equilibrium reconstruction is available. In the case of low signal levels or partial spatial coverage of the plasma cross-section, standard inversion techniques utilizing matrix inversion and linear-regularization often cannot produce unique and physically relevant solutions. The addition of physical constraints, such as parameter ranges, derivative directions, and boundary conditions, allow for unique solutions to be reliably found. The constrained inversion technique described here utilizes a modified Levenberg-Marquardt optimization scheme, which introduces a condition avoidance mechanism by selective reduction of search directions. The constrained inversion technique also allows for the addition of more complicated parameter dependencies, for example, geometrical dependence of the emissivity due to asymmetries in the plasma density arising from fast rotation. The accuracy of this constrained inversion technique is discussed, with an emphasis on its applicability to systems with limited plasma coverage.« less

Computed Tomographic Blend Sign Is Associated With Computed Tomographic Angiography Spot Sign and Predicts Secondary Neurological Deterioration After Intracerebral Hemorrhage.

PubMed

Sporns, Peter B; Schwake, Michael; Schmidt, Rene; Kemmling, André; Minnerup, Jens; Schwindt, Wolfram; Cnyrim, Christian; Zoubi, Tarek; Heindel, Walter; Niederstadt, Thomas; Hanning, Uta

2017-01-01

Significant early hematoma growth in patients with intracerebral hemorrhage is an independent predictor of poor functional outcome. Recently, the novel blend sign (BS) has been introduced as a new imaging sign for predicting hematoma growth in noncontrast computed tomography. Another parameter predicting increasing hematoma size is the well-established spot sign (SS) visible in computed tomographic angiography. We, therefore, aimed to clarify the association between established SS and novel BS and their values predicting a secondary neurological deterioration. Retrospective study inclusion criteria were (1) spontaneous intracerebral hemorrhage confirmed on noncontrast computed tomography and (2) noncontrast computed tomography and computed tomographic angiography performed on admission within 6 hours after onset of symptoms. We defined a binary outcome (secondary neurological deterioration versus no secondary deterioration). As secondary neurological deterioration, we defined (1) early hemicraniectomy under standardized criteria or (2) secondary decrease of Glasgow Coma Scale of >3 points, both within the first 48 hours after symptom onset. Of 182 patients with spontaneous intracerebral hemorrhage, 37 (20.3%) presented with BS and 39 (21.4%) with SS. Of the 81 patients with secondary deterioration, 31 (38.3%) had BS and SS on admission. Multivariable logistic regression analysis identified hematoma volume (odds ratio, 1.07 per mL; P≤0.001), intraventricular hemorrhage (odds ratio, 3.08; P=0.008), and the presence of BS (odds ratio, 11.47; P≤0.001) as independent predictors of neurological deterioration. The BS, which is obtainable in noncontrast computed tomography, shows a high correlation with the computed tomographic angiography SS and is a reliable predictor of secondary neurological deterioration after spontaneous intracerebral hemorrhage. © 2016 American Heart Association, Inc.

Permeability Surface of Deep Middle Cerebral Artery Territory on Computed Tomographic Perfusion Predicts Hemorrhagic Transformation After Stroke.

PubMed

Li, Qiao; Gao, Xinyi; Yao, Zhenwei; Feng, Xiaoyuan; He, Huijin; Xue, Jing; Gao, Peiyi; Yang, Lumeng; Cheng, Xin; Chen, Weijian; Yang, Yunjun

2017-09-01

Permeability surface (PS) on computed tomographic perfusion reflects blood-brain barrier permeability and is related to hemorrhagic transformation (HT). HT of deep middle cerebral artery (MCA) territory can occur after recanalization of proximal large-vessel occlusion. We aimed to determine the relationship between HT and PS of deep MCA territory. We retrospectively reviewed 70 consecutive acute ischemic stroke patients presenting with occlusion of the distal internal carotid artery or M1 segment of the MCA. All patients underwent computed tomographic perfusion within 6 hours after symptom onset. Computed tomographic perfusion data were postprocessed to generate maps of different perfusion parameters. Risk factors were identified for increased deep MCA territory PS. Receiver operating characteristic curve analysis was performed to calculate the optimal PS threshold to predict HT of deep MCA territory. Increased PS was associated with HT of deep MCA territory. After adjustments for age, sex, onset time to computed tomographic perfusion, and baseline National Institutes of Health Stroke Scale, poor collateral status (odds ratio, 7.8; 95% confidence interval, 1.67-37.14; P =0.009) and proximal MCA-M1 occlusion (odds ratio, 4.12; 95% confidence interval, 1.03-16.52; P =0.045) were independently associated with increased deep MCA territory PS. Relative PS most accurately predicted HT of deep MCA territory (area under curve, 0.94; optimal threshold, 2.89). Increased PS can predict HT of deep MCA territory after recanalization therapy for cerebral proximal large-vessel occlusion. Proximal MCA-M1 complete occlusion and distal internal carotid artery occlusion in conjunction with poor collaterals elevate deep MCA territory PS. © 2017 American Heart Association, Inc.

Tomographic inversion techniques incorporating physical constraints for line integrated spectroscopy in stellarators and tokamaksa)

DOE PAGES

Pablant, N. A.; Bell, R. E.; Bitter, M.; ...

2014-08-08

Accurate tomographic inversion is important for diagnostic systems on stellarators and tokamaks which rely on measurements of line integrated emission spectra. A tomographic inversion technique based on spline optimization with enforcement of constraints is described that can produce unique and physically relevant inversions even in situations with noisy or incomplete input data. This inversion technique is routinely used in the analysis of data from the x-ray imaging crystal spectrometer (XICS) installed at LHD. The XICS diagnostic records a 1D image of line integrated emission spectra from impurities in the plasma. Through the use of Doppler spectroscopy and tomographic inversion, XICSmore » can provide pro file measurements of the local emissivity, temperature and plasma flow. Tomographic inversion requires the assumption that these measured quantities are flux surface functions, and that a known plasma equilibrium reconstruction is available. In the case of low signal levels or partial spatial coverage of the plasma cross-section, standard inversion techniques utilizing matrix inversion and linear-regularization often cannot produce unique and physically relevant solutions. The addition of physical constraints, such as parameter ranges, derivative directions, and boundary conditions, allow for unique solutions to be reliably found. The constrained inversion technique described here utilizes a modifi ed Levenberg-Marquardt optimization scheme, which introduces a condition avoidance mechanism by selective reduction of search directions. The constrained inversion technique also allows for the addition of more complicated parameter dependencies, for example geometrical dependence of the emissivity due to asymmetries in the plasma density arising from fast rotation. The accuracy of this constrained inversion technique is discussed, with an emphasis on its applicability to systems with limited plasma coverage.« less

A radiographic and tomographic imaging system integrated into a medical linear accelerator for localization of bone and soft-tissue targets.

PubMed

Jaffray, D A; Drake, D G; Moreau, M; Martinez, A A; Wong, J W

1999-10-01

Dose escalation in conformal radiation therapy requires accurate field placement. Electronic portal imaging devices are used to verify field placement but are limited by the low subject contrast of bony anatomy at megavoltage (MV) energies, the large imaging dose, and the small size of the radiation fields. In this article, we describe the in-house modification of a medical linear accelerator to provide radiographic and tomographic localization of bone and soft-tissue targets in the reference frame of the accelerator. This system separates the verification of beam delivery (machine settings, field shaping) from patient and target localization. A kilovoltage (kV) x-ray source is mounted on the drum assembly of an Elekta SL-20 medical linear accelerator, maintaining the same isocenter as the treatment beam with the central axis at 90 degrees to the treatment beam axis. The x-ray tube is powered by a high-frequency generator and can be retracted to the drum-face. Two CCD-based fluoroscopic imaging systems are mounted on the accelerator to collect MV and kV radiographic images. The system is also capable of cone-beam tomographic imaging at both MV and kV energies. The gain stages of the two imaging systems have been modeled to assess imaging performance. The contrast-resolution of the kV and MV systems was measured using a contrast-detail (C-D) phantom. The dosimetric advantage of using the kV imaging system over the MV system for the detection of bone-like objects is quantified for a specific imaging geometry using a C-D phantom. Accurate guidance of the treatment beam requires registration of the imaging and treatment coordinate systems. The mechanical characteristics of the treatment and imaging gantries are examined to determine a localizing precision assuming an unambiguous object. MV and kV radiographs of patients receiving radiation therapy are acquired to demonstrate the radiographic performance of the system. The tomographic performance is demonstrated on phantoms using both the MV and the kV imaging system, and the visibility of soft-tissue targets is assessed. Characterization of the gains in the two systems demonstrates that the MV system is x-ray quantum noise-limited at very low spatial frequencies; this is not the case for the kV system. The estimates of gain used in the model are validated by measurements of the total gain in each system. Contrast-detail measurements demonstrate that the MV system is capable of detecting subject contrasts of less than 0.1% (at 6 and 18 MV). A comparison of the kV and MV contrast-detail performance indicates that equivalent bony object detection can be achieved with the kV system at significantly lower doses (factors of 40 and 90 lower than for 6 and 18 MV, respectively). The tomographic performance of the system is promising; soft-tissue visibility is demonstrated at relatively low imaging doses (3 cGy) using four laboratory rats. We have integrated a kV radiographic and tomographic imaging system with a medical linear accelerator to allow localization of bone and soft-tissue structures in the reference frame of the accelerator. Modeling and experiments have demonstrated the feasibility of acquiring high-quality radiographic and tomographic images at acceptable imaging doses. Full integration of the kV and MV imaging systems with the treatment machine will allow on-line radiographic and tomographic guidance of field placement.

Computed Tomographic Analysis of Ventral Atlantoaxial Optimal Safe Implantation Corridors in 27 Dogs.

PubMed

Leblond, Guillaume; Gaitero, Luis; Moens, Noel M M; Zur Linden, Alex; James, Fiona M K; Monteith, Gabrielle J; Runciman, John

2017-11-01

Objectives  Ventral atlantoaxial stabilization techniques are challenging surgical procedures in dogs. Available surgical guidelines are based upon subjective anatomical landmarks, and limited radiographic and computed tomographic data. The aims of this study were (1) to provide detailed anatomical descriptions of atlantoaxial optimal safe implantation corridors to generate objective recommendations for optimal implant placements and (2) to compare anatomical data obtained in non-affected Toy breed dogs, affected Toy breed dogs suffering from atlantoaxial instability and non-affected Beagle dogs. Methods  Anatomical data were collected from a prospectively recruited population of 27 dogs using a previously validated method of optimal safe implantation corridor analysis using computed tomographic images. Results  Optimal implant positions and three-dimensional numerical data were generated successfully in all cases. Anatomical landmarks could be used to generate objective definitions of optimal insertion points which were applicable across all three groups. Overall the geometrical distribution of all implant sites was similar in all three groups with a few exceptions. Clinical Significance  This study provides extensive anatomical data available to facilitate surgical planning of implant placement for atlantoaxial stabilization. Our data suggest that non-affected Toy breed dogs and non-affected Beagle dogs constitute reasonable research models to study atlantoaxial stabilization constructs. Schattauer GmbH Stuttgart.

Distribution of alginate and cellulose and regulatory role of calcium in the cell wall of the brown alga Ectocarpus siliculosus (Ectocarpales, Phaeophyceae).

PubMed

Terauchi, Makoto; Nagasato, Chikako; Inoue, Akira; Ito, Toshiaki; Motomura, Taizo

2016-08-01

This work investigated a correlation between the three-dimensional architecture and compound-components of the brown algal cell wall. Calcium greatly contributes to the cell wall integrity. Brown algae have a unique cell wall consisting of alginate, cellulose, and sulfated polysaccharides. However, the relationship between the architecture and the composition of the cell wall is poorly understood. Here, we investigated the architecture of the cell wall and the effect of extracellular calcium in the sporophyte and gametophyte of the model brown alga, Ectocarpus siliculosus (Dillwyn) Lyngbye, using transmission electron microscopy, histochemical, and immunohistochemical studies. The lateral cell wall of vegetative cells of the sporophyte thalli had multilayered architecture containing electron-dense and negatively stained fibrils. Electron tomographic analysis showed that the amount of the electron-dense fibrils and the junctions was different between inner and outer layers, and between the perpendicular and tangential directions of the cell wall. By immersing the gametophyte thalli in the low-calcium (one-eighth of the normal concentration) artificial seawater medium, the fibrous layers of the lateral cell wall of vegetative cells became swollen. Destruction of cell wall integrity was also induced by the addition of sorbitol. The results demonstrated that electron-dense fibrils were composed of alginate-calcium fibrous gels, and electron negatively stained fibrils were crystalline cellulose microfibrils. It was concluded that the spatial arrangement of electron-dense fibrils was different between the layers and between the directions of the cell wall, and calcium was necessary for maintaining the fibrous layers in the cell wall. This study provides insights into the design principle of the brown algal cell wall.

Laboratory-size three-dimensional x-ray microscope with Wolter type I mirror optics and an electron-impact water window x-ray source

NASA Astrophysics Data System (ADS)

Ohsuka, Shinji; Ohba, Akira; Onoda, Shinobu; Nakamoto, Katsuhiro; Nakano, Tomoyasu; Miyoshi, Motosuke; Soda, Keita; Hamakubo, Takao

2014-09-01

We constructed a laboratory-size three-dimensional water window x-ray microscope that combines wide-field transmission x-ray microscopy with tomographic reconstruction techniques, and observed bio-medical samples to evaluate its applicability to life science research fields. It consists of a condenser and an objective grazing incidence Wolter type I mirror, an electron-impact type oxygen Kα x-ray source, and a back-illuminated CCD for x-ray imaging. A spatial resolution limit of around 1.0 line pairs per micrometer was obtained for two-dimensional transmission images, and 1-μm scale three-dimensional fine structures were resolved.

Cryo-Electron Microscopy of Viruses Infecting Bacterium

NASA Astrophysics Data System (ADS)

Chiu, Wah

2010-03-01

Single particle cryo-EM can yield structures of infectious bacterial viruses with and without imposed icosahedral symmetry at subnanometer resolution. Reconstructions of infectious and empty phage particles show substantial differences in the portal vertex protein complex at one of the 12 pentameric vertices in the icosahedral virus particle through which the viral genomes are packaged or released. In addition, electron cryo-tomography of viruses during infecting its bacterial host cell displayed multiple conformations of the tail fiber of the virus. Our structural observations by single particle and tomographic reconstructions suggest a mechanism whereby the viral tail fibers, upon binding to the host cell, induce a cascade of structural alterations of the portal vertex protein complex that triggers DNA release.

Laboratory-size three-dimensional x-ray microscope with Wolter type I mirror optics and an electron-impact water window x-ray source.

PubMed

Ohsuka, Shinji; Ohba, Akira; Onoda, Shinobu; Nakamoto, Katsuhiro; Nakano, Tomoyasu; Miyoshi, Motosuke; Soda, Keita; Hamakubo, Takao

2014-09-01

We constructed a laboratory-size three-dimensional water window x-ray microscope that combines wide-field transmission x-ray microscopy with tomographic reconstruction techniques, and observed bio-medical samples to evaluate its applicability to life science research fields. It consists of a condenser and an objective grazing incidence Wolter type I mirror, an electron-impact type oxygen Kα x-ray source, and a back-illuminated CCD for x-ray imaging. A spatial resolution limit of around 1.0 line pairs per micrometer was obtained for two-dimensional transmission images, and 1-μm scale three-dimensional fine structures were resolved.

A tomographic test of cosmological principle using the JLA compilation of type Ia supernovae

NASA Astrophysics Data System (ADS)

Chang, Zhe; Lin, Hai-Nan; Sang, Yu; Wang, Sai

2018-05-01

We test the cosmological principle by fitting a dipolar modulation of distance modulus and searching for an evolution of this modulation with respect to cosmological redshift. Based on a redshift tomographic method, we divide the Joint Light-curve Analysis compilation of supernovae of type Ia into different redshift bins, and employ a Markov-Chain Monte-Carlo method to infer the anisotropic amplitude and direction in each redshift bin. However, we do not find any significant deviations from the cosmological principle, and the anisotropic amplitude is stringently constrained to be less than a few thousandths at 95% confidence level.

In-line three-dimensional holography of nanocrystalline objects at atomic resolution

DOE PAGES

Chen, F. -R.; Van Dyck, D.; Kisielowski, C.

2016-02-18

We report that resolution and sensitivity of the latest generation aberration-corrected transmission electron microscopes allow the vast majority of single atoms to be imaged with sub-Ångstrom resolution and their locations determined in an image plane with a precision that exceeds the 1.9-pm wavelength of 300 kV electrons. Such unprecedented performance allows expansion of electron microscopic investigations with atomic resolution into the third dimension. Here we show a general tomographic method to recover the three-dimensional shape of a crystalline particle from high-resolution images of a single projection without the need for sample rotation. The method is compatible with low dose ratemore » electron microscopy, which improves on signal quality, while minimizing electron beam-induced structure modifications even for small particles or surfaces. Lastly, we apply it to germanium, gold and magnesium oxide particles, and achieve a depth resolution of 1–2 Å, which is smaller than inter-atomic distances.« less

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.

Electron beam machining using rotating and shaped beam power distribution

DOEpatents

Elmer, J.W.; O`Brien, D.W.

1996-07-09

An apparatus and method are disclosed for electron beam (EB) machining (drilling, cutting and welding) that uses conventional EB guns, power supplies, and welding machine technology without the need for fast bias pulsing technology. The invention involves a magnetic lensing (EB optics) system and electronic controls to: (1) concurrently bend, focus, shape, scan, and rotate the beam to protect the EB gun and to create a desired effective power-density distribution, and (2) rotate or scan this shaped beam in a controlled way. The shaped beam power-density distribution can be measured using a tomographic imaging system. For example, the EB apparatus of this invention has the ability to drill holes in metal having a diameter up to 1,000 {micro}m (1 mm or larger), compared to the 250 {micro}m diameter of laser drilling. 5 figs.

Methodology and consistency of slant and vertical assessments for ionospheric electron content models

NASA Astrophysics Data System (ADS)

Hernández-Pajares, Manuel; Roma-Dollase, David; Krankowski, Andrzej; García-Rigo, Alberto; Orús-Pérez, Raül

2017-12-01

A summary of the main concepts on global ionospheric map(s) [hereinafter GIM(s)] of vertical total electron content (VTEC), with special emphasis on their assessment, is presented in this paper. It is based on the experience accumulated during almost two decades of collaborative work in the context of the international global navigation satellite systems (GNSS) service (IGS) ionosphere working group. A representative comparison of the two main assessments of ionospheric electron content models (VTEC-altimeter and difference of Slant TEC, based on independent global positioning system data GPS, dSTEC-GPS) is performed. It is based on 26 GPS receivers worldwide distributed and mostly placed on islands, from the last quarter of 2010 to the end of 2016. The consistency between dSTEC-GPS and VTEC-altimeter assessments for one of the most accurate IGS GIMs (the tomographic-kriging GIM `UQRG' computed by UPC) is shown. Typical error RMS values of 2 TECU for VTEC-altimeter and 0.5 TECU for dSTEC-GPS assessments are found. And, as expected by following a simple random model, there is a significant correlation between both RMS and specially relative errors, mainly evident when large enough number of observations per pass is considered. The authors expect that this manuscript will be useful for new analysis contributor centres and in general for the scientific and technical community interested in simple and truly external ways of validating electron content models of the ionosphere.

Charge transport in CdTe solar cells revealed by conductive tomographic atomic force microscopy

DOE PAGES

Luria, Justin; Kutes, Yasemin; Moore, Andrew; ...

2016-09-26

Polycrystalline photovoltaics comprising cadmium telluride (CdTe) represent a growing portion of the solar cell market, yet the physical picture of charge transport through the meso-scale grain morphology remains a topic of debate. It is unknown how thin film morphology affects the transport of electron-hole pairs. Accordingly this study is the first to generate three dimensional images of photocurrent throughout a thin-film solar cell, revealing the profound influence of grain boundaries and stacking faults on device efficiency.

Three Dimensional Assembly in Directed Self-assembly of Block Copolymers

DOE PAGES

Segal-Peretz, Tamar; Zhou, Chun; Ren, Jiaxing; ...

2016-09-02

The three-dimensional assembly of poly (styrene-b-methyl methacrylate) (PS-b-PMMA) in chemoepitaxy and graphoepitaxy directed self-assembly (DSA) was investigated using scanning transmission electron microscopy (STEM) tomography. The tomographic characterization revealed hidden morphologies and defects at the BCP- chemical pattern interface in lamellar DSA, and probed the formation of cylinders at the bottom of cylindrical DSA for contact hole shrink. Lastly, future work will include control over 3D assembly in sub-10 nm processes.

Commissioning of the J-PET Detector for Studies of Decays of Positronium Atoms

NASA Astrophysics Data System (ADS)

Czerwiński, E.; Dulski, K.; Białas, P.; Curceanu, C.; Gajos, A.; Głowacz, B.; Gorgol, M.; Hiesmayr, B. C.; Jasińska, B.; Kisielewska, D.; Korcyl, G.; Kowalski, P.; Kozik, T.; Krawczyk, N.; Krzemień, W.; Kubicz, E.; Mohammed, M.; Niedźwiecki, Sz.; Pałka, M.; Pawlik-Niedźwiecka, M.; Raczyński, L.; Rudy, Z.; Sharma, N. G.; Sharma, S.; Shopa, R. Y.; Silarski, M.; Skurzok, M.; Wieczorek, A.; Wiślicki, W.; Zgardzińska, B.; Zieliński, M.; Moskal, P.

The Jagiellonian Positron Emission Tomograph (J-PET) is a detector for medical imaging of the whole human body as well as for physics studies involving detection of electron-positron annihilation into photons. J-PET has high angular and time resolution and allows for measurement of spin of the positronium and the momenta and polarization vectors of annihilation quanta. In this article, we present the potential of the J-PET system for background rejection in the decays of positronium atoms.

A novel fully automatic scheme for fiducial marker-based alignment in electron tomography.

PubMed

Han, Renmin; Wang, Liansan; Liu, Zhiyong; Sun, Fei; Zhang, Fa

2015-12-01

Although the topic of fiducial marker-based alignment in electron tomography (ET) has been widely discussed for decades, alignment without human intervention remains a difficult problem. Specifically, the emergence of subtomogram averaging has increased the demand for batch processing during tomographic reconstruction; fully automatic fiducial marker-based alignment is the main technique in this process. However, the lack of an accurate method for detecting and tracking fiducial markers precludes fully automatic alignment. In this paper, we present a novel, fully automatic alignment scheme for ET. Our scheme has two main contributions: First, we present a series of algorithms to ensure a high recognition rate and precise localization during the detection of fiducial markers. Our proposed solution reduces fiducial marker detection to a sampling and classification problem and further introduces an algorithm to solve the parameter dependence of marker diameter and marker number. Second, we propose a novel algorithm to solve the tracking of fiducial markers by reducing the tracking problem to an incomplete point set registration problem. Because a global optimization of a point set registration occurs, the result of our tracking is independent of the initial image position in the tilt series, allowing for the robust tracking of fiducial markers without pre-alignment. The experimental results indicate that our method can achieve an accurate tracking, almost identical to the current best one in IMOD with half automatic scheme. Furthermore, our scheme is fully automatic, depends on fewer parameters (only requires a gross value of the marker diameter) and does not require any manual interaction, providing the possibility of automatic batch processing of electron tomographic reconstruction. Copyright © 2015 Elsevier Inc. All rights reserved.

3D ELECTRON DENSITY DISTRIBUTIONS IN THE SOLAR CORONA DURING SOLAR MINIMA: ASSESSMENT FOR MORE REALISTIC SOLAR WIND MODELING

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

Patoul, Judith de; Foullon, Claire; Riley, Pete, E-mail: j.depatoul@exeter.ac.uk, E-mail: c.foullon@exeter.ac.uk, E-mail: rileype@saic.com

Knowledge of the electron density distribution in the solar corona put constraints on the magnetic field configurations for coronal modeling and on initial conditions for solar wind modeling. We work with polarized SOHO/LASCO-C2 images from the last two recent minima of solar activity (1996–1997 and 2008–2010), devoid of coronal mass ejections. The goals are to derive the 4D electron density distributions in the corona by applying a newly developed time-dependent tomographic reconstruction method and to compare the results between the two solar minima and with two magnetohydrodynamic models. First, we confirm that the values of the density distribution in thermodynamic models aremore » more realistic than in polytropic ones. The tomography provides more accurate distributions in the polar regions, and we find that the density in tomographic and thermodynamic solutions varies with the solar cycle in both polar and equatorial regions. Second, we find that the highest-density structures do not always correspond to the predicted large-scale heliospheric current sheet or its helmet streamer but can follow the locations of pseudo-streamers. We deduce that tomography offers reliable density distributions in the corona, reproducing the slow time evolution of coronal structures, without prior knowledge of the coronal magnetic field over a full rotation. Finally, we suggest that the highest-density structures show a differential rotation well above the surface depending on how they are magnetically connected to the surface. Such valuable information on the rotation of large-scale structures could help to connect the sources of the solar wind to their in situ counterparts in future missions such as Solar Orbiter and Solar Probe Plus.« less

Tomographic Imaging of a Forested Area By Airborne Multi-Baseline P-Band SAR.

PubMed

Frey, Othmar; Morsdorf, Felix; Meier, Erich

2008-09-24

In recent years, various attempts have been undertaken to obtain information about the structure of forested areas from multi-baseline synthetic aperture radar data. Tomographic processing of such data has been demonstrated for airborne L-band data but the quality of the focused tomographic images is limited by several factors. In particular, the common Fourierbased focusing methods are susceptible to irregular and sparse sampling, two problems, that are unavoidable in case of multi-pass, multi-baseline SAR data acquired by an airborne system. In this paper, a tomographic focusing method based on the time-domain back-projection algorithm is proposed, which maintains the geometric relationship between the original sensor positions and the imaged target and is therefore able to cope with irregular sampling without introducing any approximations with respect to the geometry. The tomographic focusing quality is assessed by analysing the impulse response of simulated point targets and an in-scene corner reflector. And, in particular, several tomographic slices of a volume representing a forested area are given. The respective P-band tomographic data set consisting of eleven flight tracks has been acquired by the airborne E-SAR sensor of the German Aerospace Center (DLR).

Fixture-abutment connection surface and micro-gap measurements by 3D micro-tomographic technique analysis.

PubMed

Meleo, Deborah; Baggi, Luigi; Di Girolamo, Michele; Di Carlo, Fabio; Pecci, Raffaella; Bedini, Rossella

2012-01-01

X-ray micro-tomography (micro-CT) is a miniaturized form of conventional computed axial tomography (CAT) able to investigate small radio-opaque objects at a-few-microns high resolution, in a non-destructive, non-invasive, and tri-dimensional way. Compared to traditional optical and electron microscopy techniques, which provide two-dimensional images, this innovative investigation technology enables a sample tri-dimensional analysis without cutting, coating or exposing the object to any particular chemical treatment. X-ray micro-tomography matches ideal 3D microscopy features: the possibility of investigating an object in natural conditions and without any preparation or alteration; non-invasive, non-destructive, and sufficiently magnified 3D reconstruction; reliable measurement of numeric data of the internal structure (morphology, structure and ultra-structure). Hence, this technique has multi-fold applications in a wide range of fields, not only in medical and odontostomatologic areas, but also in biomedical engineering, materials science, biology, electronics, geology, archaeology, oil industry, and semi-conductors industry. This study shows possible applications of micro-CT in dental implantology to analyze 3D micro-features of dental implant to abutment interface. Indeed, implant-abutment misfit is known to increase mechanical stress on connection structures and surrounding bone tissue. This condition may cause not only screw preload loss or screw fracture, but also biological issues in peri-implant tissues.

Dental computed tomographic imaging as age estimation: morphological analysis of the third molar of a group of Turkish population.

PubMed

Cantekin, Kenan; Sekerci, Ahmet Ercan; Buyuk, Suleyman Kutalmis

2013-12-01

Computed tomography (CT) is capable of providing accurate and measurable 3-dimensional images of the third molar. The aims of this study were to analyze the development of the mandibular third molar and its relation to chronological age and to create new reference data for a group of Turkish participants aged 9 to 25 years on the basis of cone-beam CT images. All data were obtained from the patients' records including medical, social, and dental anamnesis and cone-beam CT images of 752 patients. Linear regression analysis was performed to obtain regression formulas for dental age calculation with chronological age and to determine the coefficient of determination (r) for each sex. Statistical analysis showed a strong correlation between age and third-molar development for the males (r2 = 0.80) and the females (r2 = 0.78). Computed tomographic images are clinically useful for accurate and reliable estimation of dental ages of children and youth.

Singular value decomposition: a diagnostic tool for ill-posed inverse problems in optical computed tomography

NASA Astrophysics Data System (ADS)

Lanen, Theo A.; Watt, David W.

1995-10-01

Singular value decomposition has served as a diagnostic tool in optical computed tomography by using its capability to provide insight into the condition of ill-posed inverse problems. Various tomographic geometries are compared to one another through the singular value spectrum of their weight matrices. The number of significant singular values in the singular value spectrum of a weight matrix is a quantitative measure of the condition of the system of linear equations defined by a tomographic geometery. The analysis involves variation of the following five parameters, characterizing a tomographic geometry: 1) the spatial resolution of the reconstruction domain, 2) the number of views, 3) the number of projection rays per view, 4) the total observation angle spanned by the views, and 5) the selected basis function. Five local basis functions are considered: the square pulse, the triangle, the cubic B-spline, the Hanning window, and the Gaussian distribution. Also items like the presence of noise in the views, the coding accuracy of the weight matrix, as well as the accuracy of the accuracy of the singular value decomposition procedure itself are assessed.

Multi-methodological investigation of the variability of the microstructure of HPMC hard capsules.

PubMed

Faulhammer, E; Kovalcik, A; Wahl, V; Markl, D; Stelzer, F; Lawrence, S; Khinast, J G; Paudel, A

2016-09-25

The objective of this study was to analyze differences in the subtle microstructure of three different grades of HMPC hard capsule shells using mechanical, spectroscopic, microscopic and tomographic approaches. Dynamic mechanical analysis (DMA), thermogravimetric analysis (TGA), vibrational spectroscopic, X-Ray scattering techniques as well as environmental scanning electron microscopy (ESEM) and optical coherence tomography (OCT) were used. Two HPMC capsules manufactured via chemical gelling, one capsule shell manufactured via thermal gelling and one thermally gelled transparent capsule were included. Characteristic micro-structural alterations (associated manufacturing processes) such as mechanical and physical properties relevant to capsule performance and processability were thoroughly elucidated with the integration of data obtained from multi-methodological investigations. The physico-chemical and physico-mechanical data obtained from a gamut of techniques implied that thermally gelled HPMC hard capsule shells could offer an advantage in terms of machinability during capsule filling, owing to their superior micro- and macroscopic structure as well as specifically the mechanical stability under dry or humid conditions. Copyright © 2016 Elsevier B.V. All rights reserved.

Relationship between the upper mantle high velocity seismic lid and the continental lithosphere

NASA Astrophysics Data System (ADS)

Priestley, Keith; Tilmann, Frederik

2009-04-01

The lithosphere-asthenosphere boundary corresponds to the base of the "rigid" plates - the depth at which heat transport changes from advection in the convecting deeper upper mantle to conduction in the shallow upper mantle. Although this boundary is a fundamental feature of the Earth, mapping it has been difficult because it does not correspond to a sharp change in temperature or composition. Various definitions of the lithosphere and asthenosphere are based on the analysis of different types of geophysical and geological observations. The depth to the lithosphere-asthenosphere boundary determined from these different observations often shows little agreement when they are applied to the same region because the geophysical and geological observations (i.e., seismic velocity, strain rate, electrical resistivity, chemical depletion, etc.) are proxies for the change in rheological properties rather than a direct measure of the rheological properties. In this paper, we focus on the seismic mapping of the upper mantle high velocity lid and low velocity zone and its relationship to the lithosphere and asthenosphere. We have two goals: (a) to examine the differences in how teleseismic body-wave travel-time tomography and surface-wave tomography image upper mantle seismic structure; and (b) to summarise how upper mantle seismic velocity structure can be related to the structure of the lithosphere and asthenosphere. Surface-wave tomography provides reasonably good depth resolution, especially when higher modes are included in the analysis, but lateral resolution is limited by the horizontal wavelength of the long-period surface waves used to constrain upper mantle velocity structure. Teleseismic body-wave tomography has poor depth resolution in the upper mantle, particularly when no strong lateral contrasts are present. If station terms are used, features with large lateral extent and gradual boundaries are attenuated in the tomographic image. Body-wave models are not useful in mapping the thickness of the high velocity upper mantle lid because this type of analysis often determines wave speed perturbations from an unknown horizontal average and not absolute velocities. Thus, any feature which extends laterally across the whole region beneath a seismic network becomes invisible in the teleseismic body-wave tomographic image. We compare surface-wave and body-wave tomographic results using southern Africa as an example. Surface-wave tomographic images for southern Africa show a strong, high velocity upper mantle lid confined to depths shallower than ~ 200 km, whereas body-wave tomographic images show weak high velocity in the upper mantle extending to depths of ~ 300 km or more. However, synthetic tests show that these results are not contradictory. The absolute seismic velocity structure of the upper mantle provided by surface wave analysis can be used to map the thermal lithosphere. Priestley and McKenzie (Priestley, K., McKenzie, D., 2006. The thermal structure of the lithosphere from shear wave velocities. Earth and Planetary Science Letters 244, 285-301.) derive an empirical relationship between shear wave velocity and temperature. This relationship is used to obtain temperature profiles from the surface-wave tomographic models of the continental mantle. The base of the lithosphere is shown by a change in the gradient of the temperature profiles indicative of the depth where the mode of heat transport changes from conduction to advection. Comparisons of the geotherms determined from the conversion of surface-wave wave speeds to temperatures with upper mantle nodule-derived geotherms demonstrate that estimates of lithospheric thickness from Vs and from the nodule mineralogy agree to within about 25 km. The lithospheric thickness map for Africa derived from the surface-wave tomographic results shows that thick lithosphere underlies most of the Archean crust in Africa. The distribution of diamondiferous kimberlites provides an independent estimate of where thick lithosphere exists. Diamondiferous kimberlites generally occur where the lower part of the thermal lithosphere as indicated by seismology is in the diamond stability field.

Muon tomography imaging algorithms for nuclear threat detection inside large volume containers with the Muon Portal detector

NASA Astrophysics Data System (ADS)

Riggi, S.; Antonuccio-Delogu, V.; Bandieramonte, M.; Becciani, U.; Costa, A.; La Rocca, P.; Massimino, P.; Petta, C.; Pistagna, C.; Riggi, F.; Sciacca, E.; Vitello, F.

2013-11-01

Muon tomographic visualization techniques try to reconstruct a 3D image as close as possible to the real localization of the objects being probed. Statistical algorithms under test for the reconstruction of muon tomographic images in the Muon Portal Project are discussed here. Autocorrelation analysis and clustering algorithms have been employed within the context of methods based on the Point Of Closest Approach (POCA) reconstruction tool. An iterative method based on the log-likelihood approach was also implemented. Relative merits of all such methods are discussed, with reference to full GEANT4 simulations of different scenarios, incorporating medium and high-Z objects inside a container.

Real-Space x-ray tomographic reconstruction of randomly oriented objects with sparse data frames.

PubMed

Ayyer, Kartik; Philipp, Hugh T; Tate, Mark W; Elser, Veit; Gruner, Sol M

2014-02-10

Schemes for X-ray imaging single protein molecules using new x-ray sources, like x-ray free electron lasers (XFELs), require processing many frames of data that are obtained by taking temporally short snapshots of identical molecules, each with a random and unknown orientation. Due to the small size of the molecules and short exposure times, average signal levels of much less than 1 photon/pixel/frame are expected, much too low to be processed using standard methods. One approach to process the data is to use statistical methods developed in the EMC algorithm (Loh & Elser, Phys. Rev. E, 2009) which processes the data set as a whole. In this paper we apply this method to a real-space tomographic reconstruction using sparse frames of data (below 10(-2) photons/pixel/frame) obtained by performing x-ray transmission measurements of a low-contrast, randomly-oriented object. This extends the work by Philipp et al. (Optics Express, 2012) to three dimensions and is one step closer to the single molecule reconstruction problem.

In Silico Neuro-Oncology: Brownian Motion-Based Mathematical Treatment as a Potential Platform for Modeling the Infiltration of Glioma Cells into Normal Brain Tissue.

PubMed

Antonopoulos, Markos; Stamatakos, Georgios

2015-01-01

Intensive glioma tumor infiltration into the surrounding normal brain tissues is one of the most critical causes of glioma treatment failure. To quantitatively understand and mathematically simulate this phenomenon, several diffusion-based mathematical models have appeared in the literature. The majority of them ignore the anisotropic character of diffusion of glioma cells since availability of pertinent truly exploitable tomographic imaging data is limited. Aiming at enriching the anisotropy-enhanced glioma model weaponry so as to increase the potential of exploiting available tomographic imaging data, we propose a Brownian motion-based mathematical analysis that could serve as the basis for a simulation model estimating the infiltration of glioblastoma cells into the surrounding brain tissue. The analysis is based on clinical observations and exploits diffusion tensor imaging (DTI) data. Numerical simulations and suggestions for further elaboration are provided.

Can macrocirculation changes predict nonhealing diabetic foot ulcers?

PubMed

Lee, Ye-Na; Kim, Hyon-Surk; Kang, Jeong-A; Han, Seung-Kyu

2014-01-01

Transcutaneous partial oxygen tension (TcpO2) is considered the gold standard for assessment of tissue oxygenation, which is an essential factor for wound healing. The purpose of this study was to evaluate the association between macrocirculation and TcpO2 in persons with diabetes mellitus. Ninety-eight patients with diabetic foot ulcers participated in the study (61 men and 37 women). The subjects had a mean age of 66.6 years (range, 30-83 years) and were treated at the Diabetic Wound Center of Korea University Guro Hospital, Seoul, Republic of Korea. Macrocirculation was evaluated using 2 techniques: computed tomographic angiography and Doppler ultrasound. Macrocirculation scores were based on the patency of the two tibial arteries in 98 patients. Computed tomographic angiography and Doppler ultrasound scores (0-4 points) were given according to intraluminal filling defects and arterial pulse waveform of each vessel, respectively. Tissue oxygenation was measured by TcpO2. Macrocirculation scores were statistically analyzed as a function of the TcpO2. Statistical analysis revealed no significant linear trend between the macrocirculation status and TcpO2. Biavariate analysis using the Fisher exact test, Mantel-Haenszel tests, and McNemar-Bowker tests also found no significant relationship between macrocirculation and TcpO2. Computed tomographic angiography and Doppler ultrasound are not sufficiently reliable substitutes for TcpO2 measurements in regard to determining the optimal treatment for diabetic patients.

Analysis of tomographic mineralogical data using YaDiV—Overview and practical case study

NASA Astrophysics Data System (ADS)

Friese, Karl-Ingo; Cichy, Sarah B.; Wolter, Franz-Erich; Botcharnikov, Roman E.

2013-07-01

We introduce the 3D-segmentation and -visualization software YaDiV to the mineralogical application of rock texture analysis. YaDiV has been originally designed to process medical DICOM datasets. But due to software advancements and additional plugins, this open-source software can now be easily used for the fast quantitative morphological characterization of geological objects from tomographic datasets. In this paper, we give a summary of YaDiV's features and demonstrate the advantages of 3D-stereographic visualization and the accuracy of 3D-segmentation for the analysis of geological samples. For this purpose, we present a virtual and a real use case (here: experimentally crystallized and vesiculated magmatic rocks, corresponding to the composition of the 1991-1995 Unzen eruption, Japan). Especially the spacial representation of structures in YaDiV allows an immediate, intuitive understanding of the 3D-structures, which may not become clear by only looking on 2D-images. We compare our results of object number density calculations with the established classical stereological 3D-correction methods for 2D-images and show that it was possible to achieve a seriously higher quality and accuracy. The methods described in this paper are not dependent on the nature of the object. The fact, that YaDiV is open-source and users with programming skills can create new plugins themselves, may allow this platform to become applicable to a variety of geological scenarios from the analysis of textures in tiny rock samples to the interpretation of global geophysical data, as long as the data are provided in tomographic form.

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.

Tomographic imaging of flourescence resonance energy transfer in highly light scattering media

NASA Astrophysics Data System (ADS)

Soloviev, Vadim Y.; McGinty, James; Tahir, Khadija B.; Laine, Romain; Stuckey, Daniel W.; Mohan, P. Surya; Hajnal, Joseph V.; Sardini, Alessandro; French, Paul M. W.; Arridge, Simon R.

2010-02-01

Three-dimensional localization of protein conformation changes in turbid media using Förster Resonance Energy Transfer (FRET) was investigated by tomographic fluorescence lifetime imaging (FLIM). FRET occurs when a donor fluorophore, initially in its electronic excited state, transfers energy to an acceptor fluorophore in close proximity through non-radiative dipole-dipole coupling. An acceptor effectively behaves as a quencher of the donor's fluorescence. The quenching process is accompanied by a reduction in the quantum yield and lifetime of the donor fluorophore. Therefore, FRET can be localized by imaging changes in the quantum yield and the fluorescence lifetime of the donor fluorophore. Extending FRET to diffuse optical tomography has potentially important applications such as in vivo studies in small animal. We show that FRET can be localized by reconstructing the quantum yield and lifetime distribution from time-resolved non-invasive boundary measurements of fluorescence and transmitted excitation radiation. Image reconstruction was obtained by an inverse scattering algorithm. Thus we report, to the best of our knowledge, the first tomographic FLIM-FRET imaging in turbid media. The approach is demonstrated by imaging a highly scattering cylindrical phantom concealing two thin wells containing cytosol preparations of HEK293 cells expressing TN-L15, a cytosolic genetically-encoded calcium FRET sensor. A 10mM calcium chloride solution was added to one of the wells to induce a protein conformation change upon binding to TN-L15, resulting in FRET and a corresponding decrease in the donor fluorescence lifetime. The resulting fluorescence lifetime distribution, the quantum efficiency, absorption and scattering coefficients were reconstructed.

Atom Probe Tomographic Analysis of Biological Systems Enabled by Advanced Specimen Preparation Approaches

NASA Astrophysics Data System (ADS)

Perea, D. E.; Evans, J. E.

2017-12-01

The ability to image biointerfaces over nanometer to micrometer length scales is fundamental to correlating biological composition and structure to physiological function, and is aided by a multimodal approach using advanced complementary microscopic and spectroscopic characterization techniques. Atom Probe Tomography (APT) is a rapidly expanding technique for atomic-scale three-dimensional structural and chemical analysis. However, the regular application of APT to soft biological materials is lacking in large part due to difficulties in specimen preparation and inabilities to yield meaningful tomographic reconstructions that produce atomic scale compositional distributions as no other technique currently can. Here we describe the atomic-scale tomographic analysis of biological materials using APT that is facilitated by an advanced focused ion beam based approach. A novel specimen preparation strategy is used in the analysis of horse spleen ferritin protein embedded in an organic polymer resin which provides chemical contrast to distinguish the inorganic-organic interface of the ferrihydrite mineral core and protein shell of the ferritin protein. One-dimensional composition profiles directly reveal an enhanced concentration of P and Na at the surface of the ferrihydrite mineral core. We will also describe the development of a unique multifunctional environmental transfer hub allowing controlled cryogenic transfer of specimens under vacuum pressure conditions between an Atom Probe and cryo-FIB/SEM. The utility of the environmental transfer hub is demonstrated through the acquisition of previously unavailable mass spectral analysis of an intact organometallic molecule made possible via controlled cryogenic transfer. The results demonstrate a viable application of APT analysis to study complex biological organic/inorganic interfaces relevant to energy and the environment. References D.E. Perea et al. An environmental transfer hub for multimodal atom probe tomography, Adv. Struct. Chem. Imag, 2017, 3:12 The research was performed at the Environmental Molecular Sciences Laboratory; a national scientific user facility sponsored by the Department of Energy's Office of Biological and Environmental Research located at Pacific Northwest National Laboratory.

Classification of cryo electron microscopy images, noisy tomographic images recorded with unknown projection directions, by simultaneously estimating reconstructions and application to an assembly mutant of Cowpea Chlorotic Mottle Virus and portals of the bacteriophage P22

NASA Astrophysics Data System (ADS)

Lee, Junghoon; Zheng, Yili; Yin, Zhye; Doerschuk, Peter C.; Johnson, John E.

2010-08-01

Cryo electron microscopy is frequently used on biological specimens that show a mixture of different types of object. Because the electron beam rapidly destroys the specimen, the beam current is minimized which leads to noisy images (SNR substantially less than 1) and only one projection image per object (with an unknown projection direction) is collected. For situations where the objects can reasonably be described as coming from a finite set of classes, an approach based on joint maximum likelihood estimation of the reconstruction of each class and then use of the reconstructions to label the class of each image is described and demonstrated on two challenging problems: an assembly mutant of Cowpea Chlorotic Mottle Virus and portals of the bacteriophage P22.

3D structure of eukaryotic flagella in a quiescent state revealed by cryo-electron tomography

PubMed Central

Nicastro, Daniela; McIntosh, J. Richard; Baumeister, Wolfgang

2005-01-01

We have used cryo-electron tomography to investigate the 3D structure and macromolecular organization of intact, frozen-hydrated sea urchin sperm flagella in a quiescent state. The tomographic reconstructions provide information at a resolution better than 6 nm about the in situ arrangements of macromolecules that are key for flagellar motility. We have visualized the heptameric rings of the motor domains in the outer dynein arm complex and determined that they lie parallel to the plane that contains the axes of neighboring flagellar microtubules. Both the material associated with the central pair of microtubules and the radial spokes display a plane of symmetry that helps to explain the planar beat pattern of these flagella. Cryo-electron tomography has proven to be a powerful technique for helping us understand the relationships between flagellar structure and function and the design of macromolecular machines in situ. PMID:16246999

Correction of scatter in megavoltage cone-beam CT

NASA Astrophysics Data System (ADS)

Spies, L.; Ebert, M.; Groh, B. A.; Hesse, B. M.; Bortfeld, T.

2001-03-01

The role of scatter in a cone-beam computed tomography system using the therapeutic beam of a medical linear accelerator and a commercial electronic portal imaging device (EPID) is investigated. A scatter correction method is presented which is based on a superposition of Monte Carlo generated scatter kernels. The kernels are adapted to both the spectral response of the EPID and the dimensions of the phantom being scanned. The method is part of a calibration procedure which converts the measured transmission data acquired for each projection angle into water-equivalent thicknesses. Tomographic reconstruction of the projections then yields an estimate of the electron density distribution of the phantom. It is found that scatter produces cupping artefacts in the reconstructed tomograms. Furthermore, reconstructed electron densities deviate greatly (by about 30%) from their expected values. The scatter correction method removes the cupping artefacts and decreases the deviations from 30% down to about 8%.

Vectorization with SIMD extensions speeds up reconstruction in electron tomography.

PubMed

Agulleiro, J I; Garzón, E M; García, I; Fernández, J J

2010-06-01

Electron tomography allows structural studies of cellular structures at molecular detail. Large 3D reconstructions are needed to meet the resolution requirements. The processing time to compute these large volumes may be considerable and so, high performance computing techniques have been used traditionally. This work presents a vector approach to tomographic reconstruction that relies on the exploitation of the SIMD extensions available in modern processors in combination to other single processor optimization techniques. This approach succeeds in producing full resolution tomograms with an important reduction in processing time, as evaluated with the most common reconstruction algorithms, namely WBP and SIRT. The main advantage stems from the fact that this approach is to be run on standard computers without the need of specialized hardware, which facilitates the development, use and management of programs. Future trends in processor design open excellent opportunities for vector processing with processor's SIMD extensions in the field of 3D electron microscopy.

Linking high harmonics from gases and solids.

PubMed

Vampa, G; Hammond, T J; Thiré, N; Schmidt, B E; Légaré, F; McDonald, C R; Brabec, T; Corkum, P B

2015-06-25

When intense light interacts with an atomic gas, recollision between an ionizing electron and its parent ion creates high-order harmonics of the fundamental laser frequency. This sub-cycle effect generates coherent soft X-rays and attosecond pulses, and provides a means to image molecular orbitals. Recently, high harmonics have been generated from bulk crystals, but what mechanism dominates the emission remains uncertain. To resolve this issue, we adapt measurement methods from gas-phase research to solid zinc oxide driven by mid-infrared laser fields of 0.25 volts per ångström. We find that when we alter the generation process with a second-harmonic beam, the modified harmonic spectrum bears the signature of a generalized recollision between an electron and its associated hole. In addition, we find that solid-state high harmonics are perturbed by fields so weak that they are present in conventional electronic circuits, thus opening a route to integrate electronics with attosecond and high-harmonic technology. Future experiments will permit the band structure of a solid to be tomographically reconstructed.

The First Results About Earthquake Study with FORMOSAT-3/COSMIC

NASA Astrophysics Data System (ADS)

Liu, J. Y.; Oyama, K.; Jhuang, H. K.; Istep, M.; Hsiao, C. C.; Wang, Y. H.

2007-12-01

To improve the global weather prediction and space weather monitoring, six microsatellites termed the Formosa Satellite 3 - Constellation Observing System for Meteorology, Ionosphere, and Climate (FORMOSAT-3/COSMIC) were launched into a circular low-Earth orbit (LEO) from Vandenberg Air Force Base, California, at 0140 UTC on 15 April 2006. Each microsatellite of the joint Taiwan-US satellite constellation mission has a GPS occultation experiment (GOX) payload to operate the atmospheric and ionospheric radio occultation, a tiny ionospheric photometer (TIP) to observe the nighttime ionospheric airglow OI 135.6 nm emission, and a tri-band beacon (TBB) to tomographically estimate fine structures of ionospheric electron density on the satellite-to-receiver plane. While the GOX daily observes about 2500 vertical electron density profiles up to the satellite altitude, the TIP provides accurate horizontal gradients of nighttime electron density. In this study, anomalies in the ionospheric electron density structure and dynamics concurrently observed by FORMOSAT-3/COSMIC and co-located ground- based GPS receivers before recent large earthquakes are presented and discussed.

Improved scatter correction with factor analysis for planar and SPECT imaging

NASA Astrophysics Data System (ADS)

Knoll, Peter; Rahmim, Arman; Gültekin, Selma; Šámal, Martin; Ljungberg, Michael; Mirzaei, Siroos; Segars, Paul; Szczupak, Boguslaw

2017-09-01

Quantitative nuclear medicine imaging is an increasingly important frontier. In order to achieve quantitative imaging, various interactions of photons with matter have to be modeled and compensated. Although correction for photon attenuation has been addressed by including x-ray CT scans (accurate), correction for Compton scatter remains an open issue. The inclusion of scattered photons within the energy window used for planar or SPECT data acquisition decreases the contrast of the image. While a number of methods for scatter correction have been proposed in the past, in this work, we propose and assess a novel, user-independent framework applying factor analysis (FA). Extensive Monte Carlo simulations for planar and tomographic imaging were performed using the SIMIND software. Furthermore, planar acquisition of two Petri dishes filled with 99mTc solutions and a Jaszczak phantom study (Data Spectrum Corporation, Durham, NC, USA) using a dual head gamma camera were performed. In order to use FA for scatter correction, we subdivided the applied energy window into a number of sub-windows, serving as input data. FA results in two factor images (photo-peak, scatter) and two corresponding factor curves (energy spectra). Planar and tomographic Jaszczak phantom gamma camera measurements were recorded. The tomographic data (simulations and measurements) were processed for each angular position resulting in a photo-peak and a scatter data set. The reconstructed transaxial slices of the Jaszczak phantom were quantified using an ImageJ plugin. The data obtained by FA showed good agreement with the energy spectra, photo-peak, and scatter images obtained in all Monte Carlo simulated data sets. For comparison, the standard dual-energy window (DEW) approach was additionally applied for scatter correction. FA in comparison with the DEW method results in significant improvements in image accuracy for both planar and tomographic data sets. FA can be used as a user-independent approach for scatter correction in nuclear medicine.

Geophysical anomalies and quartz microstructures, Eastern Warburton Basin, North-east South Australia: Tectonic or impact shock metamorphic origin?

NASA Astrophysics Data System (ADS)

Glikson, Andrew Y.; Uysal, I. Tonguç; Fitz Gerald, John D.; Saygin, Erdinc

2013-03-01

The Eastern Warburton Basin, Northeast South Australia, features major geophysical anomalies, including a magnetic high of near-200 nT centred on a 25 km-wide magnetic low (< 100 nT), interpreted in terms of a magmatic body below 6 km depth. A distinct seismic tomographic low velocity anomaly may reflect its thick (9.5 km) sedimentary section, high temperatures and possible deep fracturing. Scanning electron microscope (SEM) analyses of granites resolves microbreccia veins consisting of micron-scale particles injected into resorbed quartz grains. Planar and sub-planar elements in quartz grains (Qz/PE) occur in granites, volcanics and sediments of the > 30,000 km-large Eastern Warburton Basin. The Qz/PE include multiple intersecting planar to curved sub-planar elements with relic lamellae less than 2 μm wide with spacing of 4-5 μm. Qz/PE are commonly re-deformed, displaying bent and wavy patterns accompanied with fluid inclusions. U-stage measurements of a total of 243 planar sets in 157 quartz grains indicate dominance of ∏{10-12}, ω{10-13} and subsidiary §{11-22}, {22-41}, m{10-11} and x{51-61} planes. Transmission Electron Microscopy (TEM) analysis displays relic narrow ≤ 1 μm-wide lamellae and relic non-sub grain boundaries where crystal segments maintain optical continuity. Extensive sericite alteration of feldspar suggests hydrothermal alteration to a depth of 500 m below the unconformity which overlies the Qz/PE-bearing Warburton Basin terrain. The data are discussed in terms of (A) Tectonic-metamorphic deformation and (B) impact shock metamorphism producing planar deformation features (Qz/PDF). Deformed Qz/PE are compared to re-deformed Qz/PDFs in the Sudbury, Vredefort, Manicouagan and Charlevoix impact structures. A 4-5 km uplift of the Big Lake Granite Suite during 298-295 Ma is consistent with missing of upper Ordovician to Devonian strata and possible impact rebound. The occurrence of circular seismic tomography anomalies below the east Warburton Basin, the Poolowana Basin and the Woodleigh impact structure signifies a potential diagnostic nature of circular tomographic anomalies.

An efficient and accurate approach to MTE-MART for time-resolved tomographic PIV

NASA Astrophysics Data System (ADS)

Lynch, K. P.; Scarano, F.

2015-03-01

The motion-tracking-enhanced MART (MTE-MART; Novara et al. in Meas Sci Technol 21:035401, 2010) has demonstrated the potential to increase the accuracy of tomographic PIV by the combined use of a short sequence of non-simultaneous recordings. A clear bottleneck of the MTE-MART technique has been its computational cost. For large datasets comprising time-resolved sequences, MTE-MART becomes unaffordable and has been barely applied even for the analysis of densely seeded tomographic PIV datasets. A novel implementation is proposed for tomographic PIV image sequences, which strongly reduces the computational burden of MTE-MART, possibly below that of regular MART. The method is a sequential algorithm that produces a time-marching estimation of the object intensity field based on an enhanced guess, which is built upon the object reconstructed at the previous time instant. As the method becomes effective after a number of snapshots (typically 5-10), the sequential MTE-MART (SMTE) is most suited for time-resolved sequences. The computational cost reduction due to SMTE simply stems from the fewer MART iterations required for each time instant. Moreover, the method yields superior reconstruction quality and higher velocity field measurement precision when compared with both MART and MTE-MART. The working principle is assessed in terms of computational effort, reconstruction quality and velocity field accuracy with both synthetic time-resolved tomographic images of a turbulent boundary layer and two experimental databases documented in the literature. The first is the time-resolved data of flow past an airfoil trailing edge used in the study of Novara and Scarano (Exp Fluids 52:1027-1041, 2012); the second is a swirling jet in a water flow. In both cases, the effective elimination of ghost particles is demonstrated in number and intensity within a short temporal transient of 5-10 frames, depending on the seeding density. The increased value of the velocity space-time correlation coefficient demonstrates the increased velocity field accuracy of SMTE compared with MART.

System and method for generating motion corrected tomographic images

DOEpatents

Gleason, Shaun S [Knoxville, TN; Goddard, Jr., James S.

2012-05-01

A method and related system for generating motion corrected tomographic images includes the steps of illuminating a region of interest (ROI) to be imaged being part of an unrestrained live subject and having at least three spaced apart optical markers thereon. Simultaneous images are acquired from a first and a second camera of the markers from different angles. Motion data comprising 3D position and orientation of the markers relative to an initial reference position is then calculated. Motion corrected tomographic data obtained from the ROI using the motion data is then obtained, where motion corrected tomographic images obtained therefrom.

Optical tomographic memories: algorithms for the efficient information readout

NASA Astrophysics Data System (ADS)

Pantelic, Dejan V.

1990-07-01

Tomographic alogithms are modified in order to reconstruct the inf ormation previously stored by focusing laser radiation in a volume of photosensitive media. Apriori information about the position of bits of inf ormation is used. 1. THE PRINCIPLES OF TOMOGRAPHIC MEMORIES Tomographic principles can be used to store and reconstruct the inf ormation artificially stored in a bulk of a photosensitive media 1 The information is stored by changing some characteristics of a memory material (e. g. refractive index). Radiation from the two independent light sources (e. g. lasers) is f ocused inside the memory material. In this way the intensity of the light is above the threshold only in the localized point where the light rays intersect. By scanning the material the information can be stored in binary or nary format. When the information is stored it can be read by tomographic methods. However the situation is quite different from the classical tomographic problem. Here a lot of apriori information is present regarding the p0- sitions of the bits of information profile representing single bit and a mode of operation (binary or n-ary). 2. ALGORITHMS FOR THE READOUT OF THE TOMOGRAPHIC MEMORIES Apriori information enables efficient reconstruction of the memory contents. In this paper a few methods for the information readout together with the simulation results will be presented. Special attention will be given to the noise considerations. Two different

Recovering fine details from under-resolved electron tomography data using higher order total variation ℓ 1 regularization

DOE PAGES

Sanders, Toby; Gelb, Anne; Platte, Rodrigo B.; ...

2017-01-03

Over the last decade or so, reconstruction methods using ℓ 1 regularization, often categorized as compressed sensing (CS) algorithms, have significantly improved the capabilities of high fidelity imaging in electron tomography. The most popular ℓ 1 regularization approach within electron tomography has been total variation (TV) regularization. In addition to reducing unwanted noise, TV regularization encourages a piecewise constant solution with sparse boundary regions. In this paper we propose an alternative ℓ 1 regularization approach for electron tomography based on higher order total variation (HOTV). Like TV, the HOTV approach promotes solutions with sparse boundary regions. In smooth regions however,more » the solution is not limited to piecewise constant behavior. We demonstrate that this allows for more accurate reconstruction of a broader class of images – even those for which TV was designed for – particularly when dealing with pragmatic tomographic sampling patterns and very fine image features. In conclusion, we develop results for an electron tomography data set as well as a phantom example, and we also make comparisons with discrete tomography approaches.« less

Laboratory-size three-dimensional water-window x-ray microscope with Wolter type I mirror optics

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

Ohsuka, Shinji; The Graduate School for the Creation of New Photonics Industries, 1955-1 Kurematsu-cho, Nishi-ku, Hamamatsu-City, 431-1202; Ohba, Akira

2016-01-28

We constructed a laboratory-size three-dimensional water-window x-ray microscope that combines wide-field transmission x-ray microscopy with tomographic reconstruction techniques. It consists of an electron-impact x-ray source emitting oxygen Kα x-rays, Wolter type I grazing incidence mirror optics, and a back-illuminated CCD for x-ray imaging. A spatial resolution limit better than 1.0 line pairs per micrometer was obtained for two-dimensional transmission images, and 1-μm-scale three-dimensional fine structures were resolved.

Progress Report for the Joint Services Electronics Program

DTIC Science & Technology

1989-06-30

Science L-Iaboratorv I 64 [10] 0 Arikan and D. C. Munson. Jr., "A Tomographic formulation of bistatic synthetic aperture radar," in Proc. 1988 Int. Conf...Advances in Commun Contr. Syst., vol. 1, Baton Rouge, LA, Oct. 19-21, 1988, pp 418-431. (ARO) [11] O Arikan and D C. Munson, Jr. "A new back...Angeles, CA, Jan. 15-20, 1989. (ARO) [12] C. Arikan and D. C. Munson, Jr., "Further results on a new 0(N-logN) algorithm for spotlight- mode SAR,’ in

Organ dose assessment in pediatric fluoroscopy and CT via a tomographic computational phantom of the newborn patient

NASA Astrophysics Data System (ADS)

Staton, Robert J.

Of the various types of imaging modalities used in pediatric radiology, fluoroscopy and computed tomography (CT) have the highest associated radiation dose. While these examinations are commonly used for pediatric patients, little data exists on the magnitude of the organ and effective dose values for these procedures. Calculation of these dose values is necessary because of children's increased sensitivity to radiation and their long life expectancy for which to express radiation's latent effects. In this study, a newborn tomographic phantom has been implemented in a radiation transport code to evaluate organ and effective doses for newborn patients in commonly performed fluoroscopy and CT examinations. Organ doses were evaluated for voiding cystourethrogram (VCUG) fluoroscopy studies of infant patients. Time-sequence analysis was performed for videotaped VCUG studies of five different patients. Organ dose values were then estimated for each patient through Monte Carlo (MC) simulations. The effective dose values of the VCUG examination for five patients ranged from 0.6 mSv to 3.2 mSv, with a mean of 1.8 +/- 0.9 mSv. Organ doses were also assessed for infant upper gastrointestinal (UGI) fluoroscopy exams. The effective dose values of the UGI examinations for five patients ranged from 1.05 mSv to 5.92 mSv, with a mean of 2.90 +/- 1.97 mSv. MC simulations of helical multislice CT (MSCT) exams were also completed using, the newborn tomographic phantom and a stylized newborn phantom. The helical path of the source, beam shaping filter, beam profile, patient table, were all included in the MC simulations of the helical MSCT scanner. Organ doses and effective doses and their dependence on scan parameters were evaluated for newborn patients. For all CT scans, the effective dose was found to range approximately 1-13 mSv, with the largest values occurring for CAP scans. Tube current modulation strategies to reduce patient dose were also evaluated for newborn patients. Overall, utilization of the newborn tomographic phantom in MC simulations has shown the need for and usefulness of pediatric tomographic phantoms. The newborn tomographic model has shown more versatility and realistic anatomical modeling when compared to the existing stylized newborn phantom. This work has provided important organ dose data for infant patients in common examinations in pediatric radiology.

Post-processing methods of rendering and visualizing 3-D reconstructed tomographic images

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

Wong, S.T.C.

The purpose of this presentation is to discuss the computer processing techniques of tomographic images, after they have been generated by imaging scanners, for volume visualization. Volume visualization is concerned with the representation, manipulation, and rendering of volumetric data. Since the first digital images were produced from computed tomography (CT) scanners in the mid 1970s, applications of visualization in medicine have expanded dramatically. Today, three-dimensional (3D) medical visualization has expanded from using CT data, the first inherently digital source of 3D medical data, to using data from various medical imaging modalities, including magnetic resonance scanners, positron emission scanners, digital ultrasound,more » electronic and confocal microscopy, and other medical imaging modalities. We have advanced from rendering anatomy to aid diagnosis and visualize complex anatomic structures to planning and assisting surgery and radiation treatment. New, more accurate and cost-effective procedures for clinical services and biomedical research have become possible by integrating computer graphics technology with medical images. This trend is particularly noticeable in current market-driven health care environment. For example, interventional imaging, image-guided surgery, and stereotactic and visualization techniques are now stemming into surgical practice. In this presentation, we discuss only computer-display-based approaches of volumetric medical visualization. That is, we assume that the display device available is two-dimensional (2D) in nature and all analysis of multidimensional image data is to be carried out via the 2D screen of the device. There are technologies such as holography and virtual reality that do provide a {open_quotes}true 3D screen{close_quotes}. To confine the scope, this presentation will not discuss such approaches.« less

Understanding External Cervical Resorption in Vital Teeth.

PubMed

Mavridou, Athina M; Hauben, Esther; Wevers, Martine; Schepers, Evert; Bergmans, Lars; Lambrechts, Paul

2016-12-01

The aim of this study was to investigate the 3-dimensional (3D) structure and the cellular and tissue characteristics of external cervical resorption (ECR) in vital teeth and to understand the phenomenon of ECR by combining histomorphological and radiographic findings. Twenty-seven cases of vital permanent teeth displaying ECR were investigated. ECR diagnosis was based on clinical and radiographic examination with cone-beam computed tomographic imaging. The extracted teeth were further analyzed by using nanofocus computed tomographic imaging, hard tissue histology, and scanning electron microscopy. All examined teeth showed some common characteristics. Based on the clinical and experimental findings, a 3-stage mechanism of ECR was proposed. At the first stage (ie, the initiation stage), ECR was initiated at the cementum below the gingival epithelial attachment. At the second stage (ie, the resorption stage), the resorption invaded the tooth structure 3-dimensionally toward the pulp space. However, it did not penetrate the pulp space because of the presence of a pericanalar resorption-resistant sheet. This layer was observed to consist of predentin, dentin, and occasionally reparative mineralized (bonelike) tissue, having a fluctuating thickness averaging 210 μm. At the last advanced stage (ie, the repair stage), repair took place by an ingrowth and apposition of bonelike tissue into the resorption cavity. During the reparative stage, repair and remodeling phenomena evolve simultaneously, whereas both resorption and reparative stages progress in parallel at different areas of the tooth. ECR is a dynamic and complex condition that involves periodontal and endodontic tissues. Using clinical, histologic, radiographic, and scanning microscopic analysis, a better understanding of the evolution of ECR is possible. Based on the experimental findings, a 3-stage mechanism for the initiation and growth of ECR is proposed. Copyright © 2016 American Association of Endodontists. Published by Elsevier Inc. All rights reserved.

HFSB-seeding for large-scale tomographic PIV in wind tunnels

NASA Astrophysics Data System (ADS)

Caridi, Giuseppe Carlo Alp; Ragni, Daniele; Sciacchitano, Andrea; Scarano, Fulvio

2016-12-01

A new system for large-scale tomographic particle image velocimetry in low-speed wind tunnels is presented. The system relies upon the use of sub-millimetre helium-filled soap bubbles as flow tracers, which scatter light with intensity several orders of magnitude higher than micron-sized droplets. With respect to a single bubble generator, the system increases the rate of bubbles emission by means of transient accumulation and rapid release. The governing parameters of the system are identified and discussed, namely the bubbles production rate, the accumulation and release times, the size of the bubble injector and its location with respect to the wind tunnel contraction. The relations between the above parameters, the resulting spatial concentration of tracers and measurement of dynamic spatial range are obtained and discussed. Large-scale experiments are carried out in a large low-speed wind tunnel with 2.85 × 2.85 m2 test section, where a vertical axis wind turbine of 1 m diameter is operated. Time-resolved tomographic PIV measurements are taken over a measurement volume of 40 × 20 × 15 cm3, allowing the quantitative analysis of the tip-vortex structure and dynamical evolution.

Skull deformations in craniosynostosis and endocrine disorders: morphological and tomographic analysis of the skull from the crypt of the Silesian Piasts in Brzeg (16th-17th century), Poland.

PubMed

Kozłowski, T; Cybulska, M; Błaszczyk, B; Krajewska, M; Jeśman, C

2014-10-01

of morphological and tomographic (CT) studies of the skull that was found in the crypt of the Silesian Piasts in the St. Jadwiga church in Brzeg (Silesia, Poland) are presented and discussed here. The established date of burial of probably a 20-30 years old male was 16th-17th century. The analyzed skull showed premature obliteration of the major skull sutures. It resulted in the braincase deformation, similar to the forms found in oxycephaly and microcephaly. Tomographic analysis revealed gross pathology. Signs of increased intracranial pressure, basilar invagination and hypoplasia of the occipital bone were observed. Those results suggested the occurrence of the very rare Arnold-Chiari syndrome. Lesions found in the sella turcica indicated the development of pituitary macroadenoma, which resulted in the occurrence of discreet features of acromegaly in the facial bones. The studied skull was characterized by a significantly smaller size of the neurocranium (horizontal circumference 471 mm, cranial capacity ∼ 1080 ml) and strongly expressed brachycephaly (cranial index=86.3), while its height remained within the range for non-deformed skulls. A narrow face, high eye-sockets and prognathism were also observed. Signs of alveolar process hypertrophy with rotation and displacement of the teeth were noted. The skull showed significant morphological differences compared to both normal and other pathological skulls such as those with pituitary gigantism, scaphocephaly and microcephaly. Copyright © 2014 Elsevier GmbH. All rights reserved.

Effect of Donepezil on Wernicke Aphasia After Bilateral Middle Cerebral Artery Infarction: Subtraction Analysis of Brain F-18 Fluorodeoxyglucose Positron Emission Tomographic Images.

PubMed

Yoon, Seo Yeon; Kim, Je-Kyung; An, Young-Sil; Kim, Yong Wook

2015-01-01

Aphasia is one of the most common neurologic deficits occurring after stroke. Although the speech-language therapy is a mainstream option for poststroke aphasia, pharmacotherapy is recently being tried to modulate different neurotransmitter systems. However, the efficacy of those treatments is still controversial. We present a case of a 53-year-old female patient with Wernicke aphasia, after the old infarction in the territory of left middle cerebral artery for 8 years and the recent infarction in the right middle cerebral artery for 4 months. On the initial evaluation, the Aphasia Quotient in Korean version of the Western Aphasia Battery was 25.6 of 100. Baseline brain F-18 fluorodeoxyglucose positron emission tomographic images demonstrated a decreased cerebral metabolism in the left temporoparietal area and right temporal lobe. Donepezil hydrochloride, a reversible acetylcholinesterase inhibitor, was orally administered 5 mg/d for 6 weeks after the initial evaluation and was increased to 10 mg/d for the following 6 weeks. After the donepezil treatment, the patient showed improvement in language function, scoring 51.0 of 100 on Aphasia Quotient. A subtraction analysis of the brain F-18 fluorodeoxyglucose positron emission tomographic images after donepezil medication demonstrated increased uptake in both middle temporal gyri, extended to the occipital area and the left cerebellum. Thus, we suggest that donepezil can be an effective therapeutic choice for the treatment of Wernicke aphasia.

Assessment of crustal velocity models using seismic refraction and reflection tomography

NASA Astrophysics Data System (ADS)

Zelt, Colin A.; Sain, Kalachand; Naumenko, Julia V.; Sawyer, Dale S.

2003-06-01

Two tomographic methods for assessing velocity models obtained from wide-angle seismic traveltime data are presented through four case studies. The modelling/inversion of wide-angle traveltimes usually involves some aspects that are quite subjective. For example: (1) identifying and including later phases that are often difficult to pick within the seismic coda, (2) assigning specific layers to arrivals, (3) incorporating pre-conceived structure not specifically required by the data and (4) selecting a model parametrization. These steps are applied to maximize model constraint and minimize model non-uniqueness. However, these steps may cause the overall approach to appear ad hoc, and thereby diminish the credibility of the final model. The effect of these subjective choices can largely be addressed by estimating the minimum model structure required by the least subjective portion of the wide-angle data set: the first-arrival times. For data sets with Moho reflections, the tomographic velocity model can be used to invert the PmP times for a minimum-structure Moho. In this way, crustal velocity and Moho models can be obtained that require the least amount of subjective input, and the model structure that is required by the wide-angle data with a high degree of certainty can be differentiated from structure that is merely consistent with the data. The tomographic models are not intended to supersede the preferred models, since the latter model is typically better resolved and more interpretable. This form of tomographic assessment is intended to lend credibility to model features common to the tomographic and preferred models. Four case studies are presented in which a preferred model was derived using one or more of the subjective steps described above. This was followed by conventional first-arrival and reflection traveltime tomography using a finely gridded model parametrization to derive smooth, minimum-structure models. The case studies are from the SE Canadian Cordillera across the Rocky Mountain Trench, central India across the Narmada-Son lineament, the Iberia margin across the Galicia Bank, and the central Chilean margin across the Valparaiso Basin and a subducting seamount. These case studies span the range of modern wide-angle experiments and data sets in terms of shot-receiver spacing, marine and land acquisition, lateral heterogeneity of the study area, and availability of wide-angle reflections and coincident near-vertical reflection data. The results are surprising given the amount of structure in the smooth, tomographically derived models that is consistent with the more subjectively derived models. The results show that exploiting the complementary nature of the subjective and tomographic approaches is an effective strategy for the analysis of wide-angle traveltime data.

Diffuse Optical Tomography for Brain Imaging: Continuous Wave Instrumentation and Linear Analysis Methods

NASA Astrophysics Data System (ADS)

Giacometti, Paolo; Diamond, Solomon G.

Diffuse optical tomography (DOT) is a functional brain imaging technique that measures cerebral blood oxygenation and blood volume changes. This technique is particularly useful in human neuroimaging measurements because of the coupling between neural and hemodynamic activity in the brain. DOT is a multichannel imaging extension of near-infrared spectroscopy (NIRS). NIRS uses laser sources and light detectors on the scalp to obtain noninvasive hemodynamic measurements from spectroscopic analysis of the remitted light. This review explains how NIRS data analysis is performed using a combination of the modified Beer-Lambert law (MBLL) and the diffusion approximation to the radiative transport equation (RTE). Laser diodes, photodiode detectors, and optical terminals that contact the scalp are the main components in most NIRS systems. Placing multiple sources and detectors over the surface of the scalp allows for tomographic reconstructions that extend the individual measurements of NIRS into DOT. Mathematically arranging the DOT measurements into a linear system of equations that can be inverted provides a way to obtain tomographic reconstructions of hemodynamics in the brain.

Steady shape analysis of tomographic pumping tests for characterization of aquifer heterogeneities

USGS Publications Warehouse

Bohling, Geoffrey C.; Zhan, Xiaoyong; Butler, James J.; Zheng, Li

2002-01-01

Hydraulic tomography, a procedure involving the performance of a suite of pumping tests in a tomographic format, provides information about variations in hydraulic conductivity at a level of detail not obtainable with traditional well tests. However, analysis of transient data from such a suite of pumping tests represents a substantial computational burden. Although steady state responses can be analyzed to reduce this computational burden significantly, the time required to reach steady state will often be too long for practical applications of the tomography concept. In addition, uncertainty regarding the mechanisms driving the system to steady state can propagate to adversely impact the resulting hydraulic conductivity estimates. These disadvantages of a steady state analysis can be overcome by exploiting the simplifications possible under the steady shape flow regime. At steady shape conditions, drawdown varies with time but the hydraulic gradient does not. Thus transient data can be analyzed with the computational efficiency of a steady state model. In this study, we demonstrate the value of the steady shape concept for inversion of hydraulic tomography data and investigate its robustness with respect to improperly specified boundary conditions.

Modified Faraday cup

DOEpatents

Elmer, John W.; Teruya, Alan T.; O'Brien, Dennis W.

1996-01-01

A tomographic technique for measuring the current density distribution in electron beams using electron beam profile data acquired from a modified Faraday cup to create an image of the current density in high and low power beams. The modified Faraday cup includes a narrow slit and is rotated by a stepper motor and can be moved in the x, y and z directions. The beam is swept across the slit perpendicular thereto and controlled by deflection coils, and the slit rotated such that waveforms are taken every few degrees form 0.degree. to 360.degree. and the waveforms are recorded by a digitizing storage oscilloscope. Two-din-tensional and three-dimensional images of the current density distribution in the beam can be reconstructed by computer tomography from this information, providing quantitative information about the beam focus and alignment.

New developments in multimodal clinical multiphoton tomography

NASA Astrophysics Data System (ADS)

König, Karsten

2011-03-01

80 years ago, the PhD student Maria Goeppert predicted in her thesis in Goettingen, Germany, two-photon effects. It took 30 years to prove her theory, and another three decades to realize the first two-photon microscope. With the beginning of this millennium, first clinical multiphoton tomographs started operation in research institutions, hospitals, and in the cosmetic industry. The multiphoton tomograph MPTflexTM with its miniaturized flexible scan head became the Prism-Award 2010 winner in the category Life Sciences. Multiphoton tomographs with its superior submicron spatial resolution can be upgraded to 5D imaging tools by adding spectral time-correlated single photon counting units. Furthermore, multimodal hybrid tomographs provide chemical fingerprinting and fast wide-field imaging. The world's first clinical CARS studies have been performed with a hybrid multimodal multiphoton tomograph in spring 2010. In particular, nonfluorescent lipids and water as well as mitochondrial fluorescent NAD(P)H, fluorescent elastin, keratin, and melanin as well as SHG-active collagen have been imaged in patients with dermatological disorders. Further multimodal approaches include the combination of multiphoton tomographs with low-resolution imaging tools such as ultrasound, optoacoustic, OCT, and dermoscopy systems. Multiphoton tomographs are currently employed in Australia, Japan, the US, and in several European countries for early diagnosis of skin cancer (malignant melanoma), optimization of treatment strategies (wound healing, dermatitis), and cosmetic research including long-term biosafety tests of ZnO sunscreen nanoparticles and the measurement of the stimulated biosynthesis of collagen by anti-ageing products.

Quantitative Cryo-Scanning Transmission Electron Microscopy of Biological Materials.

PubMed

Elbaum, Michael

2018-05-11

Electron tomography provides a detailed view into the 3D structure of biological cells and tissues. Physical fixation by vitrification of the aqueous medium provides the most faithful preservation of biological specimens in the native, fully hydrated state. Cryo-microscopy is challenging, however, because of the sensitivity to electron irradiation and due to the weak electron scattering of organic material. Tomography is even more challenging because of the dependence on multiple exposures of the same area. Tomographic imaging is typically performed in wide-field transmission electron microscopy (TEM) mode with phase contrast generated by defocus. Scanning transmission electron microscopy (STEM) is an alternative mode based on detection of scattering from a focused probe beam, without imaging optics following the specimen. While careful configuration of the illumination and detectors is required to generate useful contrast, STEM circumvents the major restrictions of phase contrast TEM to very thin specimens and provides a signal that is more simply interpreted in terms of local composition and density. STEM has gained popularity in recent years for materials science. The extension of STEM to cryomicroscopy and tomography of cells and macromolecules is summarized herein. © 2018 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

Imaging Coronal Mass Ejections and Large-Scale Solar Wind Structure Using IPS and Thomson-Scattered Sunlight (Invited)

NASA Astrophysics Data System (ADS)

Clover, J. M.; Jackson, B. V.; Buffington, A.; Hick, P. P.; Bisi, M. M.; Tokumaru, M.; Fujiki, K.

2010-12-01

The Solar Mass Ejection Imager (SMEI) observes Thomson-scattered white light from heliospheric electrons across almost all of the sky nearly all of the time since early 2003. Interplanetary scintillation (IPS) observations of velocity and g-level provide similar structure information but with a less-complete sky-and-time coverage. The Solar TErrestrial RElations Observatory (STEREO) twin spacecraft outer Heliospheric Imagers (HI-2) currently image the heliosphere in Thomson-scattered light near the ecliptic plane far from Earth. The Solar-Terrestrial Environment Laboratory (STELab) IPS observations provide IPS velocity and g-level values, which in conjunction with our tomographic reconstruction program, yield velocities and densities of the inner heliosphere in three dimensions. The same tomographic program substitutes SMEI Thomson-scattering brightness information for the g-level values to derive heliospheric densities from these data alone. We look at the global structure of the heliosphere concentrating mainly on three events from 2007 through the rise phase of Solar Cycle 24. The first event, observed in both the IPS and SMEI defines the three-dimensional velocity and density structure around the time of the shock observed at Earth on 02:02 UT 17 December 2007. The second event, seen only by SMEI, is that of the 23-26 April 2008 coronal mass ejection (CME) and its interplanetary counterpart. The third event is the CME (and its interplanetary counterpart) that took place 17 January 2010 and arrived at STEREO-B about four days later. For each event, we isolate the particular portion of the heliosphere attributed to the transient density structure using our tomographic technique, and then estimate its extent.

SXR measurement and W transport survey using GEM tomographic system on WEST

NASA Astrophysics Data System (ADS)

Mazon, D.; Jardin, A.; Malard, P.; Chernyshova, M.; Coston, C.; Malard, P.; O'Mullane, M.; Czarski, T.; Malinowski, K.; Faisse, F.; Ferlay, F.; Verger, J. M.; Bec, A.; Larroque, S.; Kasprowicz, G.; Wojenski, A.; Pozniak, K.

2017-11-01

Measuring Soft X-Ray (SXR) radiation (0.1-20 keV) of fusion plasmas is a standard way of accessing valuable information on particle transport. Since heavy impurities like tungsten (W) could degrade plasma core performances and cause radiative collapses, it is necessary to develop new diagnostics to be able to monitor the impurity distribution in harsh fusion environments like ITER. A gaseous detector with energy discrimination would be a very good candidate for this purpose. The design and implementation of a new SXR diagnostic developed for the WEST project, based on a triple Gas Electron Multiplier (GEM) detector is presented. This detector works in photon counting mode and presents energy discrimination capabilities. The SXR system is composed of two 1D cameras (vertical and horizontal views respectively), located in the same poloidal cross-section to allow for tomographic reconstruction. An array (20 cm × 2 cm) consists of up to 128 detectors in front of a beryllium pinhole (equipped with a 1 mm diameter diaphragm) inserted at about 50 cm depth inside a cooled thimble in order to retrieve a wide plasma view. Acquisition of low energy spectrum is insured by a helium buffer installed between the pinhole and the detector. Complementary cooling systems (water) are used to maintain a constant temperature (25oC) inside the thimble. Finally a real-time automatic extraction system has been developed to protect the diagnostic during baking phases or any overheating unwanted events. Preliminary simulations of plasma emissivity and W distribution have been performed for WEST using a recently developed synthetic diagnostic coupled to a tomographic algorithm based on the minimum Fisher information (MFI) inversion method. First GEM acquisitions are presented as well as estimation of transport effect in presence of ICRH on W density reconstruction capabilities of the GEM.

Data analysis in emission tomography using emission-count posteriors

NASA Astrophysics Data System (ADS)

Sitek, Arkadiusz

2012-11-01

A novel approach to the analysis of emission tomography data using the posterior probability of the number of emissions per voxel (emission count) conditioned on acquired tomographic data is explored. The posterior is derived from the prior and the Poisson likelihood of the emission-count data by marginalizing voxel activities. Based on emission-count posteriors, examples of Bayesian analysis including estimation and classification tasks in emission tomography are provided. The application of the method to computer simulations of 2D tomography is demonstrated. In particular, the minimum-mean-square-error point estimator of the emission count is demonstrated. The process of finding this estimator can be considered as a tomographic image reconstruction technique since the estimates of the number of emissions per voxel divided by voxel sensitivities and acquisition time are the estimates of the voxel activities. As an example of a classification task, a hypothesis stating that some region of interest (ROI) emitted at least or at most r-times the number of events in some other ROI is tested. The ROIs are specified by the user. The analysis described in this work provides new quantitative statistical measures that can be used in decision making in diagnostic imaging using emission tomography.

LIFDAR: A Diagnostic Tool for the Ionosphere

NASA Astrophysics Data System (ADS)

Kia, O. E.; Rodgers, C. T.; Batholomew, J. L.

2011-12-01

ITT Corporation proposes a novel system to measure and monitor the ion species within the Earth's ionosphere called Laser Induced Fluorescence Detection and Ranging (LIFDAR). Unlike current ionosphere measurements that detect electrons and magnetic field, LIFDAR remotely measures the major contributing ion species to the electron plasma. The LIFDAR dataset has the added capability to demonstrate stratification and classification of the layers of the ionosphere to ultimately give a true tomographic view. We propose a proof of concept study using existing atmospheric LIDAR sensors combined with a mountaintop observatory for a single ion species that is prevalent in all layers of the atmosphere. We envision the LIFDAR concept will enable verification, validation, and exploration of the physics of the magneto-hydrodynamic models used in ionosphere forecasting community. The LIFDAR dataset will provide the necessary ion and electron density data for the system wide data gap. To begin a proof of concept, we present the science justification of the LIFDAR system based on the model photon budget. This analysis is based on the fluorescence of ionized oxygen within the ionosphere versus altitude. We use existing model abundance data of the ionosphere during normal and perturbed states. We propagate the photon uncertainties from the laser source through the atmosphere to the plasma and back to the collecting optics and detector. We calculate the expected photon budget to determine signal to noise estimates based on the targeted altitude and detection efficiency. Finally, we use these results to derive a LIFDAR observation strategy compatible with operational parameters.

Unique thylakoid membrane architecture of a unicellular N2-fixing cyanobacterium revealed by electron tomography.

PubMed

Liberton, Michelle; Austin, Jotham R; Berg, R Howard; Pakrasi, Himadri B

2011-04-01

Cyanobacteria, descendants of the endosymbiont that gave rise to modern-day chloroplasts, are vital contributors to global biological energy conversion processes. A thorough understanding of the physiology of cyanobacteria requires detailed knowledge of these organisms at the level of cellular architecture and organization. In these prokaryotes, the large membrane protein complexes of the photosynthetic and respiratory electron transport chains function in the intracellular thylakoid membranes. Like plants, the architecture of the thylakoid membranes in cyanobacteria has direct impact on cellular bioenergetics, protein transport, and molecular trafficking. However, whole-cell thylakoid organization in cyanobacteria is not well understood. Here we present, by using electron tomography, an in-depth analysis of the architecture of the thylakoid membranes in a unicellular cyanobacterium, Cyanothece sp. ATCC 51142. Based on the results of three-dimensional tomographic reconstructions of near-entire cells, we determined that the thylakoids in Cyanothece 51142 form a dense and complex network that extends throughout the entire cell. This thylakoid membrane network is formed from the branching and splitting of membranes and encloses a single lumenal space. The entire thylakoid network spirals as a peripheral ring of membranes around the cell, an organization that has not previously been described in a cyanobacterium. Within the thylakoid membrane network are areas of quasi-helical arrangement with similarities to the thylakoid membrane system in chloroplasts. This cyanobacterial thylakoid arrangement is an efficient means of packing a large volume of membranes in the cell while optimizing intracellular transport and trafficking.

Design and initial performance of PlanTIS: a high-resolution positron emission tomograph for plants

NASA Astrophysics Data System (ADS)

Beer, S.; Streun, M.; Hombach, T.; Buehler, J.; Jahnke, S.; Khodaverdi, M.; Larue, H.; Minwuyelet, S.; Parl, C.; Roeb, G.; Schurr, U.; Ziemons, K.

2010-02-01

Positron emitters such as 11C, 13N and 18F and their labelled compounds are widely used in clinical diagnosis and animal studies, but can also be used to study metabolic and physiological functions in plants dynamically and in vivo. A very particular tracer molecule is 11CO2 since it can be applied to a leaf as a gas. We have developed a Plant Tomographic Imaging System (PlanTIS), a high-resolution PET scanner for plant studies. Detectors, front-end electronics and data acquisition architecture of the scanner are based on the ClearPET™ system. The detectors consist of LSO and LuYAP crystals in phoswich configuration which are coupled to position-sensitive photomultiplier tubes. Signals are continuously sampled by free running ADCs, and data are stored in a list mode format. The detectors are arranged in a horizontal plane to allow the plants to be measured in the natural upright position. Two groups of four detector modules stand face-to-face and rotate around the field-of-view. This special system geometry requires dedicated image reconstruction and normalization procedures. We present the initial performance of the detector system and first phantom and plant measurements.

Design and initial performance of PlanTIS: a high-resolution positron emission tomograph for plants.

PubMed

Beer, S; Streun, M; Hombach, T; Buehler, J; Jahnke, S; Khodaverdi, M; Larue, H; Minwuyelet, S; Parl, C; Roeb, G; Schurr, U; Ziemons, K

2010-02-07

Positron emitters such as (11)C, (13)N and (18)F and their labelled compounds are widely used in clinical diagnosis and animal studies, but can also be used to study metabolic and physiological functions in plants dynamically and in vivo. A very particular tracer molecule is (11)CO(2) since it can be applied to a leaf as a gas. We have developed a Plant Tomographic Imaging System (PlanTIS), a high-resolution PET scanner for plant studies. Detectors, front-end electronics and data acquisition architecture of the scanner are based on the ClearPET system. The detectors consist of LSO and LuYAP crystals in phoswich configuration which are coupled to position-sensitive photomultiplier tubes. Signals are continuously sampled by free running ADCs, and data are stored in a list mode format. The detectors are arranged in a horizontal plane to allow the plants to be measured in the natural upright position. Two groups of four detector modules stand face-to-face and rotate around the field-of-view. This special system geometry requires dedicated image reconstruction and normalization procedures. We present the initial performance of the detector system and first phantom and plant measurements.

Comparison between the analysis of the loudness dependency of the auditory N1/P2 component with LORETA and dipole source analysis in the prediction of treatment response to the selective serotonin reuptake inhibitor citalopram in major depression.

PubMed

Mulert, C; Juckel, G; Augustin, H; Hegerl, U

2002-10-01

The loudness dependency of the auditory evoked potentials (LDAEP) is used as an indicator of the central serotonergic system and predicts clinical response to serotonin agonists. So far, LDAEP has been typically investigated with dipole source analysis, because with this method the primary and secondary auditory cortex (with a high versus low serotonergic innervation) can be separated at least in parts. We have developed a new analysis procedure that uses an MRI probabilistic map of the primary auditory cortex in Talairach space and analyzed the current density in this region of interest with low resolution electromagnetic tomography (LORETA). LORETA is a tomographic localization method that calculates the current density distribution in Talairach space. In a group of patients with major depression (n=15), this new method can predict the response to an selective serotonin reuptake inhibitor (citalopram) at least to the same degree than the traditional dipole source analysis method (P=0.019 vs. P=0.028). The correlation of the improvement in the Hamilton Scale is significant with the LORETA-LDAEP-values (0.56; P=0.031) but not with the dipole source analysis LDAEP-values (0.43; P=0.11). The new tomographic LDAEP analysis is a promising tool in the analysis of the central serotonergic system.

Measuring the lensing potential with tomographic galaxy number counts

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

Montanari, Francesco; Durrer, Ruth, E-mail: francesco.montanari@unige.ch, E-mail: ruth.durrer@unige.ch

2015-10-01

We investigate how the lensing potential can be measured tomographically with future galaxy surveys using their number counts. Such a measurement is an independent test of the standard ΛCDM framework and can be used to discern modified theories of gravity. We perform a Fisher matrix forecast based on galaxy angular-redshift power spectra, assuming specifications consistent with future photometric Euclid-like surveys and spectroscopic SKA-like surveys. For the Euclid-like survey we derive a fitting formula for the magnification bias. Our analysis suggests that the cross correlation between different redshift bins is very sensitive to the lensing potential such that the survey canmore » measure the amplitude of the lensing potential at the same level of precision as other standard ΛCDM cosmological parameters.« less

On the feasibility of tomographic-PIV with low pulse energy illumination in a lifted turbulent jet flame

NASA Astrophysics Data System (ADS)

Boxx, I.; Carter, C. D.; Meier, W.

2014-08-01

Tomographic particle image velocimetry (tomographic-PIV) is a recently developed measurement technique used to acquire volumetric velocity field data in liquid and gaseous flows. The technique relies on line-of-sight reconstruction of the rays between a 3D particle distribution and a multi-camera imaging system. In a turbulent flame, however, index-of-refraction variations resulting from local heat-release may inhibit reconstruction and thereby render the technique infeasible. The objective of this study was to test the efficacy of tomographic-PIV in a turbulent flame. An additional goal was to determine the feasibility of acquiring usable tomographic-PIV measurements in a turbulent flame at multi-kHz acquisition rates with current-generation laser and camera technology. To this end, a setup consisting of four complementary metal oxide semiconductor cameras and a dual-cavity Nd:YAG laser was implemented to test the technique in a lifted turbulent jet flame. While the cameras were capable of kHz-rate image acquisition, the laser operated at a pulse repetition rate of only 10 Hz. However, use of this laser allowed exploration of the required pulse energy and thus power for a kHz-rate system. The imaged region was 29 × 28 × 2.7 mm in size. The tomographic reconstruction of the 3D particle distributions was accomplished using the multiplicative algebraic reconstruction technique. The results indicate that volumetric velocimetry via tomographic-PIV is feasible with pulse energies of 25 mJ, which is within the capability of current-generation kHz-rate diode-pumped solid-state lasers.

Large-scale tomographic particle image velocimetry using helium-filled soap bubbles

NASA Astrophysics Data System (ADS)

Kühn, Matthias; Ehrenfried, Klaus; Bosbach, Johannes; Wagner, Claus

2011-04-01

To measure large-scale flow structures in air, a tomographic particle image velocimetry (tomographic PIV) system for measurement volumes of the order of one cubic metre is developed, which employs helium-filled soap bubbles (HFSBs) as tracer particles. The technique has several specific characteristics compared to most conventional tomographic PIV systems, which are usually applied to small measurement volumes. One of them is spot lights on the HFSB tracers, which slightly change their position, when the direction of observation is altered. Further issues are the large particle to voxel ratio and the short focal length of the used camera lenses, which result in a noticeable variation of the magnification factor in volume depth direction. Taking the specific characteristics of the HFSBs into account, the feasibility of our large-scale tomographic PIV system is demonstrated by showing that the calibration errors can be reduced down to 0.1 pixels as required. Further, an accurate and fast implementation of the multiplicative algebraic reconstruction technique, which calculates the weighting coefficients when needed instead of storing them, is discussed. The tomographic PIV system is applied to measure forced convection in a convection cell at a Reynolds number of 530 based on the inlet channel height and the mean inlet velocity. The size of the measurement volume and the interrogation volumes amount to 750 mm × 450 mm × 165 mm and 48 mm × 48 mm × 24 mm, respectively. Validation of the tomographic PIV technique employing HFSBs is further provided by comparing profiles of the mean velocity and of the root mean square velocity fluctuations to respective planar PIV data.

Clinical, radiographic, ultrasonographic and computed tomographic features of nonseptic osteitis of the axial border of the proximal sesamoid bones.

PubMed

Vanderperren, K; Bergman, H J; Spoormakers, T J P; Pille, F; Duchateau, L; Puchalski, S M; Saunders, J H

2014-07-01

Lysis of the axial aspect of equine proximal sesamoid bones (PSBs) is a rare condition reported to have septic or traumatic origins. Limited information exists regarding imaging of nonseptic axial osteitis of a PSB. To report the clinical, radiographic, ultrasonographic, computed tomographic and intra-arterial contrast-enhanced computed tomographic abnormalities in horses with axial nonseptic osteitis of a PSB. Retrospective clinical study. Eighteen horses diagnosed with nonseptic osteitis of the axial border of a PSB between 2007 and 2012 were reviewed retrospectively. Case details, clinical examination, radiographic, ultrasonographic, computed tomographic and intra-arterial/intra-articular contrast-enhanced computed tomographic features were recorded, when available. Radiographic, ultrasonographic and computed tomographic evaluations of the fetlock region had been performed on 18, 15 and 9 horses, respectively. The effect of the degree of lysis on the grade and duration of lameness was determined. All horses had chronic unilateral lameness, 4 with forelimb and 14 with hindlimb signs. On radiographs, lysis was identified in both PSBs in 14 horses, one PSB in 3 horses and in one horse no lysis was identified. The degree of osteolysis was variable. Ultrasonography identified variably sized irregularities of the bone surface and alteration in echogenicity of the palmar/plantar ligament (PL). All horses undergoing computed tomographic examination (n = 9) had biaxial lysis. The lesions were significantly longer and deeper on computed tomographic images compared with radiographic images. Intra-arterial contrast-enhanced computed tomography may reveal moderate to marked contrast enhancement of the PL. There was no significant effect of the degree of lysis on the grade and duration of lameness. Lesions of nonseptic axial osteitis of a PSB can be identified using a combination of radiography and ultrasonography. Computed tomography provides additional information regarding the extent of the pathology. © 2013 EVJ Ltd.

SIRT-FILTER v1.0.0

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

PELT, DANIEL

2017-04-21

Small Python package to compute tomographic reconstructions using a reconstruction method published in: Pelt, D.M., & De Andrade, V. (2017). Improved tomographic reconstruction of large-scale real-world data by filter optimization. Advanced Structural and Chemical Imaging 2: 17; and Pelt, D. M., & Batenburg, K. J. (2015). Accurately approximating algebraic tomographic reconstruction by filtered backprojection. In Proceedings of The 13th International Meeting on Fully Three-Dimensional Image Reconstruction in Radiology and Nuclear Medicine (pp. 158-161).

The Use of Chest Computed Tomographic Angiography in Blunt Trauma Pediatric Population.

PubMed

Hasadia, Rabea; DuBose, Joseph; Peleg, Kobi; Stephenson, Jacob; Givon, Adi; Kessel, Boris

2018-02-05

Blunt chest trauma in children is common. Although rare, associated major thoracic vascular injuries (TVIs) are lethal potential sequelae of these mechanisms. The preferred study for definitive diagnosis of TVI in stable patients is computed tomographic angiography imaging of the chest. This imaging modality is, however, associated with high doses of ionizing radiation that represent significant carcinogenic risk for pediatric patients. The aim of the present investigation was to define the incidence of TVI among blunt pediatric trauma patients in an effort to better elucidate the usefulness of computed tomographic angiography use in this population. A retrospective cohort study was conducted including all blunt pediatric (age < 14 y) trauma victims registered in Israeli National Trauma Registry maintained by Gertner Institute for Epidemiology and Health Policy Research between the years 1997 and 2015. Data collected included age, sex, mechanism of injury, Glasgow Coma Scale, Injury Severity Score, and incidence of chest named vessel injuries. Statistical analysis was performed using SAS statistical software version 9.2 (SAS Institute Inc, Cary, NC). Among 433,325 blunt trauma victims, 119,821patients were younger than 14 years. Twelve (0.0001%, 12/119821) of these children were diagnosed with TVI. The most common mechanism in this group was pedestrian hit by a car. Mortality was 41.7% (5/12). Thoracic vascular injury is exceptionally rare among pediatric blunt trauma victims but does contribute to the high morbidity and mortality seen with blunt chest trauma. Computed tomographic angiography, with its associated radiation exposure risk, should not be used as a standard tool after trauma in injured children. Clinical protocols are needed in this population to minimize radiation risk while allowing prompt identification of life-threatening injuries.

Influence of using a single facial vein as outflow in full-face transplantation: A three-dimensional computed tomographic study.

PubMed

Rodriguez-Lorenzo, Andres; Audolfsson, Thorir; Wong, Corrine; Cheng, Angela; Arbique, Gary; Nowinski, Daniel; Rozen, Shai

2015-10-01

The aim of this study was to evaluate the contribution of a single unilateral facial vein in the venous outflow of total-face allograft using three-dimensional computed tomographic imaging techniques to further elucidate the mechanisms of venous complications following total-face transplant. Full-face soft-tissue flaps were harvested from fresh adult human cadavers. A single facial vein was identified and injected distally to the submandibular gland with a radiopaque contrast (barium sulfate/gelatin mixture) in every specimen. Following vascular injections, three-dimensional computed tomographic venographies of the faces were performed. Images were viewed using TeraRecon Software (Teracon, Inc., San Mateo, CA, USA) allowing analysis of the venous anatomy and perfusion in different facial subunits by observing radiopaque filling venous patterns. Three-dimensional computed tomographic venographies demonstrated a venous network with different degrees of perfusion in subunits of the face in relation to the facial vein injection side: 100% of ipsilateral and contralateral forehead units, 100% of ipsilateral and 75% of contralateral periorbital units, 100% of ipsilateral and 25% of contralateral cheek units, 100% of ipsilateral and 75% of contralateral nose units, 100% of ipsilateral and 75% of contralateral upper lip units, 100% of ipsilateral and 25% of contralateral lower lip units, and 50% of ipsilateral and 25% of contralateral chin units. Venographies of the full-face grafts revealed better perfusion in the ipsilateral hemifaces from the facial vein in comparison with the contralateral hemifaces. Reduced perfusion was observed mostly in the contralateral cheek unit and contralateral lower face including the lower lip and chin units. Copyright © 2015 British Association of Plastic, Reconstructive and Aesthetic Surgeons. Published by Elsevier Ltd. All rights reserved.

A proposed-standard format to represent and distribute tomographic models and other earth spatial data

NASA Astrophysics Data System (ADS)

Postpischl, L.; Morelli, A.; Danecek, P.

2009-04-01

Formats used to represent (and distribute) tomographic earth models differ considerably and are rarely self-consistent. In fact, each earth scientist, or research group, uses specific conventions to encode the various parameterizations used to describe, e.g., seismic wave speed or density in three dimensions, and complete information is often found in related documents or publications (if available at all) only. As a consequence, use of various tomographic models from different authors requires considerable effort, is more cumbersome than it should be and prevents widespread exchange and circulation within the community. We propose a format, based on modern web standards, able to represent different (grid-based) model parameterizations within the same simple text-based environment, easy to write, to parse, and to visualise. The aim is the creation of self-describing data-structures, both human and machine readable, that are automatically recognised by general-purpose software agents, and easily imported in the scientific programming environment. We think that the adoption of such a representation as a standard for the exchange and distribution of earth models can greatly ease their usage and enhance their circulation, both among fellow seismologists and among a broader non-specialist community. The proposed solution uses semantic web technologies, fully fitting the current trends in data accessibility. It is based on Json (JavaScript Object Notation), a plain-text, human-readable lightweight computer data interchange format, which adopts a hierarchical name-value model for representing simple data structures and associative arrays (called objects). Our implementation allows integration of large datasets with metadata (authors, affiliations, bibliographic references, units of measure etc.) into a single resource. It is equally suited to represent other geo-referenced volumetric quantities — beyond tomographic models — as well as (structured and unstructured) computational meshes. This approach can exploit the capabilities of the web browser as a computing platform: a series of in-page quick tools for comparative analysis between models will be presented, as well as visualisation techniques for tomographic layers in Google Maps and Google Earth. We are working on tools for conversion into common scientific format like netCDF, to allow easy visualisation in GEON-IDV or gmt.

Gold Nanoparticle Quantitation by Whole Cell Tomography.

PubMed

Sanders, Aric W; Jeerage, Kavita M; Schwartz, Cindi L; Curtin, Alexandra E; Chiaramonti, Ann N

2015-12-22

Many proposed biomedical applications for engineered gold nanoparticles require their incorporation by mammalian cells in specific numbers and locations. Here, the number of gold nanoparticles inside of individual mammalian stem cells was characterized using fast focused ion beam-scanning electron microscopy based tomography. Enhanced optical microscopy was used to provide a multiscale map of the in vitro sample, which allows cells of interest to be identified within their local environment. Cells were then serially sectioned using a gallium ion beam and imaged using a scanning electron beam. To confirm the accuracy of single cross sections, nanoparticles in similar cross sections were imaged using transmission electron microscopy and scanning helium ion microscopy. Complete tomographic series were then used to count the nanoparticles inside of each cell and measure their spatial distribution. We investigated the influence of slice thickness on counting single particles and clusters as well as nanoparticle packing within clusters. For 60 nm citrate stabilized particles, the nanoparticle cluster packing volume is 2.15 ± 0.20 times the volume of the bare gold nanoparticles.

Ionization Electron Signal Processing in Single Phase LArTPCs I. Algorithm Description and Quantitative Evaluation with MicroBooNE Simulation

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

Adams, C.; et al.

We describe the concept and procedure of drifted-charge extraction developed in the MicroBooNE experiment, a single-phase liquid argon time projection chamber (LArTPC). This technique converts the raw digitized TPC waveform to the number of ionization electrons passing through a wire plane at a given time. A robust recovery of the number of ionization electrons from both induction and collection anode wire planes will augment the 3D reconstruction, and is particularly important for tomographic reconstruction algorithms. A number of building blocks of the overall procedure are described. The performance of the signal processing is quantitatively evaluated by comparing extracted charge withmore » the true charge through a detailed TPC detector simulation taking into account position-dependent induced current inside a single wire region and across multiple wires. Some areas for further improvement of the performance of the charge extraction procedure are also discussed.« less

Stereo-tomography in triangulated models

NASA Astrophysics Data System (ADS)

Yang, Kai; Shao, Wei-Dong; Xing, Feng-yuan; Xiong, Kai

2018-04-01

Stereo-tomography is a distinctive tomographic method. It is capable of estimating the scatterer position, the local dip of scatterer and the background velocity simultaneously. Building a geologically consistent velocity model is always appealing for applied and earthquake seismologists. Differing from the previous work to incorporate various regularization techniques into the cost function of stereo-tomography, we think extending stereo-tomography to the triangulated model will be the most straightforward way to achieve this goal. In this paper, we provided all the Fréchet derivatives of stereo-tomographic data components with respect to model components for slowness-squared triangulated model (or sloth model) in 2D Cartesian coordinate based on the ray perturbation theory for interfaces. A sloth model representation means a sparser model representation when compared with conventional B-spline model representation. A sparser model representation leads to a smaller scale of stereo-tomographic (Fréchet) matrix, a higher-accuracy solution when solving linear equations, a faster convergence rate and a lower requirement for quantity of data space. Moreover, a quantitative representation of interface strengthens the relationships among different model components, which makes the cross regularizations among these model components, such as node coordinates, scatterer coordinates and scattering angles, etc., more straightforward and easier to be implemented. The sensitivity analysis, the model resolution matrix analysis and a series of synthetic data examples demonstrate the correctness of the Fréchet derivatives, the applicability of the regularization terms and the robustness of the stereo-tomography in triangulated model. It provides a solid theoretical foundation for the real applications in the future.

Looking for the Signal: A guide to iterative noise and artefact removal in X-ray tomographic reconstructions of porous geomaterials

NASA Astrophysics Data System (ADS)

Bruns, S.; Stipp, S. L. S.; Sørensen, H. O.

2017-07-01

X-ray micro- and nanotomography has evolved into a quantitative analysis tool rather than a mere qualitative visualization technique for the study of porous natural materials. Tomographic reconstructions are subject to noise that has to be handled by image filters prior to quantitative analysis. Typically, denoising filters are designed to handle random noise, such as Gaussian or Poisson noise. In tomographic reconstructions, noise has been projected from Radon space to Euclidean space, i.e. post reconstruction noise cannot be expected to be random but to be correlated. Reconstruction artefacts, such as streak or ring artefacts, aggravate the filtering process so algorithms performing well with random noise are not guaranteed to provide satisfactory results for X-ray tomography reconstructions. With sufficient image resolution, the crystalline origin of most geomaterials results in tomography images of objects that are untextured. We developed a denoising framework for these kinds of samples that combines a noise level estimate with iterative nonlocal means denoising. This allows splitting the denoising task into several weak denoising subtasks where the later filtering steps provide a controlled level of texture removal. We describe a hands-on explanation for the use of this iterative denoising approach and the validity and quality of the image enhancement filter was evaluated in a benchmarking experiment with noise footprints of a varying level of correlation and residual artefacts. They were extracted from real tomography reconstructions. We found that our denoising solutions were superior to other denoising algorithms, over a broad range of contrast-to-noise ratios on artificial piecewise constant signals.

A review of US anthropometric reference data (1971 2000) with comparisons to both stylized and tomographic anatomic models

NASA Astrophysics Data System (ADS)

Huh, C.; Bolch, W. E.

2003-10-01

Two classes of anatomic models currently exist for use in both radiation protection and radiation dose reconstruction: stylized mathematical models and tomographic voxel models. The former utilize 3D surface equations to represent internal organ structure and external body shape, while the latter are based on segmented CT or MR images of a single individual. While tomographic models are clearly more anthropomorphic than stylized models, a given model's characterization as being anthropometric is dependent upon the reference human to which the model is compared. In the present study, data on total body mass, standing/sitting heights and body mass index are collected and reviewed for the US population covering the time interval from 1971 to 2000. These same anthropometric parameters are then assembled for the ORNL series of stylized models, the GSF series of tomographic models (Golem, Helga, Donna, etc), the adult male Zubal tomographic model and the UF newborn tomographic model. The stylized ORNL models of the adult male and female are found to be fairly representative of present-day average US males and females, respectively, in terms of both standing and sitting heights for ages between 20 and 60-80 years. While the ORNL adult male model provides a reasonably close match to the total body mass of the average US 21-year-old male (within ~5%), present-day 40-year-old males have an average total body mass that is ~16% higher. For radiation protection purposes, the use of the larger 73.7 kg adult ORNL stylized hermaphrodite model provides a much closer representation of average present-day US females at ages ranging from 20 to 70 years. In terms of the adult tomographic models from the GSF series, only Donna (40-year-old F) closely matches her age-matched US counterpart in terms of average body mass. Regarding standing heights, the better matches to US age-correlated averages belong to Irene (32-year-old F) for the females and Golem (38-year-old M) for the males. Both Helga (27-year-old F) and Donna, however, provide good matches to average US sitting heights for adult females, while Golem and Otoko (male of unknown age) yield sitting heights that are slightly below US adult male averages. Finally, Helga is seen as the only GSF tomographic female model that yields a body mass index in line with her average US female counterpart at age 26. In terms of dose reconstruction activities, however, all current tomographic voxel models are valuable assets in attempting to cover the broad distribution of individual anthropometric parameters representative of the current US population. It is highly recommended that similar attempts to create a broad library of tomographic models be initiated in the United States and elsewhere to complement and extend the limited number of tomographic models presently available for these efforts.

Three-dimensional nanostructure determination from a large diffraction data set recorded using scanning electron nanodiffraction.

PubMed

Meng, Yifei; Zuo, Jian-Min

2016-09-01

A diffraction-based technique is developed for the determination of three-dimensional nanostructures. The technique employs high-resolution and low-dose scanning electron nanodiffraction (SEND) to acquire three-dimensional diffraction patterns, with the help of a special sample holder for large-angle rotation. Grains are identified in three-dimensional space based on crystal orientation and on reconstructed dark-field images from the recorded diffraction patterns. Application to a nanocrystalline TiN thin film shows that the three-dimensional morphology of columnar TiN grains of tens of nanometres in diameter can be reconstructed using an algebraic iterative algorithm under specified prior conditions, together with their crystallographic orientations. The principles can be extended to multiphase nanocrystalline materials as well. Thus, the tomographic SEND technique provides an effective and adaptive way of determining three-dimensional nanostructures.

Modified Faraday cup

DOEpatents

Elmer, J.W.; Teruya, A.T.; O`Brien, D.W.

1996-09-10

A tomographic technique for measuring the current density distribution in electron beams using electron beam profile data acquired from a modified Faraday cup to create an image of the current density in high and low power beams is disclosed. The modified Faraday cup includes a narrow slit and is rotated by a stepper motor and can be moved in the x, y and z directions. The beam is swept across the slit perpendicular thereto and controlled by deflection coils, and the slit rotated such that waveforms are taken every few degrees from 0{degree} to 360{degree} and the waveforms are recorded by a digitizing storage oscilloscope. Two-dimensional and three-dimensional images of the current density distribution in the beam can be reconstructed by computer tomography from this information, providing quantitative information about the beam focus and alignment. 12 figs.

Derivation of site-specific relationships between hydraulic parameters and p-wave velocities based on hydraulic and seismic tomography

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

Brauchler, R.; Doetsch, J.; Dietrich, P.

2012-01-10

In this study, hydraulic and seismic tomographic measurements were used to derive a site-specific relationship between the geophysical parameter p-wave velocity and the hydraulic parameters, diffusivity and specific storage. Our field study includes diffusivity tomograms derived from hydraulic travel time tomography, specific storage tomograms, derived from hydraulic attenuation tomography, and p-wave velocity tomograms, derived from seismic tomography. The tomographic inversion was performed in all three cases with the SIRT (Simultaneous Iterative Reconstruction Technique) algorithm, using a ray tracing technique with curved trajectories. The experimental set-up was designed such that the p-wave velocity tomogram overlaps the hydraulic tomograms by half. Themore » experiments were performed at a wellcharacterized sand and gravel aquifer, located in the Leine River valley near Göttingen, Germany. Access to the shallow subsurface was provided by direct-push technology. The high spatial resolution of hydraulic and seismic tomography was exploited to derive representative site-specific relationships between the hydraulic and geophysical parameters, based on the area where geophysical and hydraulic tests were performed. The transformation of the p-wave velocities into hydraulic properties was undertaken using a k-means cluster analysis. Results demonstrate that the combination of hydraulic and geophysical tomographic data is a promising approach to improve hydrogeophysical site characterization.« less

Colorectal cancer screening with virtual colonoscopy

NASA Astrophysics Data System (ADS)

Ge, Yaorong; Vining, David J.; Ahn, David K.; Stelts, David R.

1999-05-01

Early detection and removal of colorectal polyps have been proven to reduce mortality from colorectal carcinoma (CRC), the second leading cause of cancer deaths in the United States. Unfortunately, traditional techniques for CRC examination (i.e., barium enema, sigmoidoscopy, and colonoscopy) are unsuitable for mass screening because of either low accuracy or poor public acceptance, costs, and risks. Virtual colonoscopy (VC) is a minimally invasive alternative that is based on tomographic scanning of the colon. After a patient's bowel is optimally cleansed and distended with gas, a fast tomographic scan, typically helical computed tomography (CT), of the abdomen is performed during a single breath-hold acquisition. Two-dimensional (2D) slices and three-dimensional (3D) rendered views of the colon lumen generated from the tomographic data are then examined for colorectal polyps. Recent clinical studies conducted at several institutions including ours have shown great potential for this technology to be an effective CRC screening tool. In this paper, we describe new methods to improve bowel preparation, colon lumen visualization, colon segmentation, and polyp detection. Our initial results show that VC with the new bowel preparation and imaging protocol is capable of achieving accuracy comparable to conventional colonoscopy and our new algorithms for image analysis contribute to increased accuracy and efficiency in VC examinations.

A comparison of newborn stylized and tomographic models for dose assessment in paediatric radiology

NASA Astrophysics Data System (ADS)

Staton, R. J.; Pazik, F. D.; Nipper, J. C.; Williams, J. L.; Bolch, W. E.

2003-04-01

Establishment of organ doses from diagnostic and interventional examinations is a key component to quantifying the radiation risks from medical exposures and for formulating corresponding dose-reduction strategies. Radiation transport models of human anatomy provide a convenient method for simulating radiological examinations. At present, two classes of models exist: stylized mathematical models and tomographic voxel models. In the present study, organ dose comparisons are made for projection radiographs of both a stylized and a tomographic model of the newborn patient. Sixteen separate radiographs were simulated for each model at x-ray technique factors typical of newborn examinations: chest, abdomen, thorax and head views in the AP, PA, left LAT and right LAT projection orientation. For AP and PA radiographs of the torso (chest, abdomen and thorax views), the effective dose assessed for the tomographic model exceeds that for the stylized model with per cent differences ranging from 19% (AP abdominal view) to 43% AP chest view. In contrast, the effective dose for the stylized model exceeds that for the tomographic model for all eight lateral views including those of the head, with per cent differences ranging from 9% (LLAT chest view) to 51% (RLAT thorax view). While organ positioning differences do exist between the models, a major factor contributing to differences in effective dose is the models' exterior trunk shape. In the tomographic model, a more elliptical shape is seen thus providing for less tissue shielding for internal organs in the AP and PA directions, with corresponding increased tissue shielding in the lateral directions. This observation is opposite of that seen in comparisons of stylized and tomographic models of the adult.

Three-dimensional bright-field scanning transmission electron microscopy elucidate novel nanostructure in microbial biofilms.

PubMed

Hickey, William J; Shetty, Ameesha R; Massey, Randall J; Toso, Daniel B; Austin, Jotham

2017-01-01

Bacterial biofilms play key roles in environmental and biomedical processes, and understanding their activities requires comprehension of their nanoarchitectural characteristics. Electron microscopy (EM) is an essential tool for nanostructural analysis, but conventional EM methods are limited in that they either provide topographical information alone, or are suitable for imaging only relatively thin (<300 nm) sample volumes. For biofilm investigations, these are significant restrictions. Understanding structural relations between cells requires imaging of a sample volume sufficiently large to encompass multiple cells and the capture of both external and internal details of cell structure. An emerging EM technique with such capabilities is bright-field scanning transmission electron microscopy (BF-STEM) and in the present report BF-STEM was coupled with tomography to elucidate nanostructure in biofilms formed by the polycyclic aromatic hydrocarbon-degrading soil bacterium, Delftia acidovorans Cs1-4. Dual-axis BF-STEM enabled high-resolution 3-D tomographic recontructions (6-10 nm) visualization of thick (1250 and 1500 nm) sections. The 3-D data revealed that novel extracellular structures, termed nanopods, were polymorphic and formed complex networks within cell clusters. BF-STEM tomography enabled visualization of conduits formed by nanopods that could enable intercellular movement of outer membrane vesicles, and thereby enable direct communication between cells. This report is the first to document application of dual-axis BF-STEM tomography to obtain high-resolution 3-D images of novel nanostructures in bacterial biofilms. Future work with dual-axis BF-STEM tomography combined with correlative light electron microscopy may provide deeper insights into physiological functions associated with nanopods as well as other nanostructures. © 2016 The Authors Journal of Microscopy © 2016 Royal Microscopical Society.

High-Energy, High-Pulse-Rate Light Sources for Enhanced Time-Resolved Tomographic PIV of Unsteady and Turbulent Flows

DTIC Science & Technology

2017-07-31

Report: High-Energy, High-Pulse-Rate Light Sources for Enhanced Time -Resolved Tomographic PIV of Unsteady & Turbulent Flows The views, opinions and/or...reporting burden for this collection of information is estimated to average 1 hour per response, including the time for reviewing instructions, searching...High-Energy, High-Pulse-Rate Light Sources for Enhanced Time -Resolved Tomographic PIV of Unsteady & Turbulent Flows Report Term: 0-Other Email

Image processing pipeline for synchrotron-radiation-based tomographic microscopy.

PubMed

Hintermüller, C; Marone, F; Isenegger, A; Stampanoni, M

2010-07-01

With synchrotron-radiation-based tomographic microscopy, three-dimensional structures down to the micrometer level can be visualized. Tomographic data sets typically consist of 1000 to 1500 projections of 1024 x 1024 to 2048 x 2048 pixels and are acquired in 5-15 min. A processing pipeline has been developed to handle this large amount of data efficiently and to reconstruct the tomographic volume within a few minutes after the end of a scan. Just a few seconds after the raw data have been acquired, a selection of reconstructed slices is accessible through a web interface for preview and to fine tune the reconstruction parameters. The same interface allows initiation and control of the reconstruction process on the computer cluster. By integrating all programs and tools, required for tomographic reconstruction into the pipeline, the necessary user interaction is reduced to a minimum. The modularity of the pipeline allows functionality for new scan protocols to be added, such as an extended field of view, or new physical signals such as phase-contrast or dark-field imaging etc.

Tomographic imaging of OH laser-induced fluorescence in laminar and turbulent jet flames

NASA Astrophysics Data System (ADS)

Li, Tao; Pareja, Jhon; Fuest, Frederik; Schütte, Manuel; Zhou, Yihui; Dreizler, Andreas; Böhm, Benjamin

2018-01-01

In this paper a new approach for 3D flame structure diagnostics using tomographic laser-induced fluorescence (Tomo-LIF) of the OH radical was evaluated. The approach combined volumetric illumination with a multi-camera detection system of eight views. Single-shot measurements were performed in a methane/air premixed laminar flame and in a non-premixed turbulent methane jet flame. 3D OH fluorescence distributions in the flames were reconstructed using the simultaneous multiplicative algebraic reconstruction technique. The tomographic measurements were compared and validated against results of OH-PLIF in the laminar flame. The effects of the experimental setup of the detection system and the size of the volumetric illumination on the quality of the tomographic reconstructions were evaluated. Results revealed that the Tomo-LIF is suitable for volumetric reconstruction of flame structures with acceptable spatial resolution and uncertainty. It was found that the number of views and their angular orientation have a strong influence on the quality and accuracy of the tomographic reconstruction while the illumination volume thickness influences mainly the spatial resolution.

Optimal joule heating of the subsurface

DOEpatents

Berryman, James G.; Daily, William D.

1994-01-01

A method for simultaneously heating the subsurface and imaging the effects of the heating. This method combines the use of tomographic imaging (electrical resistance tomography or ERT) to image electrical resistivity distribution underground, with joule heating by electrical currents injected in the ground. A potential distribution is established on a series of buried electrodes resulting in energy deposition underground which is a function of the resistivity and injection current density. Measurement of the voltages and currents also permits a tomographic reconstruction of the resistivity distribution. Using this tomographic information, the current injection pattern on the driving electrodes can be adjusted to change the current density distribution and thus optimize the heating. As the heating changes conditions, the applied current pattern can be repeatedly adjusted (based on updated resistivity tomographs) to affect real time control of the heating.

Markov chain Monte Carlo estimation of quantum states

NASA Astrophysics Data System (ADS)

Diguglielmo, James; Messenger, Chris; Fiurášek, Jaromír; Hage, Boris; Samblowski, Aiko; Schmidt, Tabea; Schnabel, Roman

2009-03-01

We apply a Bayesian data analysis scheme known as the Markov chain Monte Carlo to the tomographic reconstruction of quantum states. This method yields a vector, known as the Markov chain, which contains the full statistical information concerning all reconstruction parameters including their statistical correlations with no a priori assumptions as to the form of the distribution from which it has been obtained. From this vector we can derive, e.g., the marginal distributions and uncertainties of all model parameters, and also of other quantities such as the purity of the reconstructed state. We demonstrate the utility of this scheme by reconstructing the Wigner function of phase-diffused squeezed states. These states possess non-Gaussian statistics and therefore represent a nontrivial case of tomographic reconstruction. We compare our results to those obtained through pure maximum-likelihood and Fisher information approaches.

Enhanced modified faraday cup for determination of power density distribution of electron beams

DOEpatents

Elmer, John W.; Teruya, Alan T.

2001-01-01

An improved tomographic technique for determining the power distribution of an electron or ion beam using electron beam profile data acquired by an enhanced modified Faraday cup to create an image of the current density in high and low power ion or electron beams. A refractory metal disk with a number of radially extending slits, one slit being about twice the width of the other slits, is placed above a Faraday cup. The electron or ion beam is swept in a circular pattern so that its path crosses each slit in a perpendicular manner, thus acquiring all the data needed for a reconstruction in one circular sweep. The enlarged slit enables orientation of the beam profile with respect to the coordinates of the welding chamber. A second disk having slits therein is positioned below the first slit disk and inside of the Faraday cup and provides a shield to eliminate the majority of secondary electrons and ions from leaving the Faraday cup. Also, a ring is located below the second slit disk to help minimize the amount of secondary electrons and ions from being produced. In addition, a beam trap is located in the Faraday cup to provide even more containment of the electron or ion beam when full beam current is being examined through the center hole of the modified Faraday cup.

Tomographic imaging of subducted lithosphere below northwest Pacific island arcs

USGS Publications Warehouse

Van Der Hilst, R.; Engdahl, R.; Spakman, W.; Nolet, G.

1991-01-01

The seismic tomography problem does not have a unique solution, and published tomographic images have been equivocal with regard to the deep structure of subducting slabs. An improved tomographic method, using a more realistic background Earth model and surf ace-reflected as well as direct seismic phases, shows that slabs beneath the Japan and Izu Bonin island arcs are deflected at the boundary between upper and lower mantle, whereas those beneath the northern Kuril and Mariana arcs sink into the lower mantle.

Business aspects of cardiovascular computed tomography: tackling the challenges.

PubMed

Bateman, Timothy M

2008-01-01

The purpose of this article is to provide a comprehensive understanding of the business issues surrounding provision of dedicated cardiovascular computed tomographic imaging. Some of the challenges include high up-front costs, current low utilization relative to scanner capability, and inadequate payments. Cardiovascular computed tomographic imaging is a valuable clinical modality that should be offered by cardiovascular centers-of-excellence. With careful consideration of the business aspects, moderate-to-large size cardiology programs should be able to implement an economically viable cardiovascular computed tomographic service.

3D "spectracoustic" system: a modular, tomographic, spectroscopic mapping imaging, non-invasive, diagnostic system for detection of small starting developing tumors like melanoma

NASA Astrophysics Data System (ADS)

Karagiannis, Georgios

2017-03-01

This work led to a new method named 3D spectracoustic tomographic mapping imaging. The current and the future work is related to the fabrication of a combined acoustic microscopy transducer and infrared illumination probe permitting the simultaneous acquisition of the spectroscopic and the tomographic information. This probe provides with the capability of high fidelity and precision registered information from the combined modalities named spectracoustic information.

Single-Shot, Volumetrically Illuminated, Three-Dimensional, Tomographic Laser-Induced-Fluorescence Imaging in a Gaseous Free Jet

DTIC Science & Technology

2016-04-28

Single- shot , volumetrically illuminated, three- dimensional, tomographic laser-induced- fluorescence imaging in a gaseous free jet Benjamin R. Halls...us.af.mil Abstract: Single- shot , tomographic imaging of the three-dimensional concentration field is demonstrated in a turbulent gaseous free jet in co-flow...2001). 6. K. M. Tacina and W. J. A. Dahm, “Effects of heat release on turbulent shear flows, Part 1. A general equivalence principle for non-buoyant

Tomographic diffractive microscopy with agile illuminations for imaging targets in a noisy background.

PubMed

Zhang, T; Godavarthi, C; Chaumet, P C; Maire, G; Giovannini, H; Talneau, A; Prada, C; Sentenac, A; Belkebir, K

2015-02-15

Tomographic diffractive microscopy is a marker-free optical digital imaging technique in which three-dimensional samples are reconstructed from a set of holograms recorded under different angles of incidence. We show experimentally that, by processing the holograms with singular value decomposition, it is possible to image objects in a noisy background that are invisible with classical wide-field microscopy and conventional tomographic reconstruction procedure. The targets can be further characterized with a selective quantitative inversion.

Advanced Tomographic Imaging Methods for the Analysis of Materials

DTIC Science & Technology

1991-08-01

used in composite manufacture: aluminum, silicon carbide, and titanium aluminide . Also depicted in Fig. 2 are the energy intervals which can...SiC-fiber (SCS6) in a titanium - aluminide matrix. The contrast between SiC and AtIis only 10% over a broad eiaergy range. Therefore, distinguishing the...borehole logging, orrodent detection on turbine blades , kerogen analysis of shale, and contents of coals (sulfur, minerals, and btu). APSTNG

Ocean wavenumber estimation from wave-resolving time series imagery

USGS Publications Warehouse

Plant, N.G.; Holland, K.T.; Haller, M.C.

2008-01-01

We review several approaches that have been used to estimate ocean surface gravity wavenumbers from wave-resolving remotely sensed image sequences. Two fundamentally different approaches that utilize these data exist. A power spectral density approach identifies wavenumbers where image intensity variance is maximized. Alternatively, a cross-spectral correlation approach identifies wavenumbers where intensity coherence is maximized. We develop a solution to the latter approach based on a tomographic analysis that utilizes a nonlinear inverse method. The solution is tolerant to noise and other forms of sampling deficiency and can be applied to arbitrary sampling patterns, as well as to full-frame imagery. The solution includes error predictions that can be used for data retrieval quality control and for evaluating sample designs. A quantitative analysis of the intrinsic resolution of the method indicates that the cross-spectral correlation fitting improves resolution by a factor of about ten times as compared to the power spectral density fitting approach. The resolution analysis also provides a rule of thumb for nearshore bathymetry retrievals-short-scale cross-shore patterns may be resolved if they are about ten times longer than the average water depth over the pattern. This guidance can be applied to sample design to constrain both the sensor array (image resolution) and the analysis array (tomographic resolution). ?? 2008 IEEE.

Tunable diode laser absorption spectroscopy-based tomography system for on-line monitoring of two-dimensional distributions of temperature and H{sub 2}O mole fraction

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

Xu, Lijun, E-mail: lijunxu@buaa.edu.cn; Liu, Chang; Jing, Wenyang

2016-01-15

To monitor two-dimensional (2D) distributions of temperature and H{sub 2}O mole fraction, an on-line tomography system based on tunable diode laser absorption spectroscopy (TDLAS) was developed. To the best of the authors’ knowledge, this is the first report on a multi-view TDLAS-based system for simultaneous tomographic visualization of temperature and H{sub 2}O mole fraction in real time. The system consists of two distributed feedback (DFB) laser diodes, a tomographic sensor, electronic circuits, and a computer. The central frequencies of the two DFB laser diodes are at 7444.36 cm{sup −1} (1343.3 nm) and 7185.6 cm{sup −1} (1391.67 nm), respectively. The tomographicmore » sensor is used to generate fan-beam illumination from five views and to produce 60 ray measurements. The electronic circuits not only provide stable temperature and precise current controlling signals for the laser diodes but also can accurately sample the transmitted laser intensities and extract integrated absorbances in real time. Finally, the integrated absorbances are transferred to the computer, in which the 2D distributions of temperature and H{sub 2}O mole fraction are reconstructed by using a modified Landweber algorithm. In the experiments, the TDLAS-based tomography system was validated by using asymmetric premixed flames with fixed and time-varying equivalent ratios, respectively. The results demonstrate that the system is able to reconstruct the profiles of the 2D distributions of temperature and H{sub 2}O mole fraction of the flame and effectively capture the dynamics of the combustion process, which exhibits good potential for flame monitoring and on-line combustion diagnosis.« less

Anatomical background and generalized detectability in tomosynthesis and cone-beam CT.

PubMed

Gang, G J; Tward, D J; Lee, J; Siewerdsen, J H

2010-05-01

Anatomical background presents a major impediment to detectability in 2D radiography as well as 3D tomosynthesis and cone-beam CT (CBCT). This article incorporates theoretical and experimental analysis of anatomical background "noise" in cascaded systems analysis of 2D and 3D imaging performance to yield "generalized" metrics of noise-equivalent quanta (NEQ) and detectability index as a function of the orbital extent of the (circular arc) source-detector orbit. A physical phantom was designed based on principles of fractal self-similarity to exhibit power-law spectral density (kappa/Fbeta) comparable to various anatomical sites (e.g., breast and lung). Background power spectra [S(B)(F)] were computed as a function of source-detector orbital extent, including tomosynthesis (approximately 10 degrees -180 degrees) and CBCT (180 degrees + fan to 360 degrees) under two acquisition schemes: (1) Constant angular separation between projections (variable dose) and (2) constant total number of projections (constant dose). The resulting S(B) was incorporated in the generalized NEQ, and detectability index was computed from 3D cascaded systems analysis for a variety of imaging tasks. The phantom yielded power-law spectra within the expected spatial frequency range, quantifying the dependence of clutter magnitude (kappa) and correlation (beta) with increasing tomosynthesis angle. Incorporation of S(B) in the 3D NEQ provided a useful framework for analyzing the tradeoffs among anatomical, quantum, and electronic noise with dose and orbital extent. Distinct implications are posed for breast and chest tomosynthesis imaging system design-applications varying significantly in kappa and beta, and imaging task and, therefore, in optimal selection of orbital extent, number of projections, and dose. For example, low-frequency tasks (e.g., soft-tissue masses or nodules) tend to benefit from larger orbital extent and more fully 3D tomographic imaging, whereas high-frequency tasks (e.g., microcalcifications) require careful, application-specific selection of orbital extent and number of projections to minimize negative effects of quantum and electronic noise. The complex tradeoffs among anatomical background, quantum noise, and electronic noise in projection imaging, tomosynthesis, and CBCT can be described by generalized cascaded systems analysis, providing a useful framework for system design and optimization.

Optimal joule heating of the subsurface

DOEpatents

Berryman, J.G.; Daily, W.D.

1994-07-05

A method for simultaneously heating the subsurface and imaging the effects of the heating is disclosed. This method combines the use of tomographic imaging (electrical resistance tomography or ERT) to image electrical resistivity distribution underground, with joule heating by electrical currents injected in the ground. A potential distribution is established on a series of buried electrodes resulting in energy deposition underground which is a function of the resistivity and injection current density. Measurement of the voltages and currents also permits a tomographic reconstruction of the resistivity distribution. Using this tomographic information, the current injection pattern on the driving electrodes can be adjusted to change the current density distribution and thus optimize the heating. As the heating changes conditions, the applied current pattern can be repeatedly adjusted (based on updated resistivity tomographs) to affect real time control of the heating.

Lamb-Wave-Based Tomographic Imaging Techniques for Hole-Edge Corrosion Monitoring in Plate Structures

PubMed Central

Wang, Dengjiang; Zhang, Weifang; Wang, Xiangyu; Sun, Bo

2016-01-01

This study presents a novel monitoring method for hole-edge corrosion damage in plate structures based on Lamb wave tomographic imaging techniques. An experimental procedure with a cross-hole layout using 16 piezoelectric transducers (PZTs) was designed. The A0 mode of the Lamb wave was selected, which is sensitive to thickness-loss damage. The iterative algebraic reconstruction technique (ART) method was used to locate and quantify the corrosion damage at the edge of the hole. Hydrofluoric acid with a concentration of 20% was used to corrode the specimen artificially. To estimate the effectiveness of the proposed method, the real corrosion damage was compared with the predicted corrosion damage based on the tomographic method. The results show that the Lamb-wave-based tomographic method can be used to monitor the hole-edge corrosion damage accurately. PMID:28774041

Soil structure characterized using computed tomographic images

Treesearch

Zhanqi Cheng; Stephen H. Anderson; Clark J. Gantzer; J. W. Van Sambeek

2003-01-01

Fractal analysis of soil structure is a relatively new method for quantifying the effects of management systems on soil properties and quality. The objective of this work was to explore several methods of studying images to describe and quantify structure of soils under forest management. This research uses computed tomography and a topological method called Multiple...

DoctorEye: A clinically driven multifunctional platform, for accurate processing of tumors in medical images.

PubMed

Skounakis, Emmanouil; Farmaki, Christina; Sakkalis, Vangelis; Roniotis, Alexandros; Banitsas, Konstantinos; Graf, Norbert; Marias, Konstantinos

2010-01-01

This paper presents a novel, open access interactive platform for 3D medical image analysis, simulation and visualization, focusing in oncology images. The platform was developed through constant interaction and feedback from expert clinicians integrating a thorough analysis of their requirements while having an ultimate goal of assisting in accurately delineating tumors. It allows clinicians not only to work with a large number of 3D tomographic datasets but also to efficiently annotate multiple regions of interest in the same session. Manual and semi-automatic segmentation techniques combined with integrated correction tools assist in the quick and refined delineation of tumors while different users can add different components related to oncology such as tumor growth and simulation algorithms for improving therapy planning. The platform has been tested by different users and over large number of heterogeneous tomographic datasets to ensure stability, usability, extensibility and robustness with promising results. the platform, a manual and tutorial videos are available at: http://biomodeling.ics.forth.gr. it is free to use under the GNU General Public License.

A 3D gantry single photon emission tomograph with hemispherical coverage for dedicated breast imaging

NASA Astrophysics Data System (ADS)

Tornai, Martin P.; Bowsher, James E.; Archer, Caryl N.; Peter, Jörg; Jaszczak, Ronald J.; MacDonald, Lawrence R.; Patt, Bradley E.; Iwanczyk, Jan S.

2003-01-01

A novel tomographic gantry was designed, built and initially evaluated for single photon emission imaging of metabolically active lesions in the pendant breast and near chest wall. Initial emission imaging measurements with breast lesions of various uptake ratios are presented. Methods: A prototype tomograph was constructed utilizing a compact gamma camera having a field-of-view of <13×13 cm 2 with arrays of 2×2×6 mm 3 quantized NaI(Tl) scintillators coupled to position sensitive PMTs. The camera was mounted on a radially oriented support with 6 cm variable radius-of-rotation. This unit is further mounted on a goniometric cradle providing polar motion, and in turn mounted on an azimuthal rotation stage capable of indefinite vertical axis-of-rotation about the central rotation axis (RA). Initial measurements with isotopic Tc-99 m (140 keV) to evaluate the system include acquisitions with various polar tilt angles about the RA. Tomographic measurements were made of a frequency and resolution cold-rod phantom filled with aqueous Tc-99 m. Tomographic and planar measurements of 0.6 and 1.0 cm diameter fillable spheres in an available ˜950 ml hemi-ellipsoidal (uncompressed) breast phantom attached to a life-size anthropomorphic torso phantom with lesion:breast-and-body:cardiac-and-liver activity concentration ratios of 11:1:19 were compared. Various photopeak energy windows from 10-30% widths were obtained, along with a 35% scatter window below a 15% photopeak window from the list mode data. Projections with all photopeak window and camera tilt conditions were reconstructed with an ordered subsets expectation maximization (OSEM) algorithm capable of reconstructing arbitrary tomographic orbits. Results: As iteration number increased for the tomographically measured data at all polar angles, contrasts increased while signal-to-noise ratios (SNRs) decreased in the expected way with OSEM reconstruction. The rollover between contrast improvement and SNR degradation of the lesion occurred at two to three iterations. The reconstructed tomographic data yielded SNRs with or without scatter correction that were >9 times better than the planar scans. There was up to a factor of ˜2.5 increase in total primary and scatter contamination in the photopeak window with increasing tilt angle from 15° to 45°, consistent with more direct line-of-sight of myocardial and liver activity with increased camera polar angle. Conclusion: This new, ultra-compact, dedicated tomographic imaging system has the potential of providing valuable, fully 3D functional information about small, otherwise indeterminate breast lesions as an adjunct to diagnostic mammography.

A high-throughput system for high-quality tomographic reconstruction of large datasets at Diamond Light Source

PubMed Central

Atwood, Robert C.; Bodey, Andrew J.; Price, Stephen W. T.; Basham, Mark; Drakopoulos, Michael

2015-01-01

Tomographic datasets collected at synchrotrons are becoming very large and complex, and, therefore, need to be managed efficiently. Raw images may have high pixel counts, and each pixel can be multidimensional and associated with additional data such as those derived from spectroscopy. In time-resolved studies, hundreds of tomographic datasets can be collected in sequence, yielding terabytes of data. Users of tomographic beamlines are drawn from various scientific disciplines, and many are keen to use tomographic reconstruction software that does not require a deep understanding of reconstruction principles. We have developed Savu, a reconstruction pipeline that enables users to rapidly reconstruct data to consistently create high-quality results. Savu is designed to work in an ‘orthogonal’ fashion, meaning that data can be converted between projection and sinogram space throughout the processing workflow as required. The Savu pipeline is modular and allows processing strategies to be optimized for users' purposes. In addition to the reconstruction algorithms themselves, it can include modules for identification of experimental problems, artefact correction, general image processing and data quality assessment. Savu is open source, open licensed and ‘facility-independent’: it can run on standard cluster infrastructure at any institution. PMID:25939626

Preliminary studies of a simultaneous PET/MRI scanner based on the RatCAP small animal tomograph

NASA Astrophysics Data System (ADS)

Woody, C.; Schlyer, D.; Vaska, P.; Tomasi, D.; Solis-Najera, S.; Rooney, W.; Pratte, J.-F.; Junnarkar, S.; Stoll, S.; Master, Z.; Purschke, M.; Park, S.-J.; Southekal, S.; Kriplani, A.; Krishnamoorthy, S.; Maramraju, S.; O'Connor, P.; Radeka, V.

2007-02-01

We are developing a scanner that will allow simultaneous acquisition of high resolution anatomical data using magnetic resonance imaging (MRI) and quantitative physiological data using positron emission tomography (PET). The approach is based on the technology used for the RatCAP conscious small animal PET tomograph which utilizes block detectors consisting of pixelated arrays of LSO crystals read out with matching arrays of avalanche photodiodes and a custom-designed ASIC. The version of this detector used for simultaneous PET/MRI imaging will be constructed out of all nonmagnetic materials and will be situated inside the MRI field. We have demonstrated that the PET detector and its electronics can be operated inside the MRI, and have obtained MRI images with various detector components located inside the MRI field. The MRI images show minimal distortion in this configuration even where some components still contain traces of certain magnetic materials. We plan to improve on the image quality in the future using completely non-magnetic components and by tuning the MRI pulse sequences. The combined result will be a highly compact, low mass PET scanner that can operate inside an MRI magnet without distorting the MRI image, and can be retrofitted into existing MRI instruments.

Ionosphere dynamics in the auroral zone during the magnetic storm of March 17-18, 2015

NASA Astrophysics Data System (ADS)

Blagoveshchensky, D. V.; Sergeeva, M. A.

2016-11-01

A comprehensive study of the ionospheric processes encountered during the superstorm which started on March 17th 2015 has been carried out using magnetometer, ionosonde, riometer, ionospheric tomography and an all-sky camera installed in the observatory of Sodankylä, Finland. The storm manifested a number of interesting features. From 12:00 on March 17 there was a significant decrease of critical frequencies foF2 and intensive sporadic Es layers were observed. During the disturbance, there was a lack of variation of the X-component of the magnetic field at times, but the absorption level measured by the riometer was high. A comparison of the electron density distributions for the quiet and disturbed days as shown in the tomography data were very different. Where results were available at the same times, the tomographic foF2 values coincided with the ;real; foF2 values from the ionosonde. Where the ionosonde data was missing due to absorption, the tomographic foF2 values were used instead. The keograms from the all-sky camera showed that during disturbed days the aurorae manifested themselves as bright discrete forms. It was shown that the peaks of absorption due to particle precipitation seen by the riometer coincided in time with the brightenings of aurorae seen on the keograms.

Multi-dimensional distribution of near-field ionospheric disturbances produced by the 2015 Mw7.8 Nepal earthquake

NASA Astrophysics Data System (ADS)

Tang, Jun; Yuan, Yunbin

2017-10-01

Ionospheric anomalies possibly associated with large earthquakes, particularly coseismic ionospheric disturbances, have been detected by global positioning system (GPS). A large Nepal earthquake with magnitude Mw7.8 occurred on April 25, 2015. In this paper, we investigate the multi-dimensional distribution of near-field coseismic ionospheric disturbances (CIDs) using total electron content (TEC) and computerized ionospheric tomography (CIT) from regional GPS observational data. The results show significant ionospheric TEC disturbances and interesting multi-dimensional structures around the main shock. Regarding the TEC changes, coseismic ionospheric disturbances occur approximately 10-20 min after the earthquake northeast and northwest of epicentre. The maximum ridge-to-trough amplitude of CIDs is up to approximately 0.90 TECU/min. Propagation velocities of the TEC disturbances are 1.27 ± 0.06 km/s and 1.91 ± 0.38 km/s. It is believed that the ionospheric disturbances are triggered by acoustic and Rayleigh waves. Tomographic results show that the three-dimensional distribution of ionospheric disturbances obviously increases at an altitude of 300 km above the surrounding epicentre, predominantly in the entire region between 200 km and 400 km. Significant ionospheric disturbances appear at 06:30 UT from tomographic images. This study reveals characteristics of an ionospheric anomaly caused by the Nepal earthquake.

Tomographic inversion of satellite photometry. II

NASA Technical Reports Server (NTRS)

Solomon, S. C.; Hays, P. B.; Abreu, V. J.

1985-01-01

A method for combining nadir observations of emission features in the upper atmosphere with the result of a tomographic inversion of limb brightness measurements is presented. Simulated and actual results are provided, and error sensitivity is investigated.

Correlative cryo-fluorescence light microscopy and cryo-electron tomography of Streptomyces.

PubMed

Koning, Roman I; Celler, Katherine; Willemse, Joost; Bos, Erik; van Wezel, Gilles P; Koster, Abraham J

2014-01-01

Light microscopy and electron microscopy are complementary techniques that in a correlative approach enable identification and targeting of fluorescently labeled structures in situ for three-dimensional imaging at nanometer resolution. Correlative imaging allows electron microscopic images to be positioned in a broader temporal and spatial context. We employed cryo-correlative light and electron microscopy (cryo-CLEM), combining cryo-fluorescence light microscopy and cryo-electron tomography, on vitrified Streptomyces bacteria to study cell division. Streptomycetes are mycelial bacteria that grow as long hyphae and reproduce via sporulation. On solid media, Streptomyces subsequently form distinct aerial mycelia where cell division leads to the formation of unigenomic spores which separate and disperse to form new colonies. In liquid media, only vegetative hyphae are present divided by noncell separating crosswalls. Their multicellular life style makes them exciting model systems for the study of bacterial development and cell division. Complex intracellular structures have been visualized with transmission electron microscopy. Here, we describe the methods for cryo-CLEM that we applied for studying Streptomyces. These methods include cell growth, fluorescent labeling, cryo-fixation by vitrification, cryo-light microscopy using a Linkam cryo-stage, image overlay and relocation, cryo-electron tomography using a Titan Krios, and tomographic reconstruction. Additionally, methods for segmentation, volume rendering, and visualization of the correlative data are described. © 2014 Elsevier Inc. All rights reserved.

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

Seo, Dongcheol; Peterson, B. J.; Lee, Seung Hun

The resistive bolometers have been successfully installed in the midplane of L-port in Korea Superconducting Tokamak Advanced Research (KSTAR) device. The spatial and temporal resolutions, 4.5 cm and {approx}1 kHz, respectively, enable us to measure the radial profile of the total radiated power from magnetically confined plasma at a high temperature through radiation and neutral particles. The radiated power was measured at all shots. Even at low plasma current, the bolometer signal was detectable. The electron cyclotron resonance heating (ECH) has been used in tokamak for ECH assisted start-up and plasma control by local heating and current drive. The detectorsmore » of resistive bolometer, near the antenna of ECH, are affected by electron cyclotron wave. The tomographic reconstruction, using the Phillips-Tikhonov regularization method, will be carried out for a major radial profile of the radiation emissivity of the circular cross-section plasma.« less

Three-dimensional nanostructure determination from a large diffraction data set recorded using scanning electron nanodiffraction

DOE PAGES

Meng, Yifei; Zuo, Jian -Min

2016-07-04

A diffraction-based technique is developed for the determination of three-dimensional nanostructures. The technique employs high-resolution and low-dose scanning electron nanodiffraction (SEND) to acquire three-dimensional diffraction patterns, with the help of a special sample holder for large-angle rotation. Grains are identified in three-dimensional space based on crystal orientation and on reconstructed dark-field images from the recorded diffraction patterns. Application to a nanocrystalline TiN thin film shows that the three-dimensional morphology of columnar TiN grains of tens of nanometres in diameter can be reconstructed using an algebraic iterative algorithm under specified prior conditions, together with their crystallographic orientations. The principles can bemore » extended to multiphase nanocrystalline materials as well. Furthermore, the tomographic SEND technique provides an effective and adaptive way of determining three-dimensional nanostructures.« less

Mineralization of collagen may occur on fibril surfaces: evidence from conventional and high-voltage electron microscopy and three-dimensional imaging

NASA Technical Reports Server (NTRS)

Landis, W. J.; Hodgens, K. J.; Song, M. J.; Arena, J.; Kiyonaga, S.; Marko, M.; Owen, C.; McEwen, B. F.

1996-01-01

The interaction between collagen and mineral crystals in the normally calcifying leg tendons from the domestic turkey, Meleagris gallopavo, has been investigated at an ultrastructural level with conventional and high-voltage electron microscopy, computed tomography, and three-dimensional image reconstruction methods. Specimens treated by either aqueous or anhydrous techniques and resin-embedded were appropriately sectioned and regions of early tendon mineralization were photographed. On the basis of individual photomicrographs, stereoscopic pairs of images, and tomographic three-dimensional image reconstructions, platelet-shaped crystals may be demonstrated for the first time in association with the surface of collagen fibrils. Mineral is also observed in closely parallel arrays within collagen hole and overlap zones. The mineral deposition at these spatially distinct locations in the tendon provides insight into possible means by which calcification is mediated by collagen as a fundamental event in skeletal and dental formation among vertebrates.

The Ettention software package.

PubMed

Dahmen, Tim; Marsalek, Lukas; Marniok, Nico; Turoňová, Beata; Bogachev, Sviatoslav; Trampert, Patrick; Nickels, Stefan; Slusallek, Philipp

2016-02-01

We present a novel software package for the problem "reconstruction from projections" in electron microscopy. The Ettention framework consists of a set of modular building-blocks for tomographic reconstruction algorithms. The well-known block iterative reconstruction method based on Kaczmarz algorithm is implemented using these building-blocks, including adaptations specific to electron tomography. Ettention simultaneously features (1) a modular, object-oriented software design, (2) optimized access to high-performance computing (HPC) platforms such as graphic processing units (GPU) or many-core architectures like Xeon Phi, and (3) accessibility to microscopy end-users via integration in the IMOD package and eTomo user interface. We also provide developers with a clean and well-structured application programming interface (API) that allows for extending the software easily and thus makes it an ideal platform for algorithmic research while hiding most of the technical details of high-performance computing. Copyright © 2015 Elsevier B.V. All rights reserved.

Micro-computed tomographic analysis of the root canal morphology of the distal root of mandibular first molar.

PubMed

Filpo-Perez, Carolina; Bramante, Clovis Monteiro; Villas-Boas, Marcelo Haas; Húngaro Duarte, Marco Antonio; Versiani, Marco Aurélio; Ordinola-Zapata, Ronald

2015-02-01

The aim of this study was to evaluate the morphologic aspects of the root canal anatomy of the distal root of a mandibular first molar using micro-computed tomographic analysis. One-hundred distal roots of mandibular first molars were scanned using a micro-computed tomographic device at an isotropic resolution of 19.6 μm. The percentage frequency distribution of the morphologic configuration of the root canal was performed according to the Vertucci classification system. Two-dimensional parameters (area, perimeter, roundness, aspect ratio, and major and minor diameters) and the cross-sectional shape of the root canal were analyzed in the apical third at every 1-mm interval from the main apical foramen in roots presenting Vertucci types I and II configurations (n = 79). Data were statistically compared using the Kruskal-Wallis and Dunn tests with a significance level set at 5%. Seventy-six percent of the distal roots had a single root canal. Two, three, and four canals were found in 13%, 8%, and 3% of the sample, respectively. In 13 specimens, the configuration of the root canal did not fit into Vertucci's classification. Overall, 2-dimensional parameter values significantly increased at the 3-mm level (P < .05). The prevalence of oval canals was higher at the 1-mm level and decreased at the 5-mm level in which long oval and flattened canals were more prevalent. The distal roots of the mandibular first molars showed a high prevalence of single root canals. The prevalence of long oval and flattened canals increased in the coronal direction. In 13% of the samples, canal configurations that were not included in Vertucci's configuration system were found. Copyright © 2015 American Association of Endodontists. Published by Elsevier Inc. All rights reserved.

Micro-computed Tomographic Analysis of Apical Microcracks before and after Root Canal Preparation by Hand, Rotary, and Reciprocating Instruments at Different Working Lengths.

PubMed

de Oliveira, Bruna Paloma; Câmara, Andréa Cruz; Duarte, Daniel Amancio; Heck, Richard John; Antonino, Antonio Celso Dantas; Aguiar, Carlos Menezes

2017-07-01

This study aimed to compare apical microcrack formation after root canal shaping by hand, rotary, and reciprocating files at different working lengths using micro-computed tomographic analysis. Sixty mandibular incisors were randomly divided into 6 experimental groups (n = 10) according to the systems and working lengths used for the root canal preparation: ProTaper Universal for Hand Use (Dentsply Maillefer, Ballaigues, Switzerland), HyFlex CM (Coltene-Whaledent, Allstetten, Switzerland), and Reciproc (VDW, Munich, Germany) files working at the apical foramen (AF) and 1 mm short of the AF (AF - 1 mm). The teeth were imaged with micro-computed tomographic scanning at an isotropic resolution of 14 μm before and after root canal preparation, and the cross-sectional images generated were assessed to detect microcracks in the apical portion of the roots. Overall, 17 (28.3%) specimens presented microcracks before instrumentation. Apical microcracks were present in 1 (ProTaper Universal for Hand Use), 3 (Hyflex CM), and 2 (Reciproc) specimens when the instrumentation terminated at the AF. When instrumentation was terminated at AF - 1 mm, apical microcracks were detected in 3 (ProTaper Universal for Hand Use) and 4 (Hyflex CM and Reciproc) specimens. All these microcracks detected after root canal preparation were already present before instrumentation, and no new apical microcrack was visualized. For all groups, the number of slices presenting microcracks after root canal preparation was the same as before canal preparation. Root canal shaping with ProTaper Universal for Hand Use, HyFlex CM, and Reciproc systems, regardless of the working length, did not produce apical microcracks. Copyright © 2017 American Association of Endodontists. Published by Elsevier Inc. All rights reserved.

Statistical and operational considerations for designs for x-ray tomographic spectrophotometry to detect, localize, and classify foreign objects in various systems

NASA Astrophysics Data System (ADS)

Fennelly, Alphonsus J.; Fry, Edward L.; Zukic, Muamer; Wilson, Michele M.; Janik, Tadeusz J.; Torr, Douglas G.

1994-11-01

In six companion papers we discuss a capability for x-ray tomographic spectrophotometry at three energy ranges to observe foreign objects in various systems using a novel x-ray optical and photometric approach. We describe new types of thin-film x-ray reflecting filters to provide energy-specific optical trains, inserted into existing x-ray interrogation systems. That is complemented by performing topographic imaging at a few, to several, energies in each case. That provides a full topographic and spectrophotometric analysis. Foreign objects can then be detected, localized, discriminated, and classified, so that they may be dealt with by excision, and replacement with benign system elements. We analyze statistical and operational concerns leading to the design of three systems: The first operates at x-ray energies of 1 - 10 keV; it deals with defects in microelectronic integrated circuits. The second operates at x-ray energies of 10 - 30 keV; it deals with the defects in human tissue. The chemical specificity and image resolution of the system will allow identification, localization, and mensuration of tumors without the need of biopsy. The system which we concentrate this discussion on, the third, operates at x- ray energies of 30 - 70 keV; it deals with the presence in transportation systems of explosive devices, and contraband materials and objects in luggage and cargo. We present the analysis of the statistical features of the detection problem in these types of systems, discussing the operational constraints which limits system performance. After considering the multivariate, multisignature, approach to the problem, we discuss the tomographic and spectrophotometric approach to the problem which yields a better solution to the detection problem within the operational constraints.

Assessment of Severity of Ovine Smoke Inhalation Injury by Analysis of Computed Tomographic Scans

DTIC Science & Technology

2003-09-01

Computerized analysis of three- dimensional reconstructed scans was also performed, based on Hounsfield unit ranges: hyperinflated, 1,000 to 900; normal...the interactive segmentation function of the software. The pulmonary parenchyma was separated into four regions based on the Hounsfield unit (HU...SII) severity. Methods: Twenty anesthetized sheep underwent graded SII: group I, no smoke; group II, 5 smoke units ; group III, 10 units ; and group IV

Equipment for nuclear medical centers, production capabilities of Rosatom enterprises

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

Gavrish, Yu. N., E-mail: gavrish@luts.niiefa.spb.su; Koloskov, S. A.; Smirnov, V. P.

2015-12-15

Analysis of the capabilities of the State Corporation Rosatom enterprises on the development and production of diagnostic and therapeutic equipment for nuclear medicine centers is presented. Prospects of the development of accelerator equipment for the production of a wide range of radioisotope products are shown, and the trends of its development are determined. A comparative analysis of the technical parameters of domestic tomographs and devices for brachytherapy with foreign counterparts is given.

Quantitative 3D electromagnetic field determination of 1D nanostructures from single projection

DOE PAGES

Phatak, C.; Knoop, L. de; Houdellier, F.; ...

2016-05-01

One-dimensional (1D) nanostructures have been regarded as the most promising building blocks for nanoelectronics and nanocomposite material systems as well as for alternative energy applications. Although they result in confinement of a material, their properties and interactions with other nanostructures are still very much three-dimensional (3D) in nature. In this work, we present a novel method for quantitative determination of the 3D electromagnetic fields in and around 1D nanostructures using a single electron wave phase image, thereby eliminating the cumbersome acquisition of tomographic data. Using symmetry arguments, we have reconstructed the 3D magnetic field of a nickel nanowire as wellmore » as the 3D electric field around a carbon nanotube field emitter, from one single projection. The accuracy of quantitative values determined here is shown to be a better fit to the physics at play than the value obtained by conventional analysis. Moreover the 3D reconstructions can then directly be visualized and used in the design of functional 3D architectures built using 1D nanostructures.« less

Quantitative 3D electromagnetic field determination of 1D nanostructures from single projection

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

Phatak, C.; Knoop, L. de; Houdellier, F.

One-dimensional (1D) nanostructures have been regarded as the most promising building blocks for nanoelectronics and nanocomposite material systems as well as for alternative energy applications. Although they result in confinement of a material, their properties and interactions with other nanostructures are still very much three-dimensional (3D) in nature. In this work, we present a novel method for quantitative determination of the 3D electromagnetic fields in and around 1D nanostructures using a single electron wave phase image, thereby eliminating the cumbersome acquisition of tomographic data. Using symmetry arguments, we have reconstructed the 3D magnetic field of a nickel nanowire as wellmore » as the 3D electric field around a carbon nanotube field emitter, from one single projection. The accuracy of quantitative values determined here is shown to be a better fit to the physics at play than the value obtained by conventional analysis. Moreover the 3D reconstructions can then directly be visualized and used in the design of functional 3D architectures built using 1D nanostructures.« less

Efficient control schemes with limited computation complexity for Tomographic AO systems on VLTs and ELTs

NASA Astrophysics Data System (ADS)

Petit, C.; Le Louarn, M.; Fusco, T.; Madec, P.-Y.

2011-09-01

Various tomographic control solutions have been proposed during the last decades to ensure efficient or even optimal closed-loop correction to tomographic Adaptive Optics (AO) concepts such as Laser Tomographic AO (LTAO), Multi-Conjugate AO (MCAO). The optimal solution, based on Linear Quadratic Gaussian (LQG) approach, as well as suboptimal but efficient solutions such as Pseudo-Open Loop Control (POLC) require multiple Matrix Vector Multiplications (MVM). Disregarding their respective performance, these efficient control solutions thus exhibit strong increase of on-line complexity and their implementation may become difficult in demanding cases. Among them, two cases are of particular interest. First, the system Real-Time Computer architecture and implementation is derived from past or present solutions and does not support multiple MVM. This is the case of the AO Facility which RTC architecture is derived from the SPARTA platform and inherits its simple MVM architecture, which does not fit with LTAO control solutions for instance. Second, considering future systems such as Extremely Large Telescopes, the number of degrees of freedom is twenty to one hundred times bigger than present systems. In these conditions, tomographic control solutions can hardly be used in their standard form and optimized implementation shall be considered. Single MVM tomographic control solutions represent a potential solution, and straightforward solutions such as Virtual Deformable Mirrors have been already proposed for LTAO but with tuning issues. We investigate in this paper the possibility to derive from tomographic control solutions, such as POLC or LQG, simplified control solutions ensuring simple MVM architecture and that could be thus implemented on nowadays systems or future complex systems. We theoretically derive various solutions and analyze their respective performance on various systems thanks to numerical simulation. We discuss the optimization of their performance and stability issues with respect to classic control solutions. We finally discuss off-line computation and implementation constraints.

Analysis of optic disc change using the heidelberg retina tomograph in an acquired pit of the optic nerve.

PubMed

Oh, Joo Youn; Park, Ki Ho

2004-01-01

A 51-year-old woman diagnosed as having normal-tension glaucoma developed an acquired pit of the optic nerve. The optic disc was viewed by the Heidelberg Retina Tomograph (HRT; Heidelberg Engineering, Heidelberg, Germany) before and after development of an acquired pit of the optic nerve. HRT parameters and cross-sectional images of the optic disc were compared. Maximum cup depth at the site of the acquired pit of the optic nerve increased after development of the acquired pit of the optic nerve (from 1.200 to 2.432 mm). The neuroretinal rim area and volume in the inferotemporal octant were reduced (rim area from 0.070 to 0.010 mm2, rim volume from 0.009 to 0.001 mm3). The morphologic changes in the optic disc were also detected topographically and reflectively.

Dependence of optic disc parameters on disc area according to Heidelberg Retina Tomograph: Part II.

NASA Astrophysics Data System (ADS)

Machekhin, V.; Manaenkova, G.; Bondarenko, O.

2007-05-01

With the help of Heidelberg Retina Tomograph (HRT-II) optic disc parameters in 211 eyes of 115 healthy patients with refraction Em +/- 3,0 D and 96 eyes of 72 patients with myopia 3,5-14,0 D without any signs of glaucoma were studied. Analysis of optic disc parameters were carried out in 5 groups of patients according to disc area: less than 1,5 mm2, 1,5- 2,5 mm2, 2,5-3,0 mm2, 3,0-3,5 mm2 and more than 3,5 mm2. An accurate depending on disc area was revealed for all optic disc parameters in all sectors, which was manifested by increasing cup disc and rim disc (area and volume) and other parameters. We consider it is necessary to use the proper tables for right interpretation of received data for early diagnosis of glaucoma.

Quantifying phosphoric acid in high-temperature polymer electrolyte fuel cell components by X-ray tomographic microscopy.

PubMed

Eberhardt, S H; Marone, F; Stampanoni, M; Büchi, F N; Schmidt, T J

2014-11-01

Synchrotron-based X-ray tomographic microscopy is investigated for imaging the local distribution and concentration of phosphoric acid in high-temperature polymer electrolyte fuel cells. Phosphoric acid fills the pores of the macro- and microporous fuel cell components. Its concentration in the fuel cell varies over a wide range (40-100 wt% H3PO4). This renders the quantification and concentration determination challenging. The problem is solved by using propagation-based phase contrast imaging and a referencing method. Fuel cell components with known acid concentrations were used to correlate greyscale values and acid concentrations. Thus calibration curves were established for the gas diffusion layer, catalyst layer and membrane in a non-operating fuel cell. The non-destructive imaging methodology was verified by comparing image-based values for acid content and concentration in the gas diffusion layer with those from chemical analysis.

Condylar repositioning using centric relation bite in bimaxillary surgery

PubMed Central

Lee, Chang-Youn; Jang, Chang-Su; Kim, Ju-Won; Kim, Jwa-Young

2013-01-01

Objective The purpose of this study was to evaluate displacement of the mandibular condyle after orthognathic surgery using a condylar-repositioning device. Methods The patient group comprised 20 adults who underwent bimaxillary surgery between August 2008 and July 2011. The degree of condylar displacement was measured by pre- and postoperative tomographic analysis using centric relation bite and a wire during surgery. A survey assessing temporomandibular joint (TMJ) sound, pain, and locking was performed. The 20 tomographs and surveys were analyzed using the Wilcoxon signed-rank test and McNemar's test, respectively. Results No significant changes were observed in the anterior, superior, or posterior joint space of the TMJ (p > 0.05). In addition, no significant change was observed in TMJ sound (p > 0.05). However, TMJ pain and locking both decreased significantly after surgery (p < 0.05). Conclusions Due to its simplicity, this method may be feasible and useful for repositioning condyles. PMID:23671832

TOMOGRAPHIC MORPHOLOGICAL STUDY OF THE CRANIUM AND ITS CORRELATION WITH CRANIAL HALO USE IN ADULTS

PubMed Central

ALMEIDA, TIAGO FERREIRA DE; CHARAFEDDINE, HOMAR TOLEDO; ARAÚJO, FERNANDO FLORES DE; CRISTANTE, ALEXANDRE FOGAÇA; MARCON, RAPHAEL MARTUS; LETAIF, OLAVO BIRAGHI

2017-01-01

ABSTRACT Objective: To evaluate using tomographic study the thickness of the cranial board at the insertions points of the cranial halo pins in adults Methods: This is a retrospective, cross-sectional, descriptive analysis of Computed Tomography (CT) scans of adult patients' crania. The study included adults between 20 and 50 years without cranial abnormalities. We excluded any exam with cranial abnormalities Results: We analyzed 50 CT scans, including 27 men and 23 women, at the original insertion points and alternative points (1 and 2 cm above the frontal and parietal bones). The average values were 7.4333 mm in the frontal bone and 6.0290 mm in the parietal bone Conclusion: There was no statistically significant difference between the classical and alternative points, making room for alternative fixings and safer introduction of the pins, if necessary.Level of Evidence II, Retrospective Study. PMID:28642643

Applications of Collisional Radiative Modeling of Helium and Deuterium for Image Tomography Diagnostic of Te, Ne, and ND in the DIII-D Tokamak

NASA Astrophysics Data System (ADS)

Munoz Burgos, J. M.; Brooks, N. H.; Fenstermacher, M. E.; Meyer, W. H.; Unterberg, E. A.; Schmitz, O.; Loch, S. D.; Balance, C. P.

2011-10-01

We apply new atomic modeling techniques to helium and deuterium for diagnostics in the divertor and scrape-off layer regions. Analysis of tomographically inverted images is useful for validating detachment prediction models and power balances in the divertor. We apply tomographic image inversion from fast tangential cameras of helium and Dα emission at the divertor in order to obtain 2D profiles of Te, Ne, and ND (neutral ion density profiles). The accuracy of the atomic models for He I will be cross-checked against Thomson scattering measurements of Te and Ne. This work summarizes several current developments and applications of atomic modeling into diagnostic at the DIII-D tokamak. Supported in part by the US DOE under DE-AC05-06OR23100, DE-FC02-04ER54698, DE-AC52-07NA27344, and DE-AC05-00OR22725.

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

Asaba, Shinsuke; Hikage, Chiaki; Koyama, Kazuya

We perform a principal component analysis to assess ability of future observations to measure departures from General Relativity in predictions of the Poisson and anisotropy equations on linear scales. In particular, we focus on how the measurements of redshift-space distortions (RSD) observed from spectroscopic galaxy redshift surveys will improve the constraints when combined with lensing tomographic surveys. Assuming a Euclid-like galaxy imaging and redshift survey, we find that adding the 3D information decreases the statistical uncertainty by a factor between 3 and 7 compared to the case when only observables from lensing tomographic surveys are used. We also find thatmore » the number of well-constrained modes increases by a factor between 3 and 6. Our study indicates the importance of joint galaxy imaging and redshift surveys such as SuMIRe and Euclid to give more stringent tests of the ΛCDM model and to distinguish between various modified gravity and dark energy models.« less

Assessing the resolution-dependent utility of tomograms for geostatistics

USGS Publications Warehouse

Day-Lewis, F. D.; Lane, J.W.

2004-01-01

Geophysical tomograms are used increasingly as auxiliary data for geostatistical modeling of aquifer and reservoir properties. The correlation between tomographic estimates and hydrogeologic properties is commonly based on laboratory measurements, co-located measurements at boreholes, or petrophysical models. The inferred correlation is assumed uniform throughout the interwell region; however, tomographic resolution varies spatially due to acquisition geometry, regularization, data error, and the physics underlying the geophysical measurements. Blurring and inversion artifacts are expected in regions traversed by few or only low-angle raypaths. In the context of radar traveltime tomography, we derive analytical models for (1) the variance of tomographic estimates, (2) the spatially variable correlation with a hydrologic parameter of interest, and (3) the spatial covariance of tomographic estimates. Synthetic examples demonstrate that tomograms of qualitative value may have limited utility for geostatistics; moreover, the imprint of regularization may preclude inference of meaningful spatial statistics from tomograms.

Subsurface PpIX imaging in vivo with ultrasound-guided tomographic spectroscopy: reconstruction vs. born-normalized data

NASA Astrophysics Data System (ADS)

Flynn, Brendan P.; D'Souza, Alisha V.; Kanick, Stephen C.; Maytin, Edward; Hasan, Tayyaba; Pogue, Brian W.

2013-03-01

Aminolevulinic acid (ALA)-induced Protoporphyrin IX (PpIX)-based photodynamic therapy (PDT) is an effective treatment for skin cancers including basal cell carcinoma (BCC). Topically applied ALA promotes PpIX production preferentially in tumors, and many strategies have been developed to increase PpIX distribution and PDT treatment efficacy at depths > 1mm is not fully understood. While surface imaging techniques provide useful diagnosis, dosimetry, and efficacy information for superficial tumors, these methods cannot interrogate deeper tumors to provide in situ insight into spatial PpIX distributions. We have developed an ultrasound-guided, white-light-informed, tomographics spectroscopy system for the spatial measurement of subsurface PpIX. Detailed imaging system specifications, methodology, and optical-phantom-based characterization will be presented separately. Here we evaluate preliminary in vivo results using both full tomographic reconstruction and by plotting individual tomographic source-detector pair data against US images.

Noninvasive imaging analysis of biological tissue associated with laser thermal injury.

PubMed

Chang, Cheng-Jen; Yu, De-Yi; Hsiao, Yen-Chang; Ho, Kuang-Hua

2017-04-01

The purpose of our study is to use a noninvasive tomographic imaging technique with high spatial resolution to characterize and monitor biological tissue responses associated with laser thermal injury. Optical doppler tomography (ODT) combines laser doppler flowmetry (LDF) with optical coherence tomography (OCT) to obtain high resolution tomographic velocity and structural images of static and moving constituents in highly scattering biological tissues. A SurgiLase XJ150 carbon dioxide (CO 2 ) laser using a continuous mode of 3 watts (W) was used to create first, second or third degree burns on anesthetized Sprague-Dawley rats. Additional parameters for laser thermal injury were assessed as well. The rationale for using ODT in the evaluation of laser thermal injury offers a means of constructing a high resolution tomographic image of the structure and perfusion of laser damaged skin. In the velocity images, the blood flow is coded at 1300 μm/s and 0 velocity, 1000 μm/s and 0 velocity, 700 μm/s and 0 velocity adjacent to the first, second, and third degree injuries, respectively. ODT produces exceptional spatial resolution while having a non-invasive way of measurement, therefore, ODT is an accurate measuring method for high-resolution fluid flow velocity and structural images for biological tissue with laser thermal injury. Copyright © 2017 Chang Gung University. Published by Elsevier B.V. All rights reserved.

The CAFADIS camera: a new tomographic wavefront sensor for Adaptive Optics

NASA Astrophysics Data System (ADS)

Rodríguez, J. M.; Femenía, B.; Montilla, I.; Rodríguez-Ramos, L. F.; Marichal-Hernández, J. G.; Lüke, J. P.; López, R.; Díaz, J. J.; Martín, Y.

The CAFADIS camera is a new wavefront sensor (WFS) patented by the Universidad de La Laguna. CAFADIS is a system based on the concept of plenoptic camera originally proposed by Adelson and Wang [Single lens stereo with a plenoptic camera, IEEE Transactions on Pattern Analysis and Machine Intelligence 14 (1992)] and its most salient feature is its ability to simultaneously measuring wavefront maps and distances to objects [Wavefront and distance measurements using the CAFADIS camera, in Astronomical telescopes, Marseille (2008)]. This makes of CAFADIS an interesting alternative for LGS-based AO systems as it is capable of measuring from an LGS-beacon the atmospheric turbulence wavefront and simultaneously the distance to the LGS beacon thus removing the need of a NGS defocus sensor to probe changes in distance to the LGS beacon due to drifts of the mesospheric Na layer. In principle, the concept can also be employed to recover 3D profiles of the Na Layer allowing for optimizations of the measurement of the distance to the LGS-beacon. Currently we are investigating the possibility of extending the plenoptic WFS into a tomographic wavefront sensor. Simulations will be shown of a plenoptic WFS when operated within an LGS-based AO system for the recovery of wavefront maps at different heights. The preliminary results presented here show the tomographic ability of CAFADIS.

KiDS-450: tomographic cross-correlation of galaxy shear with Planck lensing

NASA Astrophysics Data System (ADS)

Harnois-Déraps, Joachim; Tröster, Tilman; Chisari, Nora Elisa; Heymans, Catherine; van Waerbeke, Ludovic; Asgari, Marika; Bilicki, Maciej; Choi, Ami; Erben, Thomas; Hildebrandt, Hendrik; Hoekstra, Henk; Joudaki, Shahab; Kuijken, Konrad; Merten, Julian; Miller, Lance; Robertson, Naomi; Schneider, Peter; Viola, Massimo

2017-10-01

We present the tomographic cross-correlation between galaxy lensing measured in the Kilo Degree Survey (KiDS-450) with overlapping lensing measurements of the cosmic microwave background (CMB), as detected by Planck 2015. We compare our joint probe measurement to the theoretical expectation for a flat Λ cold dark matter cosmology, assuming the best-fitting cosmological parameters from the KiDS-450 cosmic shear and Planck CMB analyses. We find that our results are consistent within 1σ with the KiDS-450 cosmology, with an amplitude re-scaling parameter AKiDS = 0.86 ± 0.19. Adopting a Planck cosmology, we find our results are consistent within 2σ, with APlanck = 0.68 ± 0.15. We show that the agreement is improved in both cases when the contamination to the signal by intrinsic galaxy alignments is accounted for, increasing A by ∼0.1. This is the first tomographic analysis of the galaxy lensing - CMB lensing cross-correlation signal, and is based on five photometric redshift bins. We use this measurement as an independent validation of the multiplicative shear calibration and of the calibrated source redshift distribution at high redshifts. We find that constraints on these two quantities are strongly correlated when obtained from this technique, which should therefore not be considered as a stand-alone competitive calibration tool.

Exemplar-based inpainting as a solution to the missing wedge problem in electron tomography.

PubMed

Trampert, Patrick; Wang, Wu; Chen, Delei; Ravelli, Raimond B G; Dahmen, Tim; Peters, Peter J; Kübel, Christian; Slusallek, Philipp

2018-04-21

A new method for dealing with incomplete projection sets in electron tomography is proposed. The approach is inspired by exemplar-based inpainting techniques in image processing and heuristically generates data for missing projection directions. The method has been extended to work on three dimensional data. In general, electron tomography reconstructions suffer from elongation artifacts along the beam direction. These artifacts can be seen in the corresponding Fourier domain as a missing wedge. The new method synthetically generates projections for these missing directions with the help of a dictionary based approach that is able to convey both structure and texture at the same time. It constitutes a preprocessing step that can be combined with any tomographic reconstruction algorithm. The new algorithm was applied to phantom data, to a real electron tomography data set taken from a catalyst, as well as to a real dataset containing solely colloidal gold particles. Visually, the synthetic projections, reconstructions, and corresponding Fourier power spectra showed a decrease of the typical missing wedge artifacts. Quantitatively, the inpainting method is capable to reduce missing wedge artifacts and improves tomogram quality with respect to full width half maximum measurements. Copyright © 2018. Published by Elsevier B.V.

Influence of the limited detector size on spatial variations of the reconstruction accuracy in holographic tomography

NASA Astrophysics Data System (ADS)

Kostencka, Julianna; Kozacki, Tomasz; Hennelly, Bryan; Sheridan, John T.

2017-06-01

Holographic tomography (HT) allows noninvasive, quantitative, 3D imaging of transparent microobjects, such as living biological cells and fiber optics elements. The technique is based on acquisition of multiple scattered fields for various sample perspectives using digital holographic microscopy. Then, the captured data is processed with one of the tomographic reconstruction algorithms, which enables 3D reconstruction of refractive index distribution. In our recent works we addressed the issue of spatially variant accuracy of the HT reconstructions, which results from the insufficient model of diffraction that is applied in the widely-used tomographic reconstruction algorithms basing on the Rytov approximation. In the present study, we continue investigating the spatially variant properties of the HT imaging, however, we are now focusing on the limited spatial size of holograms as a source of this problem. Using the Wigner distribution representation and the Ewald sphere approach, we show that the limited size of the holograms results in a decreased quality of tomographic imaging in off-center regions of the HT reconstructions. This is because the finite detector extent becomes a limiting aperture that prohibits acquisition of full information about diffracted fields coming from the out-of-focus structures of a sample. The incompleteness of the data results in an effective truncation of the tomographic transfer function for the out-of-center regions of the tomographic image. In this paper, the described effect is quantitatively characterized for three types of the tomographic systems: the configuration with 1) object rotation, 2) scanning of the illumination direction, 3) the hybrid HT solution combing both previous approaches.

Locating knots by industrial tomography- A feasibility study

Treesearch

Fred W. Taylor; Francis G. Wagner; Charles W. McMillin; Ira L. Morgan; Forrest F. Hopkins

1984-01-01

Industrial photon tomography was used to scan four southern pine logs and one red oak log. The logs were scanned at 16 cross-sectional slice planes located 1 centimeter apart along their longitudinal axes. Tomographic reconstructions were made from the scan data collected at these slice planes, and a cursory image analysis technique was developed to locate the log...

Functional-Lesion Investigation of Developmental Stuttering with Positron Emission Tomography.

ERIC Educational Resources Information Center

Ingham, Roger J.; And Others

1996-01-01

Analysis of use of positron emission tomographic measurements of resting-state regional cerebral blood flow in 29 men, 10 of whom stuttered, did not support the idea that developmental stuttering is associated with abnormalities of blood flow at rest. Findings did suggest an essentially normal functional brain terrain with a small number of minor…

Brain Correlates of Stuttering and Syllable Production: Gender Comparison and Replication.

ERIC Educational Resources Information Center

Ingham, Roger J.; Fox, Peter T.; Ingham, Janis C.; Xiong, Jinhu; Zamarripa, Frank; Hardies, L. Jean; Lancaster, Jack L.

2004-01-01

This article reports a gender replication study of the P. T. Fox et a. (2000) performance correlation analysis of neural systems that distinguish between normal and stuttered speech in adult males. Positron-emission tomographic (PET) images of cerebral blood flow (CBF) were correlated with speech behavior scores obtained during PET imaging for 10…

Concurrent EEG And NIRS Tomographic Imaging Based on Wearable Electro-Optodes

DTIC Science & Technology

2014-04-13

Interfaces   ( BCIs ),   and   other   systems   in   the   same   computational   framework.   Figure   11   below   shows...Improving  Brain-­‐Computer   Interfaces  Using   Independent  Component   Analysis,  In:  Towards  Future   BCIs ,  2012

Multi-Scale Correlative Tomography of a Li-Ion Battery Composite Cathode

PubMed Central

Moroni, Riko; Börner, Markus; Zielke, Lukas; Schroeder, Melanie; Nowak, Sascha; Winter, Martin; Manke, Ingo; Zengerle, Roland; Thiele, Simon

2016-01-01

Focused ion beam/scanning electron microscopy tomography (FIB/SEMt) and synchrotron X-ray tomography (Xt) are used to investigate the same lithium manganese oxide composite cathode at the same specific spot. This correlative approach allows the investigation of three central issues in the tomographic analysis of composite battery electrodes: (i) Validation of state-of-the-art binary active material (AM) segmentation: Although threshold segmentation by standard algorithms leads to very good segmentation results, limited Xt resolution results in an AM underestimation of 6 vol% and severe overestimation of AM connectivity. (ii) Carbon binder domain (CBD) segmentation in Xt data: While threshold segmentation cannot be applied for this purpose, a suitable classification method is introduced. Based on correlative tomography, it allows for reliable ternary segmentation of Xt data into the pore space, CBD, and AM. (iii) Pore space analysis in the micrometer regime: This segmentation technique is applied to an Xt reconstruction with several hundred microns edge length, thus validating the segmentation of pores within the micrometer regime for the first time. The analyzed cathode volume exhibits a bimodal pore size distribution in the ranges between 0–1 μm and 1–12 μm. These ranges can be attributed to different pore formation mechanisms. PMID:27456201

Whole-cell imaging of the budding yeast Saccharomyces cerevisiae by high-voltage scanning transmission electron tomography.

PubMed

Murata, Kazuyoshi; Esaki, Masatoshi; Ogura, Teru; Arai, Shigeo; Yamamoto, Yuta; Tanaka, Nobuo

2014-11-01

Electron tomography using a high-voltage electron microscope (HVEM) provides three-dimensional information about cellular components in sections thicker than 1 μm, although in bright-field mode image degradation caused by multiple inelastic scattering of transmitted electrons limit the attainable resolution. Scanning transmission electron microscopy (STEM) is believed to give enhanced contrast and resolution compared to conventional transmission electron microscopy (CTEM). Samples up to 1 μm in thickness have been analyzed with an intermediate-voltage electron microscope because inelastic scattering is not a critical limitation, and probe broadening can be minimized. Here, we employed STEM at 1 MeV high-voltage to extend the useful specimen thickness for electron tomography, which we demonstrate by a seamless tomographic reconstruction of a whole, budding Saccharomyces cerevisiae yeast cell, which is ~3 μm in thickness. High-voltage STEM tomography, especially in the bright-field mode, demonstrated sufficiently enhanced contrast and intensity, compared to CTEM tomography, to permit segmentation of major organelles in the whole cell. STEM imaging also reduced specimen shrinkage during tilt-series acquisition. The fidelity of structural preservation was limited by cytoplasmic extraction, and the spatial resolution was limited by the relatively large convergence angle of the scanning probe. However, the new technique has potential to solve longstanding problems of image blurring in biological specimens beyond 1 μm in thickness, and may facilitate new research in cellular structural biology. Copyright © 2014 Elsevier B.V. All rights reserved.

New Severity Indices for Quantifying Single-suture Metopic Craniosynostosis

PubMed Central

Ruiz-Correa, Salvador; Starr, Jacqueline R.; Lin, H. Jill; Kapp-Simon, Kathleen A.; Sze, Raymond W.; Ellenbogen, Richard G.; Speltz, Matthew L.; Cunningham, Michael L.

2012-01-01

OBJECTIVE To describe novel severity indices with which to quantify severity of trigonocephaly malformation in children diagnosed with isolated metopic synostosis. METHODS Computed tomographic scans of the cranium were obtained from 38 infants diagnosed with isolated metopic synostosis and 53 age-matched control patients. Volumetric reformations of the cranium were used to trace two-dimensional planes defined by the cranium-base plane and well-defined brain landmarks. For each patient, novel trigonocephaly severity indices (TSI) were computed from outline cranium shapes on each of these planes. The metopic severity index based on measurements of interlandmark distances was also computed and a receiver operating characteristic analysis used to compare the accuracy of classification based on TSIs versus that based on the metopic severity index. RESULTS The proposed TSIs are a sensitive measure of trigonocephaly malformation that can provide a classification accuracy of 96% with a specificity of 95%, in contrast with 82% of the metopic severity index at the same specificity level. CONCLUSIONS We completed exploratory analysis of outline-based severity measurements computed from computed tomographic image planes of the cranium. These TSIs enable quantitative analysis of cranium features in isolated metopic synostosis that may not be accurately detected by analytic tools derived from a sparse set of traditional interlandmark and semilandmark distances. PMID:18797362

Analysis and classification of optical tomographic images of rheumatoid fingers with ANOVA and discriminate analysis

NASA Astrophysics Data System (ADS)

Montejo, Ludguier D.; Kim, Hyun K.; Häme, Yrjö; Jia, Jingfei; Montejo, Julio D.; Netz, Uwe J.; Blaschke, Sabine; Zwaka, Paul; Müeller, Gerhard A.; Beuthan, Jürgen; Hielscher, Andreas H.

2011-03-01

We present a study on the effectiveness of computer-aided diagnosis (CAD) of rheumatoid arthritis (RA) from frequency-domain diffuse optical tomographic (FDOT) images. FDOT is used to obtain the distribution of tissue optical properties. Subsequently, the non-parametric Kruskal-Wallis ANOVA test is employed to verify statistically significant differences between the optical parameters of patients affected by RA and healthy volunteers. Furthermore, quadratic discriminate analysis (QDA) of the absorption (μa) and scattering (μa or μ's) distributions is used to classify subjects as affected or not affected by RA. We evaluate the classification efficiency by determining the sensitivity (Se), specificity (Sp), and the Youden index (Y). We find that combining features extracted from μa and μa or μ's images allows for more accurate classification than when μa or μa or μ's features are considered individually on their own. Combining μa and μa or μ's features yields values of up to Y = 0.75 (Se = 0.84 and Sp = 0.91). The best results when μa or μ's features are considered individually are Y = 0.65 (Se = 0.85 and Sp = 0.80) and Y = 0.70 (Se = 0.80 and Sp = 0.90), respectively.

Nanomaterial datasets to advance tomography in scanning transmission electron microscopy

DOE PAGES

Levin, Barnaby D. A.; Padgett, Elliot; Chen, Chien-Chun; ...

2016-06-07

Electron tomography in materials science has flourished with the demand to characterize nanoscale materials in three dimensions (3D). Access to experimental data is vital for developing and validating reconstruction methods that improve resolution and reduce radiation dose requirements. This work presents five high-quality scanning transmission electron microscope (STEM) tomography datasets in order to address the critical need for open access data in this field. The datasets represent the current limits of experimental technique, are of high quality, and contain materials with structural complexity. Included are tomographic series of a hyperbranched Co 2 P nanocrystal, platinum nanoparticles on a carbonmore » nanofibre imaged over the complete 180° tilt range, a platinum nanoparticle and a tungsten needle both imaged at atomic resolution by equal slope tomography, and a through-focal tilt series of PtCu nanoparticles. A volumetric reconstruction from every dataset is provided for comparison and development of post-processing and visualization techniques. Researchers interested in creating novel data processing and reconstruction algorithms will now have access to state of the art experimental test data.« less

Investigation of soft component in cosmic ray detection

NASA Astrophysics Data System (ADS)

Oláh, László; Varga, Dezső

2017-07-01

Cosmic ray detection is a research area which finds various applications in tomographic imaging of large size objects. In such applications, the background sources which contaminate cosmic muon signal require a good understanding of the creation processes, as well as reliable simulation frameworks with high predictive power are needed. One of the main background source is the ;soft component;, that is electrons and positrons. In this paper a simulation framework based on GEANT4 has been established to pin down the key features of the soft component. We have found that the electron and positron flux shows a remarkable invariance against various model parameters including the muon emission altitude or primary particle energy distribution. The correlation between simultaneously arriving particles have been quantitatively investigated, demonstrating that electrons and positrons tend to arrive within a close distance and with low relative angle. This feature, which is highly relevant for counting detectors, has been experimentally verified under open sky and at shallow depth underground. The simulation results have been compared to existing other measurements as well as other simulation programs.

Nanomaterial datasets to advance tomography in scanning transmission electron microscopy.

PubMed

Levin, Barnaby D A; Padgett, Elliot; Chen, Chien-Chun; Scott, M C; Xu, Rui; Theis, Wolfgang; Jiang, Yi; Yang, Yongsoo; Ophus, Colin; Zhang, Haitao; Ha, Don-Hyung; Wang, Deli; Yu, Yingchao; Abruña, Hector D; Robinson, Richard D; Ercius, Peter; Kourkoutis, Lena F; Miao, Jianwei; Muller, David A; Hovden, Robert

2016-06-07

Electron tomography in materials science has flourished with the demand to characterize nanoscale materials in three dimensions (3D). Access to experimental data is vital for developing and validating reconstruction methods that improve resolution and reduce radiation dose requirements. This work presents five high-quality scanning transmission electron microscope (STEM) tomography datasets in order to address the critical need for open access data in this field. The datasets represent the current limits of experimental technique, are of high quality, and contain materials with structural complexity. Included are tomographic series of a hyperbranched Co2P nanocrystal, platinum nanoparticles on a carbon nanofibre imaged over the complete 180° tilt range, a platinum nanoparticle and a tungsten needle both imaged at atomic resolution by equal slope tomography, and a through-focal tilt series of PtCu nanoparticles. A volumetric reconstruction from every dataset is provided for comparison and development of post-processing and visualization techniques. Researchers interested in creating novel data processing and reconstruction algorithms will now have access to state of the art experimental test data.

Nanomaterial datasets to advance tomography in scanning transmission electron microscopy

PubMed Central

Levin, Barnaby D.A.; Padgett, Elliot; Chen, Chien-Chun; Scott, M.C.; Xu, Rui; Theis, Wolfgang; Jiang, Yi; Yang, Yongsoo; Ophus, Colin; Zhang, Haitao; Ha, Don-Hyung; Wang, Deli; Yu, Yingchao; Abruña, Hector D.; Robinson, Richard D.; Ercius, Peter; Kourkoutis, Lena F.; Miao, Jianwei; Muller, David A.; Hovden, Robert

2016-01-01

Electron tomography in materials science has flourished with the demand to characterize nanoscale materials in three dimensions (3D). Access to experimental data is vital for developing and validating reconstruction methods that improve resolution and reduce radiation dose requirements. This work presents five high-quality scanning transmission electron microscope (STEM) tomography datasets in order to address the critical need for open access data in this field. The datasets represent the current limits of experimental technique, are of high quality, and contain materials with structural complexity. Included are tomographic series of a hyperbranched Co2P nanocrystal, platinum nanoparticles on a carbon nanofibre imaged over the complete 180° tilt range, a platinum nanoparticle and a tungsten needle both imaged at atomic resolution by equal slope tomography, and a through-focal tilt series of PtCu nanoparticles. A volumetric reconstruction from every dataset is provided for comparison and development of post-processing and visualization techniques. Researchers interested in creating novel data processing and reconstruction algorithms will now have access to state of the art experimental test data. PMID:27272459

Truncated Hexa-Octahedral Magnetite Crystals in Martian Meteorite ALH84001: Evidence of Biogenic Activity on Early Mars

NASA Technical Reports Server (NTRS)

Thomas-Keprta, K.; Clemett, S. J.; Schwartz, C.; McIntosh, J. R.; Bazylinski, D. A.; Kirschvink, J.; McKay, D. S.; Gibson, E. K.; Vali, H.; Romanek, C. S.

2004-01-01

The landmark paper by McKay et al. [1] cited four lines of evidence associated with the Martian meteorite ALH84001 to support the hypothesis that life existed on Mars approximately 4 Ga ago. Now, more than five years later, attention has focused on the ALH84001 magnetite grains embedded within carbonate globules in the ALH84001 meteorite. We have suggested that up to approx.25% of the ALH84001 magnetite crystals are products of biological activity [e.g., 2]. The remaining magnetites lack sufficient characteristics to constrain their origin. The papers of Thomas Keprta et al. were criticized arguing that the three dimensional structure of ALH84001 magnetite crystals can only be unambiguously determined using electron tomographic techniques. Clemett et al. [3] confirmed that magnetites produced by magnetotactic bacteria strain MV-I display a truncated hexa-octahedral geometry using electron tomography and validated the use of the multi-tilt classical transmission microscopy technique used by [2]. Recently the geometry of the purported martian biogenic magnetites was shown be identical to that for MV-1 magnetites using electron tomography [6].

Dense velocity reconstruction from tomographic PTV with material derivatives

NASA Astrophysics Data System (ADS)

Schneiders, Jan F. G.; Scarano, Fulvio

2016-09-01

A method is proposed to reconstruct the instantaneous velocity field from time-resolved volumetric particle tracking velocimetry (PTV, e.g., 3D-PTV, tomographic PTV and Shake-the-Box), employing both the instantaneous velocity and the velocity material derivative of the sparse tracer particles. The constraint to the measured temporal derivative of the PTV particle tracks improves the consistency of the reconstructed velocity field. The method is christened as pouring time into space, as it leverages temporal information to increase the spatial resolution of volumetric PTV measurements. This approach becomes relevant in cases where the spatial resolution is limited by the seeding concentration. The method solves an optimization problem to find the vorticity and velocity fields that minimize a cost function, which includes next to instantaneous velocity, also the velocity material derivative. The velocity and its material derivative are related through the vorticity transport equation, and the cost function is minimized using the limited-memory Broyden-Fletcher-Goldfarb-Shanno (L-BFGS) algorithm. The procedure is assessed numerically with a simulated PTV experiment in a turbulent boundary layer from a direct numerical simulation (DNS). The experimental validation considers a tomographic particle image velocimetry (PIV) experiment in a similar turbulent boundary layer and the additional case of a jet flow. The proposed technique (`vortex-in-cell plus', VIC+) is compared to tomographic PIV analysis (3D iterative cross-correlation), PTV interpolation methods (linear and adaptive Gaussian windowing) and to vortex-in-cell (VIC) interpolation without the material derivative. A visible increase in resolved details in the turbulent structures is obtained with the VIC+ approach, both in numerical simulations and experiments. This results in a more accurate determination of the turbulent stresses distribution in turbulent boundary layer investigations. Data from a jet experiment, where the vortex topology is retrieved with a small number of tracers indicate the potential utilization of VIC+ in low-concentration experiments as for instance occurring in large-scale volumetric PTV measurements.

A New Approach to the Visual Rendering of Mantle Tomography

NASA Astrophysics Data System (ADS)

Holtzman, B. K.; Pratt, M. J.; Turk, M.; Hannasch, D. A.

2016-12-01

Visualization of mantle tomographic models requires a range of subjective aesthetic decisions that are often made subconsciously or unarticulated by authors. Many of these decisions affect the interpretations of the model, and therefore should be articulated and understood. In 2D these decisions are manifest in the choice of colormap, including the data values associated with the neutral/transitional colorband, as well as the correspondence between the extrema in the colormap and the parameters of the extrema. For example, we generally choose warm color signifying slow- and cool colors signifying fast velocities (or perturbations), but where is the transition, and the color gradients from transition to extrema? In 3D, volumes are generally rendered by choosing an isosurface of a velocity perturbation (relative to a model at each depth) and coloring it slow to fast. The choice of isosurface is arbitrary or guided by a researcher's intuition, again strongly affecting (or driven by) the interpretation. Here, we present a different approach to 3-D rendering of tomography models, using true volumetric rendering with "yt", a python package for visualization and analysis of data. In our approach, we do not use isosurfaces; instead, we render the extrema in the tomographic model as the most opaque, with an opacity function that touches zero (totally transparent) at dynamically selected values, or at the average value at each depth. The intent is that the most robust aspects of the model are visually clear, and the visualization emphasizes the nature of the interfaces between regions as well as the form of distinct mantle regions. Much of the current scientific discussion in upper mantle tomography focuses on the nature of interfaces, so we will demonstrate how decisions in the definition of the transparent regions influence interpretation of tomographic models. Our aim is to develop a visual language for tomographic visualization that can help focus geodynamic questions.

TOmographic Remote Observer of Ionospheric Disturbances

DTIC Science & Technology

2007-11-15

ionosphere . The proposed spacecraft was an evolutionary design from the USUSat, Combat Sentinel, and USUSat II programs whose histories are shown in...Figure 1. The primary science instrument, TOROID for TOmographic Remote Observer of Ionospheric Disturbances, is a photometer for measuring the

Acoustic representation of tomographic data

NASA Astrophysics Data System (ADS)

Wampler, Cheryl; Zahrt, John D.; Hotchkiss, Robert S.; Zahrt, Rebecca; Kust, Mark

1993-04-01

Tomographic data and tomographic reconstructions are naturally periodic in the angle of rotation of the turntable and the polar angel of the coordinates in the object, respectively. Similarly, acoustic waves are periodic and have amplitude and wavelength as free parameters that can be fit to another representation. Work has been in progress for some time in bringing the acoustic senses to bear on large data sets rather than just the visual sense. We will provide several different acoustic representations of both raw data and density maps. Rather than graphical portrayal of the data and reconstructions, you will be presented various 'tone poems.'

Optical tomograph optimized for tumor detection inside highly absorbent organs

NASA Astrophysics Data System (ADS)

Boutet, Jérôme; Koenig, Anne; Hervé, Lionel; Berger, Michel; Dinten, Jean-Marc; Josserand, Véronique; Coll, Jean-Luc

2011-05-01

This paper presents a tomograph for small animal fluorescence imaging. The compact and cost-effective system described in this article was designed to address the problem of tumor detection inside highly absorbent heterogeneous organs, such as lungs. To validate the tomograph's ability to detect cancerous nodules inside lungs, in vivo tumor growth was studied on seven cancerous mice bearing murine mammary tumors marked with Alexa Fluor 700. They were successively imaged 10, 12, and 14 days after the primary tumor implantation. The fluorescence maps were compared over this time period. As expected, the reconstructed fluorescence increases with the tumor growth stage.

Three-dimensional x-ray diffraction nanoscopy

NASA Astrophysics Data System (ADS)

Nikulin, Andrei Y.; Dilanian, Ruben A.; Zatsepin, Nadia A.; Muddle, Barry C.

2008-08-01

A novel approach to x-ray diffraction data analysis for non-destructive determination of the shape of nanoscale particles and clusters in three-dimensions is illustrated with representative examples of composite nanostructures. The technique is insensitive to the x-rays coherence, which allows 3D reconstruction of a modal image without tomographic synthesis and in-situ analysis of large (over a several cubic millimeters) volume of material with a spatial resolution of few nanometers, rendering the approach suitable for laboratory facilities.

Regional model-based computerized ionospheric tomography using GPS measurements: IONOLAB-CIT

NASA Astrophysics Data System (ADS)

Tuna, Hakan; Arikan, Orhan; Arikan, Feza

2015-10-01

Three-dimensional imaging of the electron density distribution in the ionosphere is a crucial task for investigating the ionospheric effects. Dual-frequency Global Positioning System (GPS) satellite signals can be used to estimate the slant total electron content (STEC) along the propagation path between a GPS satellite and ground-based receiver station. However, the estimated GPS-STEC is very sparse and highly nonuniformly distributed for obtaining reliable 3-D electron density distributions derived from the measurements alone. Standard tomographic reconstruction techniques are not accurate or reliable enough to represent the full complexity of variable ionosphere. On the other hand, model-based electron density distributions are produced according to the general trends of ionosphere, and these distributions do not agree with measurements, especially for geomagnetically active hours. In this study, a regional 3-D electron density distribution reconstruction method, namely, IONOLAB-CIT, is proposed to assimilate GPS-STEC into physical ionospheric models. The proposed method is based on an iterative optimization framework that tracks the deviations from the ionospheric model in terms of F2 layer critical frequency and maximum ionization height resulting from the comparison of International Reference Ionosphere extended to Plasmasphere (IRI-Plas) model-generated STEC and GPS-STEC. The suggested tomography algorithm is applied successfully for the reconstruction of electron density profiles over Turkey, during quiet and disturbed hours of ionosphere using Turkish National Permanent GPS Network.

High-pressure freezing and freeze substitution of Arabidopsis for electron microscopy.

PubMed

Austin, Jotham R

2014-01-01

The objectives of electron microscopy ultrastructural studies are to examine cellular architecture and relate the cell's structural machinery to dynamic functional roles. This aspiration is difficult to achieve if specimens have not been adequately preserved in a "living state"; hence specimen preparation is of the utmost importance for the success of any electron micrographic study. High-pressure freezing (HPF)/freeze substitution (FS) has long been recognized as the primer technique for the preservation of ultrastructure in biological samples. In most cases a basic HPF/freeze substitution protocol is sufficient to obtain superior ultrastructural preservation and structural contrast, which allows one to use more advanced microscopy techniques such as 3D electron tomography. However, for plant tissues, which have a thick cell wall, large water-filled vacuoles, and air spaces (all of which are detrimental to cryopreservation), these basic HPF/FS protocols often yield undesirable results. In particular, ice crystal artifacts and the staining of membrane systems are often poorly or negatively stained, which make 3D segmentation of a tomogram difficult. To overcome these problems, various aspects of the HPF/FS protocol can be altered, including the cryo-filler(s) used, freeze substitution cocktail, and the resin infiltration process. This chapter will describe these modifications for the preparation of plant tissues for routine electron microscopic studies, immunocytochemistry, and 3D tomographic electron imaging.

Validation of Spherically Symmetric Inversion by Use of a Tomographically Reconstructed Three-Dimensional Electron Density of the Solar Corona

NASA Technical Reports Server (NTRS)

Wang, Tongjiang; Davila, Joseph M.

2014-01-01

Determining the coronal electron density by the inversion of white-light polarized brightness (pB) measurements by coronagraphs is a classic problem in solar physics. An inversion technique based on the spherically symmetric geometry (spherically symmetric inversion, SSI) was developed in the 1950s and has been widely applied to interpret various observations. However, to date there is no study of the uncertainty estimation of this method. We here present the detailed assessment of this method using a three-dimensional (3D) electron density in the corona from 1.5 to 4 solar radius as a model, which is reconstructed by a tomography method from STEREO/COR1 observations during the solar minimum in February 2008 (Carrington Rotation, CR 2066).We first show in theory and observation that the spherically symmetric polynomial approximation (SSPA) method and the Van de Hulst inversion technique are equivalent. Then we assess the SSPA method using synthesized pB images from the 3D density model, and find that the SSPA density values are close to the model inputs for the streamer core near the plane of the sky (POS) with differences generally smaller than about a factor of two; the former has the lower peak but extends more in both longitudinal and latitudinal directions than the latter. We estimate that the SSPA method may resolve the coronal density structure near the POS with angular resolution in longitude of about 50 deg. Our results confirm the suggestion that the SSI method is applicable to the solar minimum streamer (belt), as stated in some previous studies. In addition, we demonstrate that the SSPA method can be used to reconstruct the 3D coronal density, roughly in agreement with the reconstruction by tomography for a period of low solar activity (CR 2066). We suggest that the SSI method is complementary to the 3D tomographic technique in some cases, given that the development of the latter is still an ongoing research effort.

Tomographic Image Compression Using Multidimensional Transforms.

ERIC Educational Resources Information Center

Villasenor, John D.

1994-01-01

Describes a method for compressing tomographic images obtained using Positron Emission Tomography (PET) and Magnetic Resonance (MR) by applying transform compression using all available dimensions. This takes maximum advantage of redundancy of the data, allowing significant increases in compression efficiency and performance. (13 references) (KRN)

The Mathematics of Four or More N-Localizers for Stereotactic Neurosurgery.

PubMed

Brown, Russell A

2015-10-13

The mathematics that were originally developed for the N-localizer apply to three N-localizers that produce three sets of fiducials in a tomographic image. Some applications of the N-localizer use four N-localizers that produce four sets of fiducials; however, the mathematics that apply to three sets of fiducials do not apply to four sets of fiducials. This article presents mathematics that apply to four or more sets of fiducials that all lie within one planar tomographic image. In addition, these mathematics are extended to apply to four or more fiducials that do not all lie within one planar tomographic image, as may be the case with magnetic resonance (MR) imaging where a volume is imaged instead of a series of planar tomographic images. Whether applied to a planar image or a volume image, the mathematics of four or more N-localizers provide a statistical measure of the quality of the image data that may be influenced by factors, such as the nonlinear distortion of MR images.

TomoBank: a tomographic data repository for computational x-ray science

DOE PAGES

De Carlo, Francesco; Gürsoy, Doğa; Ching, Daniel J.; ...

2018-02-08

There is a widening gap between the fast advancement of computational methods for tomographic reconstruction and their successful implementation in production software at various synchrotron facilities. This is due in part to the lack of readily available instrument datasets and phantoms representative of real materials for validation and comparison of new numerical methods. Recent advancements in detector technology made sub-second and multi-energy tomographic data collection possible [1], but also increased the demand to develop new reconstruction methods able to handle in-situ [2] and dynamic systems [3] that can be quickly incorporated in beamline production software [4]. The X-ray Tomography Datamore » Bank, tomoBank, provides a repository of experimental and simulated datasets with the aim to foster collaboration among computational scientists, beamline scientists, and experimentalists and to accelerate the development and implementation of tomographic reconstruction methods for synchrotron facility production software by providing easy access to challenging dataset and their descriptors.« less

High-resolution multimodal clinical multiphoton tomography of skin

NASA Astrophysics Data System (ADS)

König, Karsten

2011-03-01

This review focuses on multimodal multiphoton tomography based on near infrared femtosecond lasers. Clinical multiphoton tomographs for 3D high-resolution in vivo imaging have been placed into the market several years ago. The second generation of this Prism-Award winning High-Tech skin imaging tool (MPTflex) was introduced in 2010. The same year, the world's first clinical CARS studies have been performed with a hybrid multimodal multiphoton tomograph. In particular, non-fluorescent lipids and water as well as mitochondrial fluorescent NAD(P)H, fluorescent elastin, keratin, and melanin as well as SHG-active collagen has been imaged with submicron resolution in patients suffering from psoriasis. Further multimodal approaches include the combination of multiphoton tomographs with low-resolution wide-field systems such as ultrasound, optoacoustical, OCT, and dermoscopy systems. Multiphoton tomographs are currently employed in Australia, Japan, the US, and in several European countries for early diagnosis of skin cancer, optimization of treatment strategies, and cosmetic research including long-term testing of sunscreen nanoparticles as well as anti-aging products.

Nuclear medicine in clinical neurology: an update

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

Oldendorf, W.H.

1981-01-01

Isotope scanning using technetium 99m pertechnetate has fallen into disuse since the advent of x-ray computerized tomography. Regional brain blood flow studies have been pursued on a research basis. Increased regional blood flow during focal seizure activity has been demonstrated and is of use in localizing such foci. Cisternography as a predictive tool in normal pressure hydrocephalus is falling into disuse. Positron tomographic scanning is a potent research tool that can demonstrate both regional glycolysis and blood flow. Unfortunately, it is extremely expensive and complex to apply in a clinical setting. With support from the National Institutes of Health, sevenmore » extramural centers have been funded to develop positron tomographic capabilities, and they will greatly advance our knowledge of stroke pathophysiology, seizure disorders, brain tumors, and various degenerative diseases. Nuclear magnetic resonance imaging is a potentially valuable tool since it creates tomographic images representing the distribution of brain water. No tissue ionization is produced, and images comparable to second-generation computerized tomographic scans are already being produced in humans.« less

3D multimodal cardiac data reconstruction using angiography and computerized tomographic angiography registration.

PubMed

Moosavi Tayebi, Rohollah; Wirza, Rahmita; Sulaiman, Puteri S B; Dimon, Mohd Zamrin; Khalid, Fatimah; Al-Surmi, Aqeel; Mazaheri, Samaneh

2015-04-22

Computerized tomographic angiography (3D data representing the coronary arteries) and X-ray angiography (2D X-ray image sequences providing information about coronary arteries and their stenosis) are standard and popular assessment tools utilized for medical diagnosis of coronary artery diseases. At present, the results of both modalities are individually analyzed by specialists and it is difficult for them to mentally connect the details of these two techniques. The aim of this work is to assist medical diagnosis by providing specialists with the relationship between computerized tomographic angiography and X-ray angiography. In this study, coronary arteries from two modalities are registered in order to create a 3D reconstruction of the stenosis position. The proposed method starts with coronary artery segmentation and labeling for both modalities. Then, stenosis and relevant labeled artery in X-ray angiography image are marked by a specialist. Proper control points for the marked artery in both modalities are automatically detected and normalized. Then, a geometrical transformation function is computed using these control points. Finally, this function is utilized to register the marked artery from the X-ray angiography image on the computerized tomographic angiography and get the 3D position of the stenosis lesion. The result is a 3D informative model consisting of stenosis and coronary arteries' information from the X-ray angiography and computerized tomographic angiography modalities. The results of the proposed method for coronary artery segmentation, labeling and 3D reconstruction are evaluated and validated on the dataset containing both modalities. The advantage of this method is to aid specialists to determine a visual relationship between the correspondent coronary arteries from two modalities and also set up a connection between stenosis points from an X-ray angiography along with their 3D positions on the coronary arteries from computerized tomographic angiography. Moreover, another benefit of this work is that the medical acquisition standards remain unchanged, which means that no calibration in the acquisition devices is required. It can be applied on most computerized tomographic angiography and angiography devices.

Tomographic findings of acute pulmonary toxoplasmosis in immunocompetent patients.

PubMed

de Souza Giassi, Karina; Costa, Andre Nathan; Apanavicius, Andre; Teixeira, Fernando Bin; Fernandes, Caio Julio Cesar; Helito, Alfredo Salim; Kairalla, Ronaldo Adib

2014-11-25

Toxoplasmosis is one of the most common human zoonosis, and is generally benign in most of the individuals. Pulmonary involvement is common in immunocompromised subjects, but very rare in immunocompetents and there are scarce reports of tomographic findings in the literature. The aim of the study is to describe three immunocompetent patients diagnosed with acute pulmonary toxoplasmosis and their respective thoracic tomographic findings. Acute toxoplasmosis was diagnosed according to the results of serological tests suggestive of recent primary infection and the absence of an alternative etiology. From 2009 to 2013, three patients were diagnosed with acute respiratory failure secondary to acute toxoplasmosis. The patients were two female and one male, and were 38, 56 and 36 years old. Similarly they presented a two-week febrile illness and progressive dyspnea before admission. Laboratory tests demonstrated lymphocytosis, slight changes in liver enzymes and high inflammatory markers. Tomographic findings were bilateral smooth septal and peribronchovascular thickening (100%), ground-glass opacities (100%), atelectasis (33%), random nodules (33%), lymph node enlargement (33%) and pleural effusion (66%). All the patients improved their symptoms after treatment, and complete resolution of tomographic findings were found in the followup. These cases provide a unique description of the presentation and evolution of pulmonary tomographic manifestations of toxoplasmosis in immunocompetent patients. Toxoplasma pneumonia manifests with fever, dyspnea and a non-productive cough that may result in respiratory failure. In animal models, changes were described as interstitial pneumonitis with focal infiltrates of neutrophils that can finally evolve into a pattern of diffuse alveolar damage with focal necrosis. The tomographic findings are characterized as ground glass opacities, smooth septal and marked peribronchovascular thickening; and may mimic pulmonary congestion, lymphangitis, atypical pneumonia and pneumocystosis. This is the largest series of CT findings of acute toxoplasmosis in immunocompetent hosts, and the diagnosis should be considered as patients that present with acute respiratory failure in the context of a subacute febrile illness with bilateral and diffuse interstitial infiltrates with marked peribronchovascular thickening. If promptly treated, pulmonary toxoplasmosis can result in complete clinical and radiological recovery in immunocompetent hosts.

Plastic scintillation detectors for dose monitoring in digital breast tomosynthesis

NASA Astrophysics Data System (ADS)

Antunes, J.; Machado, J.; Peralta, L.; Matela, N.

2018-01-01

Plastic scintillators detectors (PSDs) have been studied as dosimeters, since they provide a cost-effective alternative to conventional ionization chambers. Measurement and analysis of energy dependency were performed on a Siemens Mammomat tomograph for two different peak kilovoltages: 26 kV and 35 kV. Both PSD displayed good linearity for each energy considered and almost no energy dependence.

Effects of Lewis lung carcinoma on trabecular microstructural changes in wild-type and plasminogen activator inhibitor-1 deficient mice fed a high-fat diet

USDA-ARS?s Scientific Manuscript database

Bone is a major target organ of metastasis. The present study investigated the effects of Lewis lung carcinoma (LLC) on trabecular microstructural changes, using tomographic analysis, in distal femur and lumbar 4 vertebra from LLC-bearing wild-type and plasminogen activator inhibitor-1 (PAI-1) defi...

Roles of Transesophageal Echocardiography and Cardiac Computed Tomography for Evaluation of Left Atrial Thrombus and Associated Pathology: A Review and Critical Analysis.

PubMed

Pathan, Faraz; Hecht, Harvey; Narula, Jagat; Marwick, Thomas H

2018-04-01

Evaluation of the left atrium and left atrial appendage for the presence of thrombus prior to cardioversion and pulmonary vein isolation, and of the entire heart for embolic sources in the setting of cryptogenic stroke, has long been standard medical care. Guidelines have uniformly recommended transesophageal echocardiography (TEE) to accomplish these goals. In recent years, computed tomographic angiography has demonstrated diagnostic accuracy similar to that of TEE for the detection of thrombus. Analysis of the pertinent data and relative merits of the 2 technologies leads to the conclusions that: 1) both modalities have some unique, nonoverlapping capabilities that may dictate their use in specific situations; 2) computed tomographic angiography is a reasonable alternative to TEE when the primary aim is to exclude left atrial and left atrial appendage thrombus and in patients in whom the risks associated with TEE outweigh the benefits; and 3) both options should be discussed with the patient in the setting of shared decision making. Copyright © 2018 American College of Cardiology Foundation. Published by Elsevier Inc. All rights reserved.

Microscale reconstruction of biogeochemical substrates using multimode X-ray tomography and scanning electron microscopy

NASA Astrophysics Data System (ADS)

Miller, M.; Miller, E.; Liu, J.; Lund, R. M.; McKinley, J. P.

2012-12-01

X-ray computed tomography (CT), scanning electron microscopy (SEM), electron microprobe analysis (EMP), and computational image analysis are mature technologies used in many disciplines. Cross-discipline combination of these imaging and image-analysis technologies is the focus of this research, which uses laboratory and light-source resources in an iterative approach. The objective is to produce images across length scales, taking advantage of instrumentation that is optimized for each scale, and to unify them into a single compositional reconstruction. Initially, CT images will be collected using both x-ray absorption and differential phase contrast modes. The imaged sample will then be physically sectioned and the exposed surfaces imaged and characterized via SEM/EMP. The voxel slice corresponding to the physical sample surface will be isolated computationally, and the volumetric data will be combined with two-dimensional SEM images along CT image planes. This registration step will take advantage of the similarity between the X-ray absorption (CT) and backscattered electron (SEM) coefficients (both proportional to average atomic number in the interrogated volume) as well as the images' mutual information. Elemental and solid-phase distributions on the exposed surfaces, co-registered with SEM images, will be mapped using EMP. The solid-phase distribution will be propagated into three-dimensional space using computational methods relying on the estimation of compositional distributions derived from the CT data. If necessary, solid-phase and pore-space boundaries will be resolved using X-ray differential phase contrast tomography, x-ray fluorescence tomography, and absorption-edge microtomography at a light-source facility. Computational methods will be developed to register and model images collected over varying scales and data types. Image resolution, physically and dynamically, is qualitatively different for the electron microscopy and CT methodologies. Routine CT images are resolved at 10-20 μm, while SEM images are resolved at 10-20 nm; grayscale values vary according to collection time and instrument sensitivity; and compositional sensitivities via EMP vary in interrogation volume and scale. We have so far successfully registered SEM imagery within a multimode tomographic volume and have used standard methods to isolate pore space within the volume. We are developing a three-dimensional solid-phase identification and registration method that is constrained by bulk-sample X-ray diffraction Rietveld refinements. The results of this project will prove useful in fields that require the fine-scale definition of solid-phase distributions and relationships, and could replace more inefficient methods for making these estimations.

Clamshell tomograph

DOEpatents

Derenzo, Stephen E.; Budinger, Thomas F.

1984-01-01

In brief, the invention is a tomograph modified to be in a clamshell configuration so that the ring or rings may be moved to multiple sampling positions. The tomograph includes an array of detectors arranged in successive adjacent relative locations along a closed curve in a first position in a selected plane, and means for securing the detectors in the relative locations in a first sampling position. The securing means is movable in the plane in two sections and pivotable at one p The U.S. Government has rights in this invention pursuant to Contract No. W-7405-ENG-48 between the U.S. Department of Energy and the University of California.

Center-of-Mass Tomography and Wigner Function for Multimode Photon States

NASA Astrophysics Data System (ADS)

Dudinets, Ivan V.; Man'ko, Vladimir I.

2018-06-01

Tomographic probability representation of multimode electromagnetic field states in the scheme of center-of-mass tomography is reviewed. Both connection of the field state Wigner function and observable Weyl symbols with the center-of-mass tomograms as well as connection of the Grönewold kernel with the center-of-mass tomographic kernel determining the noncommutative product of the tomograms are obtained. The dual center-of-mass tomogram of the photon states are constructed and the dual tomographic kernel is obtained. The models of other generalized center-of-mass tomographies are discussed. Example of two-mode even and odd Schrödinger cat states is presented in details.

Tracking tracer breakthrough in the hyporheic zone using time‐lapse DC resistivity, Crabby Creek, Pennsylvania

USGS Publications Warehouse

Nyquist, Jonathan E.; Toran, Laura; Fang, Allison C.; Ryan, Robert J.; Rosenberry, Donald O.

2010-01-01

Characterization of the hyporheic zone is of critical importance for understanding stream ecology, contaminant transport, and groundwater‐surface water interaction. A salt water tracer test was used to probe the hyporheic zone of a recently re‐engineered portion of Crabby Creek, a stream located near Philadelphia, PA. The tracer solution was tracked through a 13.5 meter segment of the stream using both a network of 25 wells sampled every 5–15 minutes and time‐lapse electrical resistivity tomographs collected every 11 minutes for six hours, with additional tomographs collected every 100 minutes for an additional 16 hours. The comparison of tracer monitoring methods is of keen interest because tracer tests are one of the few techniques available for characterizing this dynamic zone, and logistically it is far easier to collect resistivity tomographs than to install and monitor a dense network of wells. Our results show that resistivity monitoring captured the essential shape of the breakthrough curve and may indicate portions of the stream where the tracer lingered in the hyporheic zone. Time‐lapse resistivity measurements, however, represent time averages over the period required to collect a tomographic data set, and spatial averages over a volume larger than captured by a well sample. Smoothing by the resistivity data inversion algorithm further blurs the resulting tomograph; consequently resistivity monitoring underestimates the degree of fine‐scale heterogeneity in the hyporheic zone.

Rapid tomographic reconstruction based on machine learning for time-resolved combustion diagnostics

NASA Astrophysics Data System (ADS)

Yu, Tao; Cai, Weiwei; Liu, Yingzheng

2018-04-01

Optical tomography has attracted surged research efforts recently due to the progress in both the imaging concepts and the sensor and laser technologies. The high spatial and temporal resolutions achievable by these methods provide unprecedented opportunity for diagnosis of complicated turbulent combustion. However, due to the high data throughput and the inefficiency of the prevailing iterative methods, the tomographic reconstructions which are typically conducted off-line are computationally formidable. In this work, we propose an efficient inversion method based on a machine learning algorithm, which can extract useful information from the previous reconstructions and build efficient neural networks to serve as a surrogate model to rapidly predict the reconstructions. Extreme learning machine is cited here as an example for demonstrative purpose simply due to its ease of implementation, fast learning speed, and good generalization performance. Extensive numerical studies were performed, and the results show that the new method can dramatically reduce the computational time compared with the classical iterative methods. This technique is expected to be an alternative to existing methods when sufficient training data are available. Although this work is discussed under the context of tomographic absorption spectroscopy, we expect it to be useful also to other high speed tomographic modalities such as volumetric laser-induced fluorescence and tomographic laser-induced incandescence which have been demonstrated for combustion diagnostics.

Rapid tomographic reconstruction based on machine learning for time-resolved combustion diagnostics.

PubMed

Yu, Tao; Cai, Weiwei; Liu, Yingzheng

2018-04-01

Optical tomography has attracted surged research efforts recently due to the progress in both the imaging concepts and the sensor and laser technologies. The high spatial and temporal resolutions achievable by these methods provide unprecedented opportunity for diagnosis of complicated turbulent combustion. However, due to the high data throughput and the inefficiency of the prevailing iterative methods, the tomographic reconstructions which are typically conducted off-line are computationally formidable. In this work, we propose an efficient inversion method based on a machine learning algorithm, which can extract useful information from the previous reconstructions and build efficient neural networks to serve as a surrogate model to rapidly predict the reconstructions. Extreme learning machine is cited here as an example for demonstrative purpose simply due to its ease of implementation, fast learning speed, and good generalization performance. Extensive numerical studies were performed, and the results show that the new method can dramatically reduce the computational time compared with the classical iterative methods. This technique is expected to be an alternative to existing methods when sufficient training data are available. Although this work is discussed under the context of tomographic absorption spectroscopy, we expect it to be useful also to other high speed tomographic modalities such as volumetric laser-induced fluorescence and tomographic laser-induced incandescence which have been demonstrated for combustion diagnostics.

Estimating crustal heterogeneity from double-difference tomography

USGS Publications Warehouse

Got, J.-L.; Monteiller, V.; Virieux, J.; Okubo, P.

2006-01-01

Seismic velocity parameters in limited, but heterogeneous volumes can be inferred using a double-difference tomographic algorithm, but to obtain meaningful results accuracy must be maintained at every step of the computation. MONTEILLER et al. (2005) have devised a double-difference tomographic algorithm that takes full advantage of the accuracy of cross-spectral time-delays of large correlated event sets. This algorithm performs an accurate computation of theoretical travel-time delays in heterogeneous media and applies a suitable inversion scheme based on optimization theory. When applied to Kilauea Volcano, in Hawaii, the double-difference tomography approach shows significant and coherent changes to the velocity model in the well-resolved volumes beneath the Kilauea caldera and the upper east rift. In this paper, we first compare the results obtained using MONTEILLER et al.'s algorithm with those obtained using the classic travel-time tomographic approach. Then, we evaluated the effect of using data series of different accuracies, such as handpicked arrival-time differences ("picking differences"), on the results produced by double-difference tomographic algorithms. We show that picking differences have a non-Gaussian probability density function (pdf). Using a hyperbolic secant pdf instead of a Gaussian pdf allows improvement of the double-difference tomographic result when using picking difference data. We completed our study by investigating the use of spatially discontinuous time-delay data. ?? Birkha??user Verlag, Basel, 2006.

Field-portable lensfree tomographic microscope†

PubMed Central

Isikman, Serhan O.; Bishara, Waheb; Sikora, Uzair; Yaglidere, Oguzhan; Yeah, John; Ozcan, Aydogan

2011-01-01

We present a field-portable lensfree tomographic microscope, which can achieve sectional imaging of a large volume (~20 mm3) on a chip with an axial resolution of <7 μm. In this compact tomographic imaging platform (weighing only ~110 grams), 24 light-emitting diodes (LEDs) that are each butt-coupled to a fibre-optic waveguide are controlled through a cost-effective micro-processor to sequentially illuminate the sample from different angles to record lensfree holograms of the sample that is placed on the top of a digital sensor array. In order to generate pixel super-resolved (SR) lensfree holograms and hence digitally improve the achievable lateral resolution, multiple sub-pixel shifted holograms are recorded at each illumination angle by electromagnetically actuating the fibre-optic waveguides using compact coils and magnets. These SR projection holograms obtained over an angular range of ~50° are rapidly reconstructed to yield projection images of the sample, which can then be back-projected to compute tomograms of the objects on the sensor-chip. The performance of this compact and light-weight lensfree tomographic microscope is validated by imaging micro-beads of different dimensions as well as a Hymenolepis nana egg, which is an infectious parasitic flatworm. Achieving a decent three-dimensional spatial resolution, this field-portable on-chip optical tomographic microscope might provide a useful toolset for telemedicine and high-throughput imaging applications in resource-poor settings. PMID:21573311

Compressive sensing reconstruction of 3D wet refractivity based on GNSS and InSAR observations

NASA Astrophysics Data System (ADS)

Heublein, Marion; Alshawaf, Fadwa; Erdnüß, Bastian; Zhu, Xiao Xiang; Hinz, Stefan

2018-06-01

In this work, the reconstruction quality of an approach for neutrospheric water vapor tomography based on Slant Wet Delays (SWDs) obtained from Global Navigation Satellite Systems (GNSS) and Interferometric Synthetic Aperture Radar (InSAR) is investigated. The novelties of this approach are (1) the use of both absolute GNSS and absolute InSAR SWDs for tomography and (2) the solution of the tomographic system by means of compressive sensing (CS). The tomographic reconstruction is performed based on (i) a synthetic SWD dataset generated using wet refractivity information from the Weather Research and Forecasting (WRF) model and (ii) a real dataset using GNSS and InSAR SWDs. Thus, the validation of the achieved results focuses (i) on a comparison of the refractivity estimates with the input WRF refractivities and (ii) on radiosonde profiles. In case of the synthetic dataset, the results show that the CS approach yields a more accurate and more precise solution than least squares (LSQ). In addition, the benefit of adding synthetic InSAR SWDs into the tomographic system is analyzed. When applying CS, adding synthetic InSAR SWDs into the tomographic system improves the solution both in magnitude and in scattering. When solving the tomographic system by means of LSQ, no clear behavior is observed. In case of the real dataset, the estimated refractivities of both methodologies show a consistent behavior although the LSQ and CS solution strategies differ.

Mechanical design principles of a mitotic spindle.

PubMed

Ward, Jonathan J; Roque, Hélio; Antony, Claude; Nédélec, François

2014-12-18

An organised spindle is crucial to the fidelity of chromosome segregation, but the relationship between spindle structure and function is not well understood in any cell type. The anaphase B spindle in fission yeast has a slender morphology and must elongate against compressive forces. This 'pushing' mode of chromosome transport renders the spindle susceptible to breakage, as observed in cells with a variety of defects. Here we perform electron tomographic analyses of the spindle, which suggest that it organises a limited supply of structural components to increase its compressive strength. Structural integrity is maintained throughout the spindle's fourfold elongation by organising microtubules into a rigid transverse array, preserving correct microtubule number and dynamically rescaling microtubule length.

A Retrospective Tomographic and Histologic Analysis of Horizontal Bone Augmentation in Maxillary Atrophic Ridges Using Resorbable Membrane with Anorganic Bovine Bone-Derived Mineral and Plasma Rich in Growth Factors.

PubMed

Lorenzetti, Massimo; Vono, Maurizio; Lorenzetti, Virginia

2018-02-16

A total of six patients treated from 2010 to 2014, having a knife-edge ridge (Cawood-Howell Class IV resorbed ridges) and requiring an implant-prosthetic rehabilitation, were selected. Tomographic measurement of the edentulous ridges was performed before grafting and after implant placement. At 6 months postgraft, a total of 41 implants had been inserted, 17 in the posterior region, 12 in the central region, and 12 in the anterior region. No surgical or healing complications were recorded, and the prostheses were loaded 6 to 9 months after implant placement. The tomographic measurements demonstrated an increased area in all the sites where bone augmentation had been performed, corresponding to 11.1% in the anterior region, 94.7% in the central region, and 760.2% in the posterior region. Histology was performed in 2 patients, one at 1 year and the other at 5 years postgrafting, and demonstrated the presence of mature lamellar bone tissue and newly formed bone without morphologic signs of necrosis or inflammation and a reduction of 50% to 30% of the grafted material. Although this study included a small number of clinical cases, it demonstrated how management of the atrophic maxillary ridge, with the goal of implant placement, may be handled using a technique that requires a single anorganic bovine bone-derived mineral treatment combined with a plasma rich in growth factors and resorbable collagen membrane.

The use of intraosseous needles for injection of contrast media for computed tomographic angiography of the thoracic aorta.

PubMed

Winkler, Michael; Talley, Cynthia; Woodward, Connor; Kingsbury, Alexander; Appiah, Frank; Elbelasi, Hossam; Landwher, Kevin; Li, Xingzhe; Fleischmann, Dominik

The objective of this study is to evaluate the safety and quality of computed tomographic angiography of the thoracic aorta (CTA-TA) exams performed using intraosseous needle intravenous access (ION-IVA) for contrast media injection (CMI). All CTA-TA exams at the study institution performed between 1/1/2013 and 8/14/2015 were reviewed retrospectively to identify those exams which had been performed using ION-IVA (ION-exams). ION-exams were then analyzed to determine aortic attenuation and contrast-to-noise ratio (CNR). Linear regression was used to determine how injection rate and other variables affected image quality for ION-exams. Patient electronic medical records were reviewed to identify any adverse events related to CTA-TA or ION-IVA. 17 (∼0.2%) of 7401 exams were ION-exams. ION-exam CMI rates varied between 2.5 and 4 ml/s. Mean attenuation was 312 HU (SD 88 HU) and mean CNR was 25 (SD 9.9). A strong positive linear association between attenuation and injection rate was found. No immediate or delayed complications related to the ION-exams, or intraosseous needle use in general, occurred. For CTA-TA, ION-IVA appears to be a safe and effective route for CMI at rates up to 4 ml/s. Copyright © 2017 The Authors. Published by Elsevier Inc. All rights reserved.

Dendritic Growth Morphologies in Al-Zn Alloys—Part I: X-ray Tomographic Microscopy

NASA Astrophysics Data System (ADS)

Friedli, Jonathan; Fife, J. L.; di Napoli, P.; Rappaz, M.

2013-12-01

Upon solidification, most metallic alloys form dendritic structures that grow along directions corresponding to low index crystal axes, e.g., directions in fcc aluminum. However, recent findings[1,2] have shown that an increase in the zinc content in Al-Zn alloys continuously changes the dendrite growth direction from to in {100} planes. At intermediate compositions, between 25 wt pct and 55 wt pct Zn, dendrites and textured seaweeds were reported. The reason for this dendrite orientation transition is that this system exhibits a large solubility of zinc, a hexagonal metal, in the primary fcc aluminum phase, thus modifying its weak solid-liquid interfacial energy anisotropy. Owing to the complexity of the phenomenology, there is still no satisfactory theory that predicts all the observed microstructures. The current study is thus aimed at better understanding the formation of these structures. This is provided by the access to their 3D morphologies via synchrotron-based X-ray tomographic microscopy of quenched Bridgman solidified specimens in combination with the determination of the crystal orientation of the dendrites by electron-backscattered diffraction. Most interestingly, all alloys with intermediate compositions were shown to grow as seaweeds, constrained to grow mostly in a (001) symmetry plane, by an alternating growth direction mechanism. Thus, these structures are far from random and are considered less hierarchically ordered than common dendrites.

Application Of Iterative Reconstruction Techniques To Conventional Circular Tomography

NASA Astrophysics Data System (ADS)

Ghosh Roy, D. N.; Kruger, R. A.; Yih, B. C.; Del Rio, S. P.; Power, R. L.

1985-06-01

Two "point-by-point" iteration procedures, namely, Iterative Least Square Technique (ILST) and Simultaneous Iterative Reconstructive Technique (SIRT) were applied to classical circular tomographic reconstruction. The technique of tomosynthetic DSA was used in forming the tomographic images. Reconstructions of a dog's renal and neck anatomy are presented.

ECAT: A New Computerized Tomographic Imaging System for Position-Emitting Radiopharmaceuticals

DOE R&D Accomplishments Database

Phelps, M. E.; Hoffman, E. J.; Huang, S. C.; Kuhl, D. E.

1977-01-01

The ECAT was designed and developed as a complete computerized positron radionuclide imaging system capable of providing high contrast, high resolution, quantitative images in 2 dimensional and tomographic formats. Flexibility, in its various image mode options, allows it to be used for a wide variety of imaging problems.

Dynamo Catalogue: Geometrical tools and data management for particle picking in subtomogram averaging of cryo-electron tomograms.

PubMed

Castaño-Díez, Daniel; Kudryashev, Mikhail; Stahlberg, Henning

2017-02-01

Cryo electron tomography allows macromolecular complexes within vitrified, intact, thin cells or sections thereof to be visualized, and structural analysis to be performed in situ by averaging over multiple copies of the same molecules. Image processing for subtomogram averaging is specific and cumbersome, due to the large amount of data and its three dimensional nature and anisotropic resolution. Here, we streamline data processing for subtomogram averaging by introducing an archiving system, Dynamo Catalogue. This system manages tomographic data from multiple tomograms and allows visual feedback during all processing steps, including particle picking, extraction, alignment and classification. The file structure of a processing project file structure includes logfiles of performed operations, and can be backed up and shared between users. Command line commands, database queries and a set of GUIs give the user versatile control over the process. Here, we introduce a set of geometric tools that streamline particle picking from simple (filaments, spheres, tubes, vesicles) and complex geometries (arbitrary 2D surfaces, rare instances on proteins with geometric restrictions, and 2D and 3D crystals). Advanced functionality, such as manual alignment and subboxing, is useful when initial templates are generated for alignment and for project customization. Dynamo Catalogue is part of the open source package Dynamo and includes tools to ensure format compatibility with the subtomogram averaging functionalities of other packages, such as Jsubtomo, PyTom, PEET, EMAN2, XMIPP and Relion. Copyright © 2016. Published by Elsevier Inc.

Remote sensing of electron density and ion composition using nonducted whistler observations on OGO 1 and Van Allen Probes

NASA Astrophysics Data System (ADS)

Sonwalkar, V. S.; Butler, J.; Reddy, A.

2017-12-01

We present a new method to remotely measure magnetospheric electron density and ion composition using lightning generated nonducted whistlers observed on a satellite. Electron and ion densities play important roles in magnetospheric processes such as wave-particle interactions in the equatorial region and ion-neutral dynamics in the ionosphere, and are important for calculating space weather effects such as particle precipitation, GPS scintillations, and satellite drag. The nonducted whistler resulting from a single lightning appears on a spectrogram as a series of magnetospherically reflected traces with characteristic dispersion (time delay versus frequency) and upper and lower cut off frequencies. Ray tracing simulations show that these observed characteristics depend on the magnetospheric electron density and ion composition. The cut off frequencies depend on both electron density and ion composition. The dispersion depends strongly on electron density, but weakly on ion composition. Using an iterative process to fit the measured dispersion and cutoff frequencies to those obtained from ray tracing simulations, it is possible to construct the electron and ion density profiles of the magnetosphere. We demonstrate our method by applying it to nonducted whistlers observed on OGO 1 and Van Allen probe satellites. In one instance (08 Nov 1965), whistler traces observed on OGO 1 (L = 2.4, λm = -6°) displayed a few seconds of dispersion and cutoff frequencies in the 1-10 kHz range. Ray tracing analysis showed that a diffusive equilibrium density model with the following parameters can reproduce the observed characteristics of the whistler traces: 1900 el/cc at L=2.4 and the equator, 358,000 el/cc at F2 peak (hmF2 = 220 km), the relative ion concentrations αH+ = 0.2, αHe+ = 0.2, and αO+ = 0.6 at 1000 km, and temperature 1600 K. The method developed here can be applied to whistlers observed on the past, current, and future magnetospheric satellite missions carrying wave instrument (e.g. OGO, ISEE 1, DE 1, POLAR, CLUSTER, Van Allen Probes). The method can be easily extended to make tomographic measurements of magnetospheric electron and ion density by analyzing a series of whistlers observed along the satellite orbit.

Utilization of Oleogels as a Replacement for Solid Fat in Aerated Baked Goods: Physicochemical, Rheological, and Tomographic Characterization.

PubMed

Kim, Joo Young; Lim, Jeongtaek; Lee, JaeHwan; Hwang, Hong-Sik; Lee, Suyong

2017-02-01

Canola oil-carnauba wax oleogels were evaluated as a replacement for shortening in a baked cake system. The use of oleogels produced cake batters with a lower pseudoplastic property and also contributed to their viscous nature. The shortening replacement with oleogels at up to 50% was effective in maintaining the ability to hold air cells into the cake batters. The volume of cakes had an overall tendency to decrease with increasing shortening replacement with oleogels, leading to increased cake firmness. The tomographic analysis demonstrated that the total porosity and fragmentation index were reduced in the oleogel cakes, showing a more connected solid structure. The levels of saturated fatty acids in the cakes containing oleogels were significantly reduced to 13.3%, compared to the control with shortening (74.2%). As a result, the use of oleogels for shortening up to 25% produced cakes with lower levels of saturated fatty acids without quality loss. © 2016 Institute of Food Technologists®.

Resting-state functional connectivity assessed with two diffuse optical tomographic systems.

PubMed

Niu, Haijing; Khadka, Sabin; Tian, Fenghua; Lin, Zi-Jing; Lu, Chunming; Zhu, Chaozhe; Liu, Hanli

2011-04-01

Functional near-infrared spectroscopy (fNIRS) is recently utilized as a new approach to assess resting-state functional connectivity (RSFC) in the human brain. For any new technique or new methodology, it is necessary to be able to replicate similar experiments using different instruments in order to establish its liability and reproducibility. We apply two different diffuse optical tomographic (DOT) systems (i.e., DYNOT and CW5), with various probe arrangements to evaluate RSFC in the sensorimotor cortex by utilizing a previously published experimental protocol and seed-based correlation analysis. Our results exhibit similar spatial patterns and strengths in RSFC between the bilateral motor cortexes. The consistent observations are obtained from both DYNOT and CW5 systems, and are also in good agreement with the previous fNIRS study. Overall, we demonstrate that the fNIRS-based RSFC is reproducible by various DOT imaging systems among different research groups, enhancing the confidence of neuroscience researchers and clinicians to utilize fNIRS for future applications.

LASER APPLICATIONS IN MEDICINE: Analysis of distortions in the velocity profiles of suspension flows inside a light-scattering medium upon their reconstruction from the optical coherence Doppler tomograph signal

NASA Astrophysics Data System (ADS)

Bykov, A. V.; Kirillin, M. Yu; Priezzhev, A. V.

2005-11-01

Model signals from one and two plane flows of a particle suspension are obtained for an optical coherence Doppler tomograph (OCDT) by the Monte-Carlo method. The optical properties of particles mimic the properties of non-aggregating erythrocytes. The flows are considered in a stationary scattering medium with optical properties close to those of the skin. It is shown that, as the flow position depth increases, the flow velocity determined from the OCDT signal becomes smaller than the specified velocity and the reconstructed profile extends in the direction of the distant boundary, which is accompanied by the shift of its maximum. In the case of two flows, an increase in the velocity of the near-surface flow leads to the overestimated values of velocity of the reconstructed profile of the second flow. Numerical simulations were performed by using a multiprocessor parallel-architecture computer.

Neural network analysis of crosshole tomographic images: The seismic signature of gas hydrate bearing sediments in the Mackenzie Delta (NW Canada)

NASA Astrophysics Data System (ADS)

Bauer, K.; Pratt, R. G.; Haberland, C.; Weber, M.

2008-10-01

Crosshole seismic experiments were conducted to study the in-situ properties of gas hydrate bearing sediments (GHBS) in the Mackenzie Delta (NW Canada). Seismic tomography provided images of P velocity, anisotropy, and attenuation. Self-organizing maps (SOM) are powerful neural network techniques to classify and interpret multi-attribute data sets. The coincident tomographic images are translated to a set of data vectors in order to train a Kohonen layer. The total gradient of the model vectors is determined for the trained SOM and a watershed segmentation algorithm is used to visualize and map the lithological clusters with well-defined seismic signatures. Application to the Mallik data reveals four major litho-types: (1) GHBS, (2) sands, (3) shale/coal interlayering, and (4) silt. The signature of seismic P wave characteristics distinguished for the GHBS (high velocities, strong anisotropy and attenuation) is new and can be used for new exploration strategies to map and quantify gas hydrates.

Slab-plume interaction beneath the Pacific Northwest

NASA Astrophysics Data System (ADS)

Obrebski, Mathias; Allen, Richard M.; Xue, Mei; Hung, Shu-Huei

2010-07-01

The Pacific Northwest has undergone complex plate reorganization and intense tectono-volcanic activity to the east during the Cenozoic (last 65 Ma). Here we show new high-resolution tomographic images obtained using shear and compressional data from the ongoing USArray deployment that demonstrate first that there is a continuous, whole-mantle plume beneath the Yellowstone Snake River Plain (YSRP) and second, that the subducting Juan de Fuca (JdF) slab is fragmented and even absent beneath Oregon. The analysis of the geometry of our tomographic models suggests that the arrival and emplacement of the large Yellowstone plume had a substantial impact on the nearby Cascadia subduction zone, promoting the tearing and weakening of the JdF slab. This interpretation also explains several intriguing geophysical properties of the Cascadia trench that contrast with most other subduction zones, such as the absence of deep seismicity and the trench-normal fast direction of mantle anisotropy. The DNA velocity models are available for download and slicing at http://dna.berkeley.edu.

Tomographic particle image velocimetry of desert locust wakes: instantaneous volumes combine to reveal hidden vortex elements and rapid wake deformation

PubMed Central

Bomphrey, Richard J.; Henningsson, Per; Michaelis, Dirk; Hollis, David

2012-01-01

Aerodynamic structures generated by animals in flight are unstable and complex. Recent progress in quantitative flow visualization has advanced our understanding of animal aerodynamics, but measurements have hitherto been limited to flow velocities at a plane through the wake. We applied an emergent, high-speed, volumetric fluid imaging technique (tomographic particle image velocimetry) to examine segments of the wake of desert locusts, capturing fully three-dimensional instantaneous flow fields. We used those flow fields to characterize the aerodynamic footprint in unprecedented detail and revealed previously unseen wake elements that would have gone undetected by two-dimensional or stereo-imaging technology. Vortex iso-surface topographies show the spatio-temporal signature of aerodynamic force generation manifest in the wake of locusts, and expose the extent to which animal wakes can deform, potentially leading to unreliable calculations of lift and thrust when using conventional diagnostic methods. We discuss implications for experimental design and analysis as volumetric flow imaging becomes more widespread. PMID:22977102

Analytic treatment of charge cloud overlaps: an improvement of the tomographic atom probe efficiency

NASA Astrophysics Data System (ADS)

Bas, P.; Bostel, A.; Grancher, G.; Deconihout, B.; Blavette, D.

1996-03-01

Although reliable position and composition data are obtained with the Tomographic Atom Probe, the procedure of position calculation by charge centroiding fails when the detector receives two or more ions with close spaced positions and the same mass-to-charge ratio. As the charge clouds of the ions overlap, they form a unique charge pattern on the multianode detector. Only one atom is represented and its position is biased. In order to estimate real positions, we have developed a correction method. The spatial distribution of charges inside a cloud issued from one impact is modelled by a Gaussian law. The particular properties of the Gaussian enable the calculation of exact positions of the two impacts of the overlapped charge patterns and charges of corresponding clouds. The calculation may be generalized for more than two overlapped clouds. The method was tested on a plane-by-plane analysis of a fully ordered Cu 3Au alloy performed on a (100) pole.

Forecasting Juno Microwave Radiometer Observations of Jupiter's Synchrotron Emission from Data Reconstruction Methods and Theoretical Model

NASA Astrophysics Data System (ADS)

Santos-Costa, D.; Bolton, S. J.; Adumitroaie, V.; Janssen, M.; Levin, S.; Sault, R. J.; De Pater, I.; Tao, C.

2015-12-01

The Juno spacecraft will go into polar orbit after it arrives at Jupiter in mid-2016. Between November 2016 and March 2017, six MicroWave Radiometers will collect information on Jupiter's atmosphere and electron belt. Here we present simulations of MWR observations of the electron belt synchrotron emission, and discuss the features and dynamical behavior of this emission when observations are carried out from inside the radiation zone. We first present our computation method. We combine a three-dimensional tomographic reconstruction method of Earth-based observations and a theoretical model of Jupiter's electron belt to constrain the calculations of the volume emissivity of the synchrotron radiation for any frequency, location in the Jovian inner magnetosphere (radial distance < 4 Rj), and observational direction. Values of the computed emissivity are incorporated into a synchrotron simulator to predict Juno MWR measurements (full sky maps and temperatures) at any time of the mission. Samples of simulated MWR observations are presented and examined for different segments of Juno trajectory. We also present results of our ongoing investigation of the radiation zone distribution around the planet and the sources of variation on different time-scales. We show that a better understanding of the spatial distribution and variability of the electron belt is key to realistically forecast Juno MWR measurements.

Uncertainty loops in travel-time tomography from nonlinear wave physics.

PubMed

Galetti, Erica; Curtis, Andrew; Meles, Giovanni Angelo; Baptie, Brian

2015-04-10

Estimating image uncertainty is fundamental to guiding the interpretation of geoscientific tomographic maps. We reveal novel uncertainty topologies (loops) which indicate that while the speeds of both low- and high-velocity anomalies may be well constrained, their locations tend to remain uncertain. The effect is widespread: loops dominate around a third of United Kingdom Love wave tomographic uncertainties, changing the nature of interpretation of the observed anomalies. Loops exist due to 2nd and higher order aspects of wave physics; hence, although such structures must exist in many tomographic studies in the physical sciences and medicine, they are unobservable using standard linearized methods. Higher order methods might fruitfully be adopted.

Tomographic diffractive microscopy with a wavefront sensor.

PubMed

Ruan, Y; Bon, P; Mudry, E; Maire, G; Chaumet, P C; Giovannini, H; Belkebir, K; Talneau, A; Wattellier, B; Monneret, S; Sentenac, A

2012-05-15

Tomographic diffractive microscopy is a recent imaging technique that reconstructs quantitatively the three-dimensional permittivity map of a sample with a resolution better than that of conventional wide-field microscopy. Its main drawbacks lie in the complexity of the setup and in the slowness of the image recording as both the amplitude and the phase of the field scattered by the sample need to be measured for hundreds of successive illumination angles. In this Letter, we show that, using a wavefront sensor, tomographic diffractive microscopy can be implemented easily on a conventional microscope. Moreover, the number of illuminations can be dramatically decreased if a constrained reconstruction algorithm is used to recover the sample map of permittivity.

Tomographic and analog 3-D simulations using NORA. [Non-Overlapping Redundant Image Array formed by multiple pinholes

NASA Technical Reports Server (NTRS)

Yin, L. I.; Trombka, J. I.; Bielefeld, M. J.; Seltzer, S. M.

1984-01-01

The results of two computer simulations demonstrate the feasibility of using the nonoverlapping redundant array (NORA) to form three-dimensional images of objects with X-rays. Pinholes admit the X-rays to nonoverlapping points on a detector. The object is reconstructed in the analog mode by optical correlation and in the digital mode by tomographic computations. Trials were run with a stick-figure pyramid and extended objects with out-of-focus backgrounds. Substitution of spherical optical lenses for the pinholes increased the light transmission sufficiently that objects could be easily viewed in a dark room. Out-of-focus aberrations in tomographic reconstruction could be eliminated using Chang's (1976) algorithm.

Tomographic phase microscopy: principles and applications in bioimaging [Invited

PubMed Central

Jin, Di; Zhou, Renjie; Yaqoob, Zahid; So, Peter T. C.

2017-01-01

Tomographic phase microscopy (TPM) is an emerging optical microscopic technique for bioimaging. TPM uses digital holographic measurements of complex scattered fields to reconstruct three-dimensional refractive index (RI) maps of cells with diffraction-limited resolution by solving inverse scattering problems. In this paper, we review the developments of TPM from the fundamental physics to its applications in bioimaging. We first provide a comprehensive description of the tomographic reconstruction physical models used in TPM. The RI map reconstruction algorithms and various regularization methods are discussed. Selected TPM applications for cellular imaging, particularly in hematology, are reviewed. Finally, we examine the limitations of current TPM systems, propose future solutions, and envision promising directions in biomedical research. PMID:29386746

A New Femtosecond Laser-Based Three-Dimensional Tomography Technique

NASA Astrophysics Data System (ADS)

Echlin, McLean P.

2011-12-01

Tomographic imaging has dramatically changed science, most notably in the fields of medicine and biology, by producing 3D views of structures which are too complex to understand in any other way. Current tomographic techniques require extensive time both for post-processing and data collection. Femtosecond laser based tomographic techniques have been developed in both standard atmosphere (femtosecond laser-based serial sectioning technique - FSLSS) and in vacuum (Tri-Beam System) for the fast collection (10 5mum3/s) of mm3 sized 3D datasets. Both techniques use femtosecond laser pulses to selectively remove layer-by-layer areas of material with low collateral damage and a negligible heat affected zone. To the authors knowledge, femtosecond lasers have never been used to serial section and these techniques have been entirely and uniquely developed by the author and his collaborators at the University of Michigan and University of California Santa Barbara. The FSLSS was applied to measure the 3D distribution of TiN particles in a 4330 steel. Single pulse ablation morphologies and rates were measured and collected from literature. Simultaneous two-phase ablation of TiN and steel matrix was shown to occur at fluences of 0.9-2 J/cm2. Laser scanning protocols were developed minimizing surface roughness to 0.1-0.4 mum for laser-based sectioning. The FSLSS technique was used to section and 3D reconstruct titanium nitride (TiN) containing 4330 steel. Statistical analysis of 3D TiN particle sizes, distribution parameters, and particle density were measured. A methodology was developed to use the 3D datasets to produce statistical volume elements (SVEs) for toughness modeling. Six FSLSS TiN datasets were sub-sampled into 48 SVEs for statistical analysis and toughness modeling using the Rice-Tracey and Garrison-Moody models. A two-parameter Weibull analysis was performed and variability in the toughness data agreed well with Ruggieri et al. bulk toughness measurements. The Tri-Beam system combines the benefits of laser based material removal (speed, low-damage, automated) with detectors that collect chemical, structural, and topological information. Multi-modal sectioning information was collected after many laser scanning passes demonstrating the capability of the Tri-Beam system.

Effect of improper scan alignment on retinal nerve fiber layer thickness measurements using Stratus optical coherence tomograph.

PubMed

Vizzeri, Gianmarco; Bowd, Christopher; Medeiros, Felipe A; Weinreb, Robert N; Zangwill, Linda M

2008-08-01

Misalignment of the Stratus optical coherence tomograph scan circle placed by the operator around the optic nerve head (ONH) during each retinal nerve fiber layer (RNFL) examination can affect the instrument reproducibility and its theoretical ability to detect true structural changes in the RNFL thickness over time. We evaluated the effect of scan circle placement on RNFL measurements. Observational clinical study. Sixteen eyes of 8 normal participants were examined using the Stratus optical coherence tomograph Fast RNFL thickness acquisition protocol (software version 4.0.7; Carl Zeiss Meditec, Dublin, CA). Four consecutive images were taken by the same operator with the circular scan centered on the optic nerve head. Four images each with the scan displaced superiorly, inferiorly, temporally, and nasally were also acquired. Differences in average and sectoral RNFL thicknesses were determined. For the centered scans, the coefficients of variation (CV) and the intraclass correlation coefficient for the average RNFL thickness measured were calculated. When the average RNFL thickness of the centered scans was compared with the average RNFL thickness of the displaced scans individually using analysis of variance with post-hoc analysis, no difference was found between the average RNFL thickness of the nasally (105.2 microm), superiorly (106.2 microm), or inferiorly (104.1 microm) displaced scans and the centered scans (106.4 microm). However, a significant difference (analysis of variance with Dunnett's test: F=8.82, P<0.0001) was found between temporally displaced scans (115.8 microm) and centered scans. Significant differences in sectoral RNFL thickness measurements were found between centered and each displaced scan. The coefficient of variation for average RNFL thickness was 1.75% and intraclass correlation coefficient was 0.95. In normal eyes, average RNFL thickness measurements are robust and similar with significant superior, inferior, and nasal scan displacement, but average RNFL thickness is greater when scans are displaced temporally. Parapapillary scan misalignment produces significant changes in RNFL assessment characterized by an increase in measured RNFL thickness in the quadrant in which the scan is closer to the disc, and a significant decrease in RNFL thickness in the quadrant in which the scan is displaced further from the optic disc.

Crustal Structure Beneath Taiwan Using Frequency-band Inversion of Receiver Function Waveforms

NASA Astrophysics Data System (ADS)

Tomfohrde, D. A.; Nowack, R. L.

Receiver function analysis is used to determine local crustal structure beneath Taiwan. We have performed preliminary data processing and polarization analysis for the selection of stations and events and to increase overall data quality. Receiver function analysis is then applied to data from the Taiwan Seismic Network to obtain radial and transverse receiver functions. Due to the limited azimuthal coverage, only the radial receiver functions are analyzed in terms of horizontally layered crustal structure for each station. In order to improve convergence of the receiver function inversion, frequency-band inversion (FBI) is implemented, in which an iterative inversion procedure with sequentially higher low-pass corner frequencies is used to stabilize the waveform inversion. Frequency-band inversion is applied to receiver functions at six stations of the Taiwan Seismic Network. Initial 20-layer crustal models are inverted for using prior tomographic results for the initial models. The resulting 20-1ayer models are then simplified to 4 to 5 layer models and input into an alternating depth and velocity frequency-band inversion. For the six stations investigated, the resulting simplified models provide an average estimate of 38 km for the Moho thickness surrounding the Central Range of Taiwan. Also, the individual station estimates compare well with the recent tomographic model of and the refraction results of Rau and Wu (1995) and the refraction results of Ma and Song (1997).

Signal-adapted tomography as a tool for dust devil detection

NASA Astrophysics Data System (ADS)

Aguirre, C.; Franzese, G.; Esposito, F.; Vázquez, Luis; Caro-Carretero, Raquel; Vilela-Mendes, Rui; Ramírez-Nicolás, María; Cozzolino, F.; Popa, C. I.

2017-12-01

Dust devils are important phenomena to take into account to understand the global dust circulation of a planet. On Earth, their contribution to the injection of dust into the atmosphere seems to be secondary. Elsewhere, there are many indications that the dust devil's role on other planets, in particular on Mars, could be fundamental, impacting the global climate. The ability to identify and study these vortices from the acquired meteorological measurements assumes a great importance for planetary science. Here we present a new methodology to identify dust devils from the pressure time series testing the method on the data acquired during a 2013 field campaign performed in the Tafilalt region (Morocco) of the North-Western Sahara Desert. Although the analysis of pressure is usually studied in the time domain, we prefer here to follow a different approach and perform the analysis in a time signal-adapted domain, the relation between the two being a bilinear transformation, i.e. a tomogram. The tomographic technique has already been successfully applied in other research fields like those of plasma reflectometry or the neuronal signatures. Here we show its effectiveness also in the dust devils detection. To test our results, we compare the tomography with a phase picker time domain analysis. We show the level of agreement between the two methodologies and the advantages and disadvantages of the tomographic approach.

Coupled tomography and distinct-element-method approach to exploring the granular media microstructure in a jamming hourglass

NASA Astrophysics Data System (ADS)

Tsukahara, M.; Mitrovic, S.; Gajdosik, V.; Margaritondo, G.; Pournin, L.; Ramaioli, M.; Sage, D.; Hwu, Y.; Unser, M.; Liebling, Th. M.

2008-06-01

We describe an approach for exploring microscopic properties of granular media that couples x-ray microtomography and distinct-element-method (DEM) simulations through image analysis. We illustrate it via the study of the intriguing phenomenon of instant arching in an hourglass (in our case a cylinder filled with a polydisperse mixture of glass beads that has a small circular shutter in the bottom). X-ray tomography provides three-dimensional snapshots of the microscopic conditions of the system both prior to opening the shutter, and thereafter, once jamming is completed. The process time in between is bridged using DEM simulation, which settles to positions in remarkably good agreement with the x-ray images. Specifically designed image analysis procedures accurately extract the geometrical information, i.e., the positions and sizes of the beads, from the raw x-ray tomographs, and compress the data representation from initially 5 gigabytes to a few tens of kilobytes per tomograph. The scope of the approach is explored through a sensitivity analysis to input data perturbations in both bead sizes and positions. We establish that accuracy of size—much more than position—estimates is critical, thus explaining the difficulty in considering a mixture of beads of different sizes. We further point to limits in the replication ability of granular flows away from equilibrium; i.e., the difficulty of numerically reproducing chaotic motion.

Tomographic analysis of neutron and gamma pulse shape distributions from liquid scintillation detectors at Joint European Torus.

PubMed

Giacomelli, L; Conroy, S; Gorini, G; Horton, L; Murari, A; Popovichev, S; Syme, D B

2014-02-01

The Joint European Torus (JET, Culham, UK) is the largest tokamak in the world devoted to nuclear fusion experiments of magnetic confined Deuterium (D)/Deuterium-Tritium (DT) plasmas. Neutrons produced in these plasmas are measured using various types of neutron detectors and spectrometers. Two of these instruments on JET make use of organic liquid scintillator detectors. The neutron emission profile monitor implements 19 liquid scintillation counters to detect the 2.45 MeV neutron emission from D plasmas. A new compact neutron spectrometer is operational at JET since 2010 to measure the neutron energy spectra from both D and DT plasmas. Liquid scintillation detectors are sensitive to both neutron and gamma radiation but give light responses of different decay time such that pulse shape discrimination techniques can be applied to identify the neutron contribution of interest from the data. The most common technique consists of integrating the radiation pulse shapes within different ranges of their rising and/or trailing edges. In this article, a step forward in this type of analysis is presented. The method applies a tomographic analysis of the 3-dimensional neutron and gamma pulse shape and pulse height distribution data obtained from liquid scintillation detectors such that n/γ discrimination can be improved to lower energies and additional information can be gained on neutron contributions to the gamma events and vice versa.

Cone beam tomographic study of facial structures characteristics at rest and wide smile, and their correlation with the facial types.

PubMed

Martins, Luciana Flaquer; Vigorito, Julio Wilson

2013-01-01

To determine the characteristics of facial soft tissues at rest and wide smile, and their possible relation to the facial type. We analyzed a sample of forty-eight young female adults, aged between 19.10 and 40 years old, with a mean age of 30.9 years, who had balanced profile and passive lip seal. Cone beam computed tomographies were performed at rest and wide smile postures on the entire sample which was divided into three groups according to individual facial types. Soft tissue features analysis of the lips, nose, zygoma and chin were done in sagittal, axial and frontal axis tomographic views. No differences were observed in any of the facial type variables for the static analysis of facial structures at both rest and wide smile postures. Dynamic analysis showed that brachifacial types are more sensitive to movement, presenting greater sagittal lip contraction. However, the lip movement produced by this type of face results in a narrow smile, with smaller tooth exposure area when compared with other facial types. Findings pointed out that the position of the upper lip should be ahead of the lower lip, and the latter, ahead of the pogonion. It was also found that the facial type does not impact the positioning of these structures. Additionally, the use of cone beam computed tomography may be a valuable method to study craniofacial features.

Conceptual design and development of GEM based detecting system for tomographic tungsten focused transport monitoring

NASA Astrophysics Data System (ADS)

Chernyshova, M.; Czarski, T.; Malinowski, K.; Kowalska-Strzęciwilk, E.; Poźniak, K.; Kasprowicz, G.; Zabołotny, W.; Wojeński, A.; Kolasiński, P.; Mazon, D.; Malard, P.

2015-10-01

Implementing tungsten as a plasma facing material in ITER and future fusion reactors will require effective monitoring of not just its level in the plasma but also its distribution. That can be successfully achieved using detectors based on Gas Electron Multiplier (GEM) technology. This work presents the conceptual design of the detecting unit for poloidal tomography to be tested at the WEST project tokamak. The current stage of the development is discussed covering aspects which include detector's spatial dimensions, gas mixtures, window materials and arrangements inside and outside the tokamak ports, details of detector's structure itself and details of the detecting module electronics. It is expected that the detecting unit under development, when implemented, will add to the safe operation of tokamak bringing the creation of sustainable nuclear fusion reactors a step closer. A shorter version of this contribution is due to be published in PoS at: 1st EPS conference on Plasma Diagnostics

Transverse Phase Space Reconstruction and Emittance Measurement of Intense Electron Beams using a Tomography Technique

NASA Astrophysics Data System (ADS)

Stratakis, D.; Kishek, R. A.; Li, H.; Bernal, S.; Walter, M.; Tobin, J.; Quinn, B.; Reiser, M.; O'Shea, P. G.

2006-11-01

Tomography is the technique of reconstructing an image from its projections. It is widely used in the medical community to observe the interior of the human body by processing multiple x-ray images taken at different angles, A few pioneering researchers have adapted tomography to reconstruct detailed phase space maps of charged particle beams. Some questions arise regarding the limitations of tomography technique for space charge dominated beams. For instance is the linear space charge force a valid approximation? Does tomography equally reproduce phase space for complex, experimentally observed, initial particle distributions? Does tomography make any assumptions about the initial distribution? This study explores the use of accurate modeling with the particle-in-cell code WARP to address these questions, using a wide range of different initial distributions in the code. The study also includes a number of experimental results on tomographic phase space mapping performed on the University of Maryland Electron Ring (UMER).

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

Levin, Barnaby D. A.; Padgett, Elliot; Chen, Chien-Chun

Electron tomography in materials science has flourished with the demand to characterize nanoscale materials in three dimensions (3D). Access to experimental data is vital for developing and validating reconstruction methods that improve resolution and reduce radiation dose requirements. This work presents five high-quality scanning transmission electron microscope (STEM) tomography datasets in order to address the critical need for open access data in this field. The datasets represent the current limits of experimental technique, are of high quality, and contain materials with structural complexity. Included are tomographic series of a hyperbranched Co 2 P nanocrystal, platinum nanoparticles on a carbonmore » nanofibre imaged over the complete 180° tilt range, a platinum nanoparticle and a tungsten needle both imaged at atomic resolution by equal slope tomography, and a through-focal tilt series of PtCu nanoparticles. A volumetric reconstruction from every dataset is provided for comparison and development of post-processing and visualization techniques. Researchers interested in creating novel data processing and reconstruction algorithms will now have access to state of the art experimental test data.« less

Front-end electronics for the Muon Portal project

NASA Astrophysics Data System (ADS)

Garozzo, S.; Marano, D.; Bonanno, G.; Grillo, A.; Romeo, G.; Timpanaro, M. C.; Lo Presti, D.; Riggi, F.; Russo, V.; Bonanno, D.; La Rocca, P.; Longhitano, F.; Bongiovanni, D. G.; Fallica, G.; Valvo, G.

2016-10-01

The Muon Portal Project was born as a joint initiative between Italian research and industrial partners, aimed at the construction of a real-size working detector prototype to inspect the content of traveling containers by means of secondary cosmic-ray muon radiation and recognize potentially dangerous hidden materials. The tomographic image is obtained by reconstructing the incoming and outgoing muon trajectories when crossing the inspected volume, employing two tracker planes located above and below the container under inspection. In this paper, the design and development of the front-end electronics of the Muon Portal detector is presented, with particular emphasis being devoted to the photo-sensor devices detecting the scintillation light and to the read-out circuitry which is in charge of processing and digitizing the analog pulse signals. In addition, the remote control system, mechanical housing, and thermal cooling system of all structural blocks of the Muon Portal tracker are also discussed, demonstrating the effectiveness and functionality of the adopted design.

T-ray tomography.

PubMed

Mittleman, D M; Hunsche, S; Boivin, L; Nuss, M C

1997-06-15

We demonstrate tomographic T-ray imaging, using the timing information present in terahertz (THz) pulses in a reflection geometry. THz pulses are reflected from refractive-index discontinuities inside an object, and the time delays of these pulses are used to determine the positions of the discontinuities along the propagation direction. In this fashion a tomographic image can be constructed.

Computed tomographic findings of cerebral fat embolism following multiple bone fractures.

PubMed

Law, Huong Ling; Wong, Siong Lung; Tan, Suzet

2013-02-01

Fat embolism to the lungs and brain is an uncommon complication following fractures. Few reports with descriptions of computed tomographic (CT) findings of emboli to the brain or cerebral fat embolism are available. We report a case of cerebral fat embolism following multiple skeletal fractures and present its CT findings here.

Quantum-tomographic cryptography with a semiconductor single-photon source

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

Kaszlikowski, D.; Yang, L.J.; Yong, L.S.

2005-09-15

We analyze the security of so-called quantum-tomographic cryptography with the source producing entangled photons via an experimental scheme proposed by Fattal et al. [Phys. Rev. Lett. 92, 37903 (2004)]. We determine the range of the experimental parameters for which the protocol is secure against the most general incoherent attacks.

Current developments in clinical multiphoton tomography

NASA Astrophysics Data System (ADS)

König, Karsten; Weinigel, Martin; Breunig, Hans Georg; Gregory, Axel; Fischer, Peter; Kellner-Höfer, Marcel; Bückle, Rainer

2010-02-01

Two-photon microscopy has been introduced in 1990 [1]. 13 years later, CE-marked clinical multiphoton systems for 3D imaging of human skin with subcellular resolution have been launched by the JenLab company with the tomograph DermaInspectTM. In 2010, the second generation of clinical multiphoton tomographs was introduced. The novel mobile multiphoton tomograph MPTflexTM, equipped with a flexible articulated optical arm, provides an increased flexibility and accessibility especially for clinical and cosmetical examinations. The multiphoton excitation of fluorescent biomolecules like NAD(P)H, flavins, porphyrins, elastin, and melanin as well as the second harmonic generation of collagen is induced by picojoule femtosecond laser pulses from an tunable turn-key near infrared laser system. The ability for rapid highquality image acquisition, the user-friendly operation of the system, and the compact and flexible design qualifies this system to be used for melanoma detection, diagnostics of dermatological disorders, cosmetic research, and skin aging measurements as well as in situ drug monitoring and animal research. So far, more than 1,000 patients and volunteers have been investigated with the multiphoton tomographs in Europe, Asia, and Australia.

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

Ceglio, N.M.; George, E.V.; Brooks, K.M.

The first successful demonstration of high resolution, tomographic imaging of a laboratory plasma using coded imaging techniques is reported. ZPCI has been used to image the x-ray emission from laser compressed DT filled microballoons. The zone plate camera viewed an x-ray spectral window extending from below 2 keV to above 6 keV. It exhibited a resolution approximately 8 ..mu..m, a magnification factor approximately 13, and subtended a radiation collection solid angle at the target approximately 10/sup -2/ sr. X-ray images using ZPCI were compared with those taken using a grazing incidence reflection x-ray microscope. The agreement was excellent. In addition,more » the zone plate camera produced tomographic images. The nominal tomographic resolution was approximately 75 ..mu..m. This allowed three dimensional viewing of target emission from a single shot in planar ''slices''. In addition to its tomographic capability, the great advantage of the coded imaging technique lies in its applicability to hard (greater than 10 keV) x-ray and charged particle imaging. Experiments involving coded imaging of the suprathermal x-ray and high energy alpha particle emission from laser compressed microballoon targets are discussed.« less

Tomography and the Herglotz-Wiechert inverse formulation

NASA Astrophysics Data System (ADS)

Nowack, Robert L.

1990-04-01

In this paper, linearized tomography and the Herglotz-Wiechert inverse formulation are compared. Tomographic inversions for 2-D or 3-D velocity structure use line integrals along rays and can be written in terms of Radon transforms. For radially concentric structures, Radon transforms are shown to reduce to Abel transforms. Therefore, for straight ray paths, the Abel transform of travel-time is a tomographic algorithm specialized to a one-dimensional radially concentric medium. The Herglotz-Wiechert formulation uses seismic travel-time data to invert for one-dimensional earth structure and is derived using exact ray trajectories by applying an Abel transform. This is of historical interest since it would imply that a specialized tomographic-like algorithm has been used in seismology since the early part of the century (see Herglotz, 1907; Wiechert, 1910). Numerical examples are performed comparing the Herglotz-Wiechert algorithm and linearized tomography along straight rays. Since the Herglotz-Wiechert algorithm is applicable under specific conditions, (the absence of low velocity zones) to non-straight ray paths, the association with tomography may prove to be useful in assessing the uniqueness of tomographic results generalized to curved ray geometries.

A detailed comparison of single-camera light-field PIV and tomographic PIV

NASA Astrophysics Data System (ADS)

Shi, Shengxian; Ding, Junfei; Atkinson, Callum; Soria, Julio; New, T. H.

2018-03-01

This paper conducts a comprehensive study between the single-camera light-field particle image velocimetry (LF-PIV) and the multi-camera tomographic particle image velocimetry (Tomo-PIV). Simulation studies were first performed using synthetic light-field and tomographic particle images, which extensively examine the difference between these two techniques by varying key parameters such as pixel to microlens ratio (PMR), light-field camera Tomo-camera pixel ratio (LTPR), particle seeding density and tomographic camera number. Simulation results indicate that the single LF-PIV can achieve accuracy consistent with that of multi-camera Tomo-PIV, but requires the use of overall greater number of pixels. Experimental studies were then conducted by simultaneously measuring low-speed jet flow with single-camera LF-PIV and four-camera Tomo-PIV systems. Experiments confirm that given a sufficiently high pixel resolution, a single-camera LF-PIV system can indeed deliver volumetric velocity field measurements for an equivalent field of view with a spatial resolution commensurate with those of multi-camera Tomo-PIV system, enabling accurate 3D measurements in applications where optical access is limited.

Interplay between Coulomb-focusing and non-dipole effects in strong-field ionization with elliptical polarization

NASA Astrophysics Data System (ADS)

Daněk, J.; Klaiber, M.; Hatsagortsyan, K. Z.; Keitel, C. H.; Willenberg, B.; Maurer, J.; Mayer, B. W.; Phillips, C. R.; Gallmann, L.; Keller, U.

2018-06-01

We study strong-field ionization and rescattering beyond the long-wavelength limit of the dipole approximation with elliptically polarized mid-IR laser pulses. Full three-dimensional photoelectron momentum distributions (PMDs) measured with velocity map imaging and tomographic reconstruction revealed an unexpected sharp ridge structure in the polarization plane (2018 Phys. Rev. A 97 013404). This thin line-shaped ridge structure for low-energy photoelectrons is correlated with the ellipticity-dependent asymmetry of the PMD along the beam propagation direction. The peak of the projection of the PMD onto the beam propagation axis is shifted from negative to positive values when the sharp ridge fades away with increasing ellipticity. With classical trajectory Monte Carlo simulations and analytical analysis, we study the underlying physics of this feature. The underlying physics is based on the interplay between the lateral drift of the ionized electron, the laser magnetic field induced drift in the laser propagation direction, and Coulomb focusing. To apply our observations to emerging techniques relying on strong-field ionization processes, including time-resolved holography and molecular imaging, we present a detailed classical trajectory-based analysis of our observations. The analysis leads to the explanation of the fine structure of the ridge and its non-dipole behavior upon rescattering while introducing restrictions on the ellipticity. These restrictions as well as the ionization and recollision phases provide additional observables to gain information on the timing of the ionization and recollision process and non-dipole properties of the ionization process.

Outcomes of the JNT 1955 Phase I Viability Study of Gamma Emission Tomography for Spent Fuel Verification

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

Jacobsson-Svard, Staffan; Smith, Leon E.; White, Timothy

The potential for gamma emission tomography (GET) to detect partial defects within a spent nuclear fuel assembly has been assessed within the IAEA Support Program project JNT 1955, phase I, which was completed and reported to the IAEA in October 2016. Two safeguards verification objectives were identified in the project; (1) independent determination of the number of active pins that are present in a measured assembly, in the absence of a priori information about the assembly; and (2) quantitative assessment of pin-by-pin properties, for example the activity of key isotopes or pin attributes such as cooling time and relative burnup,more » under the assumption that basic fuel parameters (e.g., assembly type and nominal fuel composition) are known. The efficacy of GET to meet these two verification objectives was evaluated across a range of fuel types, burnups and cooling times, while targeting a total interrogation time of less than 60 minutes. The evaluations were founded on a modelling and analysis framework applied to existing and emerging GET instrument designs. Monte Carlo models of different fuel types were used to produce simulated tomographer responses to large populations of “virtual” fuel assemblies. The simulated instrument response data were then processed using a variety of tomographic-reconstruction and image-processing methods, and scoring metrics were defined and used to evaluate the performance of the methods.This paper describes the analysis framework and metrics used to predict tomographer performance. It also presents the design of a “universal” GET (UGET) instrument intended to support the full range of verification scenarios envisioned by the IAEA. Finally, it gives examples of the expected partial-defect detection capabilities for some fuels and diversion scenarios, and it provides a comparison of predicted performance for the notional UGET design and an optimized variant of an existing IAEA instrument.« less

Comparative Validity and Reproducibility Study of Various Landmark-Oriented Reference Planes in 3-Dimensional Computed Tomographic Analysis for Patients Receiving Orthognathic Surgery

PubMed Central

Lin, Hsiu-Hsia; Chuang, Ya-Fang; Weng, Jing-Ling; Lo, Lun-Jou

2015-01-01

Background Three-dimensional computed tomographic imaging has become popular in clinical evaluation, treatment planning, surgical simulation, and outcome assessment for maxillofacial intervention. The purposes of this study were to investigate whether there is any correlation among landmark-based horizontal reference planes and to validate the reproducibility and reliability of landmark identification. Materials and Methods Preoperative and postoperative cone-beam computed tomographic images of patients who had undergone orthognathic surgery were collected. Landmark-oriented reference planes including the Frankfort horizontal plane (FHP) and the lateral semicircular canal plane (LSP) were established. Four FHPs were defined by selecting 3 points from the orbitale, porion, or midpoint of paired points. The LSP passed through both the lateral semicircular canal points and nasion. The distances between the maxillary or mandibular teeth and the reference planes were measured, and the differences between the 2 sides were calculated and compared. The precision in locating the landmarks was evaluated by performing repeated tests, and the intraobserver reproducibility and interobserver reliability were assessed. Results A total of 30 patients with facial deformity and malocclusion—10 patients with facial symmetry, 10 patients with facial asymmetry, and 10 patients with cleft lip and palate—were recruited. Comparing the differences among the 5 reference planes showed no statistically significant difference among all patient groups. Regarding intraobserver reproducibility, the mean differences in the 3 coordinates varied from 0 to 0.35 mm, with correlation coefficients between 0.96 and 1.0, showing high correlation between repeated tests. Regarding interobserver reliability, the mean differences among the 3 coordinates varied from 0 to 0.47 mm, with correlation coefficients between 0.88 and 1.0, exhibiting high correlation between the different examiners. Conclusions The 5 horizontal reference planes were reliable and comparable for 3D craniomaxillofacial analysis. These reference planes were useful in standardizing the orientation of 3D skull models. PMID:25668209

Comparative validity and reproducibility study of various landmark-oriented reference planes in 3-dimensional computed tomographic analysis for patients receiving orthognathic surgery.

PubMed

Lin, Hsiu-Hsia; Chuang, Ya-Fang; Weng, Jing-Ling; Lo, Lun-Jou

2015-01-01

Three-dimensional computed tomographic imaging has become popular in clinical evaluation, treatment planning, surgical simulation, and outcome assessment for maxillofacial intervention. The purposes of this study were to investigate whether there is any correlation among landmark-based horizontal reference planes and to validate the reproducibility and reliability of landmark identification. Preoperative and postoperative cone-beam computed tomographic images of patients who had undergone orthognathic surgery were collected. Landmark-oriented reference planes including the Frankfort horizontal plane (FHP) and the lateral semicircular canal plane (LSP) were established. Four FHPs were defined by selecting 3 points from the orbitale, porion, or midpoint of paired points. The LSP passed through both the lateral semicircular canal points and nasion. The distances between the maxillary or mandibular teeth and the reference planes were measured, and the differences between the 2 sides were calculated and compared. The precision in locating the landmarks was evaluated by performing repeated tests, and the intraobserver reproducibility and interobserver reliability were assessed. A total of 30 patients with facial deformity and malocclusion--10 patients with facial symmetry, 10 patients with facial asymmetry, and 10 patients with cleft lip and palate--were recruited. Comparing the differences among the 5 reference planes showed no statistically significant difference among all patient groups. Regarding intraobserver reproducibility, the mean differences in the 3 coordinates varied from 0 to 0.35 mm, with correlation coefficients between 0.96 and 1.0, showing high correlation between repeated tests. Regarding interobserver reliability, the mean differences among the 3 coordinates varied from 0 to 0.47 mm, with correlation coefficients between 0.88 and 1.0, exhibiting high correlation between the different examiners. The 5 horizontal reference planes were reliable and comparable for 3D craniomaxillofacial analysis. These reference planes were useful in standardizing the orientation of 3D skull models.

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.

Computed Tomographic Airway Morphology in Chronic Obstructive Pulmonary Disease. Remodeling or Innate Anatomy?

PubMed

Diaz, Alejandro A; Estépar, Raul San José; Washko, George R

2016-01-01

Computed tomographic measures of central airway morphology have been used in clinical, epidemiologic, and genetic investigation as an inference of the presence and severity of small-airway disease in smokers. Although several association studies have brought us to believe that these computed tomographic measures reflect airway remodeling, a careful review of such data and more recent evidence may reveal underappreciated complexity to these measures and limitations that prompt us to question that belief. This Perspective offers a review of seminal papers and alternative explanations of their data in the light of more recent evidence. The relationships between airway morphology and lung function are observed in subjects who never smoked, implying that native airway structure indeed contributes to lung function; computed tomographic measures of central airways such as wall area, lumen area, and total bronchial area are smaller in smokers with chronic obstructive pulmonary disease versus those without chronic obstructive pulmonary disease; and the airways are smaller as disease severity increases. The observations suggest that (1) native airway morphology likely contributes to the relationships between computed tomographic measures of airways and lung function; and (2) the presence of smaller airways in those with chronic obstructive pulmonary disease versus those without chronic obstructive pulmonary disease as well as their decrease with disease severity suggests that smokers with chronic obstructive pulmonary disease may simply have smaller airways to begin with, which put them at greater risk for the development of smoking-related disease.

Hierarchical multimodal tomographic x-ray imaging at a superbend

NASA Astrophysics Data System (ADS)

Stampanoni, M.; Marone, F.; Mikuljan, G.; Jefimovs, K.; Trtik, P.; Vila-Comamala, J.; David, C.; Abela, R.

2008-08-01

Over the last decade, synchrotron-based X-ray tomographic microscopy has established itself as a fundamental tool for non-invasive, quantitative investigations of a broad variety of samples, with application ranging from space research and materials science to biology and medicine. Thanks to the brilliance of modern third generation sources, voxel sizes in the micrometer range are routinely achieved by the major X-ray microtomography devices around the world, while the isotropic 100 nm barrier is reached and trespassed only by few instruments. The beamline for TOmographic Microscopy and Coherent rAdiology experiments (TOMCAT) of the Swiss Light Source at the Paul Scherrer Institut, operates a multimodal endstation which offers tomographic capabilities in the micrometer range in absorption contrast - of course - as well as phase contrast imaging. Recently, the beamline has been equipped with a full field, hard X-rays microscope with a theoretical pixel size down to 30 nm and a field of view of 50 microns. The nanoscope performs well at X-ray energies between 8 and 12 keV, selected from the white beam of a 2.9 T superbend by a [Ru/C]100 fixed exit multilayer monochromator. In this work we illustrate the experimental setup dedicated to the nanoscope, in particular the ad-hoc designed X-ray optics needed to produce a homogeneous, square illumination of the sample imaging plane as well as the magnifying zone plate. Tomographic reconstructions at 60 nm voxel size will be shown and discussed.

Field-portable lensfree tomographic microscope.

PubMed

Isikman, Serhan O; Bishara, Waheb; Sikora, Uzair; Yaglidere, Oguzhan; Yeah, John; Ozcan, Aydogan

2011-07-07

We present a field-portable lensfree tomographic microscope, which can achieve sectional imaging of a large volume (∼20 mm(3)) on a chip with an axial resolution of <7 μm. In this compact tomographic imaging platform (weighing only ∼110 grams), 24 light-emitting diodes (LEDs) that are each butt-coupled to a fibre-optic waveguide are controlled through a cost-effective micro-processor to sequentially illuminate the sample from different angles to record lensfree holograms of the sample that is placed on the top of a digital sensor array. In order to generate pixel super-resolved (SR) lensfree holograms and hence digitally improve the achievable lateral resolution, multiple sub-pixel shifted holograms are recorded at each illumination angle by electromagnetically actuating the fibre-optic waveguides using compact coils and magnets. These SR projection holograms obtained over an angular range of ±50° are rapidly reconstructed to yield projection images of the sample, which can then be back-projected to compute tomograms of the objects on the sensor-chip. The performance of this compact and light-weight lensfree tomographic microscope is validated by imaging micro-beads of different dimensions as well as a Hymenolepis nana egg, which is an infectious parasitic flatworm. Achieving a decent three-dimensional spatial resolution, this field-portable on-chip optical tomographic microscope might provide a useful toolset for telemedicine and high-throughput imaging applications in resource-poor settings. This journal is © The Royal Society of Chemistry 2011

DIRECT OBSERVATION OF SOLAR CORONAL MAGNETIC FIELDS BY VECTOR TOMOGRAPHY OF THE CORONAL EMISSION LINE POLARIZATIONS

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

Kramar, M.; Lin, H.; Tomczyk, S., E-mail: kramar@cua.edu, E-mail: lin@ifa.hawaii.edu, E-mail: tomczyk@ucar.edu

We present the first direct “observation” of the global-scale, 3D coronal magnetic fields of Carrington Rotation (CR) Cycle 2112 using vector tomographic inversion techniques. The vector tomographic inversion uses measurements of the Fe xiii 10747 Å Hanle effect polarization signals by the Coronal Multichannel Polarimeter (CoMP) and 3D coronal density and temperature derived from scalar tomographic inversion of Solar Terrestrial Relations Observatory (STEREO)/Extreme Ultraviolet Imager (EUVI) coronal emission lines (CELs) intensity images as inputs to derive a coronal magnetic field model that best reproduces the observed polarization signals. While independent verifications of the vector tomography results cannot be performed, wemore » compared the tomography inverted coronal magnetic fields with those constructed by magnetohydrodynamic (MHD) simulations based on observed photospheric magnetic fields of CR 2112 and 2113. We found that the MHD model for CR 2112 is qualitatively consistent with the tomography inverted result for most of the reconstruction domain except for several regions. Particularly, for one of the most noticeable regions, we found that the MHD simulation for CR 2113 predicted a model that more closely resembles the vector tomography inverted magnetic fields. In another case, our tomographic reconstruction predicted an open magnetic field at a region where a coronal hole can be seen directly from a STEREO-B/EUVI image. We discuss the utilities and limitations of the tomographic inversion technique, and present ideas for future developments.« less

Correlative bacteriologic and micro-computed tomographic analysis of mandibular molar mesial canals prepared by self-adjusting file, reciproc, and twisted file systems.

PubMed

Siqueira, José F; Alves, Flávio R F; Versiani, Marco A; Rôças, Isabela N; Almeida, Bernardo M; Neves, Mônica A S; Sousa-Neto, Manoel D

2013-08-01

This ex vivo study evaluated the disinfecting and shaping ability of 3 protocols used in the preparation of mesial root canals of mandibular molars by means of correlative bacteriologic and micro-computed tomographic (μμCT) analysis. The mesial canals of extracted mandibular molars were contaminated with Enterococcus faecalis for 30 days and assigned to 3 groups based on their anatomic configuration as determined by μCT analysis according to the preparation technique (Self-Adjusting File [ReDent-Nova, Ra'anana, Israel], Reciproc [VDW, Munich, Germany], and Twisted File [SybronEndo, Orange, CA]). In all groups, 2.5% NaOCl was the irrigant. Canal samples were taken before (S1) and after instrumentation (S2), and bacterial quantification was performed using culture. Next, mesial roots were subjected to additional μCT analysis in order to evaluate shaping of the canals. All instrumentation protocols promoted a highly significant intracanal bacterial reduction (P < .001). Intergroup quantitative and qualitative comparisons disclosed no significant differences between groups (P > .05). As for shaping, no statistical difference was observed between the techniques regarding the mean percentage of volume increase, the surface area increase, the unprepared surface area, and the relative unprepared surface area (P > .05). Correlative analysis showed no statistically significant relationship between bacterial reduction and the mean percentage increase of the analyzed parameters (P > .05). The 3 instrumentation systems have similar disinfecting and shaping performance in the preparation of mesial canals of mandibular molars. Copyright © 2013 American Association of Endodontists. Published by Elsevier Inc. All rights reserved.

Multi-scale structural analysis of gas diffusion layers

NASA Astrophysics Data System (ADS)

Göbel, Martin; Godehardt, Michael; Schladitz, Katja

2017-07-01

The macroscopic properties of materials are strongly determined by their micro structure. Here, transport properties of gas diffusion layers (GDL) for fuel cells are considered. In order to simulate flow and thermal properties, detailed micro structural information is essential. 3D images obtained by high-resolution computed tomography using synchrotron radiation and scanning electron microscopy (SEM) combined with focused ion beam (FIB) serial slicing were used. A recent method for reconstruction of porous structures from FIB-SEM images and sophisticated morphological image transformations were applied to segment the solid structural components. The essential algorithmic steps for segmenting the different components in the tomographic data-sets are described and discussed. In this paper, two types of GDL, based on a non-woven substrate layer and a paper substrate layer were considered, respectively. More than three components are separated within the synchrotron radiation computed tomography data. That is, fiber system, polytetrafluoroethylene (PTFE) binder/impregnation, micro porous layer (MPL), inclusions within the latter, and pore space are segmented. The usage of the thus derived 3D structure data in different simulation applications can be demonstrated. Simulations of macroscopic properties such as thermal conductivity, depending on the flooding state of the GDL are possible.

Downscaling Smooth Tomographic Models: Separating Intrinsic and Apparent Anisotropy

NASA Astrophysics Data System (ADS)

Bodin, Thomas; Capdeville, Yann; Romanowicz, Barbara

2016-04-01

In recent years, a number of tomographic models based on full waveform inversion have been published. Due to computational constraints, the fitted waveforms are low pass filtered, which results in an inability to map features smaller than half the shortest wavelength. However, these tomographic images are not a simple spatial average of the true model, but rather an effective, apparent, or equivalent model that provides a similar 'long-wave' data fit. For example, it can be shown that a series of horizontal isotropic layers will be seen by a 'long wave' as a smooth anisotropic medium. In this way, the observed anisotropy in tomographic models is a combination of intrinsic anisotropy produced by lattice-preferred orientation (LPO) of minerals, and apparent anisotropy resulting from the incapacity of mapping discontinuities. Interpretations of observed anisotropy (e.g. in terms of mantle flow) requires therefore the separation of its intrinsic and apparent components. The "up-scaling" relations that link elastic properties of a rapidly varying medium to elastic properties of the effective medium as seen by long waves are strongly non-linear and their inverse highly non-unique. That is, a smooth homogenized effective model is equivalent to a large number of models with discontinuities. In the 1D case, Capdeville et al (GJI, 2013) recently showed that a tomographic model which results from the inversion of low pass filtered waveforms is an homogenized model, i.e. the same as the model computed by upscaling the true model. Here we propose a stochastic method to sample the ensemble of layered models equivalent to a given tomographic profile. We use a transdimensional formulation where the number of layers is variable. Furthermore, each layer may be either isotropic (1 parameter) or intrinsically anisotropic (2 parameters). The parsimonious character of the Bayesian inversion gives preference to models with the least number of parameters (i.e. least number of layers, and maximum number of isotropic layers). The non-uniqueness of the problem can be addressed by adding high frequency data such as receiver functions, able to map first order discontinuities. We show with synthetic tests that this method enables us to distinguish between intrinsic and apparent anisotropy in tomographic models, as layers with intrinsic anisotropy are only present when required by the data. A real data example is presented based on the latest global model produced at Berkeley.

Chloroplast evolution, structure and functions

PubMed Central

Jensen, Poul Erik

2014-01-01

In this review, we consider a selection of recent advances in chloroplast biology. These include new findings concerning chloroplast evolution, such as the identification of Chlamydiae as a third partner in primary endosymbiosis, a second instance of primary endosymbiosis represented by the chromatophores found in amoebae of the genus Paulinella, and a new explanation for the longevity of captured chloroplasts (kleptoplasts) in sacoglossan sea slugs. The controversy surrounding the three-dimensional structure of grana, its recent resolution by tomographic analyses, and the role of the CURVATURE THYLAKOID1 (CURT1) proteins in supporting grana formation are also discussed. We also present an updated inventory of photosynthetic proteins and the factors involved in the assembly of thylakoid multiprotein complexes, and evaluate findings that reveal that cyclic electron flow involves NADPH dehydrogenase (NDH)- and PGRL1/PGR5-dependent pathways, both of which receive electrons from ferredoxin. Other topics covered in this review include new protein components of nucleoids, an updated inventory of the chloroplast proteome, new enzymes in chlorophyll biosynthesis and new candidate messengers in retrograde signaling. Finally, we discuss the first successful synthetic biology approaches that resulted in chloroplasts in which electrons from the photosynthetic light reactions are fed to enzymes derived from secondary metabolism. PMID:24991417

Effect of fringe-artifact correction on sub-tomogram averaging from Zernike phase-plate cryo-TEM

PubMed Central

Kishchenko, Gregory P.; Danev, Radostin; Fisher, Rebecca; He, Jie; Hsieh, Chyongere; Marko, Michael; Sui, Haixin

2015-01-01

Zernike phase-plate (ZPP) imaging greatly increases contrast in cryo-electron microscopy, however fringe artifacts appear in the images. A computational de-fringing method has been proposed, but it has not been widely employed, perhaps because the importance of de-fringing has not been clearly demonstrated. For testing purposes, we employed Zernike phase-plate imaging in a cryo-electron tomographic study of radial-spoke complexes attached to microtubule doublets. We found that the contrast enhancement by ZPP imaging made nonlinear denoising insensitive to the filtering parameters, such that simple low-frequency band-pass filtering made the same improvement in map quality. We employed sub-tomogram averaging, which compensates for the effect of the “missing wedge” and considerably improves map quality. We found that fringes (caused by the abrupt cut-on of the central hole in the phase plate) can lead to incorrect representation of a structure that is well-known from the literature. The expected structure was restored by amplitude scaling, as proposed in the literature. Our results show that de-fringing is an important part of image-processing for cryo-electron tomography of macromolecular complexes with ZPP imaging. PMID:26210582

Comment on "Assessing Discrepancies Between Previous Plate Kinematic Models of Mesozoic Iberia and Their Constraints" by Barnett-Moore Et Al.

NASA Astrophysics Data System (ADS)

van Hinsbergen, Douwe J. J.; Spakman, Wim; Vissers, Reinoud L. M.; van der Meer, Douwe G.

2017-12-01

In their recent paper, Barnett-Moore et al. (2016) reflect on current models of Iberian plate motion in the Jurassic and Cretaceous as well as ongoing debates on the reliability of the various types of kinematic data that form independent constraints on Iberia's motion relative to Eurasia. They question the validity of various marine geophysical, seismic, tomographic, geological, and paleomagnetic data sets from the Bay of Biscay, Central Atlantic Ocean, and Iberia for kinematic reconstruction of Iberia and conclude that neither models invoking Aptian-Albian transtension, nor compression, are consistent with currently available data. An important element in their analysis is that they discard the large paleomagnetic data set from the Jurassic and Cretaceous from Iberia based on perceived limitations of that data set. In addition, they argue that seismic tomographic images exclude a scenario of subduction in the Aptian-Albian in the Pyrenees, and based on this "question the validity of current plate reconstructions, their constraints, and geodynamic scenarios, which are in support of this scenario [e.g., Vissers et al., 2016]." We welcome the discussion raised by Barnett-Moore et al. (2016) on the reliability and usefulness of paleomagnetic data as independent constraint for Iberia's plate motion in the Mesozoic. Taking these paleomagnetic data at face value, Vissers et al. (2016) recently showed that these are consistent with an 40° counterclockwise rotation of Iberia in the Aptian, requiring up to 500 km of Aptian convergence across the Pyrenees, that is, through subduction. In this comment, we aim to critically assess whether and how the concerns on the quality of paleomagnetic data raised by Barnett-Moore et al. (2016) may allow for an alternative explanation, particularly one with a Mesozoic rotation of Iberia that is small enough so as to not requiring subduction. We also reassess whether seismic tomographic images indeed refute subduction scenarios, using 8 S wave and P wave tomographic models including those used in Barnett-Moore et al. (2016).

Structural relations between collagen and mineral in bone as determined by high voltage electron microscopic tomography

NASA Technical Reports Server (NTRS)

Landis, W. J.; Hodgens, K. J.; Arena, J.; Song, M. J.; McEwen, B. F.

1996-01-01

Aspects of the ultrastructural interaction between collagen and mineral crystals in embryonic chick bone have been examined by the novel technique of high voltage electron microscopic tomography to obtain three-dimensional information concerning extracellular calcification in this tissue. Newly mineralizing osteoid along periosteal surfaces of mid-diaphyseal regions from normal chick tibiae was embedded, cut into 0.25 microns thick sections, and documented at 1.0 MV in the Albany AEI-EM7 high voltage electron microscope. The areas of the tissue studied contained electron dense mineral crystals associated with collagen fibrils, some marked by crystals disposed along their cylindrically shaped lengths. Tomographic reconstructions of one site with two mineralizing fibrils were computed from a 5 degrees tilt series of micrographs over a +/- 60 degrees range. Reconstructions showed that the mineral crystals were platelets of irregular shape. Their sizes were variable, measured here up to 80 x 30 x 8 nm in length, width, and thickness, respectively. The longest crystal dimension, corresponding to the c-axis crystallographically, was generally parallel to the collagen fibril long axis. Individual crystals were oriented parallel to one another in each fibril examined. They were also parallel in the neighboring but apparently spatially separate fibrils. Crystals were periodically (approximately 67 nm repeat distance) arranged along the fibrils and their location appeared to correspond to collagen hole and overlap zones defined by geometrical imaging techniques. The crystals appeared to be continuously distributed along a fibril, their size and number increasing in a tapered fashion from a relatively narrow tip containing smaller and infrequent crystals to wider regions having more densely packed and larger crystals. Defined for the first time by direct visual 3D imaging, these data describe the size, shape, location, orientation, and development of early crystals in normal bone collagen. The results suggest that platelet-shaped crystals are arranged in channels or grooves which are formed by collagen hole zones in register and that crystal sizes may exceed the dimensions of hole zones. Such data agree with those from mineral-matrix interaction in normally calcifying avian tendon obtained by similar high voltage tomographic means, but in addition they indicate a possible gradual and continuous deposition of crystals in collagen of bone unlike tendon and imply that individual collagen fibrils in local regions of osteoid are organized such that they all may be aligned in a coherent manner.

Diagnostic X-Multi-Axis Beamline

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

Paul, A C

Tomographic reconstruction of explosive events require time resolved multipal lines of sight. Considered here is a four (or eight) line of sight beam layout for a nominal 20 MeV 2000 Ampere 2 microsecond electron beam for generation of x-rays 0.9 to 5 meters from a given point, the ''firing point''. The requirement of a millimeter spatial x-ray source requires that the electron beam be delivered to the converter targets with sub-millimeter precision independent of small variations in beam energy and initial conditions. The 2 usec electron beam pulse allows for four bursts in each line, separated in time by aboutmore » 500 microseconds. Each burst is divided by a electro-magnetic kicker into four (or eight) pulses, one for each beamline. The arrival time of the four (or eight) beam pulses at the x-ray target can be adjusted by the kicker timing and the sequence that the beams of each burst are switched into the different beamlines. There exists a simple conceptual path from a four beamline to a eight beamline upgrade. The eight line beamline is built up from seven unique types of sub-systems or ''blocks''. The beamline consists of 22 of these functional blocks and contains a total of 455 individual magnets, figure 1. The 22 blocks are inter-connected by a total of 30 straight line inter-block sections (IBS). Beamlines 1-4 are built from 12 blocks with conceptual layout structure shown in figure 2. Beamlines 5-8 are built with an additional 10 blocks with conceptual layout structure shown in figure 3. This beamline can be thought of as looking like a lollipop consisting of a 42 meter long stick leading to a 60 by 70 meter rectangular candy blob consisting of the eight lines of sight. The accelerator providing the electron beam is at the end of the stick and the firing point is at the center of the blob. The design allows for a two stage implementation. Beamlines 1-3 can be installed to provide a tomographic azimuthal resolution of 45 degrees. An upgrade can later be made by adding beamlines 5-8 azimuthally indexed so as to provide an azimuthal resolution of 22.5 degrees. All eight beamlines point down by 10 degrees (pitch). The x-ray converter target can be located along each beamline anywhere between 0 to 5 meters from the firing point. An example of inter-facing the Diagnostic X facility with the Darht II accelerator located at LANL will be given.« less

Interdisciplinary Study of Egyptian Mummies from the Pushkin State Museum of Fine Arts Collection at the National Research Centre ``Kurchatov Institute''

NASA Astrophysics Data System (ADS)

Yatsishina, E. B.; Kovalchuk, M. V.; Loshak, M. D.; Vasilyev, S. V.; Vasilieva, O. A.; Dyuzheva, O. P.; Pojidaev, V. M.; Ushakov, V. L.

2018-05-01

Nine ancient Egyptian mummies (dated preliminarily to the period from the 1st mill. BCE to the first centuries CE) from the collection of the State Pushkin Museum of Fine Arts have been studied at the National Research Centre "Kurchatov Institute" (NRC KI) on the base of the complex of NBICS technologies. Tomographic scanning is performed using a magneto-resonance tomograph (3 T) and a hybrid positron emission tomography/computed tomography (PET-CT) scanner. Three-dimensional reconstructions of mummies and their anthropological measurements are carried out. Some medical conclusions are drawn based on the tomographic data. In addition, the embalming composition and tissue of one of the mummies are preliminarily analyzed.

System for plotting subsoil structure and method therefor

NASA Technical Reports Server (NTRS)

Narasimhan, K. Y.; Nathan, R.; Parthasarathy, S. P. (Inventor)

1980-01-01

Data for use in producing a tomograph of subsoil structure between boreholes is derived by pacing spaced geophones in one borehole, on the Earth surface if desired, and by producing a sequence of shots at spaced apart locations in the other borehole. The signals, detected by each of the geophones from the various shots, are processed either on a time of arrival basis, or on the basis of signal amplitude, to provide information of the characteristics of a large number of incremental areas between the boreholes. Such information is useable to produce a tomograph of the subsoil structure between the boreholes. By processing signals of relatively high frequencies, e.g., up to 100 Hz, and by closely spacing the geophones, a high resolution tomograph can be produced.

Robust statistical reconstruction for charged particle tomography

DOEpatents

Schultz, Larry Joe; Klimenko, Alexei Vasilievich; Fraser, Andrew Mcleod; Morris, Christopher; Orum, John Christopher; Borozdin, Konstantin N; Sossong, Michael James; Hengartner, Nicolas W

2013-10-08

Systems and methods for charged particle detection including statistical reconstruction of object volume scattering density profiles from charged particle tomographic data to determine the probability distribution of charged particle scattering using a statistical multiple scattering model and determine a substantially maximum likelihood estimate of object volume scattering density using expectation maximization (ML/EM) algorithm to reconstruct the object volume scattering density. The presence of and/or type of object occupying the volume of interest can be identified from the reconstructed volume scattering density profile. The charged particle tomographic data can be cosmic ray muon tomographic data from a muon tracker for scanning packages, containers, vehicles or cargo. The method can be implemented using a computer program which is executable on a computer.

Data-processing strategies for nano-tomography with elemental specification

NASA Astrophysics Data System (ADS)

Liu, Yijin; Cats, Korneel H.; Nelson Weker, Johanna; Andrews, Joy C.; Weckhuysen, Bert M.; Pianetta, Piero

2013-10-01

Combining the energy tunability provided by synchrotron X-ray sources with transmission X-ray microscopy, the morphology of materials can be resolved in 3D at spatial resolution down to 30 nm with elemental/chemical specification. In order to study the energy dependence of the absorption coefficient over the investigated volume, the tomographic reconstruction and image registration (before and/or after the tomographic reconstruction) are critical. We show in this paper the comparison of two different data processing strategies and conclude that the signal to noise ratio (S/N) in the final result can be improved via performing tomographic reconstruction prior to the evaluation of energy dependence. Our result echoes the dose fractionation theorem, and is particularly helpful when the element of interest has low concentration.

Longitudinal Differences of Ionospheric Vertical Density Distribution and Equatorial Electrodynamics

NASA Technical Reports Server (NTRS)

Yizengaw, E.; Zesta, E.; Moldwin, M. B.; Damtie, B.; Mebrahtu, A.; Valledares, C.E.; Pfaff, R. F.

2012-01-01

Accurate estimation of global vertical distribution of ionospheric and plasmaspheric density as a function of local time, season, and magnetic activity is required to improve the operation of space-based navigation and communication systems. The vertical density distribution, especially at low and equatorial latitudes, is governed by the equatorial electrodynamics that produces a vertical driving force. The vertical structure of the equatorial density distribution can be observed by using tomographic reconstruction techniques on ground-based global positioning system (GPS) total electron content (TEC). Similarly, the vertical drift, which is one of the driving mechanisms that govern equatorial electrodynamics and strongly affect the structure and dynamics of the ionosphere in the low/midlatitude region, can be estimated using ground magnetometer observations. We present tomographically reconstructed density distribution and the corresponding vertical drifts at two different longitudes: the East African and west South American sectors. Chains of GPS stations in the east African and west South American longitudinal sectors, covering the equatorial anomaly region of meridian approx. 37 deg and 290 deg E, respectively, are used to reconstruct the vertical density distribution. Similarly, magnetometer sites of African Meridian B-field Education and Research (AMBER) and INTERMAGNET for the east African sector and South American Meridional B-field Array (SAMBA) and Low Latitude Ionospheric Sensor Network (LISN) are used to estimate the vertical drift velocity at two distinct longitudes. The comparison between the reconstructed and Jicamarca Incoherent Scatter Radar (ISR) measured density profiles shows excellent agreement, demonstrating the usefulness of tomographic reconstruction technique in providing the vertical density distribution at different longitudes. Similarly, the comparison between magnetometer estimated vertical drift and other independent drift observation, such as from VEFI onboard Communication/Navigation Outage Forecasting System (C/NOFS) satellite and JULIA radar, is equally promising. The observations at different longitudes suggest that the vertical drift velocities and the vertical density distribution have significant longitudinal differences; especially the equatorial anomaly peaks expand to higher latitudes more in American sector than the African sector, indicating that the vertical drift in the American sector is stronger than the African sector.

Electron Microscopy and Analytical X-ray Characterization of Compositional and Nanoscale Structural Changes in Fossil Bone

NASA Astrophysics Data System (ADS)

Boatman, Elizabeth Marie

The nanoscale structure of compact bone contains several features that are direct indicators of bulk tissue mechanical properties. Fossil bone tissues represent unique opportunities to understand the compact bone structure/property relationships from a deep time perspective, offering a possible array of new insights into bone diseases, biomimicry of composite materials, and basic knowledge of bioapatite composition and nanoscale bone structure. To date, most work with fossil bone has employed microscale techniques and has counter-indicated the survival of bioapatite and other nanoscale structural features. The obvious disconnect between the use of microscale techniques and the discernment of nanoscale structure has prompted this work. The goal of this study was to characterize the nanoscale constituents of fossil compact bone by applying a suite of diffraction, microscopy, and spectrometry techniques, representing the highest levels of spatial and energy resolution available today, and capable of complementary structural and compositional characterization from the micro- to the nanoscale. Fossil dinosaur and crocodile long bone specimens, as well as modern ratite and crocodile femurs, were acquired from the UC Museum of Paleontology. Preserved physiological features of significance were documented with scanning electron microscopy back-scattered imaging. Electron microprobe wavelength-dispersive X-ray spectroscopy (WDS) revealed fossil bone compositions enriched in fluorine with a complementary loss of oxygen. X-ray diffraction analyses demonstrated that all specimens were composed of apatite. Transmission electron microscopy (TEM) imaging revealed preserved nanocrystallinity in the fossil bones and electron diffraction studies further identified these nanocrystallites as apatite. Tomographic analyses of nanoscale elements imaged by TEM and small angle X-ray scattering were performed, with the results of each analysis further indicating that nanoscale structure is highly conserved in these four fossil specimens. Finally, the results of this study indicate that bioapatite can be preserved in even the most ancient vertebrate specimens, further supporting the idea that fossilization is a preservational process. This work also underlines the importance of using appropriately selected characterization and analytical techniques for the study of fossil bone, especially from the perspective of spatial resolution and the scale of the bone structural features in question.

Verification of computed tomographic estimates of cochlear implant array position: a micro-CT and histologic analysis.

PubMed

Teymouri, Jessica; Hullar, Timothy E; Holden, Timothy A; Chole, Richard A

2011-08-01

To determine the efficacy of clinical computed tomographic (CT) imaging to verify postoperative electrode array placement in cochlear implant (CI) patients. Nine fresh cadaver heads underwent clinical CT scanning, followed by bilateral CI insertion and postoperative clinical CT scanning. Temporal bones were removed, trimmed, and scanned using micro-CT. Specimens were then dehydrated, embedded in either methyl methacrylate or LR White resin, and sectioned with a diamond wafering saw. Histology sections were examined by 3 blinded observers to determine the position of individual electrodes relative to soft tissue structures within the cochlea. Electrodes were judged to be within the scala tympani, scala vestibuli, or in an intermediate position between scalae. The position of the array could be estimated accurately from clinical CT scans in all specimens using micro-CT and histology as a criterion standard. Verification using micro-CT yielded 97% agreement, and histologic analysis revealed 95% agreement with clinical CT results. A composite, 3-dimensional image derived from a patient's preoperative and postoperative CT images using a clinical scanner accurately estimates the position of the electrode array as determined by micro-CT imaging and histologic analyses. Information obtained using the CT method provides valuable insight into numerous variables of interest to patient performance such as surgical technique, array design, and processor programming and troubleshooting.

Tomographic flow cytometry assisted by intelligent wavefronts analysis

NASA Astrophysics Data System (ADS)

Merola, F.; Memmolo, P.; Miccio, L.; Mugnano, M.; Ferraro, P.

2017-06-01

High-throughput single-cell analysis is a challenging target for implementing advanced biomedical applications. An excellent candidate for this aim is label-free tomographic phase microscopy. However, in-line tomography is very difficult to be implemented in practice, as it requires complex setup for rotating the sample and/or illuminate the cell along numerous directions [1]. We exploit random rolling of cells while they are flowing along a microfluidic channel demonstrating that it is possible to obtain in-line phase-contrast tomography by adopting strategies for intelligent wavefronts analysis thus obtaining complete retrieval of both 3D-position and orientation of rotating cells [2]. Thus, by numerical wavefront analysis a-priori knowledge of such information is no longer needed. This approach makes continuos-flow cyto-tomography suitable for practical operation in real-world, single-cell analysis and with substantial simplification of the optical system avoiding any mechanical/optical scanning of light source. Demonstration is given for different classes of biosamples, red-blood-cells (RBCs), diatom algae and fibroblast cells [3]. Accurate characterization of each type of cells is reported despite their very different nature and materials content, thus showing the proposed method can be extended, by adopting two alternate strategies of wavefront-analysis, to many classes of cells. In particular, for RBCs we furnish important parameters as 3D morphology, Corpuscular Hemoglobin (CH), Volume (V), and refractive index (RI) for each single cell in the total population [3]. This could open a new route in blood disease diagnosis, for example for the isolation and characterization of "foreign" cells in the blood stream, the so called Circulating Tumor Cells (CTC), early manifestation of metastasis.

Big data in cryoEM: automated collection, processing and accessibility of EM data.

PubMed

Baldwin, Philip R; Tan, Yong Zi; Eng, Edward T; Rice, William J; Noble, Alex J; Negro, Carl J; Cianfrocco, Michael A; Potter, Clinton S; Carragher, Bridget

2018-06-01

The scope and complexity of cryogenic electron microscopy (cryoEM) data has greatly increased, and will continue to do so, due to recent and ongoing technical breakthroughs that have led to much improved resolutions for macromolecular structures solved using this method. This big data explosion includes single particle data as well as tomographic tilt series, both generally acquired as direct detector movies of ∼10-100 frames per image or per tilt-series. We provide a brief survey of the developments leading to the current status, and describe existing cryoEM pipelines, with an emphasis on the scope of data acquisition, methods for automation, and use of cloud storage and computing. Copyright © 2017 Elsevier Ltd. All rights reserved.

LASER APPLICATIONS AND OTHER TOPICS IN QUANTUM ELECTRONICS: Monte Carlo simulation of optical clearing of paper in optical coherence tomography

NASA Astrophysics Data System (ADS)

Kirillin, M. Yu; Priezzhev, A. V.; Hast, J.; Myllylä, Risto

2006-02-01

Signals of an optical coherence tomograph from paper samples are calculated by the Monte Carlo method before and after the action of different immersion liquids such as ethanol, glycerol, benzyl alcohol, and 1-pentanol. It is shown within the framework of the model used that all these liquids reduce the contrast of the inhomogeneity image in upper layers of the samples, considerably improving, however, the visibility of lower layers, allowing the localisation of the rear boundary of a medium being probed, which is important for precision contactless measuring a paper sheet thickness, for example, during the manufacturing process. The results of calculations are in well agreement with experimental data.

Computed tomographic contrast tenography of the digital flexor tendon sheath of the equine hindlimb.

PubMed

Agass, Rachel; Dixon, Jonathon; Fraser, Barny

2018-05-01

Pre-surgical investigation of digital flexor tendon sheath pathology remains challenging with current standard imaging techniques. The aim of this prospective, anatomical, pilot study was to describe the anatomy of the equine hind limb digital flexor tendon sheath using a combination of computed tomography (CT) and computed tomographic contrast tenography in clinically normal cadaver limbs. Ten pairs of hind limbs with no external abnormalities were examined from the level of the tarsometatarsal joint distally. Limbs initially underwent non-contrast CT examination using 120 kVp, 300 mAs, and 1.5 mm slice thickness. Sixty millilitres of ioversol iodinated contrast media and saline (final concentration 100 mg/ml) were injected using a basilar sesamoidean approach. The computed tomographic contrast tenography examination was then repeated, before dissection of the specimens to compare gross and imaging findings. The combined CT and computed tomographic contrast tenography examinations provided excellent anatomical detail of intra-thecal structures. The borders of the superficial and deep digital flexor tendons, and the manica flexoria were consistently identifiable in all limbs. Detailed anatomy including that of the mesotenons, two of which are previously undescribed, and the plantar annular ligament were also consistently identifiable. Dissection of all 10 pairs of limbs revealed there to be no pathology, in accordance with the imaging findings. In conclusion, the combination of CT and computed tomographic contrast tenography may be useful adjunctive diagnostic techniques to define digital flexor tendon sheath pathology prior to surgical exploration in horses. © 2017 American College of Veterinary Radiology.

Sparsity Aware Adaptive Radar Sensor Imaging in Complex Scattering Environments

DTIC Science & Technology

2015-06-15

while meeting the requirement on the peak to average power ratio. Third, we study impact of waveform encoding on nonlinear electromagnetic tomographic...Enyue Lu. Time Domain Electromagnetic Tomography Using Propagation and Backpropagation Method, IEEE International Conference on Image Processing...Received Paper 3.00 4.00 Yuanwei Jin, Chengdon Dong, Enyue Lu. Waveform Encoding for Nonlinear Electromagnetic Tomographic Imaging, IEEE Global

Research in Image Understanding as Applied to 3-D Microwave Tomographic Imaging with Near Optical Resolution.

DTIC Science & Technology

1986-03-10

and P. Frangos , "Inverse Scattering for Dielectric Media", Annual OSA Meeting, Wash. D.C., Oct. 1985. Invited Presentations 1. N. Farhat, "Tomographic...Optical Computing", DARPA Briefing, ~~April 1985. ... -7--.. , 1% If .% P . .% .% *-. 7777~14e 7-7. K-7 77 Theses 0 P.V. Frangos , "The Electromagnetic

Experimental demonstration of laser tomographic adaptive optics on a 30-meter telescope at 800 nm

NASA Astrophysics Data System (ADS)

Ammons, S., Mark; Johnson, Luke; Kupke, Renate; Gavel, Donald T.; Max, Claire E.

2010-07-01

A critical goal in the next decade is to develop techniques that will extend Adaptive Optics correction to visible wavelengths on Extremely Large Telescopes (ELTs). We demonstrate in the laboratory the highly accurate atmospheric tomography necessary to defeat the cone effect on ELTs, an essential milestone on the path to this capability. We simulate a high-order Laser Tomographic AO System for a 30-meter telescope with the LTAO/MOAO testbed at UCSC. Eight Sodium Laser Guide Stars (LGSs) are sensed by 99x99 Shack-Hartmann wavefront sensors over 75". The AO system is diffraction-limited at a science wavelength of 800 nm (S ~ 6-9%) over a field of regard of 20" diameter. Openloop WFS systematic error is observed to be proportional to the total input atmospheric disturbance and is nearly the dominant error budget term (81 nm RMS), exceeded only by tomographic wavefront estimation error (92 nm RMS). The total residual wavefront error for this experiment is comparable to that expected for wide-field tomographic adaptive optics systems of similar wavefront sensor order and LGS constellation geometry planned for Extremely Large Telescopes.

Scalp marking for a craniotomy using a laser pointer during preoperative computed tomographic imaging: technical note.

PubMed

Kubo, S; Nakata, H; Sugauchi, Y; Yokota, N; Yoshimine, T

2000-05-01

The preoperative localization of superficial intracranial lesions is often necessary for accurate burr hole placement or craniotomy siting. It is not always easy, however, to localize the lesions over the scalp working only from computed tomographic images. We developed a simple method for such localization using a laser pointer during the preoperative computed tomographic examination. The angle of incidence, extending from a point on the scalp to the center of the computed tomographic image, is measured by the software included with the scanner. In the gantry, at the same angle as on the image, a laser is beamed from a handmade projector onto the patient's scalp toward the center of the gantry. The point illuminated on the patient's head corresponds to that on the image. The device and the method are described in detail herein. We applied this technique to mark the area for the craniotomy before surgery in five patients with superficial brain tumors. At the time of surgery, it was confirmed that the tumors were circumscribed precisely. The technique is easy to perform and useful in the preoperative planning for a craniotomy. In addition, the device is easily constructed and inexpensive.

Optical coherence tomography using images of hair structure and dyes penetrating into the hair.

PubMed

Tsugita, Tetsuya; Iwai, Toshiaki

2014-11-01

Hair dyes are commonly evaluated by the appearance of the hair after dyeing. However, this approach cannot simultaneously assess how deep the dye has penetrated into hair. For simultaneous assessment of the appearance and the interior of hair, we developed a visible-range red, green, and blue (RGB) (three primary colors)-optical coherence tomography (OCT) using an RGB LED light source. We then evaluated a phantom model based on the assumption that the sample's absorbability in the vertical direction affects the tomographic imaging. Consistent with theory, our device showed higher resolution than conventional OCT with far-red light. In the experiment on the phantom model, we confirmed that the tomographic imaging is affected by absorbability unique to the sample. Furthermore, we verified that permeability can be estimated from this tomographic image. We also identified for the first time the relationship between penetration of the dye into hair and characteristics of wavelength by tomographic imaging of dyed hair. We successfully simultaneously assessed the appearance of dyed hair and inward penetration of the dye without preparing hair sections. © 2014 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.

TomoBank: a tomographic data repository for computational x-ray science

NASA Astrophysics Data System (ADS)

De Carlo, Francesco; Gürsoy, Doğa; Ching, Daniel J.; Joost Batenburg, K.; Ludwig, Wolfgang; Mancini, Lucia; Marone, Federica; Mokso, Rajmund; Pelt, Daniël M.; Sijbers, Jan; Rivers, Mark

2018-03-01

There is a widening gap between the fast advancement of computational methods for tomographic reconstruction and their successful implementation in production software at various synchrotron facilities. This is due in part to the lack of readily available instrument datasets and phantoms representative of real materials for validation and comparison of new numerical methods. Recent advancements in detector technology have made sub-second and multi-energy tomographic data collection possible (Gibbs et al 2015 Sci. Rep. 5 11824), but have also increased the demand to develop new reconstruction methods able to handle in situ (Pelt and Batenburg 2013 IEEE Trans. Image Process. 22 5238-51) and dynamic systems (Mohan et al 2015 IEEE Trans. Comput. Imaging 1 96-111) that can be quickly incorporated in beamline production software (Gürsoy et al 2014 J. Synchrotron Radiat. 21 1188-93). The x-ray tomography data bank, tomoBank, provides a repository of experimental and simulated datasets with the aim to foster collaboration among computational scientists, beamline scientists, and experimentalists and to accelerate the development and implementation of tomographic reconstruction methods for synchrotron facility production software by providing easy access to challenging datasets and their descriptors.

Tomographic imaging using poissonian detector data

DOEpatents

Aspelmeier, Timo; Ebel, Gernot; Hoeschen, Christoph

2013-10-15

An image reconstruction method for reconstructing a tomographic image (f.sub.j) of a region of investigation within an object (1), comprises the steps of providing detector data (y.sub.i) comprising Poisson random values measured at an i-th of a plurality of different positions, e.g. i=(k,l) with pixel index k on a detector device and angular index l referring to both the angular position (.alpha..sub.l) and the rotation radius (r.sub.l) of the detector device (10) relative to the object (1), providing a predetermined system matrix A.sub.ij assigning a j-th voxel of the object (1) to the i-th detector data (y.sub.i), and reconstructing the tomographic image (f.sub.j) based on the detector data (y.sub.i), said reconstructing step including a procedure of minimizing a functional F(f) depending on the detector data (y.sub.i) and the system matrix A.sub.ij and additionally including a sparse or compressive representation of the object (1) in an orthobasis T, wherein the tomographic image (f.sub.j) represents the global minimum of the functional F(f). Furthermore, an imaging method and an imaging device using the image reconstruction method are described.

A Methodology to Seperate and Analyze a Seismic Wide Angle Profile

NASA Astrophysics Data System (ADS)

Weinzierl, Wolfgang; Kopp, Heidrun

2010-05-01

General solutions of inverse problems can often be obtained through the introduction of probability distributions to sample the model space. We present a simple approach of defining an a priori space in a tomographic study and retrieve the velocity-depth posterior distribution by a Monte Carlo method. Utilizing a fitting routine designed for very low statistics to setup and analyze the obtained tomography results, it is possible to statistically separate the velocity-depth model space derived from the inversion of seismic refraction data. An example of a profile acquired in the Lesser Antilles subduction zone reveals the effectiveness of this approach. The resolution analysis of the structural heterogeneity includes a divergence analysis which proves to be capable of dissecting long wide-angle profiles for deep crust and upper mantle studies. The complete information of any parameterised physical system is contained in the a posteriori distribution. Methods for analyzing and displaying key properties of the a posteriori distributions of highly nonlinear inverse problems are therefore essential in the scope of any interpretation. From this study we infer several conclusions concerning the interpretation of the tomographic approach. By calculating a global as well as singular misfits of velocities we are able to map different geological units along a profile. Comparing velocity distributions with the result of a tomographic inversion along the profile we can mimic the subsurface structures in their extent and composition. The possibility of gaining a priori information for seismic refraction analysis by a simple solution to an inverse problem and subsequent resolution of structural heterogeneities through a divergence analysis is a new and simple way of defining a priori space and estimating the a posteriori mean and covariance in singular and general form. The major advantage of a Monte Carlo based approach in our case study is the obtained knowledge of velocity depth distributions. Certainly the decision of where to extract velocity information on the profile for setting up a Monte Carlo ensemble is limiting the a priori space. However, the general conclusion of analyzing the velocity field according to distinct reference distributions gives us the possibility to define the covariance according to any geological unit if we have a priori information on the velocity depth distributions. Using the wide angle data recorded across the Lesser Antilles arc, we are able to resolve a shallow feature like the backstop by a robust and simple divergence analysis. We demonstrate the effectiveness of the new methodology to extract some key features and properties from the inversion results by including information concerning the confidence level of results.

Deviations of Mesial Root Canals of Mandibular First Molar Teeth at the Apical Third: A Micro-computed Tomographic Study.

PubMed

Keles, Ali; Keskin, Cangül

2018-06-01

The present study aimed to quantitatively analyze apical foramen deviations of mesial root canals of mandibular first molar teeth by means of micro-computed tomographic (micro-CT) imaging. Micro-CT images of the mesial roots of 109 mandibular first molar teeth with independent mesiobuccal (MB) and mesiolingual (ML) root canals were analyzed. The deviations of the apical foramina of the MB, ML, and middle mesial root canals from the anatomic apex were measured. The vertical distance between the apical foramina of each mesial root canal in relation to each other was also calculated. The distances from the apical foramina of the MB, ML, and middle mesial root canals to the anatomic apex of the mesial root were up to 2.51 mm, 3.21 mm, and 5.67 mm, respectively. There was no significant difference between the deviations of MB and ML root canals from each other (P > .05). The middle mesial root canal showed the greatest deviation compared with the MB and ML canals (P < .05). The apical foramina of mesial root canals of mandibular first molar teeth showed greater variations from each other and anatomic apices than previously reported. Clinically, the use of electronic apex locators for the detection of minor apical foramen of each mesial root canal is of the utmost important. Copyright © 2018 American Association of Endodontists. Published by Elsevier Inc. All rights reserved.

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

Banfield, Jillian; Comolli, Luis R.; Singer, Steve

Of central interest in this study were microbial communities attached to sediment particles and in associated groundwater. Are the communities similar? What do the organisms look like and how do they associated with each other? Research was conducted on samples collected from the Department of Energy's (DOE) Rifle Integrated Field Research Challenge (IFRC) site in Rifle, Colorado, USA. This site served first as a test case for in situ bioremediation via biostimulation, and more recently as a location for studying the role of microbial communities in the carbon and other linked biogeochemical cycles. We addressed the question of the naturemore » of planktonic to sediment-attached microbial communities using field and laboratory experimental studies with a range of methods that provide 2- and 3-dimensional topological information coupled to information about chemical speciation, organism type, and activity levels. The research leveraged data from metagenomics and proteomics analyses that obtained through parallel work at the Rifle site in the context of the IFRC. In this project we integrated characterization methods with extensive genomic sequence information and associated environmental data to better understand the processes that occur within groundwater and sediment-attached communities. Notable is the range of characterization methods, including scanning transmission x-ray microscopy (STXM), micro-EXAFS/XANES and microdiffraction and 2D and 3D cryo-electron tomographic analysis, and high-resolutino transmission electron microscope (HRTEM) analysis to characterize these natural microbial communities. A cryo-TEM work was unique because samples for electron microscopic characterization were cryo-plunged directly on site immediately after sampling. This step minimizes post-collection alterations, including cell damages and change of redox state. Among many achievements documented in publications listed at the end of this report, we highlight the following: 1) The development of a platform for routine correlative cryogenic microscopy and spectroscopy with samples prepared on-site. 2) The determination of which organisms dominate planktonic and biofilm communities in the subsurface. 3) Identification of microorganism-mineral associations and discovery of a novel mechanism that sustains activity of iron-reducing bacteria. 4) The detection of bacteria from the OP11-OD1-WWE3 (etc.) radiation and elucidation of their remarkable structural organization by cryog-TEM cryo-electron tomograhpy (cryo-ET). 5) Extensive analysis of biofilms and documentation of the association of cells and Se minerals. 6) The comparison of expressed c-type cytochromes between pure cultures of G. bemidjiensis and related field populations, provided insight into possible molecular mechanisms for U(VI) reduction in the aquifer. At least sixteen publications will result from this project (partial support), which provide both graduate student and post doctoral training.« less

Using artificial neural networks (ANN) for open-loop tomography

NASA Astrophysics Data System (ADS)

Osborn, James; De Cos Juez, Francisco Javier; Guzman, Dani; Butterley, Timothy; Myers, Richard; Guesalaga, Andres; Laine, Jesus

2011-09-01

The next generation of adaptive optics (AO) systems require tomographic techniques in order to correct for atmospheric turbulence along lines of sight separated from the guide stars. Multi-object adaptive optics (MOAO) is one such technique. Here, we present a method which uses an artificial neural network (ANN) to reconstruct the target phase given off-axis references sources. This method does not require any input of the turbulence profile and is therefore less susceptible to changing conditions than some existing methods. We compare our ANN method with a standard least squares type matrix multiplication method (MVM) in simulation and find that the tomographic error is similar to the MVM method. In changing conditions the tomographic error increases for MVM but remains constant with the ANN model and no large matrix inversions are required.

Video analysis of the biomechanics of a bicycle accident resulting in significant facial fractures.

PubMed

Syed, Shameer H; Willing, Ryan; Jenkyn, Thomas R; Yazdani, Arjang

2013-11-01

This study aimed to use video analysis techniques to determine the velocity, impact force, angle of impact, and impulse to fracture involved in a video-recorded bicycle accident resulting in facial fractures. Computed tomographic images of the resulting facial injury are presented for correlation with data and calculations. To our knowledge, such an analysis of an actual recorded trauma has not been reported in the literature. A video recording of the accident was split into frames and analyzed using an image editing program. Measurements of velocity and angle of impact were obtained from this analysis, and the force of impact and impulse were calculated using the inverse dynamic method with connected rigid body segments. These results were then correlated with the actual fracture pattern found on computed tomographic imaging of the subject's face. There was an impact velocity of 6.25 m/s, impact angles of 14 and 6.3 degrees of neck extension and axial rotation, respectively, an impact force of 1910.4 N, and an impulse to fracture of 47.8 Ns. These physical parameters resulted in clinically significant bilateral mid-facial Le Fort II and III pattern fractures. These data confer further understanding of the biomechanics of bicycle-related accidents by correlating an actual clinical outcome with the kinematic and dynamic parameters involved in the accident itself and yielding a concrete evidence of the velocity, force, and impulse necessary to cause clinically significant facial trauma. These findings can aid in the design of protective equipment for bicycle riders to help avoid this type of injury.

Computed Tomography-Derived Fractional Flow Reserve in the Detection of Lesion-Specific Ischemia: An Integrated Analysis of 3 Pivotal Trials.

PubMed

Xu, Rende; Li, Chenguang; Qian, Juying; Ge, Junbo

2015-11-01

Invasive fractional flow reserve (FFR) is the gold standard for the determination of physiologic stenosis severity and the need for revascularization. FFR computed from standard acquired coronary computed tomographic angiography datasets (FFRCT) is an emerging technology which allows calculation of FFR using resting image data from coronary computed tomographic angiography (CCTA). However, the diagnostic accuracy of FFRCT in the evaluation of lesion-specific myocardial ischemia remains to be confirmed, especially in patients with intermediate coronary stenosis. We performed an integrated analysis of data from 3 prospective, international, and multicenter trials, which assessed the diagnostic performance of FFRCT using invasive FFR as a reference standard. Three studies evaluating 609 patients and 1050 vessels were included. The total calculated sensitivity, specificity, positive predictive value, negative predictive value, and accuracy of FFRCT were 82.8%, 77.7%, 60.8%, 91.6%, and 79.2%, respectively, for the per-vessel analysis, and 89.4%, 70.5%, 69.7%, 89.7%, and 78.7%, respectively, for the per-patient analysis. Compared with CCTA alone, FFRCT demonstrated significantly improved accuracy (P < 0.001) in detecting lesion-specific ischemia. In patients with intermediate coronary stenosis, FFRCT remained both highly sensitive and specific with respect to the diagnosis of ischemia. In conclusion, FFRCT appears to be a reliable noninvasive alternative to invasive FFR, as it demonstrates high accuracy in the determination of anatomy and lesion-specific ischemia, which justifies the performance of additional randomized controlled trials to evaluate both the clinical benefits and the cost-effectiveness of FFRCT-guided coronary revascularization.

New light-amplifier-based detector designs for high spatial resolution and high sensitivity CBCT mammography and fluoroscopy

PubMed Central

Rudin, Stephen; Kuhls, Andrew T.; Yadava, Girijesh K.; Josan, Gaurav C.; Wu, Ye; Chityala, Ravishankar N.; Rangwala, Hussain S.; Ciprian Ionita, N.; Hoffmann, Kenneth R.; Bednarek, Daniel R.

2011-01-01

New cone-beam computed tomographic (CBCT) mammography system designs are presented where the detectors provide high spatial resolution, high sensitivity, low noise, wide dynamic range, negligible lag and high frame rates similar to features required for high performance fluoroscopy detectors. The x-ray detectors consist of a phosphor coupled by a fiber-optic taper to either a high gain image light amplifier (LA) then CCD camera or to an electron multiplying CCD. When a square-array of such detectors is used, a field-of-view (FOV) to 20 × 20 cm can be obtained where the images have pixel-resolution of 100 µm or better. To achieve practical CBCT mammography scan-times, 30 fps may be acquired with quantum limited (noise free) performance below 0.2 µR detector exposure per frame. Because of the flexible voltage controlled gain of the LA’s and EMCCDs, large detector dynamic range is also achievable. Features of such detector systems with arrays of either generation 2 (Gen 2) or 3 (Gen 3) LAs optically coupled to CCD cameras or arrays of EMCCDs coupled directly are compared. Quantum accounting analysis is done for a variety of such designs where either the lowest number of information carriers off the LA photo-cathode or electrons released in the EMCCDs per x-ray absorbed in the phosphor are large enough to imply no quantum sink for the design. These new LA- or EMCCD-based systems could lead to vastly improved CBCT mammography, ROI-CT, or fluoroscopy performance compared to systems using flat panels. PMID:21297904

New light-amplifier-based detector designs for high spatial resolution and high sensitivity CBCT mammography and fluoroscopy

NASA Astrophysics Data System (ADS)

Rudin, Stephen; Kuhls, Andrew T.; Yadava, Girijesh K.; Josan, Gaurav C.; Wu, Ye; Chityala, Ravishankar N.; Rangwala, Hussain S.; Ionita, N. Ciprian; Hoffmann, Kenneth R.; Bednarek, Daniel R.

2006-03-01

New cone-beam computed tomographic (CBCT) mammography system designs are presented where the detectors provide high spatial resolution, high sensitivity, low noise, wide dynamic range, negligible lag and high frame rates similar to features required for high performance fluoroscopy detectors. The x-ray detectors consist of a phosphor coupled by a fiber-optic taper to either a high gain image light amplifier (LA) then CCD camera or to an electron multiplying CCD. When a square-array of such detectors is used, a field-of-view (FOV) to 20 x 20 cm can be obtained where the images have pixel-resolution of 100 μm or better. To achieve practical CBCT mammography scan-times, 30 fps may be acquired with quantum limited (noise free) performance below 0.2 μR detector exposure per frame. Because of the flexible voltage controlled gain of the LA's and EMCCDs, large detector dynamic range is also achievable. Features of such detector systems with arrays of either generation 2 (Gen 2) or 3 (Gen 3) LAs optically coupled to CCD cameras or arrays of EMCCDs coupled directly are compared. Quantum accounting analysis is done for a variety of such designs where either the lowest number of information carriers off the LA photo-cathode or electrons released in the EMCCDs per x-ray absorbed in the phosphor are large enough to imply no quantum sink for the design. These new LA- or EMCCD-based systems could lead to vastly improved CBCT mammography, ROI-CT, or fluoroscopy performance compared to systems using flat panels.

Morphoscopic analysis of experimentally produced bony wounds from low-velocity ballistic impact.

PubMed

Kieser, Jules A; Tahere, Joy; Agnew, Caitlin; Kieser, David C; Duncan, Warwick; Swain, Michael V; Reeves, Matthew T

2011-12-01

Understanding how bone behaves when subjected to ballistic impact is of critical importance for forensic questions, such as the reconstruction of shooting events. Yet the literature addressing microscopic anatomical features of gunshot wounds to different types of bone is sparse. Moreover, a biomechanical framework for describing how the complex architecture of bone affects its failure during such impact is lacking. The aim of this study was to examine the morphological features associated with experimental gunshot wounds in slaughtered pig ribs. We shot the 4th rib of 12 adult pigs with .22 mm subsonic bullets at close range (5 cm) and examined resultant wounds under the light microscope, scanning electron microscope SEM and micro tomograph μCT. In all cases there was a narrow shot channel followed by spall region, with evidence of plastic deformation with burnishing of the surface bone in the former, and brittle fracture around and through individual Haversian systems in the latter. In all but one case, the entrance wounds were characterized by superficially fractured cortical bone in the form of a well-defined collar, while the exit wounds showed delamination of the periosteum. Inorganic residue was evident in all cases, with electron energy dispersive spectroscopy EDS confirming the presence of carbon, phosphate, lead and calcium. This material appeared to be especially concentrated within the fractured bony collar at the entrance. We conclude that gunshot wounds in flat bones may be morphologically divided into a thin burnished zone at the entry site, and a fracture zone at the exit.

Atom probe tomographic mapping directly reveals the atomic distribution of phosphorus in resin embedded ferritin

DOE PAGES

Perea, Daniel E.; Liu, Jia; Bartrand, Jonah A. G.; ...

2016-02-29

In this study, we report the atomic-scale analysis of biological interfaces using atom probe tomography. Embedding the protein ferritin in an organic polymer resin lacking nitrogen provided chemical contrast to visualize atomic distributions and distinguish organic-organic and organic-inorganic interfaces. The sample preparation method can be directly extended to further enhance the study of biological, organic and inorganic nanomaterials relevant to health, energy or the environment.

Electron Microscopy Imaging of Zinc Soaps Nucleation in Oil Paint.

PubMed

Hermans, Joen; Osmond, Gillian; van Loon, Annelies; Iedema, Piet; Chapman, Robyn; Drennan, John; Jack, Kevin; Rasch, Ronald; Morgan, Garry; Zhang, Zhi; Monteiro, Michael; Keune, Katrien

2018-06-04

Using the recently developed techniques of electron tomography, we have explored the first stages of disfiguring formation of zinc soaps in modern oil paintings. The formation of complexes of zinc ions with fatty acids in paint layers is a major threat to the stability and appearance of many late 19th and early 20th century oil paintings. Moreover, the occurrence of zinc soaps in oil paintings leading to defects is disturbingly common, but the chemical reactions and migration mechanisms leading to large zinc soap aggregates or zones remain poorly understood. State-of-the-art scanning (SEM) and transmission (TEM) electron microscopy techniques, primarily developed for biological specimens, have enabled us to visualize the earliest stages of crystalline zinc soap growth in a reconstructed zinc white (ZnO) oil paint sample. In situ sectioning techniques and sequential imaging within the SEM allowed three-dimensional tomographic reconstruction of sample morphology. Improvements in the detection and discrimination of backscattered electrons enabled us to identify local precipitation processes with small atomic number contrast. The SEM images were correlated to low-dose and high-sensitivity TEM images, with high-resolution tomography providing unprecedented insight into the structure of nucleating zinc soaps at the molecular level. The correlative approach applied here to study phase separation, and crystallization processes specific to a problem in art conservation creates possibilities for visualization of phase formation in a wide range of soft materials.

External and internal macromorphology in 3D-reconstructed maxillary molars using computerized X-ray microtomography.

PubMed

Bjørndal, L; Carlsen, O; Thuesen, G; Darvann, T; Kreiborg, S

1999-01-01

The aim of this study was to perform a qualitative analysis of the relationship between the external and internal macromorphology of the root complex and to use fractal dimension analysis to determine the correlation between the shape of the outer surface of the root and the shape of the root canal. On the basis of X-ray computed transaxial microtomography, a qualitative and quantitative analysis of the external and internal macromorphology of the root complex in permanent maxillary molars was performed using well-defined macromorphological variables and fractal dimension analysis. Five maxillary molars were placed between a microfocus X-ray tube with a focal spot size of 0.07 mm, a Thomson-SCF image intensifier, and a CCD camera compromising a detector for the tomograph. Between 100 and 240 tomographic 2D slices were made of each tooth. Assembling slices for 3D volume was carried out with subsequent median noise filtering. Segmentation into enamel, dentine and pulp space was achieved through thresholding followed by morphological filtering. Surface representations were then constructed. A useful visualization of the tooth was created by making the dental hard tissues transparent and the pulp chamber and root-canal system opaque. On this basis it became possible to assess the relationship between the external and internal macromorphology of the crown and root complex. There was strong agreement between the number, position and cross-section of the root canals and the number, position and degree of manifestation of the root complex macrostructures. Data from a fractal dimension analysis also showed a high correlation between the shape of the root canals and the corresponding roots. It is suggested that these types of 3D volumes constitute a platform for preclinical training in fundamental endodontic procedures.

Tomographic Image Reconstruction Using an Interpolation Method for Tree Decay Detection

Treesearch

Hailin Feng; Guanghui Li; Sheng Fu; Xiping Wang

2014-01-01

Stress wave velocity has been traditionally regarded as an indicator of the extent of damage inside wood. This paper aimed to detect internal decay of urban trees through reconstructing tomographic image of the cross section of a tree trunk. A grid model covering the cross section area of a tree trunk was defined with some assumptions. Stress wave data were processed...

Morphometric analysis of erythrocytes from patients with thalassemia using tomographic diffractive microscopy

NASA Astrophysics Data System (ADS)

Lin, Yang-Hsien; Huang, Shin-Shyang; Wu, Shang-Ju; Sung, Kung-Bin

2017-11-01

Complete blood count is the most common test to detect anemia, but it is unable to obtain the abnormal shape of erythrocytes, which highly correlates with the hematologic function. Tomographic diffractive microscopy (TDM) is an emerging technique capable of quantifying three-dimensional (3-D) refractive index (RI) distributions of erythrocytes without labeling. TDM was used to characterize optical and morphological properties of 172 erythrocytes from healthy volunteers and 419 erythrocytes from thalassemic patients. To efficiently extract and analyze the properties of erythrocytes, we developed an adaptive region-growing method for automatically delineating erythrocytes from 3-D RI maps. The thalassemic erythrocytes not only contained lower hemoglobin content but also showed doughnut shape and significantly lower volume, surface area, effective radius, and average thickness. A multi-indices prediction model achieved perfect accuracy of diagnosing thalassemia using four features, including the optical volume, surface-area-to-volume ratio, sphericity index, and surface area. The results demonstrate the ability of TDM to provide quantitative, hematologic measurements and to assess morphological features of erythrocytes to distinguish healthy and thalassemic erythrocytes.

Misdiagnosis of acute peripheral vestibulopathy in central nervous ischemic infarction.

PubMed

Braun, Eva Maria; Tomazic, Peter Valentin; Ropposch, Thorsten; Nemetz, Ulrike; Lackner, Andreas; Walch, Christian

2011-12-01

Vertigo is a very common symptom at otorhinolaryngology (ENT), neurological, and emergency units, but often, it is difficult to distinguish between vertigo of peripheral and central origin. We conducted a retrospective analysis of a hospital database, including all patients admitted to the ENT University Hospital Graz after neurological examination, with a diagnosis of peripheral vestibular vertigo and subsequent diagnosis of central nervous infarction as the actual cause for the vertigo. Twelve patients were included in this study. All patients with acute spinning vertigo after a thorough neurological examination and with uneventful computed tomographic scans were referred to our ENT department. Nine of them presented with horizontal nystagmus. Only 1 woman experienced additional hearing loss. The mean diagnostic delay to the definite diagnosis of a central infarction through magnetic resonance imaging was 4 days (SD, 2.3 d). A careful otologic and neurological examination, including the head impulse test and caloric testing, is mandatory. Because ischemic events cannot be diagnosed in computed tomographic scans at an early stage, we strongly recommend to perform cranial magnetic resonance imaging within 48 hours from admission if vertigo has not improved under conservative treatment.

Concurrent Ultrasonic Tomography and Acoustic Emission in Solid Materials

NASA Astrophysics Data System (ADS)

Chow, Thomas M.

A series of experiments were performed to detect stress induced changes in the elastic properties of various solid materials. A technique was developed where these changes were monitored concurrently by two methods, ultrasonic tomography and acoustic emission monitoring. This thesis discusses some experiments in which acoustic emission (AE) and ultrasonic tomography were performed on various samples of solid materials including rocks, concrete, metals, and fibre reinforced composites. Three separate techniques were used to induce stress in these samples. Disk shaped samples were subject to stress via diametral loading using an indirect tensile test geometry. Cylindrical samples of rocks and concrete were subject to hydraulic fracture tests, and rectangular samples of fibre reinforced composite were subject to direct tensile loading. The majority of the samples were elastically anisotropic. Full waveform acoustic emission and tomographic data were collected while these samples were under load to give information concerning changes in the structure of the material as it was undergoing stress change and/or failure. Analysis of this data indicates that AE and tomographic techniques mutually compliment each other to give a view of the stress induced elastic changes in the tested samples.

Extracting cosmological information from the angular power spectrum of the 2MASS Photometric Redshift catalogue

NASA Astrophysics Data System (ADS)

Balaguera-Antolínez, A.; Bilicki, M.; Branchini, E.; Postiglione, A.

2018-05-01

Using the almost all-sky 2MASS Photometric Redshift catalogue (2MPZ) we perform for the first time a tomographic analysis of galaxy angular clustering in the local Universe (z < 0.24). We estimate the angular auto- and cross-power spectra of 2MPZ galaxies in three photometric redshift bins, and use dedicated mock catalogues to assess their errors. We measure a subset of cosmological parameters, having fixed the others at their Planck values, namely the baryon fraction fb=0.14^{+0.09}_{-0.06}, the total matter density parameter Ωm = 0.30 ± 0.06, and the effective linear bias of 2MPZ galaxies beff, which grows from 1.1^{+0.3}_{-0.4} at = 0.05 up to 2.1^{+0.3}_{-0.5} at = 0.2, largely because of the flux-limited nature of the data set. The results obtained here for the local Universe agree with those derived with the same methodology at higher redshifts, and confirm the importance of the tomographic technique for next-generation photometric surveys such as Euclid or Large Synoptic Survey Telescope.

Correlation of Thermally Induced Pores with Microstructural Features Using High Energy X-rays

NASA Astrophysics Data System (ADS)

Menasche, David B.; Shade, Paul A.; Lind, Jonathan; Li, Shiu Fai; Bernier, Joel V.; Kenesei, Peter; Schuren, Jay C.; Suter, Robert M.

2016-11-01

Combined application of a near-field High Energy Diffraction Microscopy measurement of crystal lattice orientation fields and a tomographic measurement of pore distributions in a sintered nickel-based superalloy sample allows pore locations to be correlated with microstructural features. Measurements were carried out at the Advanced Photon Source beamline 1-ID using an X-ray energy of 65 keV for each of the measurement modes. The nickel superalloy sample was prepared in such a way as to generate significant thermally induced porosity. A three-dimensionally resolved orientation map is directly overlaid with the tomographically determined pore map through a careful registration procedure. The data are shown to reliably reproduce the expected correlations between specific microstructural features (triple lines and quadruple nodes) and pore positions. With the statistics afforded by the 3D data set, we conclude that within statistical limits, pore formation does not depend on the relative orientations of the grains. The experimental procedures and analysis tools illustrated are being applied to a variety of materials problems in which local heterogeneities can affect materials properties.

Enhanced Combined Tomography and Biomechanics Data for Distinguishing Forme Fruste Keratoconus.

PubMed

Luz, Allan; Lopes, Bernardo; Hallahan, Katie M; Valbon, Bruno; Ramos, Isaac; Faria-Correia, Fernando; Schor, Paulo; Dupps, William J; Ambrósio, Renato

2016-07-01

To evaluate the performance of the Ocular Response Analyzer (ORA) (Reichert Ophthalmic Instruments, Depew, NY) variables and Pentacam HR (Oculus Optikgeräte GmbH, Wetzlar, Germany) tomographic parameters in differentiating forme fruste keratoconus (FFKC) from normal corneas, and to assess a combined biomechanical and tomographic parameter to improve outcomes. Seventy-six eyes of 76 normal patients and 21 eyes of 21 patients with FFKC were included in the study. Fifteen variables were derived from exported ORA signals to characterize putative indicators of biomechanical behavior and 37 ORA waveform parameters were tested. Sixteen tomographic parameters from Pentacam HR were tested. Logistic regression was used to produce a combined biomechanical and tomography linear model. Differences between groups were assessed by the Mann-Whitney U test. The area under the receiver operating characteristics curve (AUROC) was used to compare diagnostic performance. No statistically significant differences were found in age, thinnest point, central corneal thickness, and maximum keratometry between groups. Twenty-one parameters showed significant differences between the FFKC and control groups. Among the ORA waveform measurements, the best parameters were those related to the area under the first peak, p1area1 (AUROC, 0.717 ± 0.065). Among the investigator ORA variables, a measure incorporating the pressure-deformation relationship of the entire response cycle was the best predictor (hysteresis loop area, AUROC, 0.688 ± 0.068). Among tomographic parameters, Belin/Ambrósio display showed the highest predictive value (AUROC, 0.91 ± 0.057). A combination of parameters showed the best result (AUROC, 0.953 ± 0.024) outperforming individual parameters. Tomographic and biomechanical parameters demonstrated the ability to differentiate FFKC from normal eyes. A combination of both types of information further improved predictive value. [J Refract Surg. 2016;32(7):479-485.]. Copyright 2016, SLACK Incorporated.

Tomographic reconstruction of heat release rate perturbations induced by helical modes in turbulent swirl flames

NASA Astrophysics Data System (ADS)

Moeck, Jonas P.; Bourgouin, Jean-François; Durox, Daniel; Schuller, Thierry; Candel, Sébastien

2013-04-01

Swirl flows with vortex breakdown are widely used in industrial combustion systems for flame stabilization. This type of flow is known to sustain a hydrodynamic instability with a rotating helical structure, one common manifestation of it being the precessing vortex core. The role of this unsteady flow mode in combustion is not well understood, and its interaction with combustion instabilities and flame stabilization remains unclear. It is therefore important to assess the structure of the perturbation in the flame that is induced by this helical mode. Based on principles of tomographic reconstruction, a method is presented to determine the 3-D distribution of the heat release rate perturbation associated with the helical mode. Since this flow instability is rotating, a phase-resolved sequence of projection images of light emitted from the flame is identical to the Radon transform of the light intensity distribution in the combustor volume and thus can be used for tomographic reconstruction. This is achieved with one stationary camera only, a vast reduction in experimental and hardware requirements compared to a multi-camera setup or camera repositioning, which is typically required for tomographic reconstruction. Different approaches to extract the coherent part of the oscillation from the images are discussed. Two novel tomographic reconstruction algorithms specifically tailored to the structure of the heat release rate perturbations related to the helical mode are derived. The reconstruction techniques are first applied to an artificial field to illustrate the accuracy. High-speed imaging data acquired in a turbulent swirl-stabilized combustor setup with strong helical mode oscillations are then used to reconstruct the 3-D structure of the associated perturbation in the flame.

Metric on the space of quantum states from relative entropy. Tomographic reconstruction

NASA Astrophysics Data System (ADS)

Man'ko, Vladimir I.; Marmo, Giuseppe; Ventriglia, Franco; Vitale, Patrizia

2017-08-01

In the framework of quantum information geometry, we derive, from quantum relative Tsallis entropy, a family of quantum metrics on the space of full rank, N level quantum states, by means of a suitably defined coordinate free differential calculus. The cases N=2, N=3 are discussed in detail and notable limits are analyzed. The radial limit procedure has been used to recover quantum metrics for lower rank states, such as pure states. By using the tomographic picture of quantum mechanics we have obtained the Fisher-Rao metric for the space of quantum tomograms and derived a reconstruction formula of the quantum metric of density states out of the tomographic one. A new inequality obtained for probabilities of three spin-1/2 projections in three perpendicular directions is proposed to be checked in experiments with superconducting circuits.

Application of gray level mapping in computed tomographic colonography: a pilot study to compare with traditional surface rendering method for identification and differentiation of endoluminal lesions

PubMed Central

Chen, Lih-Shyang; Hsu, Ta-Wen; Chang, Shu-Han; Lin, Chih-Wen; Chen, Yu-Ruei; Hsieh, Chin-Chiang; Han, Shu-Chen; Chang, Ku-Yaw; Hou, Chun-Ju

2017-01-01

Objective: In traditional surface rendering (SR) computed tomographic endoscopy, only the shape of endoluminal lesion is depicted without gray-level information unless the volume rendering technique is used. However, volume rendering technique is relatively slow and complex in terms of computation time and parameter setting. We use computed tomographic colonography (CTC) images as examples and report a new visualization technique by three-dimensional gray level mapping (GM) to better identify and differentiate endoluminal lesions. Methods: There are 33 various endoluminal cases from 30 patients evaluated in this clinical study. These cases were segmented using gray-level threshold. The marching cube algorithm was used to detect isosurfaces in volumetric data sets. GM is applied using the surface gray level of CTC. Radiologists conducted the clinical evaluation of the SR and GM images. The Wilcoxon signed-rank test was used for data analysis. Results: Clinical evaluation confirms GM is significantly superior to SR in terms of gray-level pattern and spatial shape presentation of endoluminal cases (p < 0.01) and improves the confidence of identification and clinical classification of endoluminal lesions significantly (p < 0.01). The specificity and diagnostic accuracy of GM is significantly better than those of SR in diagnostic performance evaluation (p < 0.01). Conclusion: GM can reduce confusion in three-dimensional CTC and well correlate CTC with sectional images by the location as well as gray-level value. Hence, GM increases identification and differentiation of endoluminal lesions, and facilitates diagnostic process. Advances in knowledge: GM significantly improves the traditional SR method by providing reliable gray-level information for the surface points and is helpful in identification and differentiation of endoluminal lesions according to their shape and density. PMID:27925483

Fractional Flow Reserve and Coronary Computed Tomographic Angiography: A Review and Critical Analysis.

PubMed

Hecht, Harvey S; Narula, Jagat; Fearon, William F

2016-07-08

Invasive fractional flow reserve (FFR) is now the gold standard for intervention. Noninvasive functional imaging analyses derived from coronary computed tomographic angiography (CTA) offer alternatives for evaluating lesion-specific ischemia. CT-FFR, CT myocardial perfusion imaging, and transluminal attenuation gradient/corrected contrast opacification have been studied using invasive FFR as the gold standard. CT-FFR has demonstrated significant improvement in specificity and positive predictive value compared with CTA alone for predicting FFR of ≤0.80, as well as decreasing the frequency of nonobstructive invasive coronary angiography. High-risk plaque characteristics have also been strongly implicated in abnormal FFR. Myocardial computed tomographic perfusion is an alternative method with promising results; it involves more radiation and contrast. Transluminal attenuation gradient/corrected contrast opacification is more controversial and may be more related to vessel diameter than stenosis. Important considerations remain: (1) improvement of CTA quality to decrease unevaluable studies, (2) is the diagnostic accuracy of CT-FFR sufficient? (3) can CT-FFR guide intervention without invasive FFR confirmation? (4) what are the long-term outcomes of CT-FFR-guided treatment and how do they compare with other functional imaging-guided paradigms? (5) what degree of stenosis on CTA warrants CT-FFR? (6) how should high-risk plaque be incorporated into treatment decisions? (7) how will CT-FFR influence other functional imaging test utilization, and what will be the effect on the practice of cardiology? (8) will a workstation-based CT-FFR be mandatory? Rapid progress to date suggests that CTA-based lesion-specific ischemia will be the gatekeeper to the cardiac catheterization laboratory and will transform the world of intervention. © 2016 American Heart Association, Inc.

Effect of ProTaper Gold, Self-Adjusting File, and XP-endo Shaper Instruments on Dentinal Microcrack Formation: A Micro-computed Tomographic Study.

PubMed

Bayram, H Melike; Bayram, Emre; Ocak, Mert; Uygun, Ahmet Demirhan; Celik, Hakan Hamdi

2017-07-01

The aim of the present study was to evaluate the frequency of dentinal microcracks observed after root canal preparation with ProTaper Universal (PTU; Dentsply Tulsa Dental Specialties, Tulsa, OK), ProTaper Gold (PTG; Dentsply Tulsa Dental Specialties), Self-Adjusting File (SAF; ReDent Nova, Ra'anana, Israel), and XP-endo Shaper (XP; FKG Dentaire, La Chaux-de-Fonds, Switzerland) instruments using micro-computed tomographic (CT) analysis. Forty extracted human mandibular premolars having single-canal and straight root were randomly assigned to 4 experimental groups (n = 10) according to the different nickel-titanium systems used for root canal preparation: PTU, PTG, SAF, and XP. In the SAF and XP groups, the canals were first prepared with a K-file until #25 at the working length, and then the SAF or XP files were used. The specimens were scanned using high-resolution micro-computed tomographic imaging before and after root canal preparation. Afterward, preoperative and postoperative cross-sectional images of the teeth were screened to identify the presence of dentinal defects. For each group, the number of microcracks was determined as a percentage rate. The McNemar test was used to determine significant differences before and after instrumentation. The level of significance was set at P ≤ .05. The PTU system significantly increased the percentage rate of microcracks compared with preoperative specimens (P < .05). No new dentinal microcracks were observed in the PTG, SAF, or XP groups. Root canal preparations with the PTG, SAF, and XP systems did not induce the formation of new dentinal microcracks on straight root canals of mandibular premolars. Copyright © 2017 American Association of Endodontists. Published by Elsevier Inc. All rights reserved.

4D x-ray phase contrast tomography for repeatable motion of biological samples

NASA Astrophysics Data System (ADS)

Hoshino, Masato; Uesugi, Kentaro; Yagi, Naoto

2016-09-01

X-ray phase contrast tomography based on a grating interferometer was applied to fast and dynamic measurements of biological samples. To achieve this, the scanning procedure in the tomographic scan was improved. A triangle-shaped voltage signal from a waveform generator to a Piezo stage was used for the fast phase stepping in the grating interferometer. In addition, an optical fiber coupled x-ray scientific CMOS camera was used to achieve fast and highly efficient image acquisitions. These optimizations made it possible to perform an x-ray phase contrast tomographic measurement within an 8 min scan with density resolution of 2.4 mg/cm3. A maximum volume size of 13 × 13 × 6 mm3 was obtained with a single tomographic measurement with a voxel size of 6.5 μm. The scanning procedure using the triangle wave was applied to four-dimensional measurements in which highly sensitive three-dimensional x-ray imaging and a time-resolved dynamic measurement of biological samples were combined. A fresh tendon in the tail of a rat was measured under a uniaxial stretching and releasing condition. To maintain the freshness of the sample during four-dimensional phase contrast tomography, the temperature of the bathing liquid of the sample was kept below 10° using a simple cooling system. The time-resolved deformation of the tendon and each fascicle was measured with a temporal resolution of 5.7 Hz. Evaluations of cross-sectional area size, length of the axis, and mass density in the fascicle during a stretching process provided a basis for quantitative analysis of the deformation of tendon fascicle.

4D x-ray phase contrast tomography for repeatable motion of biological samples.

PubMed

Hoshino, Masato; Uesugi, Kentaro; Yagi, Naoto

2016-09-01

X-ray phase contrast tomography based on a grating interferometer was applied to fast and dynamic measurements of biological samples. To achieve this, the scanning procedure in the tomographic scan was improved. A triangle-shaped voltage signal from a waveform generator to a Piezo stage was used for the fast phase stepping in the grating interferometer. In addition, an optical fiber coupled x-ray scientific CMOS camera was used to achieve fast and highly efficient image acquisitions. These optimizations made it possible to perform an x-ray phase contrast tomographic measurement within an 8 min scan with density resolution of 2.4 mg/cm 3 . A maximum volume size of 13 × 13 × 6 mm 3 was obtained with a single tomographic measurement with a voxel size of 6.5 μm. The scanning procedure using the triangle wave was applied to four-dimensional measurements in which highly sensitive three-dimensional x-ray imaging and a time-resolved dynamic measurement of biological samples were combined. A fresh tendon in the tail of a rat was measured under a uniaxial stretching and releasing condition. To maintain the freshness of the sample during four-dimensional phase contrast tomography, the temperature of the bathing liquid of the sample was kept below 10° using a simple cooling system. The time-resolved deformation of the tendon and each fascicle was measured with a temporal resolution of 5.7 Hz. Evaluations of cross-sectional area size, length of the axis, and mass density in the fascicle during a stretching process provided a basis for quantitative analysis of the deformation of tendon fascicle.

A novel flexible clinical multiphoton tomograph for early melanoma detection, skin analysis, testing of anti-age products, and in situ nanoparticle tracking

NASA Astrophysics Data System (ADS)

Weinigel, Martin; Breunig, Hans Georg; Gregory, Axel; Fischer, Peter; Kellner-Höfer, Marcel; Bückle, Rainer; König, Karsten

2010-02-01

High-resolution 3D microscopy based on multiphoton induced autofluorescence and second harmonic generation have been introduced in 1990. 13 years later, CE-marked clinical multiphoton systems for 3D imaging of human skin with subcellular resolution have first been launched by JenLab company with the tomography DermaInspect®. This year, the second generation of clinical multiphoton tomographs was introduced. The novel multiphoton tomograph MPTflex, equipped with a flexible articulated optical arm, provides an increased flexibility and accessibility especially for clinical and cosmetical examinations. Improved image quality and signal to noise ratio (SNR) are achieved by a very short source-drain spacing, by larger active areas of the detectors and by single photon counting (SPC) technology. Shorter image acquisition time due to improved image quality reduces artifacts and simplifies the operation of the system. The compact folded optical design and the light-weight structure of the optical head eases the handling. Dual channel detectors enable to distinguish between intratissue elastic fibers and collagenous structures simultaneously. Through the use of piezo-driven optics a stack of optical cross-sections (optical sectioning) can be acquired and 3D imaging can be performed. The multiphoton excitation of biomolecules like NAD(P)H, flavins, porphyrins, elastin, and melanin is done by picojoule femtosecond laser pulses from an tunable turn-key femtosescond near infrared laser system. The ability for rapid high-quality image acquisition, the user-friendly operation of the system and the compact and flexible design qualifies this system to be used for melanoma detection, diagnostics of dermatological disorders, cosmetic research and skin aging measurements as well as in situ drug monitoring and animal research.

Radar Imaging Using The Wigner-Ville Distribution

NASA Astrophysics Data System (ADS)

Boashash, Boualem; Kenny, Owen P.; Whitehouse, Harper J.

1989-12-01

The need for analysis of time-varying signals has led to the formulation of a class of joint time-frequency distributions (TFDs). One of these TFDs, the Wigner-Ville distribution (WVD), has useful properties which can be applied to radar imaging. This paper first discusses the radar equation in terms of the time-frequency representation of the signal received from a radar system. It then presents a method of tomographic reconstruction for time-frequency images to estimate the scattering function of the aircraft. An optical archi-tecture is then discussed for the real-time implementation of the analysis method based on the WVD.

The Tomographic Ionized-Carbon Mapping Experiment (TIME) CII Imaging Spectrometer

NASA Astrophysics Data System (ADS)

Staniszewski, Z.; Bock, J. J.; Bradford, C. M.; Brevik, J.; Cooray, A.; Gong, Y.; Hailey-Dunsheath, S.; O'Brient, R.; Santos, M.; Shirokoff, E.; Silva, M.; Zemcov, M.

2014-09-01

The Tomographic Ionized-Carbon Mapping Experiment (TIME) and TIME-Pilot are proposed imaging spectrometers to measure reionization and large scale structure at redshifts 5-9. We seek to exploit the 158 restframe emission of [CII], which becomes measurable at 200-300 GHz at reionization redshifts. Here we describe the scientific motivation, give an overview of the proposed instrument, and highlight key technological developments underway to enable these measurements.

CT venography: use in selecting a surgical approach for the treatment of petrous apex cholesterol granulomas.

PubMed

Isaacson, Brandon; Kutz, Joe Walter; Mendelsohn, Dianne; Roland, Peter S

2009-04-01

To demonstrate the use of computed tomographic (CT) venography in selecting a surgical approach for cholesterol granulomas. Retrospective case review. Tertiary referral center. Three patients presented with symptomatic petrous apex cholesterol granulomas with extensive bone erosion involving the jugular fossa. Computed tomographic venography was performed on each patient before selecting a surgical approach for drainage. Localization of the jugular bulb in relation to the petrous carotid artery and basal turn of the cochlea was ascertained in each subject. Three patients with large symptomatic cholesterol granulomas were identified. Conventional CT demonstrated extensive bone erosion involving the jugular fossa in each patient. The location of the jugular bulb and its proximity to the petrous carotid artery and basal turn of the cochlea could not be determined with conventional temporal bone CT and magnetic resonance imaging. Computed tomographic venography provided the exact location of the jugular bulb in all 3 patients. The favorable position of the jugular bulb in all 3 cases permitted drainage of these lesions using an infracochlear approach. Computed tomographic venography provided invaluable information in 3 patients with large symptomatic cholesterol granulomas. All 3 patients were previously thought to be unsuitable candidates for an infracochlear or infralabyrinthine approach because of the unknown location of the jugular bulb.

Neutrino oscillation tomography of the Earth with KM3NeT-ORCA

NASA Astrophysics Data System (ADS)

Bourret, Simon; Coelho, João A. B.; Van Elewyck, Véronique; KM3NeT Collaboration

2017-09-01

KM3NeT-ORCA is a water-Cherenkov neutrino detector designed for studying the oscillations of atmospheric neutrinos, with the primary objective of measuring the neutrino mass ordering. Atmospheric neutrinos crossing the Earth undergo matter effects, modifying the pattern of their flavour oscillations. The study of the angular and energy distribution of neutrino events in ORCA can therefore provide tomographic information on the Earth’s interior with an independent technique, complementary to the standard geophysics methods. Preliminary estimations based on a full Monte Carlo simulation of the detector response show that after ten years of operation the electron density can be measured with a precision of 3-5% in the mantle and 7-10% in the outer core - depending on the mass ordering.

GEM detector development for tokamak plasma radiation diagnostics: SXR poloidal tomography

NASA Astrophysics Data System (ADS)

Chernyshova, Maryna; Malinowski, Karol; Ziółkowski, Adam; Kowalska-Strzeciwilk, Ewa; Czarski, Tomasz; Poźniak, Krzysztof T.; Kasprowicz, Grzegorz; Zabołotny, Wojciech; Wojeński, Andrzej; Kolasiński, Piotr; Krawczyk, Rafał D.

2015-09-01

An increased attention to tungsten material is related to a fact that it became a main candidate for the plasma facing material in ITER and future fusion reactor. The proposed work refers to the studies of W influence on the plasma performances by developing new detectors based on Gas Electron Multiplier GEM) technology for tomographic studies of tungsten transport in ITER-oriented tokamaks, e.g. WEST project. It presents current stage of design and developing of cylindrically bent SXR GEM detector construction for horizontal port implementation. Concept to overcome an influence of constraints on vertical port has been also presented. It is expected that the detecting unit under development, when implemented, will add to the safe operation of tokamak bringing creation of sustainable nuclear fusion reactors a step closer.

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

Meng, Yifei; Zuo, Jian -Min

A diffraction-based technique is developed for the determination of three-dimensional nanostructures. The technique employs high-resolution and low-dose scanning electron nanodiffraction (SEND) to acquire three-dimensional diffraction patterns, with the help of a special sample holder for large-angle rotation. Grains are identified in three-dimensional space based on crystal orientation and on reconstructed dark-field images from the recorded diffraction patterns. Application to a nanocrystalline TiN thin film shows that the three-dimensional morphology of columnar TiN grains of tens of nanometres in diameter can be reconstructed using an algebraic iterative algorithm under specified prior conditions, together with their crystallographic orientations. The principles can bemore » extended to multiphase nanocrystalline materials as well. Furthermore, the tomographic SEND technique provides an effective and adaptive way of determining three-dimensional nanostructures.« less

Mechanical design principles of a mitotic spindle

PubMed Central

Ward, Jonathan J; Roque, Hélio; Antony, Claude; Nédélec, François

2014-01-01

An organised spindle is crucial to the fidelity of chromosome segregation, but the relationship between spindle structure and function is not well understood in any cell type. The anaphase B spindle in fission yeast has a slender morphology and must elongate against compressive forces. This ‘pushing’ mode of chromosome transport renders the spindle susceptible to breakage, as observed in cells with a variety of defects. Here we perform electron tomographic analyses of the spindle, which suggest that it organises a limited supply of structural components to increase its compressive strength. Structural integrity is maintained throughout the spindle's fourfold elongation by organising microtubules into a rigid transverse array, preserving correct microtubule number and dynamically rescaling microtubule length. DOI: http://dx.doi.org/10.7554/eLife.03398.001 PMID:25521247

Cross sections for the exclusive photon electroproduction on the proton and Generalized Parton Distributions

DOE PAGES

Jo, Hyon -Suk

2015-11-17

Unpolarized and beam-polarized four-fold cross sectionsmore » $$\\frac{d^4 \\sigma}{dQ^2 dx_B dt d\\phi}$$ for the $$ep\\to e^\\prime p^\\prime \\gamma$$ reaction were measured using the CLAS detector and the 5.75-GeV polarized electron beam of the Jefferson Lab accelerator, for 110 ($$Q^2,x_B,t$$) bins over the widest phase space ever explored in the valence-quark region. Several models of Generalized Parton Distributions (GPDs) describe the data well at most of our kinematics. This increases our confidence that we understand the GPD $H$, expected to be the dominant contributor to these observables. Thus, through a leading-twist extraction of Compton Form Factors, these results reveal a tomographic image of the nucleon.« less

A cylindrical specimen holder for electron cryo-tomography

PubMed Central

Palmer, Colin M.; Löwe, Jan

2014-01-01

The use of slab-like flat specimens for electron cryo-tomography restricts the range of viewing angles that can be used. This leads to the “missing wedge” problem, which causes artefacts and anisotropic resolution in reconstructed tomograms. Cylindrical specimens provide a way to eliminate the problem, since they allow imaging from a full range of viewing angles around the tilt axis. Such specimens have been used before for tomography of radiation-insensitive samples at room temperature, but never for frozen-hydrated specimens. Here, we demonstrate the use of thin-walled carbon tubes as specimen holders, allowing the preparation of cylindrical frozen-hydrated samples of ribosomes, liposomes and whole bacterial cells. Images acquired from these cylinders have equal quality at all viewing angles, and the accessible tilt range is restricted only by the physical limits of the microscope. Tomographic reconstructions of these specimens demonstrate that the effects of the missing wedge are substantially reduced, and could be completely eliminated if a full tilt range was used. The overall quality of these tomograms is still lower than that obtained by existing methods, but improvements are likely in future. PMID:24275523

GNSS-ISR data fusion: General framework with application to the high-latitude ionosphere

NASA Astrophysics Data System (ADS)

Semeter, Joshua; Hirsch, Michael; Lind, Frank; Coster, Anthea; Erickson, Philip; Pankratius, Victor

2016-03-01

A mathematical framework is presented for the fusion of electron density measured by incoherent scatter radar (ISR) and total electron content (TEC) measured using global navigation satellite systems (GNSS). Both measurements are treated as projections of an unknown density field (for GNSS-TEC the projection is tomographic; for ISR the projection is a weighted average over a local spatial region) and discrete inverse theory is applied to obtain a higher fidelity representation of the field than could be obtained from either modality individually. The specific implementation explored herein uses the interpolated ISR density field as initial guess to the combined inverse problem, which is subsequently solved using maximum entropy regularization. Simulations involving a dense meridional network of GNSS receivers near the Poker Flat ISR demonstrate the potential of this approach to resolve sub-beam structure in ISR measurements. Several future directions are outlined, including (1) data fusion using lower level (lag product) ISR data, (2) consideration of the different temporal sampling rates, (3) application of physics-based regularization, (4) consideration of nonoptimal observing geometries, and (5) use of an ISR simulation framework for optimal experiment design.

2D imaging of helium ion velocity in the DIII-D divertor

NASA Astrophysics Data System (ADS)

Samuell, C. M.; Porter, G. D.; Meyer, W. H.; Rognlien, T. D.; Allen, S. L.; Briesemeister, A.; Mclean, A. G.; Zeng, L.; Jaervinen, A. E.; Howard, J.

2018-05-01

Two-dimensional imaging of parallel ion velocities is compared to fluid modeling simulations to understand the role of ions in determining divertor conditions and benchmark the UEDGE fluid modeling code. Pure helium discharges are used so that spectroscopic He+ measurements represent the main-ion population at small electron temperatures. Electron temperatures and densities in the divertor match simulated values to within about 20%-30%, establishing the experiment/model match as being at least as good as those normally obtained in the more regularly simulated deuterium plasmas. He+ brightness (HeII) comparison indicates that the degree of detachment is captured well by UEDGE, principally due to the inclusion of E ×B drifts. Tomographically inverted Coherence Imaging Spectroscopy measurements are used to determine the He+ parallel velocities which display excellent agreement between the model and the experiment near the divertor target where He+ is predicted to be the main-ion species and where electron-dominated physics dictates the parallel momentum balance. Upstream near the X-point where He+ is a minority species and ion-dominated physics plays a more important role, there is an underestimation of the flow velocity magnitude by a factor of 2-3. These results indicate that more effort is required to be able to correctly predict ion momentum in these challenging regimes.

[The computed tomographic semiotics of inflammatory diseases of the adnexa uteri].

PubMed

Todua, F I; Karmazanovskiĭ, G G; Podzolkova, N M

1990-01-01

The authors sum up the results of CT and clinical investigation of 46 women with inflammatory diseases of the uterine appendages: salpingo-oophoritis, pyosalpinx, pyoovarium, and 2 types of tuboovarian abscesses. They have shown CT potentialities in differential diagnosis of inflammations of the uterine appendages with cysts and true ovarian tumors on the basis of routine investigation and an iv contrast study of intensified images. Retrospective analysis of the most typical diagnostic errors is given.

Detection of common carotid artery stenosis using duplex ultrasonography: a validation study with computed tomographic angiography.

PubMed

Slovut, David P; Romero, Javier M; Hannon, Kathleen M; Dick, James; Jaff, Michael R

2010-01-01

Severe stenosis of the common carotid artery (CCA), while uncommon, is associated with increased risk of transient ischemic attack and stroke. To date, no validated duplex ultrasound criteria have been established for grading the severity of CCA stenosis. The goal of this study was to use receiver-operating curve (ROC) analysis with computed tomographic angiography as the reference standard to establish duplex ultrasound criteria for diagnosing >or=50% CCA stenosis. The study cohort included 64 patients (42 men, 22 women) with a mean age of 65 +/- 12 years (range, 16-89 years) who had CCA peak systolic velocity (PSV) >or=150 cm/sec and underwent computed tomographic angiography (CTA) of the cervical and intracerebral vessels within 1 month of the duplex examination. One study was excluded because the CTA was technically inadequate, whereas another was excluded because the patient underwent bilateral CCA stenting. The CCA ipsilateral to any of the following was excluded from the analysis: innominate artery occlusion (n = 1), previous stenting of the ICA or CCA (n = 7), carotid endarterectomy (n = 1), or carotid-to-carotid bypass (n = 1). Thus, the data set included 62 patients and 115 vessels. Bland-Altman analysis was used to examine the agreement between two measures of luminal reduction measured by CTA: percent diameter stenosis and percent area stenosis. Receiver operating characteristic (ROC) analysis was used to determine optimal PSV and EDV thresholds for diagnosing >or=50% CCA stenosis. Severity of CCA stenosis was <50% in 76 vessels, 50%-59% in eight, 60%-69% in eight, 70%-79% in nine, 80%-89% in three, 90%-99% in five, and occluded in six. Duplex ultrasonography identified six of six (100%) patients with 100% CCA occlusion by CTA. Bland-Altman analysis showed poor agreement between percent stenosis determined by vessel diameter compared with percent stenosis determined by reduction in lumen area. Therefore, subsequent analysis was performed using percent stenosis by area. ROC analysis of different PSV thresholds for detecting stenosis >or=50% showed that >182 cm/sec was the most accurate with a sensitivity of 64% and specificity of 88% (P < .0001). Sensitivity, specificity, and accuracy of carotid duplex were higher when the stenosis was located in the mid or distal aspects of the CCA (sensitivity 76%, specificity 89%, area under curve 0.84, P < .001) than in the intrathoracic and proximal segment of the artery (P = NS). ROC analysis of different EDV thresholds for detecting CCA stenosis >or=50% showed that >30 cm/sec was the most accurate with a sensitivity of 54% and a specificity of 74% (P < .0239). Duplex ultrasonography is highly sensitive, specific, and accurate for detecting CCA lesions in the mid and distal CCA. Use of peak systolic velocity may lead to improved detection of CCA disease and initiation of appropriate therapy to reduce the risk of stroke. Copyright 2010 Society for Vascular Surgery. Published by Mosby, Inc. All rights reserved.

Differentiation of nonneoplastic and neoplastic gallbladder polyps 1 cm or bigger with multi-detector row computed tomography.

PubMed

Park, Ko Woon; Kim, Seong Hyun; Choi, Seong Ho; Lee, Won Jae

2010-01-01

To evaluate useful computed tomographic features to differentiate nonneoplastic and neoplastic gallbladder polyps 1 cm or bigger. Thirty-one patients with 32 nonneoplastic polyps and 67 patients with 73 neoplastic polyps 1 cm or bigger underwent unenhanced and dual-phase (arterial and portal venous phases) multi-detector row computed tomography. Gallbladder polyps were diagnosed by cholecystectomy. Computed tomographic features including size (1.5 cm), surface (smooth or irregular), shape (pedunculated or sessile), accompanying wall thickening, basal indentation, perception on unenhanced images, and enhancement pattern between 2 groups were compared using univariate and multivariate analyses. On univariate analysis, age 55 years or older (P = 0.0019), size bigger than 1.5 cm (P < 0.0001), irregular surface (P = 0.0033), sessile shape (P = 0.0016), accompanying wall thickening (P = 0.0056), basal indentation (P = 0.0236), and perception on unenhanced images (P < 0.0001) were significantly more frequent in neoplastic polyps as compared with nonneoplastic polyps. On multivariate analysis, size bigger than 1.5 cm (P = 0.0260), sessile shape (P = 0.0397), and perception on unenhanced images (P < 0.0001) were statistically significant. Size bigger than 1.5 cm, sessile shape, and perception on unenhanced images are the main factors that differentiate neoplastic from nonneoplastic gallbladder polyps 1 cm or bigger.

Evidence for the contemporary magmatic system beneath Long Valley Caldera from local earthquake tomography and receiver function analysis

USGS Publications Warehouse

Seccia, D.; Chiarabba, C.; De Gori, P.; Bianchi, I.; Hill, D.P.

2011-01-01

We present a new P wave and S wave velocity model for the upper crust beneath Long Valley Caldera obtained using local earthquake tomography and receiver function analysis. We computed the tomographic model using both a graded inversion scheme and a traditional approach. We complement the tomographic I/P model with a teleseismic receiver function model based on data from broadband seismic stations (MLAC and MKV) located on the SE and SW margins of the resurgent dome inside the caldera. The inversions resolve (1) a shallow, high-velocity P wave anomaly associated with the structural uplift of a resurgent dome; (2) an elongated, WNW striking low-velocity anomaly (8%–10 % reduction in I/P) at a depth of 6 km (4 km below mean sea level) beneath the southern section of the resurgent dome; and (3) a broad, low-velocity volume (–5% reduction in I/P and as much as 40% reduction in I/S) in the depth interval 8–14 km (6–12 km below mean sea level) beneath the central section of the caldera. The two low-velocity volumes partially overlap the geodetically inferred inflation sources that drove uplift of the resurgent dome associated with caldera unrest between 1980 and 2000, and they likely reflect the ascent path for magma or magmatic fluids into the upper crust beneath the caldera.

The relationship between post-stent strut apposition and follow-up strut coverage assessed by a contour plot optical coherence tomography analysis.

PubMed

Kim, Jung-Sun; Ha, Jinyong; Kim, Byeong-Keuk; Shin, Dong-Ho; Ko, Young-Guk; Choi, Donghoon; Jang, Yangsoo; Hong, Myeong-Ki

2014-06-01

This study sought to evaluate the relationship between post-stent strut apposition and follow-up strut coverage using contour plot optical coherence tomographic analysis. Tracking the fate of interested regions of struts at different time points has not been investigated. Post-intervention and 6-month follow-up optical coherence tomographic evaluations were performed in 82 patients treated with biolimus- (n = 37) or sirolimus-eluting stents (n = 45). Post-stent apposition was classified as embedded, apposed, or malapposed. For volumetric stent evaluation, the post-intervention strut-artery distance and the neointimal thickness at follow-up were measured as a function of the circumferential arc length and longitudinal stent length. Computer-generated contour plots of the strut-artery distance and neointimal thickness were compared. The percentages of embedded and malapposed struts after intervention were 1.8% (Interquartile range [IQR]: 0.6% to 6.2%) and 2.3% (IQR: 0.5% to 5.2%), respectively. The percentages of uncovered and malapposed struts at 6 months were 16.0% (IQR: 7.4% to 33.3%) and 0% (IQR: 0% to 0.7%), respectively. The percentage of uncovered struts at 6 months varied significantly with post-stent strut apposition (0% [IQR: 0% to 11.4%] in embedded, 16.3% [IQR: 8.1% to 31.3%] in apposed, and 26.8% [IQR: 0% to 56.3%] in malapposed, p < 0.001 for all pairwise comparisons). In lesions without tissue prolapse, embedded struts were all covered (100% covered struts) compared with those with tissue prolapse (76.8% covered, p < 0.001). The optical coherence tomography-guided optimization of stent strut apposition enhances strut coverage at follow-up. This comprehensive method for evaluating strut apposition may provide more useful information to understanding the serial changes in strut coverage. (Neointimal Coverage After Implantation of Biolimus Eluting Stent With Biodegradable Polymer: Optical Coherence Tomographic Assessment According to the Treatment of Dyslipidemia and Hypertension and the Types of Implanted Drug-Eluting Stents; NCT01502904). Copyright © 2014 American College of Cardiology Foundation. Published by Elsevier Inc. All rights reserved.

SU-E-J-17: A Study of Accelerator-Induced Cerenkov Radiation as a Beam Diagnostic and Dosimetry Tool

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

Bateman, F; Tosh, R

2014-06-01

Purpose: To investigate accelerator-induced Cerenkov radiation imaging as a possible beam diagnostic and medical dosimetry tool. Methods: Cerenkov emission produced by clinical accelerator beams in a water phantom was imaged using a camera system comprised of a high-sensitivity thermoelectrically-cooled CCD camera coupled to a large aperture (f/0.75) objective lens with 16:1 magnification. This large format lens allows a significant amount of the available Cerenkov light to be collected and focused onto the CCD camera to form the image. Preliminary images, obtained with 6 MV photon beams, used an unshielded camera mounted horizontally with the beam normal to the water surface,more » and confirmed the detection of Cerenkov radiation. Several improvements were subsequently made including the addition of radiation shielding around the camera, and altering of the beam and camera angles to give a more favorable geometry for Cerenkov light collection. A detailed study was then undertaken over a range of electron and photon beam energies and dose rates to investigate the possibility of using this technique for beam diagnostics and dosimetry. Results: A series of images were obtained at a fixed dose rate over a range of electron energies from 6 to 20 MeV. The location of maximum intensity was found to vary linearly with the energy of the beam. A linear relationship was also found between the light observed from a fixed point on the central axis and the dose rate for both photon and electron beams. Conclusion: We have found that the analysis of images of beam-induced Cerenkov light in a water phantom has potential for use as a beam diagnostic and medical dosimetry tool. Our future goals include the calibration of the light output in terms of radiation dose and development of a tomographic system for 3D Cerenkov imaging in water phantoms and other media.« less

Comparative modelling of lower hybrid current drive with two launcher designs in the Tore Supra tokamak

NASA Astrophysics Data System (ADS)

Nilsson, E.; Decker, J.; Peysson, Y.; Artaud, J.-F.; Ekedahl, A.; Hillairet, J.; Aniel, T.; Basiuk, V.; Goniche, M.; Imbeaux, F.; Mazon, D.; Sharma, P.

2013-08-01

Fully non-inductive operation with lower hybrid current drive (LHCD) in the Tore Supra tokamak is achieved using either a fully active multijunction (FAM) launcher or a more recent ITER-relevant passive active multijunction (PAM) launcher, or both launchers simultaneously. While both antennas show comparable experimental efficiencies, the analysis of stability properties in long discharges suggest different current profiles. We present comparative modelling of LHCD with the two different launchers to characterize the effect of the respective antenna spectra on the driven current profile. The interpretative modelling of LHCD is carried out using a chain of codes calculating, respectively, the global discharge evolution (tokamak simulator METIS), the spectrum at the antenna mouth (LH coupling code ALOHA), the LH wave propagation (ray-tracing code C3PO), and the distribution function (3D Fokker-Planck code LUKE). Essential aspects of the fast electron dynamics in time, space and energy are obtained from hard x-ray measurements of fast electron bremsstrahlung emission using a dedicated tomographic system. LHCD simulations are validated by systematic comparisons between these experimental measurements and the reconstructed signal calculated by the code R5X2 from the LUKE electron distribution. An excellent agreement is obtained in the presence of strong Landau damping (found under low density and high-power conditions in Tore Supra) for which the ray-tracing model is valid for modelling the LH wave propagation. Two aspects of the antenna spectra are found to have a significant effect on LHCD. First, the driven current is found to be proportional to the directivity, which depends upon the respective weight of the main positive and main negative lobes and is particularly sensitive to the density in front of the antenna. Second, the position of the main negative lobe in the spectrum is different for the two launchers. As this lobe drives a counter-current, the resulting driven current profile is also different for the FAM and PAM launchers.

Tomographic imaging of the shallow crustal structure of the East Pacific Rise at 9 deg 30 min N

NASA Astrophysics Data System (ADS)

Toomey, Douglas R.; Solomon, Sean C.; Purdy, G. M.

1994-12-01

Compressional wave travel times from a seismic tomography experiment at 9 deg 30 min N on the East Pacific Rise are analyzed by a new tomographic method to determine the three-dimensional seismic velocity structure of the upper 2.5 km of oceanic crust within a 20 x 18 km area centered on the rise axis. The data comprise the travel times and associated uncertainties of 1459 compressional waves that have propagated above the axial magma chamber. A careful analysis of source and receiver parameters, in conjunction with an automated method of picking P wave onsets and assigning uncertainties, constrains the prior uncertainty in the data to 5 to 20 ms. The new tomographic method employs graph theory to estimate ray paths and travel times through strongly heterogeneous and densely parameterized seismic velocity models. The nonlinear inverse method uses a jumping strategy to minimize a functional that includes the penalty function, horizontal and vertical smoothing constraints, and prior model assumptions; all constraints applied to model perturbations are normalized to remove bias. We use the tomographic method to reject the null hypothesis that the axial seismic structure is two-dimensional. Three-dimensional models reveal a seismic structure that correlates well with cross- and along-axis variations in seafloor morphology, the location of the axial summit caldera, and the distribution of seafloor hydrothermal activity. The along-axis segmentation of the seismic structure above the axial magma chamber is consistent with the hypothesis that mantle-derived melt is preferentially injected midway along a locally linear segment of the rise and that the architecture of the crustal section is characterized by an en echelon series of elongate axial volcanoes approximately 10 km in length. The seismic data are compatible with a 300- to 500-m-thick thermal anomaly above a midcrustal melt lens; such an interpretation suggests that hydrothermal fluids may not have penetrated this region in the last 10(exp 3) years. Asymmetries in the seismic structure across the rise support the inferences that the thickness of seismic layer 2 and the average midcrustal temperature increase to the west of the rise axis. These anomalies may be the result of off-axis magmatism; alternatively, the asymmetric thermal anomaly may be the consequence of differences in the depth extent of hydrothermal cooling.

Computed microtomography and X-ray fluorescence analysis for comprehensive analysis of structural changes in bone.

PubMed

Buzmakov, Alexey; Chukalina, Marina; Nikolaev, Dmitry; Schaefer, Gerald; Gulimova, Victoria; Saveliev, Sergey; Tereschenko, Elena; Seregin, Alexey; Senin, Roman; Prun, Victor; Zolotov, Denis; Asadchikov, Victor

2013-01-01

This paper presents the results of a comprehensive analysis of structural changes in the caudal vertebrae of Turner's thick-toed geckos by computer microtomography and X-ray fluorescence analysis. We present algorithms used for the reconstruction of tomographic images which allow to work with high noise level projections that represent typical conditions dictated by the nature of the samples. Reptiles, due to their ruggedness, small size, belonging to the amniote and a number of other valuable features, are an attractive model object for long-orbital experiments on unmanned spacecraft. Issues of possible changes in their bone tissue under the influence of spaceflight are the subject of discussions between biologists from different laboratories around the world.

Tomographic imaging of transparent biological samples using the pyramid phase microscope

PubMed Central

Iglesias, Ignacio

2016-01-01

We show how a pyramid phase microscope can be used to obtain tomographic information of the spatial variation of refractive index in biological samples using the Radon transform. A method that uses the information provided by the phase microscope for axial and lateral repositioning of the sample when it rotates is also described. Its application to the reconstruction of mouse embryos in the blastocyst stage is demonstrated. PMID:27570696

Full-wave Moment Tensor and Tomographic Inversions Based on 3D Strain Green Tensor

DTIC Science & Technology

2010-01-31

propagation in three-dimensional (3D) earth, linearizes the inverse problem by iteratively updating the earth model , and provides an accurate way to...self-consistent FD-SGT databases constructed from finite-difference simulations of wave propagation in full-wave tomographic models can be used to...determine the moment tensors within minutes after a seismic event, making it possible for real time monitoring using 3D models . 15. SUBJECT TERMS

Integration of TomoPy and the ASTRA toolbox for advanced processing and reconstruction of tomographic synchrotron data

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

Pelt, Daniël M.; Gürsoy, Dogˇa; Palenstijn, Willem Jan

2016-04-28

The processing of tomographic synchrotron data requires advanced and efficient software to be able to produce accurate results in reasonable time. In this paper, the integration of two software toolboxes, TomoPy and the ASTRA toolbox, which, together, provide a powerful framework for processing tomographic data, is presented. The integration combines the advantages of both toolboxes, such as the user-friendliness and CPU-efficient methods of TomoPy and the flexibility and optimized GPU-based reconstruction methods of the ASTRA toolbox. It is shown that both toolboxes can be easily installed and used together, requiring only minor changes to existing TomoPy scripts. Furthermore, it ismore » shown that the efficient GPU-based reconstruction methods of the ASTRA toolbox can significantly decrease the time needed to reconstruct large datasets, and that advanced reconstruction methods can improve reconstruction quality compared with TomoPy's standard reconstruction method.« less

Single-shot ultrafast tomographic imaging by spectral multiplexing

NASA Astrophysics Data System (ADS)

Matlis, N. H.; Axley, A.; Leemans, W. P.

2012-10-01

Computed tomography has profoundly impacted science, medicine and technology by using projection measurements scanned over multiple angles to permit cross-sectional imaging of an object. The application of computed tomography to moving or dynamically varying objects, however, has been limited by the temporal resolution of the technique, which is set by the time required to complete the scan. For objects that vary on ultrafast timescales, traditional scanning methods are not an option. Here we present a non-scanning method capable of resolving structure on femtosecond timescales by using spectral multiplexing of a single laser beam to perform tomographic imaging over a continuous range of angles simultaneously. We use this technique to demonstrate the first single-shot ultrafast computed tomography reconstructions and obtain previously inaccessible structure and position information for laser-induced plasma filaments. This development enables real-time tomographic imaging for ultrafast science, and offers a potential solution to the challenging problem of imaging through scattering surfaces.

Computed tomographic atlas for the new international lymph node map for lung cancer: A radiation oncologist perspective.

PubMed

Lynch, Rod; Pitson, Graham; Ball, David; Claude, Line; Sarrut, David

2013-01-01

To develop a reproducible definition for each mediastinal lymph node station based on the new TNM classification for lung cancer. This paper proposes an atlas using the new international lymph node map used in the seventh edition of the TNM classification for lung cancer. Four radiation oncologists and 1 diagnostic radiologist were involved in the project to put forward a reproducible radiologic description for the lung lymph node stations. The International Association for the Study of Lung Cancer lymph node definitions for stations 1 to 11 have been described and illustrated on axial computed tomographic scan images using a certified radiotherapy planning system. This atlas will assist both diagnostic radiologists and radiation oncologists in accurately defining the lymph node stations on computed tomographic scan in patients diagnosed with lung cancer. Copyright © 2013 American Society for Radiation Oncology. Published by Elsevier Inc. All rights reserved.

Two-dimensional tomographic terahertz imaging by homodyne self-mixing.

PubMed

Mohr, Till; Breuer, Stefan; Giuliani, G; Elsäßer, Wolfgang

2015-10-19

We realize a compact two-dimensional tomographic terahertz imaging experiment involving only one photoconductive antenna (PCA) simultaneously serving as a transmitter and receiver of the terahertz radiation. A hollow-core Teflon cylinder filled with α-Lactose monohydrate powder is studied at two terahertz frequencies, far away and at a specific absorption line of the powder. This sample is placed between the antenna and a chopper wheel, which serves as back reflector of the terahertz radiation into the PCA. Amplitude and phase information of the continuous-wave (CW) terahertz radiation are extracted from the measured homodyne self-mixing (HSM) signal after interaction with the cylinder. The influence of refraction is studied by modeling the set-up utilizing ZEMAX and is discussed by means of the measured 1D projections. The tomographic reconstruction by using the Simultaneous Algebraic Reconstruction Technique (SART) allows to identify both object geometry and α-Lactose filling.

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

De Carlo, Francesco; Gürsoy, Doğa; Ching, Daniel J.

There is a widening gap between the fast advancement of computational methods for tomographic reconstruction and their successful implementation in production software at various synchrotron facilities. This is due in part to the lack of readily available instrument datasets and phantoms representative of real materials for validation and comparison of new numerical methods. Recent advancements in detector technology made sub-second and multi-energy tomographic data collection possible [1], but also increased the demand to develop new reconstruction methods able to handle in-situ [2] and dynamic systems [3] that can be quickly incorporated in beamline production software [4]. The X-ray Tomography Datamore » Bank, tomoBank, provides a repository of experimental and simulated datasets with the aim to foster collaboration among computational scientists, beamline scientists, and experimentalists and to accelerate the development and implementation of tomographic reconstruction methods for synchrotron facility production software by providing easy access to challenging dataset and their descriptors.« less

High-efficiency tomographic reconstruction of quantum states by quantum nondemolition measurements

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

Huang, J. S.; Centre for Quantum Technologies and Department of Physics, National University of Singapore, 3 Science Drive 2, Singapore 117542; Wei, L. F.

We propose a high-efficiency scheme to tomographically reconstruct an unknown quantum state by using a series of quantum nondemolition (QND) measurements. The proposed QND measurements of the qubits are implemented by probing the stationary transmissions through a driven dispersively coupled resonator. It is shown that only one kind of QND measurement is sufficient to determine all the diagonal elements of the density matrix of the detected quantum state. The remaining nondiagonal elements can be similarly determined by transferring them to the diagonal locations after a series of unitary operations. Compared with the tomographic reconstructions based on the usual destructive projectivemore » measurements (wherein one such measurement can determine only one diagonal element of the density matrix), the present reconstructive approach exhibits significantly high efficiency. Specifically, our generic proposal is demonstrated by the experimental circuit quantum electrodynamics systems with a few Josephson charge qubits.« less

Fast projection/backprojection and incremental methods applied to synchrotron light tomographic reconstruction.

PubMed

de Lima, Camila; Salomão Helou, Elias

2018-01-01

Iterative methods for tomographic image reconstruction have the computational cost of each iteration dominated by the computation of the (back)projection operator, which take roughly O(N 3 ) floating point operations (flops) for N × N pixels images. Furthermore, classical iterative algorithms may take too many iterations in order to achieve acceptable images, thereby making the use of these techniques unpractical for high-resolution images. Techniques have been developed in the literature in order to reduce the computational cost of the (back)projection operator to O(N 2 logN) flops. Also, incremental algorithms have been devised that reduce by an order of magnitude the number of iterations required to achieve acceptable images. The present paper introduces an incremental algorithm with a cost of O(N 2 logN) flops per iteration and applies it to the reconstruction of very large tomographic images obtained from synchrotron light illuminated data.

Integration of TomoPy and the ASTRA toolbox for advanced processing and reconstruction of tomographic synchrotron data

PubMed Central

Pelt, Daniël M.; Gürsoy, Doǧa; Palenstijn, Willem Jan; Sijbers, Jan; De Carlo, Francesco; Batenburg, Kees Joost

2016-01-01

The processing of tomographic synchrotron data requires advanced and efficient software to be able to produce accurate results in reasonable time. In this paper, the integration of two software toolboxes, TomoPy and the ASTRA toolbox, which, together, provide a powerful framework for processing tomographic data, is presented. The integration combines the advantages of both toolboxes, such as the user-friendliness and CPU-efficient methods of TomoPy and the flexibility and optimized GPU-based reconstruction methods of the ASTRA toolbox. It is shown that both toolboxes can be easily installed and used together, requiring only minor changes to existing TomoPy scripts. Furthermore, it is shown that the efficient GPU-based reconstruction methods of the ASTRA toolbox can significantly decrease the time needed to reconstruct large datasets, and that advanced reconstruction methods can improve reconstruction quality compared with TomoPy’s standard reconstruction method. PMID:27140167

Evaluation of sample holders designed for long-lasting X-ray micro-tomographic scans of ex-vivo soft tissue samples

NASA Astrophysics Data System (ADS)

Dudak, J.; Zemlicka, J.; Krejci, F.; Karch, J.; Patzelt, M.; Zach, P.; Sykora, V.; Mrzilkova, J.

2016-03-01

X-ray microradiography and microtomography are imaging techniques with increasing applicability in the field of biomedical and preclinical research. Application of hybrid pixel detector Timepix enables to obtain very high contrast of low attenuating materials such as soft biological tissue. However X-ray imaging of ex-vivo soft tissue samples is a difficult task due to its structural instability. Ex-vivo biological tissue is prone to fast drying-out which is connected with undesired changes of sample size and shape producing later on artefacts within the tomographic reconstruction. In this work we present the optimization of our Timepix equipped micro-CT system aiming to maintain soft tissue sample in stable condition. Thanks to the suggested approach higher contrast of tomographic reconstructions can be achieved while also large samples that require detector scanning can be easily measured.

Imaging open-path Fourier transform infrared spectrometer for 3D cloud profiling

NASA Astrophysics Data System (ADS)

Rentz Dupuis, Julia; Mansur, David J.; Vaillancourt, Robert; Carlson, David; Evans, Thomas; Schundler, Elizabeth; Todd, Lori; Mottus, Kathleen

2010-04-01

OPTRA has developed an imaging open-path Fourier transform infrared (I-OP-FTIR) spectrometer for 3D profiling of chemical and biological agent simulant plumes released into test ranges and chambers. An array of I-OP-FTIR instruments positioned around the perimeter of the test site, in concert with advanced spectroscopic algorithms, enables real time tomographic reconstruction of the plume. The approach is intended as a referee measurement for test ranges and chambers. This Small Business Technology Transfer (STTR) effort combines the instrumentation and spectroscopic capabilities of OPTRA, Inc. with the computed tomographic expertise of the University of North Carolina, Chapel Hill. In this paper, we summarize the design and build and detail system characterization and test of a prototype I-OP-FTIR instrument. System characterization includes radiometric performance and spectral resolution. Results from a series of tomographic reconstructions of sulfur hexafluoride plumes in a laboratory setting are also presented.

Imaging open-path Fourier transform infrared spectrometer for 3D cloud profiling

NASA Astrophysics Data System (ADS)

Rentz Dupuis, Julia; Mansur, David J.; Engel, James R.; Vaillancourt, Robert; Todd, Lori; Mottus, Kathleen

2008-04-01

OPTRA and University of North Carolina are developing an imaging open-path Fourier transform infrared (I-OP-FTIR) spectrometer for 3D profiling of chemical and biological agent simulant plumes released into test ranges and chambers. An array of I-OP-FTIR instruments positioned around the perimeter of the test site, in concert with advanced spectroscopic algorithms, enables real time tomographic reconstruction of the plume. The approach will be considered as a candidate referee measurement for test ranges and chambers. This Small Business Technology Transfer (STTR) effort combines the instrumentation and spectroscopic capabilities of OPTRA, Inc. with the computed tomographic expertise of the University of North Carolina, Chapel Hill. In this paper, we summarize progress to date and overall system performance projections based on the instrument, spectroscopy, and tomographic reconstruction accuracy. We then present a preliminary optical design of the I-OP-FTIR.

Tomographic Observation and Bedmapping of Glaciers in Western Greenland with IceBridge Sounding Radar

NASA Technical Reports Server (NTRS)

Wu, Xiaoqing; Paden, John; Jezek, Ken; Rignot, Eric; Gim, Young

2013-01-01

We produced the high resolution bedmaps of several glaciers in western Greenland from IceBridge Mission sounding radar data using tomographic sounding technique. The bedmaps cover 3 regions: Russell glaciers, Umanaq glaciers and Jakobshavn glaciers of western Greenland. The covered areas is about 20x40 km(sup 2) for Russell glaciers and 300x100 sq km, and 100x80 sq km for Jakobshavn glaciers. The ground resolution is 50 meters and the average ice thickness accuracy is 10 to 20 meters. There are some void areas within the swath of the tracks in the bedmaps where the ice thickness is not known. Tomographic observations of these void areas indicate that the surface and shallow sub-surface pockets, likely filled with water, are highly reflective and greatly weaken the radar signal and reduce the energy reaching and reflected from the ice sheet bottom.

Solid Solution Characterization in Metal by Original Tomographic Scanning Microwave Microscopy Technique

NASA Astrophysics Data System (ADS)

Bourillot, Eric; Vitry, Pauline; Optasanu, Virgil; Plassard, Cédric; Lacroute, Yvon; Montessin, Tony; Lesniewska, Eric

A general challenge in metallic components is the need for materials research to improve the service lifetime of the structural tanks or tubes subjected to harsh environments or the storage medium for the products. One major problem is the formation of lightest chemical elements bubbles or different chemical association, which can have a significant impact on the mechanical properties and structural stability of materials. The high migration mobility of these light chemical elements in solids presents a challenge for experimental characterization. Here, we present work relating to an original non-destructive, with high spatial resolution, tomographic technique based on Scanning Microwave Microscopy (SMM), which is used to visualize in-depth chemical composition of solid solution of a light chemical element in a metal. The experiments showed the capacity of SMM to detect volume. Measurements realized at different frequencies give access to a tomographic study of the sample.

Experiment-theory comparison for low frequency BAE modes in the strongly shaped H-1NF stellarator

DOE PAGES

Haskey, S. R.; Blackwell, B. D.; Nuhrenberg, C.; ...

2015-08-12

Here, recent advances in the modeling, analysis, and measurement of fluctuations have significantly improved the diagnosis and understanding of Alfvén eigenmodes in the strongly shaped H-1NF helical axis stellarator. Experimental measurements, including 3D tomographic inversions of high resolution visible light images, are in close agreement with beta-induced Alfvén eigenmodes (BAEs) calculated using the compressible ideal MHD code, CAS3D. This is despite the low β in H-1NF, providing experimental evidence that these modes can exist due to compression that is induced by the strong shaping in stellarators, in addition to high β, as is the case in tokamaks. This is confirmedmore » using the CONTI and CAS3D codes, which show significant gap structures at lower frequencies which contain BAE and beta-acoustic Alfvén eigenmodes (BAAEs). The BAEs are excited in the absence of a well confined energetic particle source, further confirming previous studies that thermal particles, electrons, or even radiation fluctuations can drive these modes. Datamining of magnetic probe data shows the experimentally measured frequency of these modes has a clear dependence on the rotational transform profile, which is consistent with a frequency dependency due to postulated confinement related temperature variations.« less

Texture analysis of computed tomographic images in osteoporotic patients with sinus lift bone graft reconstruction.

PubMed

Marchand-Libouban, Hélène; Guillaume, Bernard; Bellaiche, Norbert; Chappard, Daniel

2013-05-01

Bone implants are now widely used to replace missing teeth. Bone grafting (sinus lift) is a very useful way to increase the bone volume of the maxilla in patients with bone atrophy. There is a 6- to 9-month delay for the receiver grafted site to heal before the implants can be placed. Computed tomography is a useful method to measure the amount of remaining bone before implantation and to evaluate the quality of the receiver bone at the end of the healing period. Texture analysis is a non-invasive method useful to characterize bone microarchitecture on X-ray images. Ten patients in which a sinus lift surgery was necessary before implantation were analyzed in the present study. All had a bone reconstruction with a combination of a biomaterial (beta tricalcium phosphate) and autograft bone harvested at the chin. Computed tomographic images were obtained before grafting (t0), at mid-interval (t1, 4.2 ± 0.7 months) and before implant placement (t2, 9.2 ± 0.6 months). Texture analysis was done with the run-length method. A significant increase of texture parameters at t1 reflected a gain of homogeneity due to the graft and the beginning of bone remodeling. At t2, some parameters remained high and corresponded to the persistence of bone trabeculae while the resorption of biomaterials was identified by other parameters which tended to return to pregraft values. Texture analysis identified changes during the healing of the receiver site. The method is known to correlate with microarchitectural changes in bone and could be a useful approach to characterized osseointegrated grafts.

Baryonic effects in cosmic shear tomography: PCA parametrization and importance of extreme baryonic models

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

Mohammed, Irshad; Gnedin, Nickolay Y.

Baryonic effects are amongst the most severe systematics to the tomographic analysis of weak lensing data which is the principal probe in many future generations of cosmological surveys like LSST, Euclid etc.. Modeling or parameterizing these effects is essential in order to extract valuable constraints on cosmological parameters. In a recent paper, Eifler et al. (2015) suggested a reduction technique for baryonic effects by conducting a principal component analysis (PCA) and removing the largest baryonic eigenmodes from the data. In this article, we conducted the investigation further and addressed two critical aspects. Firstly, we performed the analysis by separating the simulations into training and test sets, computing a minimal set of principle components from the training set and examining the fits on the test set. We found that using only four parameters, corresponding to the four largest eigenmodes of the training set, the test sets can be fitted thoroughly with an RMSmore » $$\\sim 0.0011$$. Secondly, we explored the significance of outliers, the most exotic/extreme baryonic scenarios, in this method. We found that excluding the outliers from the training set results in a relatively bad fit and degraded the RMS by nearly a factor of 3. Therefore, for a direct employment of this method to the tomographic analysis of the weak lensing data, the principle components should be derived from a training set that comprises adequately exotic but reasonable models such that the reality is included inside the parameter domain sampled by the training set. The baryonic effects can be parameterized as the coefficients of these principle components and should be marginalized over the cosmological parameter space.« less

Phillips-Tikhonov regularization with a priori information for neutron emission tomographic reconstruction on Joint European Torus

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

Bielecki, J.; Scholz, M.; Drozdowicz, K.

A method of tomographic reconstruction of the neutron emissivity in the poloidal cross section of the Joint European Torus (JET, Culham, UK) tokamak was developed. Due to very limited data set (two projection angles, 19 lines of sight only) provided by the neutron emission profile monitor (KN3 neutron camera), the reconstruction is an ill-posed inverse problem. The aim of this work consists in making a contribution to the development of reliable plasma tomography reconstruction methods that could be routinely used at JET tokamak. The proposed method is based on Phillips-Tikhonov regularization and incorporates a priori knowledge of the shape ofmore » normalized neutron emissivity profile. For the purpose of the optimal selection of the regularization parameters, the shape of normalized neutron emissivity profile is approximated by the shape of normalized electron density profile measured by LIDAR or high resolution Thomson scattering JET diagnostics. In contrast with some previously developed methods of ill-posed plasma tomography reconstruction problem, the developed algorithms do not include any post-processing of the obtained solution and the physical constrains on the solution are imposed during the regularization process. The accuracy of the method is at first evaluated by several tests with synthetic data based on various plasma neutron emissivity models (phantoms). Then, the method is applied to the neutron emissivity reconstruction for JET D plasma discharge #85100. It is demonstrated that this method shows good performance and reliability and it can be routinely used for plasma neutron emissivity reconstruction on JET.« less

A flexible, small positron emission tomography prototype for resource-limited laboratories

NASA Astrophysics Data System (ADS)

Miranda-Menchaca, A.; Martínez-Dávalos, A.; Murrieta-Rodríguez, T.; Alva-Sánchez, H.; Rodríguez-Villafuerte, M.

2015-05-01

Modern small-animal PET scanners typically consist of a large number of detectors along with complex electronics to provide tomographic images for research in the preclinical sciences that use animal models. These systems can be expensive, especially for resource-limited educational and academic institutions in developing countries. In this work we show that a small-animal PET scanner can be built with a relatively reduced budget while, at the same time, achieving relatively high performance. The prototype consists of four detector modules each composed of LYSO pixelated crystal arrays (individual crystal elements of dimensions 1 × 1 × 10 mm3) coupled to position-sensitive photomultiplier tubes. Tomographic images are obtained by rotating the subject to complete enough projections for image reconstruction. Image quality was evaluated for different reconstruction algorithms including filtered back-projection and iterative reconstruction with maximum likelihood-expectation maximization and maximum a posteriori methods. The system matrix was computed both with geometric considerations and by Monte Carlo simulations. Prior to image reconstruction, Fourier data rebinning was used to increase the number of lines of response used. The system was evaluated for energy resolution at 511 keV (best 18.2%), system sensitivity (0.24%), spatial resolution (best 0.87 mm), scatter fraction (4.8%) and noise equivalent count-rate. The system can be scaled-up to include up to 8 detector modules, increasing detection efficiency, and its price may be reduced as newer solid state detectors become available replacing the traditional photomultiplier tubes. Prototypes like this may prove to be very valuable for educational, training, preclinical and other biological research purposes.

Prediction of post-sunset ESF based on the strength and asymmetry of EIA from ground based TEC measurements

NASA Astrophysics Data System (ADS)

Thampi, S. V.; Ravindran, S.; Devasia, C. V.; Pant, T. K.; Sreelatha, P.; Sridharan, R.

The Coherent Radio Beacon Experiment (CRABEX) is aimed at investigating the equatorial ionospheric processes like the Equatorial Ionization Anomaly (EIA) and Equatorial Spread F (ESF) and their inter relationships. As a part of CRABEX program, a network of six stations covering the region from Trivandrum (8.5°N) to Nainital (29.3°N) is set up along the 77-78° E meridian. These ground receivers basically measure the slant Total Electron Content (TEC) along the line of sight from the Low Earth Orbiting satellites (NIMS). These simultaneous TEC measurements are inverted to obtain the tomographic image of the latitudinal distribution of electron densities in the meridional plane. In this paper, the tomographic images of the equatorial ionosphere along the 77-78°E meridian are presented. The crest intensities in the southern and northern hemispheres also show significant differences with seasons, showing the variability in the EIA asymmetry. The evening images give an indication of the prevailing electrodynamical conditions on different days, preceding the occurrence/non-occurrence of ESF. Apart from this, the single station TEC measurements from the Trivandrum station itself is used to estimate the EIA strength and asymmetry. Since this station is situated at the trough of the EIA, right over the dip equator, the latitudinal gradients on both northern (N) and southern (S) sides can be used to compute the EIA strength and asymmetry. These two parameters, obtained well ahead of the onset time of ESF, are shown to have a definite role on the subsequent ESF activity. Hence, both these factors are combined to define a new `forecast parameter' for the generation of ESF. It has been shown that this parameter can uniquely define the state of the `background ionosphere' conducive for the generation of ESF irregularities as early as 1600 IST. A critical value for the `forecast parameter' has been identified such that when the estimated value for `forecast parameter' exceeds it, the ESF is seen to occur. It is also observed that this critical value varies with season. All these aspects are studied in detail and the results are presented.

Display And Analysis Of Tomographic Volumetric Images Utilizing A Vari-Focal Mirror

NASA Astrophysics Data System (ADS)

Harris, L. D.; Camp, J. J.

1984-10-01

A system for the three-dimensional (3-D) display and analysis of stacks of tomographic images is described. The device utilizes the principle of a variable focal (vari-focal) length optical element in the form of an aluminized membrane stretched over a loudspeaker to generate a virtual 3-D image which is a visible representation of a 3-D array of image elements (voxels). The system displays 500,000 voxels per mirror cycle in a 3-D raster which appears continuous and demonstrates no distracting artifacts. The display is bright enough so that portions of the image can be dimmed without compromising the number of shades of gray. For x-ray CT, a displayed volume image looks like a 3-D radiograph which appears to be in the space directly behind the mirror. The viewer sees new views by moving his/her head from side to side or up and down. The system facilitates a variety of operator interactive functions which allow the user to point at objects within the image, control the orientation and location of brightened oblique planes within the volume, numerically dissect away selected image regions, and control intensity window levels. Photographs of example volume images displayed on the system illustrate, to the degree possible in a flat picture, the nature of displayed images and the capabilities of the system. Preliminary application of the display device to the analysis of volume reconstructions obtained from the Dynamic Spatial Reconstructor indicates significant utility of the system in selecting oblique sections and gaining an appreciation of the shape and dimensions of complex organ systems.

Visualization of seismic tomography on Google Earth: Improvement of KML generator and its web application to accept the data file in European standard format

NASA Astrophysics Data System (ADS)

Yamagishi, Y.; Yanaka, H.; Tsuboi, S.

2009-12-01

We have developed a conversion tool for the data of seismic tomography into KML, called KML generator, and made it available on the web site (http://www.jamstec.go.jp/pacific21/google_earth). The KML generator enables us to display vertical and horizontal cross sections of the model on Google Earth in three-dimensional manner, which would be useful to understand the Earth's interior. The previous generator accepts text files of grid-point data having longitude, latitude, and seismic velocity anomaly. Each data file contains the data for each depth. Metadata, such as bibliographic reference, grid-point interval, depth, are described in other information file. We did not allow users to upload their own tomographic model to the web application, because there is not standard format to represent tomographic model. Recently European seismology research project, NEIRES (Network of Research Infrastructures for European Seismology), advocates that the data of seismic tomography should be standardized. They propose a new format based on JSON (JavaScript Object Notation), which is one of the data-interchange formats, as a standard one for the tomography. This format consists of two parts, which are metadata and grid-point data values. The JSON format seems to be powerful to handle and to analyze the tomographic model, because the structure of the format is fully defined by JavaScript objects, thus the elements are directly accessible by a script. In addition, there exist JSON libraries for several programming languages. The International Federation of Digital Seismograph Network (FDSN) adapted this format as a FDSN standard format for seismic tomographic model. There might be a possibility that this format would not only be accepted by European seismologists but also be accepted as the world standard. Therefore we improve our KML generator for seismic tomography to accept the data file having also JSON format. We also improve the web application of the generator so that the JSON formatted data file can be uploaded. Users can convert any tomographic model data to KML. The KML obtained through the new generator should provide an arena to compare various tomographic models and other geophysical observations on Google Earth, which may act as a common platform for geoscience browser.

Outpatients flow management and ophthalmic electronic medical records system in university hospital using Yahgee Document View.

PubMed

Matsuo, Toshihiko; Gochi, Akira; Hirakawa, Tsuyoshi; Ito, Tadashi; Kohno, Yoshihisa

2010-10-01

General electronic medical records systems remain insufficient for ophthalmology outpatient clinics from the viewpoint of dealing with many ophthalmic examinations and images in a large number of patients. Filing systems for documents and images by Yahgee Document View (Yahgee, Inc.) were introduced on the platform of general electronic medical records system (Fujitsu, Inc.). Outpatients flow management system and electronic medical records system for ophthalmology were constructed. All images from ophthalmic appliances were transported to Yahgee Image by the MaxFile gateway system (P4 Medic, Inc.). The flow of outpatients going through examinations such as visual acuity testing were monitored by the list "Ophthalmology Outpatients List" by Yahgee Workflow in addition to the list "Patients Reception List" by Fujitsu. Patients' identification number was scanned with bar code readers attached to ophthalmic appliances. Dual monitors were placed in doctors' rooms to show Fujitsu Medical Records on the left-hand monitor and ophthalmic charts of Yahgee Document on the right-hand monitor. The data of manually-inputted visual acuity, automatically-exported autorefractometry and non-contact tonometry on a new template, MaxFile ED, were again automatically transported to designated boxes on ophthalmic charts of Yahgee Document. Images such as fundus photographs, fluorescein angiograms, optical coherence tomographic and ultrasound scans were viewed by Yahgee Image, and were copy-and-pasted to assigned boxes on the ophthalmic charts. Ordering such as appointments, drug prescription, fees and diagnoses input, central laboratory tests, surgical theater and ward room reservations were placed by functions of the Fujitsu electronic medical records system. The combination of the Fujitsu electronic medical records and Yahgee Document View systems enabled the University Hospital to examine the same number of outpatients as prior to the implementation of the computerized filing system.

From 2D slices to 3D volumes: image based reconstruction and morphological characterization of hippocampal cells on charged and uncharged surfaces using FIB/SEM serial sectioning.

PubMed

Schmidt, Franziska; Kühbacher, Markus; Gross, Ulrich; Kyriakopoulos, Antonius; Schubert, Helmut; Zehbe, Rolf

2011-03-01

3D imaging at a subcellular resolution is a powerful tool in the life sciences to investigate cells and their interactions with native tissues or artificial objects. While a tomographic experimental setup achieving a sufficient structural resolution can be established with either X-rays or electrons, the use of electrons is usually limited to very thin samples in transmission electron microscopy due to the poor penetration depths of electrons. The combination of a serial sectioning approach and scanning electron microscopy in state of the art dual beam experimental setups therefore offers a means to image highly resolved spatial details using a focused ion beam for slicing and an electron beam for imaging. The advantage of this technique over X-ray μCT or X-ray microscopy attributes to the fact that absorption is not a limiting factor in imaging and therefore even strong absorbing structures can be spatially reconstructed with a much higher possible resolution. This approach was used in this study to elucidate the effect of an electric potential on the morphology of cells from a hippocampal cell line (HT22) deposited on gold microelectrodes. While cells cultivated on two different controls (gold and polymer substrates) did show the expected stretched morphology, cells on both the anode and the cathode differed significantly. Cells deposited on the anode part of the electrode exhibited the most extreme deviation, being almost spherical and showed signs of chromatin condensation possibly indicating cell death. Furthermore, EDX was used as supplemental methodology for combined chemical and structural analyses. Copyright © 2010 Elsevier B.V. All rights reserved.

Tomographic Neutron Imaging using SIRT

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

Gregor, Jens; FINNEY, Charles E A; Toops, Todd J

2013-01-01

Neutron imaging is complementary to x-ray imaging in that materials such as water and plastic are highly attenuating while material such as metal is nearly transparent. We showcase tomographic imaging of a diesel particulate filter. Reconstruction is done using a modified version of SIRT called PSIRT. We expand on previous work and introduce Tikhonov regularization. We show that near-optimal relaxation can still be achieved. The algorithmic ideas apply to cone beam x-ray CT and other inverse problems.

Studies of the Processing of Single Words Using Positron Tomographic Measures of Cerebral Blood Flow Change.

DTIC Science & Technology

1987-01-01

BLOOD FLOW CHANGE Steven E. Petersen, Peter T. Fox, Michael I. Posner, Marcus Raichle McDonnell Center for Studies of Higher Brain Function...Single Words Using Positron Emission Tomographic Measurements of Cerebral Blood Flow Change *= ’I PERSONAL AUTHOR(S) * Petersen, Steven E. 13a. TYPE OF...CHANGE Steven E. Petersen, Peter T. Fox, Michael I. Posner, Marcus E. Raichle INTRODUCTION Language is an essential characteristic of the human

Early In-Theater Management of Combat-Related Traumatic Brain Injury: A Prospective, Observational Study to Identify Opportunities for Performance Improvement

DTIC Science & Technology

2015-05-18

Head computed tomographic scan most commonly found skull fracture (68.9%), subdural hematoma (54.1%), and cerebral contusion (51.4%). Hypertonic saline...were common on presentation. Head computed tomographic scan most commonly found skull fracture (68.9%), subdural hematoma (54.1%), and cerebral con...reported was skull fracture, occurring in 68.9% of patients. The most common type of intracranial hemorrhage was subdural hematoma (54.1%). Multiple

Computer tomographic evaluation of digestive tract non-Hodgkin lymphomas.

PubMed

Lupescu, Ioana G; Grasu, Mugur; Goldis, Gheorghe; Popa, Gelu; Gheorghe, Cristian; Vasilescu, Catalin; Moicean, Andreea; Herlea, Vlad; Georgescu, Serban A

2007-09-01

Computer Tomographic (CT) study is crucial for defining distribution, characteristics and staging of primary gastrointestinal lymphomas. The presence of multifocal sites, the wall thickening with diffuse infiltration of the affected gastrointestinal (GI) segment in association with regional adenopathies, permit the orientation of the CT diagnosis for primary GI lymphomas. The gold standard for diagnosis remains, in all cases of digestive tract non-Hodgkin lymphomas (NHL), the histological examination, which allows a tissue diagnosis, performed preferably by transmural biopsy.

Segmentation and Estimation of the Histological Composition of the Tumor Mass in Computed Tomographic Images of Neuroblastoma

DTIC Science & Technology

2001-10-25

a CT image, each voxel contains an integer number which is the CT value, in Hounsfield units (HU), of the voxel. Therefore, the standard method of...Task Number Work Unit Number Performing Organization Name(s) and Address(es) Department of Electrical and Computer Engineering, University of...34, Journal of Pediatric Surgery, vol 24(7), pp. 708-711, 1989. [4] I. N. Bankman, editor, Handbook of Medical Image Analysis, Academic Press, London, UK

Experimental extraction of secure correlations from a noisy private state.

PubMed

Dobek, K; Karpiński, M; Demkowicz-Dobrzański, R; Banaszek, K; Horodecki, P

2011-01-21

We report experimental generation of a noisy entangled four-photon state that exhibits a separation between the secure key contents and distillable entanglement, a hallmark feature of the recently established quantum theory of private states. The privacy analysis, based on the full tomographic reconstruction of the prepared state, is utilized in a proof-of-principle key generation. The inferiority of distillation-based strategies to extract the key is exposed by an implementation of an entanglement distillation protocol for the produced state.

Computed tomographic analysis of deformity and dimensional changes in the eyeball

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

Osborne, D.R.; Foulks, G.N.

1984-12-01

Computed tomography (CT) was performed in 40 patients with a confirmed ophthalmic diagnosis and a change in the dimensions or configuration of the eyeball. Abnormalities studied included coloboma, microphthalmus, buphthalmos, axial myopia, macrophthalmus, phthisis bulbi, trauma, neoplasm, posterior staphyloma, granuloma, pseudotumor, and surgicalscleral banding for retinal detachment. CT findings could be grouped into three categories depending upon whether the eye was small, large, or normal in size, with the findings in each group allowing distinction of most disease processes.

Computer tomography of flows external to test models

NASA Technical Reports Server (NTRS)

Prikryl, I.; Vest, C. M.

1982-01-01

Computer tomographic techniques for reconstruction of three-dimensional aerodynamic density fields, from interferograms recorded from several different viewing directions were studied. Emphasis is on the case in which an opaque object such as a test model in a wind tunnel obscures significant regions of the interferograms (projection data). A method called the Iterative Convolution Method (ICM), existing methods in which the field is represented by a series expansions, and analysis of real experimental data in the form of aerodynamic interferograms are discussed.

Model studies of laser absorption computed tomography for remote air pollution measurement

NASA Technical Reports Server (NTRS)

Wolfe, D. C., Jr.; Byer, R. L.

1982-01-01

Model studies of the potential of laser absorption-computed tomography are presented which demonstrate the possibility of sensitive remote atmospheric pollutant measurements, over kilometer-sized areas, with two-dimensional resolution, at modest laser source powers. An analysis of this tomographic reconstruction process as a function of measurement SNR, laser power, range, and system geometry, shows that the system is able to yield two-dimensional maps of pollutant concentrations at ranges and resolutions superior to those attainable with existing, direct-detection laser radars.

Tomographic quantum cryptography

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

Liang, Yeong Cherng; Kaszlikowski, Dagomir; Englert, Berthold-Georg

2003-08-01

We present a protocol for quantum cryptography in which the data obtained for mismatched bases are used in full for the purpose of quantum state tomography. Eavesdropping on the quantum channel is seriously impeded by requiring that the outcome of the tomography is consistent with unbiased noise in the channel. We study the incoherent eavesdropping attacks that are still permissible and establish under which conditions a secure cryptographic key can be generated. The whole analysis is carried out for channels that transmit quantum systems of any finite dimension.

Uncertainty analysis in seismic tomography

NASA Astrophysics Data System (ADS)

Owoc, Bartosz; Majdański, Mariusz

2017-04-01

Velocity field from seismic travel time tomography depends on several factors like regularization, inversion path, model parameterization etc. The result also strongly depends on an initial velocity model and precision of travel times picking. In this research we test dependence on starting model in layered tomography and compare it with effect of picking precision. Moreover, in our analysis for manual travel times picking the uncertainty distribution is asymmetric. This effect is shifting the results toward faster velocities. For calculation we are using JIVE3D travel time tomographic code. We used data from geo-engineering and industrial scale investigations, which were collected by our team from IG PAS.