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Sample records for feasible three-dimensional structures

  1. A Feasibility Study on the Use of a Structured Light Depth-Camera for Three-Dimensional Body Measurements of Dairy Cows in Free-Stall Barns

    Directory of Open Access Journals (Sweden)

    Andrea Pezzuolo

    2018-02-01

    Full Text Available Frequent checks on livestock’s body growth can help reducing problems related to cow infertility or other welfare implications, and recognizing health’s anomalies. In the last ten years, optical methods have been proposed to extract information on various parameters while avoiding direct contact with animals’ body, generally causes stress. This research aims to evaluate a new monitoring system, which is suitable to frequently check calves and cow’s growth through a three-dimensional analysis of their bodies’ portions. The innovative system is based on multiple acquisitions from a low cost Structured Light Depth-Camera (Microsoft Kinect™ v1. The metrological performance of the instrument is proved through an uncertainty analysis and a proper calibration procedure. The paper reports application of the depth camera for extraction of different body parameters. Expanded uncertainty ranging between 3 and 15 mm is reported in the case of ten repeated measurements. Coefficients of determination R² > 0.84 and deviations lower than 6% from manual measurements where in general detected in the case of head size, hips distance, withers to tail length, chest girth, hips, and withers height. Conversely, lower performances where recognized in the case of animal depth (R² = 0.74 and back slope (R² = 0.12.

  2. A Feasibility Study on the Use of a Structured Light Depth-Camera for Three-Dimensional Body Measurements of Dairy Cows in Free-Stall Barns

    Science.gov (United States)

    2018-01-01

    Frequent checks on livestock’s body growth can help reducing problems related to cow infertility or other welfare implications, and recognizing health’s anomalies. In the last ten years, optical methods have been proposed to extract information on various parameters while avoiding direct contact with animals’ body, generally causes stress. This research aims to evaluate a new monitoring system, which is suitable to frequently check calves and cow’s growth through a three-dimensional analysis of their bodies’ portions. The innovative system is based on multiple acquisitions from a low cost Structured Light Depth-Camera (Microsoft Kinect™ v1). The metrological performance of the instrument is proved through an uncertainty analysis and a proper calibration procedure. The paper reports application of the depth camera for extraction of different body parameters. Expanded uncertainty ranging between 3 and 15 mm is reported in the case of ten repeated measurements. Coefficients of determination R² > 0.84 and deviations lower than 6% from manual measurements where in general detected in the case of head size, hips distance, withers to tail length, chest girth, hips, and withers height. Conversely, lower performances where recognized in the case of animal depth (R² = 0.74) and back slope (R² = 0.12). PMID:29495290

  3. Magnetic structure of two- and three-dimensional supramolecular compounds

    Energy Technology Data Exchange (ETDEWEB)

    Decurtins, S.; Schmalle, H.W.; Pellaux, R. [Zurich Univ. (Switzerland); Fischer, P.; Fauth, F. [Paul Scherrer Inst. (PSI), Villigen (Switzerland); Ouladdiaf, B. [Institut Max von Laue - Paul Langevin, 75 - Paris (France)

    1997-09-01

    Supramolecular chiral networks of oxalato-bridged transition metals show either two- or three-dimensional structural features. The magnetic structures of such compounds have been investigated by means of elastic neutron powder diffraction. (author) 2 figs., 2 refs.

  4. Three-Dimensional Structure Determination of Botulinum Toxin

    National Research Council Canada - National Science Library

    Stevens, Ray

    1997-01-01

    ...) Based on the structure of the neurotoxin, understand the toxins mechanism of action. We have accomplished the first goal of determining the three-dimensional structure of the 150 kD botulinum neurotoxin serotype...

  5. Three-Dimensional Structure Determination of Botulinum Toxin

    National Research Council Canada - National Science Library

    Stevens, Ray

    1998-01-01

    ...) Based on the structure of the neurotoxin, understand the toxins mechanism of action. We have accomplished the first goal of determining the three-dimensional structure of the 150 kD botulinum neurotoxin serotype...

  6. Analysis and validation of carbohydrate three-dimensional structures

    International Nuclear Information System (INIS)

    Lütteke, Thomas

    2009-01-01

    The article summarizes the information that is gained from and the errors that are found in carbohydrate structures in the Protein Data Bank. Validation tools that can locate these errors are described. Knowledge of the three-dimensional structures of the carbohydrate molecules is indispensable for a full understanding of the molecular processes in which carbohydrates are involved, such as protein glycosylation or protein–carbohydrate interactions. The Protein Data Bank (PDB) is a valuable resource for three-dimensional structural information on glycoproteins and protein–carbohydrate complexes. Unfortunately, many carbohydrate moieties in the PDB contain inconsistencies or errors. This article gives an overview of the information that can be obtained from individual PDB entries and from statistical analyses of sets of three-dimensional structures, of typical problems that arise during the analysis of carbohydrate three-dimensional structures and of the validation tools that are currently available to scientists to evaluate the quality of these structures

  7. Discretization model for nonlinear dynamic analysis of three dimensional structures

    International Nuclear Information System (INIS)

    Hayashi, Y.

    1982-12-01

    A discretization model for nonlinear dynamic analysis of three dimensional structures is presented. The discretization is achieved through a three dimensional spring-mass system and the dynamic response obtained by direct integration of the equations of motion using central diferences. First the viability of the model is verified through the analysis of homogeneous linear structures and then its performance in the analysis of structures subjected to impulsive or impact loads, taking into account both geometrical and physical nonlinearities is evaluated. (Author) [pt

  8. New "sandwich" structures conformed from three dimensional

    Directory of Open Access Journals (Sweden)

    Alba, Juan J.

    1996-03-01

    Full Text Available Poor interlaminar properties as well as poor-skin-to-core adhesion properties are very often the common existing problems we find when designing with "sandwich" structures. A new type of 3D-fabric "sandwich" structure is being developed in order to avoid these problems. Although the manufacturing process is very simple, a very complex "sandwich" structure is obtained as a result of the complexity of the 3D-fabric used. This 3D-fabric is a 3D woven glass fabric produced on velvet weaving machines with glass yarns. It is an integrally woven "sandwich" laminate for all kinds of composite products. The strength of the vertical fibers makes, that also after impregnation with a resin matrix, the "sandwich" structure is maintained. The result is a laminate with high strength and stiffness and low weight. On each side of this "sandwich" laminate additional reinforcement materials can be laminated and a synthetic foam can be injected in the hollow structure. This will allow to establish the mechanical properties of a finished product.

    Las pobres propiedades, tanto interlaminares como de adhesión entre piel y núcleo, constituyen uno de los grandes problemas cuando se diseñan estructuras utilizando paneles tipo "sandwich". Un nuevo tipo de panel "sandwich", configurado a partir de tejidos tridimensionales, está siendo desarrollado en la actualidad con el objetivo de eliminar esos problemas. Aunque el proceso de fabricación es muy simple, el panel "sandwich" obtenido es de estructura compleja, como resultado de la complejidad del tejido tridimensional utilizado. Este tejido tridimensional (3D es un tejido de fibra de vidrio producido en máquinas de tejer especializadas. La resistencia de las fibras verticales hace que, después de la impregnación con una resina, se mantenga la configuración tipo "sandwich". El resultado es un laminado de alta resistencia, gran rigidez y bajo peso. Sobre cada uno de los lados del panel "sandwich" se pueden

  9. Computational study of three-dimensional wake structure

    International Nuclear Information System (INIS)

    Himeno, R.; Shirayama, S.; Kamo, K.; Kuwahara, K.

    1986-01-01

    Three-dimensional wake structure is studied by numerically solving the incompressible Navier-Stokes equations. Results are visualized by a three-dimensional color graphic system. It was found that a pair of vortex tubes separated from a body plays the most important role in the wake. Near the body vortex tubes are rather stable, however, they gradually become unsteady as they flow down

  10. Three-dimensional Reciprocal Structures: Morphology, Concepts, Generative Rules

    DEFF Research Database (Denmark)

    Parigi, Dario; Pugnale, Alberto

    2012-01-01

    , causing every configuration to develop naturally out-of the plane. The structures presented here were developed and built by the students of the Master of Science in “Architectural Design” during a two week long workshop organized at Aalborg University in the fall semester 2011.......This paper present seven different three dimensional structures based on the principle of structural reciprocity with superimposition joint and standardized un-notched elements. Such typology could be regarded as being intrinsically three-dimensional because elements sit one of the top of the other...

  11. Three-Dimensional Structure of CeO2 Nanocrystals

    DEFF Research Database (Denmark)

    Tan, Joyce Pei Ying; Tan, Hui Ru; Boothroyd, Chris

    2011-01-01

    Visualization of three-dimensional (3D) structures of materials at the nanometer scale can shed important information on the performance of their applications and provide insight into the growth mechanism of shape-controlled nanomaterials. In this paper, the 3D structures and growth pathway of Ce...

  12. Three-dimensional flow and turbulence structure in electrostatic precipitator

    DEFF Research Database (Denmark)

    Ullum, Thorvald Uhrskov; Larsen, Poul Scheel; Özcan, Oktay

    2002-01-01

    Stereo PIV is employed to study the three-dimensional velocity and turbulence fields in a laboratory model of a negative corona, barbed-wire, smooth-plate, electrostatic precipitator (figure 1). The study is focused on determining the parametric effects of axial development, mean current density Jm...... and bulk velocity U0 on secondary flows and turbulence levels and structures due to the action of the three-dimensional electrostatic field on the charged gas. At constant bulk velocity (U0 = 1 m/s) and current density (Jm = 0.4 mA/m2), secondary flows in the form of rolls of axial vorticity with swirl...

  13. Three-dimensional P velocity structure in Beijing area

    Science.gov (United States)

    Yu, Xiang-Wei; Chen, Yun-Tai; Wang, Pei-De

    2003-01-01

    A detail three-dimensional P wave velocity structure of Beijing, Tianjin and Tangshan area (BTT area) was determined by inverting local earthquake data. In total 16 048 P wave first arrival times from 16048 shallow and mid-depth crustal earthquakes, which occurred in and around the BTT area from 1992 to 1999 were used. The first arrival times are recorded by Northern China United Telemetry Seismic Network and Yanqing-Huailai Digital Seismic Network. Hypocentral parameters of 1 132 earthquakes with magnitude M L=1.7 6.2 and the three-dimensional P wave velocity structure were obtained simultaneously. The inversion result reveals the complicated lateral heterogeneity of P wave velocity structure around BTT area. The tomographic images obtained are also found to explain other seismological observations well.

  14. Fabrication of three-dimensional micro-nanofiber structures by a novel solution blow spinning device

    Directory of Open Access Journals (Sweden)

    Feng Liang

    2017-02-01

    Full Text Available The fabrication of three-dimensional scaffolds has attracted more attention in tissue engineering. The purpose of this study is to explore a new method for the fabrication of three-dimensional micro-nanofiber structures by combining solution blow spinning and rotating collector. In this study, we successfully fabricated fibers with a minimum diameter of 200 nm and a three-dimensional structure with a maximum porosity of 89.9%. At the same time, the influence of various parameters such as the solvent volatility, the shape of the collector, the feed rate of the solution and the applied gas pressure were studied. It is found that solvent volatility has large effect on the formation of the three-dimensional shape of the structure. The shape of the collector affects the porosity and fiber distribution of the three-dimensional structure. The fiber diameter and fiber uniformity can be controlled by adjusting the solution feed rate and the applied gas pressure. It is feasible to fabricate high-quality three-dimensional micro-nanofiber structure by this new method, which has great potential in tissue engineering.

  15. Nanofluidic structures with complex three-dimensional surfaces

    International Nuclear Information System (INIS)

    Stavis, Samuel M; Gaitan, Michael; Strychalski, Elizabeth A

    2009-01-01

    Nanofluidic devices have typically explored a design space of patterns limited by a single nanoscale structure depth. A method is presented here for fabricating nanofluidic structures with complex three-dimensional (3D) surfaces, utilizing a single layer of grayscale photolithography and standard integrated circuit manufacturing tools. This method is applied to construct nanofluidic devices with numerous (30) structure depths controlled from ∼10 to ∼620 nm with an average standard deviation of 1 cm. A prototype 3D nanofluidic device is demonstrated that implements size exclusion of rigid nanoparticles and variable nanoscale confinement and deformation of biomolecules.

  16. The three-dimensional crystal structure of cholera toxin

    Energy Technology Data Exchange (ETDEWEB)

    Zhang, Rong-Guang; Westbrook, M.L.; Nance, S.; Spangler, B.D. [Argonne National Lab., IL (United States); Scott, D.L. [Yale Univ., New Haven, CT (United States). Dept. of Molecular Biophysics and Biochemistry; Westbrook, E.M. [Northwestern Univ., Evanston, IL (United States)

    1996-02-01

    The clinical manifestations of cholera are largely attributable to the actions of a secreted hexameric AB{sub 5} enterotoxin (choleragen). We have solved the three-dimensional structure of choleragen at 2.5 {Angstrom} resolution and compared the refined coordinates with those of choleragenoid (isolated B pentamer) and the heat-labile enterotoxin from Escherichia coli (LT). The crystalline coordinates provide a detailed view of the stereochemistry implicated in binding to GM1 gangliosides and in carrying out ADP-ribosylation. The A2 chain of choleragen, in contrast to that of LT, is a nearly continuous {alpha}-helix with an interpretable carboxyl tail.

  17. Three-dimensional periodic dielectric structures having photonic Dirac points

    Science.gov (United States)

    Bravo-Abad, Jorge; Joannopoulos, John D.; Soljacic, Marin

    2015-06-02

    The dielectric, three-dimensional photonic materials disclosed herein feature Dirac-like dispersion in quasi-two-dimensional systems. Embodiments include a face-centered cubic (fcc) structure formed by alternating layers of dielectric rods and dielectric slabs patterned with holes on respective triangular lattices. This fcc structure also includes a defect layer, which may comprise either dielectric rods or a dielectric slab with patterned with holes. This defect layer introduces Dirac cone dispersion into the fcc structure's photonic band structure. Examples of these fcc structures enable enhancement of the spontaneous emission coupling efficiency (the .beta.-factor) over large areas, contrary to the conventional wisdom that the .beta.-factor degrades as the system's size increases. These results enable large-area, low-threshold lasers; single-photon sources; quantum information processing devices; and energy harvesting systems.

  18. Three-dimensional periodic dielectric structures having photonic Dirac points

    Energy Technology Data Exchange (ETDEWEB)

    Bravo-Abad, Jorge; Joannopoulos, John D.; Soljacic, Marin

    2015-06-02

    The dielectric, three-dimensional photonic materials disclosed herein feature Dirac-like dispersion in quasi-two-dimensional systems. Embodiments include a face-centered cubic (fcc) structure formed by alternating layers of dielectric rods and dielectric slabs patterned with holes on respective triangular lattices. This fcc structure also includes a defect layer, which may comprise either dielectric rods or a dielectric slab with patterned with holes. This defect layer introduces Dirac cone dispersion into the fcc structure's photonic band structure. Examples of these fcc structures enable enhancement of the spontaneous emission coupling efficiency (the .beta.-factor) over large areas, contrary to the conventional wisdom that the .beta.-factor degrades as the system's size increases. These results enable large-area, low-threshold lasers; single-photon sources; quantum information processing devices; and energy harvesting systems.

  19. Three-dimensional structure of the γ-secretase complex

    International Nuclear Information System (INIS)

    Ogura, Toshihiko; Mio, Kazuhiro; Hayashi, Ikuo; Miyashita, Hiroyuki; Fukuda, Rie; Kopan, Raphael; Kodama, Tatsuhiko; Hamakubo, Takao; Iwastubo, Takeshi; Tomita, Taisuke; Sato, Chikara

    2006-01-01

    γ-Secretase belongs to an atypical class of aspartic proteases that hydrolyzes peptide bonds within the transmembrane domain of substrates, including amyloid-β precursor protein and Notch. γ-Secretase is comprised of presenilin, nicastrin, APH-1, and PEN-2 which form a large multimeric membrane protein complex, the three-dimensional structure of which is unknown. To gain insight into the structure of this complex enzyme, we purified functional γ-secretase complex reconstituted in Sf9 cells and analyzed it using negative stain electron microscopy and 3D reconstruction techniques. Analysis of 2341 negatively stained particle images resulted in the three-dimensional representation of γ-secretase at a resolution of 48 A. The structure occupies a volume of 560 x 320 x 240 A and resembles a flat heart comprised of two oppositely faced, dimpled domains. A low density space containing multiple pores resides between the domains. Some of the dimples in the putative transmembrane region may house the catalytic site. The large dimensions are consistent with the observation that γ-secretase activity resides within a high molecular weight complex

  20. Three dimensional finite element linear analysis of reinforced concrete structures

    International Nuclear Information System (INIS)

    Inbasakaran, M.; Pandarinathan, V.G.; Krishnamoorthy, C.S.

    1979-01-01

    A twenty noded isoparametric reinforced concrete solid element for the three dimensional linear elastic stress analysis of reinforced concrete structures is presented. The reinforcement is directly included as an integral part of the element thus facilitating discretization of the structure independent of the orientation of reinforcement. Concrete stiffness is evaluated by taking 3 x 3 x 3 Gauss integration rule and steel stiffness is evaluated numerically by considering three Gaussian points along the length of reinforcement. The numerical integration for steel stiffness necessiates the conversion of global coordiantes of the Gaussian points to nondimensional local coordinates and this is done by Newton Raphson iterative method. Subroutines for the above formulation have been developed and added to SAP and STAP routines for solving the examples. The validity of the reinforced concrete element is verified by comparison of results from finite element analysis and analytical results. It is concluded that this finite element model provides a valuable analytical tool for the three dimensional elastic stress analysis of concrete structures like beams curved in plan and nuclear containment vessels. (orig.)

  1. Three-Dimensional Structural Aspects of Protein–Polysaccharide Interactions

    Directory of Open Access Journals (Sweden)

    Masamichi Nagae

    2014-03-01

    Full Text Available Linear polysaccharides are typically composed of repeating mono- or disaccharide units and are ubiquitous among living organisms. Polysaccharide diversity arises from chain-length variation, branching, and additional modifications. Structural diversity is associated with various physiological functions, which are often regulated by cognate polysaccharide-binding proteins. Proteins that interact with linear polysaccharides have been identified or developed, such as galectins and polysaccharide-specific antibodies, respectively. Currently, data is accumulating on the three-dimensional structure of polysaccharide-binding proteins. These proteins are classified into two types: exo-type and endo-type. The former group specifically interacts with the terminal units of polysaccharides, whereas the latter with internal units. In this review, we describe the structural aspects of exo-type and endo-type protein-polysaccharide interactions. Further, we discuss the structural basis for affinity and specificity enhancement in the face of inherently weak binding interactions.

  2. Three-dimensional protein structure prediction: Methods and computational strategies.

    Science.gov (United States)

    Dorn, Márcio; E Silva, Mariel Barbachan; Buriol, Luciana S; Lamb, Luis C

    2014-10-12

    A long standing problem in structural bioinformatics is to determine the three-dimensional (3-D) structure of a protein when only a sequence of amino acid residues is given. Many computational methodologies and algorithms have been proposed as a solution to the 3-D Protein Structure Prediction (3-D-PSP) problem. These methods can be divided in four main classes: (a) first principle methods without database information; (b) first principle methods with database information; (c) fold recognition and threading methods; and (d) comparative modeling methods and sequence alignment strategies. Deterministic computational techniques, optimization techniques, data mining and machine learning approaches are typically used in the construction of computational solutions for the PSP problem. Our main goal with this work is to review the methods and computational strategies that are currently used in 3-D protein prediction. Copyright © 2014 Elsevier Ltd. All rights reserved.

  3. Three-dimensional structure of brain tissue at submicrometer resolution

    Energy Technology Data Exchange (ETDEWEB)

    Saiga, Rino; Mizutani, Ryuta, E-mail: ryuta@tokai-u.jp [Department of Applied Biochemistry, Tokai University, Hiratsuka, Kanagawa 259-1292 (Japan); Inomoto, Chie; Takekoshi, Susumu; Nakamura, Naoya; Tsuboi, Akio; Osawa, Motoki [Tokai University School of Medicine, Isehara, Kanagawa 259-1193 (Japan); Arai, Makoto; Oshima, Kenichi; Itokawa, Masanari [Tokyo Metropolitan Institute of Medical Science, Setagaya, Tokyo 156-8506 (Japan); Uesugi, Kentaro; Takeuchi, Akihisa; Terada, Yasuko; Suzuki, Yoshio [Japan Synchrotron Radiation Research Institute (JASRI/SPring-8), Sayo, Hyogo 679-5198 (Japan)

    2016-01-28

    Biological objects are composed of submicrometer structures such as cells and organelles that are essential for their functions. Here, we report on three-dimensional X-ray visualization of cells and organelles at resolutions up to 100 nm by imaging microtomography (micro-CT) equipped with Fresnel zone plate optics. Human cerebral tissue, fruit fly cephalic ganglia, and Escherichia coli bacteria labeled with high atomic-number elements were embedded in epoxy resin and subjected to X-ray microtomography at the BL37XU and BL47XU beamlines of the SPring-8 synchrotron radiation facility. The obtained results indicated that soft tissue structures can be visualized with the imaging microtomography.

  4. Three-dimensional micro structured nanocomposite beams by microfluidic infiltration

    International Nuclear Information System (INIS)

    Lebel, L L; Paez, O A; Therriault, D; Aïssa, B; El Khakani, M A

    2009-01-01

    Three-dimensional (3D) micro structured beams reinforced with a single-walled carbon nanotube (C-SWNT)/polymer nanocomposite were fabricated using an approach based on the infiltration of 3D microfluidic networks. The 3D microfluidic network was first fabricated by the direct-write assembly method, which consists of the robotized deposition of fugitive ink filaments on an epoxy substrate, forming thereby a 3D micro structured scaffold. After encapsulating the 3D micro-scaffold structure with an epoxy resin, the fugitive ink was liquefied and removed, resulting in a 3D network of interconnected microchannels. This microfluidic network was then infiltrated by a polymer loaded with C-SWNTs and subsequently cured. Prior to their incorporation in the polymer matrix, the UV-laser synthesized C-SWNTs were purified, functionalized and dispersed into the matrix using a three-roll mixing mill. The final samples consist of rectangular beams having a complex 3D skeleton structure of C-SWNT/polymer nanocomposite fibers, adapted to offer better performance under flexural solicitation. Dynamic mechanical analysis in flexion showed an increase of 12.5% in the storage modulus compared to the resin infiltrated beams. The nanocomposite infiltration of microfluidic networks demonstrated here opens new prospects for the achievement of 3D reinforced micro structures

  5. Micromagnetic studies of three-dimensional pyramidal shell structures

    International Nuclear Information System (INIS)

    Knittel, A; Franchin, M; Fischbacher, T; Fangohr, H; Nasirpouri, F; Bending, S J

    2010-01-01

    We present a systematic numerical analysis of the magnetic properties of pyramidal-shaped core-shell structures in a size range below 400 nm. These are three-dimensional structures consisting of a ferromagnetic shell which is grown on top of a non-magnetic core. The standard micromagnetic model without the magnetocrystalline anisotropy term is used to describe the properties of the shell. We vary the thickness of the shell between the limiting cases of an ultra-thin shell and a conventional pyramid and delineate different stable magnetic configurations. We find different kinds of single-domain states, which predominantly occur at smaller system sizes. In analogy to equivalent states in thin square films we term these onion, flower, C and S states. At larger system sizes, we also observe two types of vortex states, which we refer to as symmetric and asymmetric vortex states. For a classification of the observed states, we derive a phase diagram that specifies the magnetic ground state as a function of structure size and shell thickness. The transitions between different ground states can be understood qualitatively. We address the issue of metastability by investigating the stability of all occurring configurations for different shell thicknesses. For selected geometries and directions hysteresis measurements are analysed and discussed. We observe that the magnetic behaviour changes distinctively in the limit of ultra-thin shells. The study has been motivated by the recent progress made in the growth of faceted core-shell structures.

  6. The three-dimensional structures of bacterial reaction centers.

    Science.gov (United States)

    Olson, T L; Williams, J C; Allen, J P

    2014-05-01

    This review presents a broad overview of the research that enabled the structure determination of the bacterial reaction centers from Blastochloris viridis and Rhodobacter sphaeroides, with a focus on the contributions from Duysens, Clayton, and Feher. Early experiments performed in the laboratory of Duysens and others demonstrated the utility of spectroscopic techniques and the presence of photosynthetic complexes in both oxygenic and anoxygenic photosynthesis. The laboratories of Clayton and Feher led efforts to isolate and characterize the bacterial reaction centers. The availability of well-characterized preparations of pure and stable reaction centers allowed the crystallization and subsequent determination of the structures using X-ray diffraction. The three-dimensional structures of reaction centers revealed an overall arrangement of two symmetrical branches of cofactors surrounded by transmembrane helices from the L and M subunits, which also are related by the same twofold symmetry axis. The structure has served as a framework to address several issues concerning bacterial photosynthesis, including the directionality of electron transfer, the properties of the reaction center-cytochrome c 2 complex, and the coupling of proton and electron transfer. Together, these research efforts laid the foundation for ongoing efforts to address an outstanding question in oxygenic photosynthesis, namely the molecular mechanism of water oxidation.

  7. Three-Dimensional Magnetic Resonance Imaging of Velopharyngeal Structures

    Science.gov (United States)

    Bae, Youkyung; Kuehn, David P.; Sutton, Bradley P.; Conway, Charles A.; Perry, Jamie L.

    2011-01-01

    Purpose: To report the feasibility of using a 3-dimensional (3D) magnetic resonance imaging (MRI) protocol for examining velopharyngeal structures. Using collected 3D MRI data, the authors investigated the effect of sex on the midsagittal velopharyngeal structures and the levator veli palatini (levator) muscle configurations. Method: Ten Caucasian…

  8. SU-E-T-429: Feasibility Study On Three-Dimensional GRID Therapy in Conventional Linacs

    Energy Technology Data Exchange (ETDEWEB)

    Yan, Y; Meyer, J; Timmerman, R; Hrycushko, B; Chen, B; Saha, D; Jiang, S [UT Southwestern Medical Center, Dallas, TX (United States)

    2015-06-15

    Purpose: Two-dimensional GRID therapy, traditionally planned and delivered using a dedicated GRID block or MLC modulation, has shown clinical efficacy in treating bulky tumors. However, the large dose to normal tissues outside target can be limiting. We hypothesize that modulation in the third dimension will improve dose sparing of normal tissues, maximize the bystander effect within the target, and ultimately improve the therapy effectiveness. This study aims to investigate the feasibility of a three-dimensional GRID technique using conventional LINACs to achieve a 3D lattice of high dose volumes within a target. Methods: Datasets of patient’s having large tumor sizes were used to investigate the planning and delivering of 3D GRID using a Varian TrueBeam linac. Original patient contours of PTV are exported from a TPS to DICOManTX where 3D GRID targets are generated in programmable configurations. A structure of avoidance (SOA), i.e., PTV minus GRID targets, is also generated to facilitate inverse planning to achieve the desired pattern. The artificial structures were sent back to the TPS where an IMRT or VMAT plan is designed to deliver a desired high dose to GRID targets while minimizing the dose to the SOA as much as possible. Results: The programmable GRID target generator enables us to modify the target geometry to maximize the peak-to-valley ratio. Preliminary results show that plans based on spherical GRID targets achieve a higher peak-to-valley dose ratio compared with cylindrical targets. High dose spillage outside the target was eliminated. IMRT planning requires the number of beams to be larger than 16, while for VMAT the number of arcs should be at least 4 in order to achieve dosimetric goals. Conclusion: Planning and delivering 3D GRID therapy using conventional LINACs was shown to be feasible. More research and development are required before this new modality can be implemented clinically.

  9. Three-dimensional structure of interleukin 8 in solution

    International Nuclear Information System (INIS)

    Clore, G.M.; Appella, E.; Gronenborn, A.M.; Yamada, Masaki; Matsushima, Kouji

    1990-01-01

    The solution structure of the interleukin 8 (IL-8) dimer has been solved by nuclear magnetic resonance (NMR) spectroscopy and hybrid distance geometry-dynamical simulated annealing calculations. The structure determination is based on a total of 1,880 experimental distance restraints (of which 82 are intersubunit) and 362 torsion angle restraints (comprising φ, ψ, and χ 1 torsion angles). A total of 30 simulated annealing structures were calculated, and the atomic rms distribution about the mean coordinate positions (excluding residues 1-5 of each subunit) is 0.41 ± 0.08 angstrom for the backbone atoms and 0.90 ± 0.08 angstrom for all atoms. The three-dimensional solution structure of the IL-8 dimer reveals a structural motif in which two symmetry-related antiparallel α-helices, approximately 24 angstrom long and separated by about 14 angstrom, lie on top of six-stranded antiparallel β-sheet platform derived from two three-stranded Greek keys, one from each monomer unit. The general architecture is similar to that of the α1/α2 domains of the human class I histocompatibility antigen HLA-A2. It is suggested that the two α-helices form the binding site for the cellular receptor and that the specificity of IL-8, as well as that of a number of related proteins involved in cell-specific chemotaxis, mediation of cell growth, and the inflammatory response, is achieved by the distinct distribution of charged and polar residues at the surface of the helices

  10. Three-dimensional structure of interleukin 8 in solution.

    Science.gov (United States)

    Clore, G M; Appella, E; Yamada, M; Matsushima, K; Gronenborn, A M

    1990-02-20

    The solution structure of the interleukin 8 (IL-8) dimer has been solved by nuclear magnetic resonance (NMR) spectroscopy and hybrid distance geometry-dynamical simulated annealing calculations. The structure determination is based on a total of 1880 experimental distance restraints (of which 82 are intersubunit) and 362 torsion angle restraints (comprising phi, psi, and chi 1 torsion angles). A total of 30 simulated annealing structures were calculated, and the atomic rms distribution about the mean coordinate positions (excluding residues 1-5 of each subunit) is 0.41 +/- 0.08 A for the backbone atoms and 0.90 +/- 0.08 A for all atoms. The three-dimensional solution structure of the IL-8 dimer reveals a structural motif in which two symmetry-related antiparallel alpha-helices, approximately 24 A long and separated by about 14 A, lie on top of a six-stranded antiparallel beta-sheet platform derived from two three-stranded Greek keys, one from each monomer unit. The general architecture is similar to that of the alpha 1/alpha 2 domains of the human class I histocompatibility antigen HLA-A2. It is suggested that the two alpha-helices form the binding site for the cellular receptor and that the specificity of IL-8, as well as that of a number of related proteins involved in cell-specific chemotaxis, mediation of cell growth, and the inflammatory response, is achieved by the distinct distribution of charged and polar residues at the surface of the helices.

  11. Three-Dimensional parton structure of light nuclei

    Science.gov (United States)

    Scopetta, Sergio; Del Dotto, Alessio; Kaptari, Leonid; Pace, Emanuele; Rinaldi, Matteo; Salmè, Giovanni

    2018-03-01

    Two promising directions beyond inclusive deep inelastic scattering experiments, aimed at unveiling the three dimensional structure of the bound nucleon, are reviewed, considering in particular the 3He nuclear target. The 3D structure in coordinate space can be accessed through deep exclusive processes, whose non-perturbative part is encoded in generalized parton distributions. In this way, the distribution of partons in the transverse plane can be obtained. As an example of a deep exclusive process, coherent deeply virtual Compton scattering off 3He nuclei, important to access the neutron generalized parton distributions (GPDs), will be discussed. In Impulse Approximation (IA), the sum of the two leading twist, quark helicity conserving GPDs of 3He, H and E, at low momentum transfer, turns out to be dominated by the neutron contribution. Besides, a technique, able to take into account the nuclear effects included in the Impulse Approximation analysis, has been developed. The spin dependent GPD \\tilde H of 3He is also found to be largely dominated, at low momentum transfer, by the neutron contribution. The knowledge of the GPDs H,E and \\tilde H of 3He is relevant for the planning of coherent DVCS off 3He measurements. Semi-inclusive deep inelastic scattering processes access the momentum space 3D structure parameterized through transverse momentum dependent parton distributions. A distorted spin-dependent spectral function has been recently introduced for 3He, in a non-relativistic framework, to take care of the final state interaction between the observed pion and the remnant in semi-inclusive deep inelastic electron scattering off transversely polarized 3He. The calculation of the Sivers and Collins single spin asymmetries for 3He, and a straightforward procedure to effectively take into account nuclear dynamics and final state interactions, will be reviewed. The Light-front dynamics generalization of the analysis is also addressed.

  12. Three-Dimensional Numerical Analysis of Compound Lining in Complex Underground Surge-Shaft Structure

    Directory of Open Access Journals (Sweden)

    Juntao Chen

    2015-01-01

    Full Text Available The mechanical behavior of lining structure of deep-embedded cylinder surge shaft with multifork tunnel is analyzed using three-dimensional nonlinear FEM. With the elastic-plastic constitutive relations of rock mass imported and the implicit bolt element and distributed concrete cracking model adopted, a computing method of complex surge shaft is presented for the simulation of underground excavations and concrete lining cracks. In order to reflect the interaction and initial gap between rock mass and concrete lining, a three-dimensional nonlinear interface element is adopted, which can take into account both the normal and tangential characteristics. By an actual engineering computation, the distortion characteristics and stress distribution rules of the dimensional multifork surge-shaft lining structure under different behavior are revealed. The results verify the rationality and feasibility of this computation model and method and provide a new idea and reference for the complex surge-shaft design and construction.

  13. PIV measurements in a microfluidic 3D-sheathing structure with three-dimensional flow behaviour

    DEFF Research Database (Denmark)

    Klank, Henning; Goranovic, Goran; Kutter, Jörg Peter

    2002-01-01

    . The structures are often of complex geometry and include strongly three-dimensional flow behaviour, which poses a challenge for the micro particle image velocimetry (micro-PIV) technique. The flow in a microfluidic 3D-sheathing structure has been measured throughout the volume using micro-PIV. In addition......, a stereoscopic principle was applied to obtain all three velocity components, showing the feasibility of obtaining full volume mapping (x, y, z, U, V, W) from micro-PIV measurements. The results are compared with computational fluid dynamics (CFD) simulations....

  14. Catalytic Mechanism and Three-Dimensional Structure of Adenine Deaminase

    Energy Technology Data Exchange (ETDEWEB)

    S Kamat; A Bagaria; D Kumaran; G Holmes-Hampton; H Fan; A Sali; J Sauder; S Burley; P Lindahl; et. al.

    2011-12-31

    Adenine deaminase (ADE) catalyzes the conversion of adenine to hypoxanthine and ammonia. The enzyme isolated from Escherichia coli using standard expression conditions was low for the deamination of adenine (k{sub cat} = 2.0 s{sup -1}; k{sub cat}/K{sub m} = 2.5 x 10{sup 3} M{sup -1} s{sup -1}). However, when iron was sequestered with a metal chelator and the growth medium was supplemented with Mn{sup 2+} prior to induction, the purified enzyme was substantially more active for the deamination of adenine with k{sub cat} and k{sub cat}/K{sub m} values of 200 s{sup -1} and 5 x 10{sup 5} M{sup -1} s{sup -1}, respectively. The apoenzyme was prepared and reconstituted with Fe{sup 2+}, Zn{sup 2+}, or Mn{sup 2+}. In each case, two enzyme equivalents of metal were necessary for reconstitution of the deaminase activity. This work provides the first example of any member of the deaminase subfamily of the amidohydrolase superfamily to utilize a binuclear metal center for the catalysis of a deamination reaction. [Fe{sup II}/Fe{sup II}]-ADE was oxidized to [Fe{sup III}/Fe{sup III}]-ADE with ferricyanide with inactivation of the deaminase activity. Reducing [Fe{sup III}/Fe{sup III}]-ADE with dithionite restored the deaminase activity, and thus, the diferrous form of the enzyme is essential for catalytic activity. No evidence of spin coupling between metal ions was evident by electron paramagnetic resonance or Moessbauer spectroscopy. The three-dimensional structure of adenine deaminase from Agrobacterium tumefaciens (Atu4426) was determined by X-ray crystallography at 2.2 {angstrom} resolution, and adenine was modeled into the active site on the basis of homology to other members of the amidohydrolase superfamily. On the basis of the model of the adenine-ADE complex and subsequent mutagenesis experiments, the roles for each of the highly conserved residues were proposed. Solvent isotope effects, pH-rate profiles, and solvent viscosity were utilized to propose a chemical reaction

  15. Catalytic Mechanism and Three-Dimensional Structure of Adenine Deaminase

    Energy Technology Data Exchange (ETDEWEB)

    Kamat, S.S.; Swaminathan, S.; Bagaria, A.; Kumaran, D.; Holmes-Hampton, G. P.; Fan, H.; Sali, A.; Sauder, J. M.; Burley, S. K.; Lindahl, P. A.; Raushel, F. M.

    2011-03-22

    Adenine deaminase (ADE) catalyzes the conversion of adenine to hypoxanthine and ammonia. The enzyme isolated from Escherichia coli using standard expression conditions was low for the deamination of adenine (k{sub cat} = 2.0 s{sup -1}; k{sub cat}/K{sub m} = 2.5 x 10{sup 3} M{sup -1} s{sup -1}). However, when iron was sequestered with a metal chelator and the growth medium was supplemented with Mn{sup 2+} prior to induction, the purified enzyme was substantially more active for the deamination of adenine with kcat and kcat/Km values of 200 s{sup -1} and 5 x 10{sup 5} M{sup -1} s{sup -1}, respectively. The apoenzyme was prepared and reconstituted with Fe{sup 2+}, Zn{sup 2+}, or Mn{sup 2+}. In each case, two enzyme equivalents of metal were necessary for reconstitution of the deaminase activity. This work provides the first example of any member of the deaminase subfamily of the amidohydrolase superfamily to utilize a binuclear metal center for the catalysis of a deamination reaction. [Fe{sup II}/Fe{sup II}]-ADE was oxidized to [Fe{sup III}/Fe{sup III}]-ADE with ferricyanide with inactivation of the deaminase activity. Reducing [Fe{sup III}/Fe{sup III}]-ADE with dithionite restored the deaminase activity, and thus, the diferrous form of the enzyme is essential for catalytic activity. No evidence of spin coupling between metal ions was evident by electron paramagnetic resonance or Moessbauer spectroscopy. The three-dimensional structure of adenine deaminase from Agrobacterium tumefaciens (Atu4426) was determined by X-ray crystallography at 2.2 {angstrom} resolution, and adenine was modeled into the active site on the basis of homology to other members of the amidohydrolase superfamily. On the basis of the model of the adenine-ADE complex and subsequent mutagenesis experiments, the roles for each of the highly conserved residues were proposed. Solvent isotope effects, pH-rate profiles, and solvent viscosity were utilized to propose a chemical reaction mechanism and the

  16. THE THREE-DIMENSIONAL STRUCTURE OF THE SMALL MAGELLANIC CLOUD

    International Nuclear Information System (INIS)

    Subramanian, Smitha; Subramaniam, Annapurni

    2012-01-01

    The three-dimensional structure of the inner Small Magellanic Cloud (SMC) is investigated using the red clump (RC) stars and the RR Lyrae stars (RRLS), which represent the intermediate-age and the old stellar populations of a galaxy. The V- and I-band photometric data from the OGLE III catalog are used for our study. The mean dereddened I 0 magnitude of the RC stars and the RRLS are used to study the relative positions of the different regions in the SMC with respect to the mean SMC distance. This shows that the northeastern part of the SMC is closer to us. The line-of-sight depth (front to back distance) across the SMC is estimated using the dispersion in the I 0 magnitudes of both the RC stars and the RRLS and found to be large (∼14 kpc) for both populations. The similarity in their depth distribution suggests that both of these populations occupy a similar volume of the SMC. The surface density distribution and the radial density profile of the RC stars suggest that they are more likely to be distributed in a nearly spheroidal system. The tidal radius estimated for the SMC system is ∼7-12 kpc. An elongation along the NE-SW direction is seen in the surface density map of the RC stars. The surface density distribution of the RRLS in the SMC is nearly circular. Based on all of the above results the observed structure of the SMC, in which both the RC stars and RRLS are distributed, is approximated as a triaxial ellipsoid. The parameters of the ellipsoid are obtained using the inertia tensor analysis. We estimated the axes ratio, inclination of the longest axis with the line of sight (i), and the position angle (φ) of the longest axis of the ellipsoid on the sky from the analysis of the RRLS. The analysis of the RC stars with the assumption that they are extended up to a depth of 3.5 times the sigma (width of dereddened I 0 magnitude distribution, corrected for intrinsic spread and observational errors) was also found to give similar axes ratio and orientation

  17. The Three-dimensional Structure of the Small Magellanic Cloud

    Science.gov (United States)

    Subramanian, Smitha; Subramaniam, Annapurni

    2012-01-01

    The three-dimensional structure of the inner Small Magellanic Cloud (SMC) is investigated using the red clump (RC) stars and the RR Lyrae stars (RRLS), which represent the intermediate-age and the old stellar populations of a galaxy. The V- and I-band photometric data from the OGLE III catalog are used for our study. The mean dereddened I 0 magnitude of the RC stars and the RRLS are used to study the relative positions of the different regions in the SMC with respect to the mean SMC distance. This shows that the northeastern part of the SMC is closer to us. The line-of-sight depth (front to back distance) across the SMC is estimated using the dispersion in the I 0 magnitudes of both the RC stars and the RRLS and found to be large (~14 kpc) for both populations. The similarity in their depth distribution suggests that both of these populations occupy a similar volume of the SMC. The surface density distribution and the radial density profile of the RC stars suggest that they are more likely to be distributed in a nearly spheroidal system. The tidal radius estimated for the SMC system is ~7-12 kpc. An elongation along the NE-SW direction is seen in the surface density map of the RC stars. The surface density distribution of the RRLS in the SMC is nearly circular. Based on all of the above results the observed structure of the SMC, in which both the RC stars and RRLS are distributed, is approximated as a triaxial ellipsoid. The parameters of the ellipsoid are obtained using the inertia tensor analysis. We estimated the axes ratio, inclination of the longest axis with the line of sight (i), and the position angle (phi) of the longest axis of the ellipsoid on the sky from the analysis of the RRLS. The analysis of the RC stars with the assumption that they are extended up to a depth of 3.5 times the sigma (width of dereddened I 0 magnitude distribution, corrected for intrinsic spread and observational errors) was also found to give similar axes ratio and orientation

  18. Manufacturing of Three-dimensional Micro Structure Using Proton Beam

    Energy Technology Data Exchange (ETDEWEB)

    Lee, Suonggyu; Kwon, Wontae [Seoul University, Seoul (Korea, Republic of)

    2015-04-15

    The diameter of a proton beam emanating from the MC-50 cyclotron is about 2?3 mm with Gaussian distribution. This widely irradiated proton beam is not suitable for semiconductor etching, precise positioning, and micromachining, which require a small spot. In this study, a beam cutting method using a microhole is proposed as an economical alternative. We produced a microhole with aspect ratio, average diameter, and thickness of 428, 21 μm, and 9 mm, respectively, for cutting the proton beam. By using this high-aspect-ratio microhole, we conducted machinability tests on microstructures with sizes of tens of μm. Additionally, the results of simulation using GEANT4 and those of the actual experiment were compared and analyzed. The outcome confirmed the possibility of implementing a micro process technology for the fabrication of three-dimensional microstructures of 20 micron units using the MC-50 cyclotron with the microhole.

  19. THREE DIMENSIONAL CFD MODELLING OF FLOW STRUCTURE IN COMPOUND CHANNELS

    Directory of Open Access Journals (Sweden)

    Usman Ghani

    2010-10-01

    Full Text Available The computational modeling of three dimensional flows in a meandering compound channel has been performed in this research work. The flow calculations are performed by solving 3D steady state continuity and Reynolds averaged Navier-Stokes equations. The turbulence closure is approximated with standard - turbulence model. The model equations are solved numerically with a general purpose software package. A comprehensive validation of the simulated results against the experimental data and a demonstration that the software used in this study has matured enough for investigating practical engineering problems are the major contributions of this paper. The model was initially validated. This was achieved by computing streamwise point velocities at different depths of various sections and depth averaged velocities at three cross sections along the main channel and comparing these results with experimental data. After the validation of the model, predictions were made for different flow parameters including velocity contours at the surface, pressure distribution, turbulence intensity etc. The results gave an overall understanding of these flow variables in meandering channels. The simulation also established the good prediction capability of the standard - turbulence model for flows in compound channels.

  20. Three-dimensional structure of low-density nuclear matter

    International Nuclear Information System (INIS)

    Okamoto, Minoru; Maruyama, Toshiki; Yabana, Kazuhiro; Tatsumi, Toshitaka

    2012-01-01

    We numerically explore the pasta structures and properties of low-density nuclear matter without any assumption on the geometry. We observe conventional pasta structures, while a mixture of the pasta structures appears as a metastable state at some transient densities. We also discuss the lattice structure of droplets.

  1. Three-dimensional structure of low-density nuclear matter

    Energy Technology Data Exchange (ETDEWEB)

    Okamoto, Minoru, E-mail: okamoto@nucl.ph.tsukuba.ac.jp [Graduate School of Pure and Applied Science, University of Tsukuba, Tennoudai 1-1-1, Tsukuba, Ibaraki 305-8571 (Japan); Advanced Science Research Center, Japan Atomic Energy Agency, Shirakata Shirane 2-4, Tokai, Ibaraki 319-1195 (Japan); Maruyama, Toshiki, E-mail: maruyama.toshiki@jaea.go.jp [Advanced Science Research Center, Japan Atomic Energy Agency, Shirakata Shirane 2-4, Tokai, Ibaraki 319-1195 (Japan); Graduate School of Pure and Applied Science, University of Tsukuba, Tennoudai 1-1-1, Tsukuba, Ibaraki 305-8571 (Japan); Yabana, Kazuhiro, E-mail: yabana@nucl.ph.tsukuba.ac.jp [Graduate School of Pure and Applied Science, University of Tsukuba, Tennoudai 1-1-1, Tsukuba, Ibaraki 305-8571 (Japan); Center of Computational Sciences, University of Tsukuba, Tennoudai 1-1-1, Tsukuba, Ibaraki 305-8571 (Japan); Tatsumi, Toshitaka, E-mail: tatsumi@ruby.scphys.kyoto-u.ac.jp [Department of Physics, Kyoto University, Kyoto 606-8502 (Japan)

    2012-07-09

    We numerically explore the pasta structures and properties of low-density nuclear matter without any assumption on the geometry. We observe conventional pasta structures, while a mixture of the pasta structures appears as a metastable state at some transient densities. We also discuss the lattice structure of droplets.

  2. Three-dimensional (3D) printed endovascular simulation models: a feasibility study.

    Science.gov (United States)

    Mafeld, Sebastian; Nesbitt, Craig; McCaslin, James; Bagnall, Alan; Davey, Philip; Bose, Pentop; Williams, Rob

    2017-02-01

    Three-dimensional (3D) printing is a manufacturing process in which an object is created by specialist printers designed to print in additive layers to create a 3D object. Whilst there are initial promising medical applications of 3D printing, a lack of evidence to support its use remains a barrier for larger scale adoption into clinical practice. Endovascular virtual reality (VR) simulation plays an important role in the safe training of future endovascular practitioners, but existing VR models have disadvantages including cost and accessibility which could be addressed with 3D printing. This study sought to evaluate the feasibility of 3D printing an anatomically accurate human aorta for the purposes of endovascular training. A 3D printed model was successfully designed and printed and used for endovascular simulation. The stages of development and practical applications are described. Feedback from 96 physicians who answered a series of questions using a 5 point Likert scale is presented. Initial data supports the value of 3D printed endovascular models although further educational validation is required.

  3. Methods and devices for fabricating three-dimensional nanoscale structures

    Science.gov (United States)

    Rogers, John A.; Jeon, Seokwoo; Park, Jangung

    2010-04-27

    The present invention provides methods and devices for fabricating 3D structures and patterns of 3D structures on substrate surfaces, including symmetrical and asymmetrical patterns of 3D structures. Methods of the present invention provide a means of fabricating 3D structures having accurately selected physical dimensions, including lateral and vertical dimensions ranging from 10s of nanometers to 1000s of nanometers. In one aspect, methods are provided using a mask element comprising a conformable, elastomeric phase mask capable of establishing conformal contact with a radiation sensitive material undergoing photoprocessing. In another aspect, the temporal and/or spatial coherence of electromagnetic radiation using for photoprocessing is selected to fabricate complex structures having nanoscale features that do not extend entirely through the thickness of the structure fabricated.

  4. Automated and fast building of three-dimensional RNA structures.

    Science.gov (United States)

    Zhao, Yunjie; Huang, Yangyu; Gong, Zhou; Wang, Yanjie; Man, Jianfen; Xiao, Yi

    2012-01-01

    Building tertiary structures of non-coding RNA is required to understand their functions and design new molecules. Current algorithms of RNA tertiary structure prediction give satisfactory accuracy only for small size and simple topology and many of them need manual manipulation. Here, we present an automated and fast program, 3dRNA, for RNA tertiary structure prediction with reasonable accuracy for RNAs of larger size and complex topology.

  5. A method for fabricating a three-dimensional carbon structure

    DEFF Research Database (Denmark)

    2017-01-01

    by the packing density of the packed natural protein containing fibre structure (3) is obtained. The carbon structure (4) is well suited for use as a scaffold for tissue engineering, or for material for batteries, fuel cells, supercapacitors, sorbents for separation processes, gas storage, supports for many...

  6. Three-Dimensional Cellular Structures Enhanced By Shape Memory Alloys

    Science.gov (United States)

    Nathal, Michael V.; Krause, David L.; Wilmoth, Nathan G.; Bednarcyk, Brett A.; Baker, Eric H.

    2014-01-01

    This research effort explored lightweight structural concepts married with advanced smart materials to achieve a wide variety of benefits in airframe and engine components. Lattice block structures were cast from an aerospace structural titanium alloy Ti-6Al-4V and a NiTi shape memory alloy (SMA), and preliminary properties have been measured. A finite element-based modeling approach that can rapidly and accurately capture the deformation response of lattice architectures was developed. The Ti-6-4 and SMA material behavior was calibrated via experimental tests of ligaments machined from the lattice. Benchmark testing of complete lattice structures verified the main aspects of the model as well as demonstrated the advantages of the lattice structure. Shape memory behavior of a sample machined from a lattice block was also demonstrated.

  7. Evaluation of Three Dimensional Underground Structure at SAFOD Project

    International Nuclear Information System (INIS)

    Malin, Peter

    2014-01-01

    In the SAFOD project, the imaging of the fault zone was implemented using data acquired by a pilot hole array of a vertical depth of 2 km and then a main hole was drilled using these data. The trajectory of the main hole below vertical depth of 1.5 km was angled toward/through the fault zone up to a vertical depth of 3 km. An sensor array was located in the hole. As a result, the hypocenter locations of small earthquakes within the fault zone were determined with high accuracy (location error within 10 meters) and the location of the fault zone was able to be identified with high accuracy. Using this data, high resolution underground structure around the San Andreas fault zone was obtained. It was reported that this underground structure revealed the deep structure of the San Andreas Fault at the Parkfield site as well as the branch fault. (author)

  8. Three-dimensional hierarchical structures for fog harvesting.

    Science.gov (United States)

    Andrews, H G; Eccles, E A; Schofield, W C E; Badyal, J P S

    2011-04-05

    Conventional fog-harvesting mechanisms are effectively pseudo-2D surface phenomena in terms of water droplet-plant interactions. In the case of the Cotula fallax plant, a unique hierarchical 3D arrangement formed by its leaves and the fine hairs covering them has been found to underpin the collection and retention of water droplets on the foliage for extended periods of time. The mechanisms of water capture and release as a function of the surface 3D structure and chemistry have been identified. Of particular note is that water is retained throughout the entirety of the plant and held within the foliage itself (rather than in localized regions). Individual plant hairs form matlike structures capable of supporting water droplets; these hairs wrap around water droplets in a 3D fashion to secure them via a fine nanoscale groove structure that prevents them from easily falling to the ground.

  9. WHAMSE: a program for three-dimensional nonlinear structural dynamics

    International Nuclear Information System (INIS)

    Belytschko, T.; Tsay, C.S.

    1982-02-01

    WHAMSE is a computer program for the nonlinear, transient analysis of structures. The formulation includes both geometric and material nonlinearities, so problems with large displacements and elastic-plastic behavior can be treated. Explicit time integration is used, so the program is most suitable for implusive loads. Energy balance calculations are provided to check numerical stability. The mass matrix is lumped. A finite element format is used for the description of the problem geometry, so the program is quite versatile in treating complex engineering structures. The following elements are included: a triangular element for thin plates and shells, a beam element, a spring element and a rigid body. Mesh generation features are provided to simplify program input. Other features of the program are: (1) a restart capability; (2) a variety of output options, such as printer plots or CALCOMP plots of selected time histories, picture (snapshot) output, and CALCOMP plots of the undeformed and deformed structure

  10. Guide to Three Dimensional Structure and Motion Factorization

    CERN Document Server

    Wang, Guanghui

    2011-01-01

    The problem of structure and motion recovery from image sequences is an important theme in computer vision. Considerable progress has been made in this field during the past two decades, resulting in successful applications in robot navigation, augmented reality, industrial inspection, medical image analysis, and digital entertainment, among other areas. However, many of these methods work only for rigid objects and static scenes. The study of non-rigid structure from motion is not only of academic significance, but also has important practical applications in real-world, nonrigid or dynamic s

  11. Structurally Efficient Three-dimensional Metamaterials with Controllable Thermal Expansion

    Science.gov (United States)

    Xu, Hang; Pasini, Damiano

    2016-01-01

    The coefficient of thermal expansion (CTE) of architected materials, as opposed to that of conventional solids, can be tuned to zero by intentionally altering the geometry of their structural layout. Existing material architectures, however, achieve CTE tunability only with a sacrifice in structural efficiency, i.e. a drop in both their stiffness to mass ratio and strength to mass ratio. In this work, we elucidate how to resolve the trade-off between CTE tunability and structural efficiency and present a lightweight bi-material architecture that not only is stiffer and stronger than other 3D architected materials, but also has a highly tunable CTE. Via a combination of physical experiments on 3D fabricated prototypes and numeric simulations, we demonstrate how two distinct mechanisms of thermal expansion appearing in a tetrahedron, can be exploited in an Octet lattice to generate a large range of CTE values, including negative, zero, or positive, with no loss in structural efficiency. The novelty and simplicity of the proposed design as well as the ease in fabrication, make this bi-material architecture well-suited for a wide range of applications, including satellite antennas, space optical systems, precision instruments, thermal actuators, and MEMS. PMID:27721437

  12. Three-dimensional structure of Rubella virus factories

    International Nuclear Information System (INIS)

    Fontana, Juan; Lopez-Iglesias, Carmen; Tzeng, Wen-Ping; Frey, Teryl K.; Fernandez, Jose J.; Risco, Cristina

    2010-01-01

    Viral factories are complex structures in the infected cell where viruses compartmentalize their life cycle. Rubella virus (RUBV) assembles factories by recruitment of rough endoplasmic reticulum (RER), mitochondria and Golgi around modified lysosomes known as cytopathic vacuoles or CPVs. These organelles contain active replication complexes that transfer replicated RNA to assembly sites in Golgi membranes. We have studied the structure of RUBV factory in three dimensions by electron tomography and freeze-fracture. CPVs contain stacked membranes, rigid sheets, small vesicles and large vacuoles. These membranes are interconnected and in communication with the endocytic pathway since they incorporate endocytosed BSA-gold. RER and CPVs are coupled through protein bridges and closely apposed membranes. Golgi vesicles attach to the CPVs but no tight contacts with mitochondria were detected. Immunogold labelling confirmed that the mitochondrial protein p32 is an abundant component around and inside CPVs where it could play important roles in factory activities.

  13. Quantized fluctuational electrodynamics for three-dimensional plasmonic structures

    DEFF Research Database (Denmark)

    Partanen, Mikko; Häyrynen, Teppo; Tulkki, Jukka

    2017-01-01

    We recently introduced a quantized fluctuational electrodynamics (QFED) formalism that provides a physically insightful definition of an effective position-dependent photon-number operator and the associated ladder operators. However, this far the formalism has been applicable only for the normal...... formalism, we apply it to study the local steady-state photon numbers and field temperatures in a light-emitting near-surface InGaN quantum-well structure with a metallic coating supporting surface plasmons....

  14. MMIC Structures Based on A Three-Dimensional Model

    Directory of Open Access Journals (Sweden)

    R. Makri

    2002-01-01

    current distribution is also being taken into account in terms of incident, reflected and transferred waves. The derived matrix is being inverted and the obtained results are the unknown coefficients of the plane waves inside the ‘cells’ and also the reflection R and transfer T coefficients. The derived numerical results concern linear cases, while the examination of non-linear structures have been taken into account in the analytical formulation.

  15. Three dimensional analysis of coelacanth body structure by computer graphics and X-ray CT images

    International Nuclear Information System (INIS)

    Suzuki, Naoki; Hamada, Takashi.

    1990-01-01

    Three dimensional imaging processes were applied for the structural and functional analyses of the modern coelacanth (Latimeria chalumnae). Visualization of the obtained images is performed with computer graphics on the basis of serial images by an X-ray CT scanning method. Reconstruction of three dimensional images of the body structure of coelacanth using the volume rendering and surface rendering methods provides us various information about external and internal shapes of this exquisite fish. (author)

  16. Three-Dimensional Structure and Catalytic Mechanism of Cytosine Deaminase

    Energy Technology Data Exchange (ETDEWEB)

    R Hall; A Fedorov; C Xu; E Fedorov; S Almo; F Raushel

    2011-12-31

    Cytosine deaminase (CDA) from E. coli is a member of the amidohydrolase superfamily. The structure of the zinc-activated enzyme was determined in the presence of phosphonocytosine, a mimic of the tetrahedral reaction intermediate. This compound inhibits the deamination of cytosine with a K{sub i} of 52 nM. The zinc- and iron-containing enzymes were characterized to determine the effect of the divalent cations on activation of the hydrolytic water. Fe-CDA loses activity at low pH with a kinetic pKa of 6.0, and Zn-CDA has a kinetic pKa of 7.3. Mutation of Gln-156 decreased the catalytic activity by more than 5 orders of magnitude, supporting its role in substrate binding. Mutation of Glu-217, Asp-313, and His-246 significantly decreased catalytic activity supporting the role of these three residues in activation of the hydrolytic water molecule and facilitation of proton transfer reactions. A library of potential substrates was used to probe the structural determinants responsible for catalytic activity. CDA was able to catalyze the deamination of isocytosine and the hydrolysis of 3-oxauracil. Large inverse solvent isotope effects were obtained on k{sub cat} and k{sub cat}/K{sub m}, consistent with the formation of a low-barrier hydrogen bond during the conversion of cytosine to uracil. A chemical mechanism for substrate deamination by CDA was proposed.

  17. THREE-DIMENSIONAL DATA AND THE RECORDING OF MATERIAL STRUCTURE

    Directory of Open Access Journals (Sweden)

    R. Parenti

    2012-09-01

    Full Text Available The “description” of a material structure requires a high degree of objectivity to serve the scientific interests of certain disciplines (archeological documentation, conservation and restoration, safeguarding of cultural assets and heritage. Geometric data and photographic documentation of surfaces are thus the best instruments for efficacious, clear and objective recording of architectural objects and other anthropic manifestations. In particular, the completeness and diachrony of photographic documentation has always proven essential in recording the material structure of historical buildings.The aim of our contribution is to show the results of several projects carried out with the aid of survey methodologies that utilize digital photographic images to generate RGB (ZScan point clouds of architectural monuments (urban standing buildings, monuments in archaeological areas, etc. and art objects. These technologies allow us to capture data using digital photogrammetric techniques; although not based on laser scanners, they can nonetheless create dense 3D point clouds, simply by using images that have been obtained via digital camera. The results are comparable to those achieved with laser scanner technology, although the procedures are simpler, faster and cheaper. We intend to try to adapt these technologies to the requirements and needs of scientific research and the conservation of cultural heritage. Furthermore, we will present protocols and procedures for data recording, processing and transfer in the cultural heritage field, especially with regard to historical buildings. Cooperation among experts from different disciplines (archaeology, engineering and photogrammetry will allow us to develop technologies and proposals for a widely adoptable workflow in the application of such technologies, in order to build an integrated system that can be used throughout the scientific community. Toward this end, open formats and integration will be

  18. Filamentary structure of a three-dimensional plasmoid

    International Nuclear Information System (INIS)

    Birn, J.; Hesse, M.; Schindler, K.

    1989-01-01

    We have examined the changes of the magnetic field topology and the field line connections of a simple explicit magnetic field model of a plasmoid in different stages from its formation to its complete disconnection from the Earth. Particular emphasis was on the effects of a net cross-tail magnetic field component that breaks the symmetry around the neutral sheet. We find, consistent with the qualititative conclusions of Hughes and Sibeck (1987), that the initial stage of the plasmoid formation is characterized by the formation of helical field lines which cross the neutral sheet typically more than once, but are still connected with the Earth, so that no topology change occurs. In that case a nontopological notion of reconnection is required (Schindler et al., 1988). When reconnection proceeds to lobe field lines, the central plasmoid flux rope becomes enveloped by a sheath of open field lines that pull the plasmoid flux rope back toward the tail. The period of gradual separation of the plasmoid is characterized by a conversion through magnetic reconnection, of helical field lines connected with the Earth to open ones going tailward into interplanetary space. The detailed tracing of magnetic field lines reveals that the structure of the plasmoid region is more complicated than was earlier envisioned. We find that plasmoid field lines no longer form a separate class of field lines as in the symmetric case. During the stage of gradual separation from the Earth the plasmoid is characterized by the central flux rope connected with the Earth which is wrapped by strands of open, partially open, and closed field lines in a filamentary way forming a layer of intermingled flux tubes of different types inside the earlier mentioned sheath of open field lines

  19. Continuum modeling of three-dimensional truss-like space structures

    Science.gov (United States)

    Nayfeh, A. H.; Hefzy, M. S.

    1978-01-01

    A mathematical and computational analysis capability has been developed for calculating the effective mechanical properties of three-dimensional periodic truss-like structures. Two models are studied in detail. The first, called the octetruss model, is a three-dimensional extension of a two-dimensional model, and the second is a cubic model. Symmetry considerations are employed as a first step to show that the specific octetruss model has four independent constants and that the cubic model has two. The actual values of these constants are determined by averaging the contributions of each rod element to the overall structure stiffness. The individual rod member contribution to the overall stiffness is obtained by a three-dimensional coordinate transformation. The analysis shows that the effective three-dimensional elastic properties of both models are relatively close to each other.

  20. Feasibility of wall stress analysis of abdominal aortic aneurysms using three-dimensional ultrasound.

    Science.gov (United States)

    Kok, Annette M; Nguyen, V Lai; Speelman, Lambert; Brands, Peter J; Schurink, Geert-Willem H; van de Vosse, Frans N; Lopata, Richard G P

    2015-05-01

    Abdominal aortic aneurysms (AAAs) are local dilations that can lead to a fatal hemorrhage when ruptured. Wall stress analysis of AAAs is a novel tool that has proven high potential to improve risk stratification. Currently, wall stress analysis of AAAs is based on computed tomography (CT) and magnetic resonance imaging; however, three-dimensional (3D) ultrasound (US) has great advantages over CT and magnetic resonance imaging in terms of costs, speed, and lack of radiation. In this study, the feasibility of 3D US as input for wall stress analysis is investigated. Second, 3D US-based wall stress analysis was compared with CT-based results. The 3D US and CT data were acquired in 12 patients (diameter, 35-90 mm). US data were segmented manually and compared with automatically acquired CT geometries by calculating the similarity index and Hausdorff distance. Wall stresses were simulated at P = 140 mm Hg and compared between both modalities. The similarity index of US vs CT was 0.75 to 0.91 (n = 12), with a median Hausdorff distance ranging from 4.8 to 13.9 mm, with the higher values found at the proximal and distal sides of the AAA. Wall stresses were in accordance with literature, and a good agreement was found between US- and CT-based median stresses and interquartile stresses, which was confirmed by Bland-Altman and regression analysis (n = 8). Wall stresses based on US were typically higher (+23%), caused by geometric irregularities due to the registration of several 3D volumes and manual segmentation. In future work, an automated US registration and segmentation approach is the essential point of improvement before pursuing large-scale patient studies. This study is a first step toward US-based wall stress analysis, which would be the modality of choice to monitor wall stress development over time because no ionizing radiation and contrast material are involved. Copyright © 2015 Society for Vascular Surgery. Published by Elsevier Inc. All rights reserved.

  1. MgB2 thick films on three-dimensional structures fabricated by HPCVD

    Science.gov (United States)

    Guo, Zhengshan; Cai, Xingwei; Liao, Xuebin; Chen, Yiling; Yang, Can; Niu, Ruirui; Luo, Wenhao; Huang, Zigeng; Feng, Qingrong; Gan, Zizhao

    2018-06-01

    Magnetic shielding has been a key factor in the measurement of ultra-weak magnetic fields, especially for shielding from low frequency electromagnetic noise. With the recent development of superconducting quantum interference devices, superconducting magnetic shielding has become an important area of research. MgB2 has shown great potential in magnetic shielding for its remarkable superconducting properties, the feasibility of its use in this capacity having been demonstrated by MgB2 bulk samples. However, the potential for application of such bulk samples is limited. In this work, we have investigated the possibility of the fabrication of MgB2 films on three-dimensional (3D) structures using a hybrid physical‑chemical vapor deposition system. MgB2 films 10 μm thick have been fabricated on the outer surface of a polycrystalline Al2O3 cylinder. The deposited film showed a transition temperature (TC) of 39 K and J C of 5.1 × 105 A · cm‑2, which are comparable to those of planar MgB2 films. This work shows the feasibility of depositing MgB2 films onto a 3D structure, and sheds light on the potential use of MgB2 films in superconducting magnetic shielding.

  2. Preoperative cerebral aneurysm assessment by three-dimensional CT angiography. Feasibility of surgery without cerebral angiography

    International Nuclear Information System (INIS)

    Kashiwagi, Shiro; Yamashita, Katsuhiro; Kato, Shoichi; Ito, Haruhide; Kurokawa, Kensuke; Watanabe, Yutaka

    1999-01-01

    The purpose of this study is to assess the capability of three-dimensional CT angiography (3D-CTA) to replace conventional catheter angiography as a preoperative examination for unruptured intracranial aneurysms. A prospective study was designed to evaluate 18 patients with 20 unruptured intracranial aneurysms (13 middle cerebral artery aneurysms, 6 anterior communicating artery aneurysms, and 1 internal carotid posterior communicating artery aneurysm) who underwent surgery. There were 12 women and 6 men with the average age of 63 years old. All patients were initially diagnosed as having intracranial aneurysms by MR angiography, followed by 3D-CTA and conventional catheter angiography for confirmation. Three experienced neurosurgeons were in charge of the operations. One of the neurosurgeons (surgeon 1) was provided with only 3D-CTA as the preoperative radiological evaluation, while the others (surgeon 2 and 3) were given through assessments with MRA, 3D-CTA, and conventional angiography. Surgeon 1 carried out the operations under careful observation by the surgeons 2 and 3. Problems encountered by the surgeon 1 during surgery were recorded. Neck clipping in 19 aneurysms and dome wrapping in 1 were successfully accomplished. All patients were discharged without complication. Surgeries went smoothly in 16 aneurysms with 3D-CTA alone. Discrepancies between the 3D-CTA findings and microsurgical anatomy were noted in 4 aneurysms: the size of the neck was overestimated in 3 aneurysms, the relationships to parent arteries were obscure in 2 aneurysms, and a perforating artery problematic to neck clipping was missed in 1 aneurysms by 3D-CTA. The results of this study support the notion that 3D-CTA can replace conventional catheter angiography as preoperative examination in the majority of regular-sized anterior circulation aneurysms. Nevertheless, surgeons should recognize and be prepared for the fact that 3D-CTA can give false impression about the aneurysm neck and

  3. Dynamic Three-Dimensional Geometry of the Aortic Valve Apparatus-A Feasibility Study

    NARCIS (Netherlands)

    Khamooshian, Arash; Amador, Yannis; Hai, Ting; Jeganathan, Jelliffe; Saraf, Maria; Mahmood, Eitezaz; Matyal, Robina; Khabbaz, Kamal R.; Mariani, Massimo; Mahmood, Feroze

    OBJECTIVE: To provide (1) an overview of the aortic valve (AV) apparatus anatomy and nomenclature, and (2) data regarding the normal AV apparatus geometry and dynamism during the cardiac cycle obtained from three-dimensional transesophageal echocardiography (3D TEE). DESIGN: Retrospective

  4. Three-dimensional structure of a pre-catalytic human spliceosomal complex B.

    Science.gov (United States)

    Boehringer, Daniel; Makarov, Evgeny M; Sander, Bjoern; Makarova, Olga V; Kastner, Berthold; Lührmann, Reinhard; Stark, Holger

    2004-05-01

    Major structural changes occur in the spliceosome during its transition from the fully assembled complex B to the catalytically activated spliceosome. To understand the rearrangement, it is necessary to know the detailed three-dimensional structures of these complexes. Here, we have immunoaffinity-purified human spliceosomes (designated B Delta U1) at a stage after U4/U6.U5 tri-snRNP integration but before activation, and have determined the three-dimensional structure of B Delta U1 by single-particle electron cryomicroscopy at a resolution of approximately 40 A. The overall size of the complex is about 370 x 270 x 170 A. The three-dimensional structure features a roughly triangular body linked to a head domain in variable orientations. The body is very similar in size and shape to the isolated U4/U6.U5 tri-snRNP. This provides initial insight into the structural organization of complex B.

  5. Clinical assessment of hypopharyngeal and laryngeal disorders by three-dimensional multidetector-row CT. Feasibility of imaging during phonation

    International Nuclear Information System (INIS)

    Tan, Xiaotian

    2002-01-01

    The hypopharynx and larynx can adapt their structures to physiological functions. To clarify the relation between morphologic changes and the development of pharyngeal and laryngeal disorders, images of the hypopharynx and larynx were obtained by multidetector-row CT (MD-CT) during phonation and quiet breathing. The clinical usefulness of such imaging study was assessed by comparing the images taken in the two phases. The study included 23 subjects, 20 patients with a hypopharyngeal or laryngeal disorder and 3 healthy volunteers. MD-CT scanning of the hypopharynx and larynx was not influenced by breathing and body movement. The volume rendering (VR) method was useful in that three-dimensional imaging could visualize the internal structure of the hypopharynx and larynx. Thus, the volume rendering method can be regarded as a virtual three-dimensional method. The normal anatomic structure of the hypopharynx and larynx were depicted in full and three-dimensionally. The extent of hypopharyngeal and laryngeal cancer was shown clearly. Edema due to paralysis of recurrent nerve was demonstrated in full and three-dimensionally, providing for functional diagnosis. In the case of mucosal edema caused by trauma, the extent of the edema and its effect on the airway were clearly observed. These results suggest that MD-CT with three-dimensional imaging during phonation is useful in the diagnosis of hypopharyngeal and laryngeal disorders. (author)

  6. Three-dimensional electron diffraction as a complementary technique to powder X-ray diffraction for phase identification and structure solution of powders.

    Science.gov (United States)

    Yun, Yifeng; Zou, Xiaodong; Hovmöller, Sven; Wan, Wei

    2015-03-01

    Phase identification and structure determination are important and widely used techniques in chemistry, physics and materials science. Recently, two methods for automated three-dimensional electron diffraction (ED) data collection, namely automated diffraction tomography (ADT) and rotation electron diffraction (RED), have been developed. Compared with X-ray diffraction (XRD) and two-dimensional zonal ED, three-dimensional ED methods have many advantages in identifying phases and determining unknown structures. Almost complete three-dimensional ED data can be collected using the ADT and RED methods. Since each ED pattern is usually measured off the zone axes by three-dimensional ED methods, dynamic effects are much reduced compared with zonal ED patterns. Data collection is easy and fast, and can start at any arbitrary orientation of the crystal, which facilitates automation. Three-dimensional ED is a powerful technique for structure identification and structure solution from individual nano- or micron-sized particles, while powder X-ray diffraction (PXRD) provides information from all phases present in a sample. ED suffers from dynamic scattering, while PXRD data are kinematic. Three-dimensional ED methods and PXRD are complementary and their combinations are promising for studying multiphase samples and complicated crystal structures. Here, two three-dimensional ED methods, ADT and RED, are described. Examples are given of combinations of three-dimensional ED methods and PXRD for phase identification and structure determination over a large number of different materials, from Ni-Se-O-Cl crystals, zeolites, germanates, metal-organic frameworks and organic compounds to intermetallics with modulated structures. It is shown that three-dimensional ED is now as feasible as X-ray diffraction for phase identification and structure solution, but still needs further development in order to be as accurate as X-ray diffraction. It is expected that three-dimensional ED methods

  7. Three-dimensional electron diffraction as a complementary technique to powder X-ray diffraction for phase identification and structure solution of powders

    Directory of Open Access Journals (Sweden)

    Yifeng Yun

    2015-03-01

    Full Text Available Phase identification and structure determination are important and widely used techniques in chemistry, physics and materials science. Recently, two methods for automated three-dimensional electron diffraction (ED data collection, namely automated diffraction tomography (ADT and rotation electron diffraction (RED, have been developed. Compared with X-ray diffraction (XRD and two-dimensional zonal ED, three-dimensional ED methods have many advantages in identifying phases and determining unknown structures. Almost complete three-dimensional ED data can be collected using the ADT and RED methods. Since each ED pattern is usually measured off the zone axes by three-dimensional ED methods, dynamic effects are much reduced compared with zonal ED patterns. Data collection is easy and fast, and can start at any arbitrary orientation of the crystal, which facilitates automation. Three-dimensional ED is a powerful technique for structure identification and structure solution from individual nano- or micron-sized particles, while powder X-ray diffraction (PXRD provides information from all phases present in a sample. ED suffers from dynamic scattering, while PXRD data are kinematic. Three-dimensional ED methods and PXRD are complementary and their combinations are promising for studying multiphase samples and complicated crystal structures. Here, two three-dimensional ED methods, ADT and RED, are described. Examples are given of combinations of three-dimensional ED methods and PXRD for phase identification and structure determination over a large number of different materials, from Ni–Se–O–Cl crystals, zeolites, germanates, metal–organic frameworks and organic compounds to intermetallics with modulated structures. It is shown that three-dimensional ED is now as feasible as X-ray diffraction for phase identification and structure solution, but still needs further development in order to be as accurate as X-ray diffraction. It is expected that three-dimensional

  8. Stress intensity factor analyses of surface cracks in three-dimensional structures

    International Nuclear Information System (INIS)

    Miyazaki, Noriyuki; Shibata, Katsuyuki; Watanabe, Takayuki; Tagata, Kazunori.

    1983-11-01

    The stress intensity factor analyses of surface cracks in various three-dimensional structures were performed using the finite element computer program EPAS-J1. The results obtained by EPAS-J1 were compared with other finite element solutions or results obtained by the simplified estimation methods. Among the simplified estimation methods, the equations proposed by Newman and Raju give the distributions of the stress intensity factor along a crack front, which were compared with the result obtained by EPAS-J1. It was confirmed by comparing the results that EPAS-J1 gives reasonable stress intensity factors of surface cracks in three-dimensional structures. (author)

  9. The Effect of Three-Dimensional Simulations on the Understanding of Chemical Structures and Their Properties

    Science.gov (United States)

    Urhahne, Detlef; Nick, Sabine; Schanze, Sascha

    2009-08-01

    In a series of three experimental studies, the effectiveness of three-dimensional computer simulations to aid the understanding of chemical structures and their properties was investigated. Arguments for the usefulness of three-dimensional simulations were derived from Mayer’s generative theory of multimedia learning. Simulations might lead to a decrease in cognitive load and thus support active learning. In our studies, the learning effectiveness of three-dimensional simulations was compared to two-dimensional illustrations by use of different versions of a computer programme concerning the modifications of carbon. The first and third study with freshman students of chemistry and biochemistry show that no more knowledge was acquired when participants learnt with three-dimensional simulations than with two-dimensional figures. In the second study with 16-year old secondary school students, use of simulations facilitated the acquisition of conceptual knowledge. It was concluded that three-dimensional simulations are more effective for younger students who lack the experience of learning with different visual representation formats in chemistry. In all three studies, a significant relationship between spatial ability and conceptual knowledge about the modifications of carbon was detected.

  10. Three-dimensional submodel for modelling of joints in precast concrete structures

    DEFF Research Database (Denmark)

    Herfelt, Morten Andersen; Poulsen, Peter Noe; Hoang, Linh Cao

    2016-01-01

    The shear capacity of in-situ cast joints is crucial to the overall stability of precast concrete structures. The current design is based on empirical formulas, which account for neither the reinforcement layout of the joint nor the three-dimensional stress states present within the joint...

  11. Selective SiO2 etching in three dimensional structures using parylene-C as mask

    NARCIS (Netherlands)

    Veltkamp, Henk-Willem; Zhao, Yiyuan; de Boer, Meint J.; Wiegerink, Remco J.; Lötters, Joost Conrad

    2017-01-01

    This abstract describes an application of an easy and straightforward method for selective SiO2 etching in three dimensional structures, which is developed by our group. The application in this abstract is the protection of the buried-oxide (BOX) layer of a silicon-on-insulator (SOI) wafer against

  12. Semiconductor Three-Dimensional Photonic Crystals with Novel Layer-by-Layer Structures

    Directory of Open Access Journals (Sweden)

    Satoshi Iwamoto

    2016-05-01

    Full Text Available Three-dimensional photonic crystals (3D PhCs are a fascinating platform for manipulating photons and controlling their interactions with matter. One widely investigated structure is the layer-by-layer woodpile structure, which possesses a complete photonic bandgap. On the other hand, other types of 3D PhC structures also offer various possibilities for controlling light by utilizing the three dimensional nature of structures. In this article, we discuss our recent research into novel types of layer-by-layer structures, including the experimental demonstration of a 3D PhC nanocavity formed in a <110>-layered diamond structure and the realization of artificial optical activity in rotationally stacked woodpile structures.

  13. Development of Three-Dimensional Dental Scanning Apparatus Using Structured Illumination

    OpenAIRE

    Ahn, Jae Sung; Park, Anjin; Kim, Ju Wan; Lee, Byeong Ha; Eom, Joo Beom

    2017-01-01

    We demonstrated a three-dimensional (3D) dental scanning apparatus based on structured illumination. A liquid lens was used for tuning focus and a piezomotor stage was used for the shift of structured light. A simple algorithm, which detects intensity modulation, was used to perform optical sectioning with structured illumination. We reconstructed a 3D point cloud, which represents the 3D coordinates of the digitized surface of a dental gypsum cast by piling up sectioned images. We performed ...

  14. Direct Linear System Identification Method for Multistory Three-dimensional Building Structure with General Eccentricity

    OpenAIRE

    Shintani, Kenichirou; Yoshitomi, Shinta; Takewaki, Izuru

    2017-01-01

    A method of physical parameter system identification (SI) is proposed here for three-dimensional (3D) building structures with in-plane rigid floors in which the stiffness and damping coefficients of each structural frame in the 3D building structure are identified from the measured floor horizontal accelerations. A batch processing least-squares estimation method for many discrete time domain measured data is proposed for the direct identification of the stiffness and damping coefficients of...

  15. Three-dimensional detonation cellular structures in rectangular ducts using an improved CESE scheme

    KAUST Repository

    Shen, Yang

    2016-11-01

    The three-dimensional premixed H2-O2 detonation propagation in rectangular ducts is simulated using an in-house parallel detonation code based on the second-order space–time conservation element and solution element (CE/SE) scheme. The simulation reproduces three typical cellular structures by setting appropriate cross-sectional size and initial perturbation in square tubes. As the cross-sectional size decreases, critical cellular structures transforming the rectangular or diagonal mode into the spinning mode are obtained and discussed in the perspective of phase variation as well as decreasing of triple point lines. Furthermore, multiple cellular structures are observed through examples with typical aspect ratios. Utilizing the visualization of detailed three-dimensional structures, their formation mechanism is further analyzed.

  16. Three-dimensional detonation cellular structures in rectangular ducts using an improved CESE scheme

    International Nuclear Information System (INIS)

    Shen Yang; Liu Kai-Xin; Chen Pu; Shen Hua; Zhang De-Liang

    2016-01-01

    The three-dimensional premixed H 2 -O 2 detonation propagation in rectangular ducts is simulated using an in-house parallel detonation code based on the second-order space–time conservation element and solution element (CE/SE) scheme. The simulation reproduces three typical cellular structures by setting appropriate cross-sectional size and initial perturbation in square tubes. As the cross-sectional size decreases, critical cellular structures transforming the rectangular or diagonal mode into the spinning mode are obtained and discussed in the perspective of phase variation as well as decreasing of triple point lines. Furthermore, multiple cellular structures are observed through examples with typical aspect ratios. Utilizing the visualization of detailed three-dimensional structures, their formation mechanism is further analyzed. (paper)

  17. Three-dimensional detonation cellular structures in rectangular ducts using an improved CESE scheme

    KAUST Repository

    Shen, Yang; Shen, Hua; Liu, Kai Xin; Chen, Pu; Zhang, De Liang

    2016-01-01

    The three-dimensional premixed H2-O2 detonation propagation in rectangular ducts is simulated using an in-house parallel detonation code based on the second-order space–time conservation element and solution element (CE/SE) scheme. The simulation reproduces three typical cellular structures by setting appropriate cross-sectional size and initial perturbation in square tubes. As the cross-sectional size decreases, critical cellular structures transforming the rectangular or diagonal mode into the spinning mode are obtained and discussed in the perspective of phase variation as well as decreasing of triple point lines. Furthermore, multiple cellular structures are observed through examples with typical aspect ratios. Utilizing the visualization of detailed three-dimensional structures, their formation mechanism is further analyzed.

  18. The crystal structures of three pyrazine-2,5-dicarboxamides: three-dimensional supramolecular structures

    Directory of Open Access Journals (Sweden)

    Dilovan S. Cati

    2017-05-01

    Full Text Available The complete molecules of the title compounds, N2,N5-bis(pyridin-2-ylmethylpyrazine-2,5-dicarboxamide, C18H16N6O2 (I, 3,6-dimethyl-N2,N5-bis(pyridin-2-ylmethylpyrazine-2,5-dicarboxamide, C20H20N6O2 (II, and N2,N5-bis(pyridin-4-ylmethylpyrazine-2,5-dicarboxamide, C18H16N6O2 (III, are generated by inversion symmetry, with the pyrazine rings being located about centres of inversion. Each molecule has an extended conformation with the pyridine rings inclined to the pyrazine ring by 89.17 (7° in (I, 75.83 (8° in (II and by 82.71 (6° in (III. In the crystal of (I, molecules are linked by N—H...N hydrogen bonds, forming layers lying parallel to the bc plane. The layers are linked by C—H...O hydrogen bonds, forming a three-dimensional supramolecular structure. In the crystal of (II, molecules are also linked by N—H...N hydrogen bonds, forming layers lying parallel to the (10-1 plane. As in (I, the layers are linked by C—H...O hydrogen bonds, forming a three-dimensional supramolecular structure. In the crystal of (III, molecules are again linked by N—H...N hydrogen bonds, but here form corrugated sheets lying parallel to the bc plane. Within the sheets, neighbouring pyridine rings are linked by offset π–π interactions [intercentroid distance = 3.739 (1 Å]. The sheets are linked by C—H...O hydrogen bonds, forming a three-dimensional supramolecular structure. Compound (I crystallizes in the monoclinic space group P21/c. Another monoclinic polymorph, space group C2/c, has been reported on by Cockriel et al. [Inorg. Chem. Commun. (2008, 11, 1–4]. The molecular structures of the two polymorphs are compared.

  19. High resolution three-dimensional robotic synthetic tracked aperture ultrasound imaging: feasibility study

    Science.gov (United States)

    Zhang, Haichong K.; Fang, Ting Yun; Finocchi, Rodolfo; Boctor, Emad M.

    2017-03-01

    Three dimensional (3D) ultrasound imaging is becoming a standard mode for medical ultrasound diagnoses. Conventional 3D ultrasound imaging is mostly scanned either by using a two dimensional matrix array or by motorizing a one dimensional array in the elevation direction. However, the former system is not widely assessable due to its cost, and the latter one has limited resolution and field-of-view in the elevation axis. Here, we propose a 3D ultrasound imaging system based on the synthetic tracked aperture approach, in which a robotic arm is used to provide accurate tracking and motion. While the ultrasound probe is moved by a robotic arm, each probe position is tracked and can be used to reconstruct a wider field-of-view as there are no physical barriers that restrict the elevational scanning. At the same time, synthetic aperture beamforming provides a better resolution in the elevation axis. To synthesize the elevational information, the single focal point is regarded as the virtual element, and forward and backward delay-andsum are applied to the radio-frequency (RF) data collected through the volume. The concept is experimentally validated using a general ultrasound phantom, and the elevational resolution improvement of 2.54 and 2.13 times was measured at the target depths of 20 mm and 110 mm, respectively.

  20. A Three-Dimensional Enormous Surface Area Aluminum Microneedle Array with Nanoporous Structure

    OpenAIRE

    Chen, Po Chun; Hsieh, Sheng Jen; Chen, Chien Chon; Zou, Jun

    2013-01-01

    We proposed fabricating an aluminum microneedle array with a nanochannel structure on the surface by combining micromachining, electrolyte polishing, and anodization methods. The microneedle array provides a three-dimensional (3D) structure that possesses several hundred times more surface area than a traditional nanochannel template. Therefore, the microneedle array can potentially be used in many technology applications. This 3D microneedle array device can not only be used for painless inj...

  1. Optical Fiber/Nanowire Hybrid Structures for Efficient Three-Dimensional Dye-Sensitized Solar Cells

    KAUST Repository

    Weintraub, Benjamin

    2009-11-09

    Wired up: The energy conversion efficiency of three-dimensional dye-sensitized solar cells (DSSCs) in a hybrid structure that integrates optical fibers and nanowire arrays is greater than that of a two-dimensional device. Internal axial illumination enhances the energy conversion efficiency of a rectangular fiber-based hybrid structure (see picture) by a factor of up to six compared to light illumination normal to the fiber axis from outside the device.

  2. Manipulation of fluids in three-dimensional porous photonic structures with patterned surface properties

    Energy Technology Data Exchange (ETDEWEB)

    Aizenberg, Joanna; Burgess, Ian; Mishchenko, Lidiya; Hatton, Benjamin; Loncar, Marko

    2017-12-26

    A three-dimensional porous photonic structure, whose internal pore surfaces can be provided with desired surface properties in a spatially selective manner with arbitrary patterns, and methods for making the same are described. When exposed to a fluid (e.g., via immersion or wicking), the fluid can selectively penetrate the regions of the structure with compatible surface properties. Broad applications, for example in security, encryption and document authentication, as well as in areas such as simple microfluidics and diagnostics, are anticipated.

  3. Three Dimensional Response Spectrum Soil Structure Modeling Versus Conceptual Understanding To Illustrate Seismic Response Of Structures

    International Nuclear Information System (INIS)

    Touqan, Abdul Razzaq

    2008-01-01

    Present methods of analysis and mathematical modeling contain so many assumptions that separate them from reality and thus represent a defect in design which makes it difficult to analyze reasons of failure. Three dimensional (3D) modeling is so superior to 1D or 2D modeling, static analysis deviates from the true nature of earthquake load which is ''a dynamic punch'', and conflicting assumptions exist between structural engineers (who assume flexible structures on rigid block foundations) and geotechnical engineers (who assume flexible foundations supporting rigid structures). Thus a 3D dynamic soil-structure interaction is a step that removes many of the assumptions and thus clears reality to a greater extent. However such a model cannot be analytically analyzed. We need to anatomize and analogize it. The paper will represent a conceptual (analogical) 1D model for soil structure interaction and clarifies it by comparing its outcome with 3D dynamic soil-structure finite element analysis of two structures. The aim is to focus on how to calculate the period of the structure and to investigate effect of variation of stiffness on soil-structure interaction

  4. From Two- to Three-Dimensional Structures of a Supertetrahedral Boran Using Density Functional Calculations.

    Science.gov (United States)

    Getmanskii, Iliya V; Minyaev, Ruslan M; Steglenko, Dmitrii V; Koval, Vitaliy V; Zaitsev, Stanislav A; Minkin, Vladimir I

    2017-08-14

    With help of the DFT calculations and imposing of periodic boundary conditions the geometrical and electronic structures were investigated of two- and three-dimensional boron systems designed on the basis of graphane and diamond lattices in which carbons were replaced with boron tetrahedrons. The consequent studies of two- and three-layer systems resulted in the construction of a three-dimensional supertetrahedral borane crystal structure. The two-dimensional supertetrahedral borane structures with less than seven layers are dynamically unstable. At the same time the three-dimensional superborane systems were found to be dynamically stable. Lack of the forbidden electronic zone for the studied boron systems testifies that these structures can behave as good conductors. The low density of the supertetrahedral borane crystal structures (0.9 g cm -3 ) is close to that of water, which offers the perspective for their application as aerospace and cosmic materials. © 2017 The Authors. Published by Wiley-VCH Verlag GmbH & Co. KGaA.

  5. Three-dimensional C-arm CT-guided transjugular intrahepatic portosystemic shunt placement: Feasibility, technical success and procedural time

    Energy Technology Data Exchange (ETDEWEB)

    Ketelsen, Dominik; Groezinger, Gerd; Maurer, Michael; Grosse, Ulrich; Horger, Marius; Nikolaou, Konstantin; Syha, Roland [University of Tuebingen, Department of Diagnostic and Interventional Radiology, Tuebingen (Germany); Lauer, Ulrich M. [University of Tuebingen, Internal Medicine I, Department of Gastroenterology, Hepatology and Infectious disease, Tuebingen (Germany)

    2016-12-15

    Establishment of transjugular intrahepatic portosystemic shunts (TIPS) constitutes a standard procedure in patients suffering from portal hypertension. The most difficult step in TIPS placement is blind puncture of the portal vein. This study aimed to evaluate three-dimensional mapping of portal vein branches and targeted puncture of the portal vein. Twelve consecutive patients suffering from refractory ascites by liver cirrhosis were included in this retrospective study to evaluate feasibility, technical success and procedural time of C-arm CT-targeted puncture of the portal vein. As a control, 22 patients receiving TIPS placement with fluoroscopy-guided blind puncture were included to compare procedural time. Technical success could be obtained in 100 % of the study group (targeted puncture) and in 95.5 % of the control group (blind puncture). Appropriate, three-dimensional C-arm CT-guided mapping of the portal vein branches could be achieved in all patients. The median number of punctures in the C-arm CT-guided study group was 2 ± 1.3 punctures. Procedural time was significantly lower in the study group (14.8 ± 8.2 min) compared to the control group (32.6 ± 22.7 min) (p = 0.02). C-arm CT-guided portal vein mapping is technically feasible and a promising tool for TIPS placement resulting in a significant reduction of procedural time. (orig.)

  6. Three-dimensional vortex wake structure of flapping wings in hovering flight.

    Science.gov (United States)

    Cheng, Bo; Roll, Jesse; Liu, Yun; Troolin, Daniel R; Deng, Xinyan

    2014-02-06

    Flapping wings continuously create and send vortices into their wake, while imparting downward momentum into the surrounding fluid. However, experimental studies concerning the details of the three-dimensional vorticity distribution and evolution in the far wake are limited. In this study, the three-dimensional vortex wake structure in both the near and far field of a dynamically scaled flapping wing was investigated experimentally, using volumetric three-component velocimetry. A single wing, with shape and kinematics similar to those of a fruitfly, was examined. The overall result of the wing action is to create an integrated vortex structure consisting of a tip vortex (TV), trailing-edge shear layer (TESL) and leading-edge vortex. The TESL rolls up into a root vortex (RV) as it is shed from the wing, and together with the TV, contracts radially and stretches tangentially in the downstream wake. The downwash is distributed in an arc-shaped region enclosed by the stretched tangential vorticity of the TVs and the RVs. A closed vortex ring structure is not observed in the current study owing to the lack of well-established starting and stopping vortex structures that smoothly connect the TV and RV. An evaluation of the vorticity transport equation shows that both the TV and the RV undergo vortex stretching while convecting downwards: a three-dimensional phenomenon in rotating flows. It also confirms that convection and secondary tilting and stretching effects dominate the evolution of vorticity.

  7. A three-dimensional wide-angle BPM for optical waveguide structures

    Science.gov (United States)

    Ma, Changbao; van Keuren, Edward

    2007-01-01

    Algorithms for effective modeling of optical propagation in three- dimensional waveguide structures are critical for the design of photonic devices. We present a three-dimensional (3-D) wide-angle beam propagation method (WA-BPM) using Hoekstra’s scheme. A sparse matrix algebraic equation is formed and solved using iterative methods. The applicability, accuracy and effectiveness of our method are demonstrated by applying it to simulations of wide-angle beam propagation, along with a technique for shifting the simulation window to reduce the dimension of the numerical equation and a threshold technique to further ensure its convergence. These techniques can ensure the implementation of iterative methods for waveguide structures by relaxing the convergence problem, which will further enable us to develop higher-order 3-D WA-BPMs based on Padé approximant operators.

  8. Structural study of disordered SiC nanowires by three-dimensional rotation electron diffraction

    International Nuclear Information System (INIS)

    Li, Duan; Guo, Peng; Wan, Wei; Zou, Ji; Shen, Zhijian; Guzi de Moraes, Elisângela; Colombo, Paolo

    2014-01-01

    The structure of disordered SiC nanowires was studied by using the three-dimensional rotation electron diffraction (RED) technique. The streaks shown in the RED images indicated the stacking faults of the nanowire. High-resolution transmission electron microscopy imaging was employed to support the results from the RED data. It suggested that a 2H polytype is most possible for the nanowires. (paper)

  9. Optimal Layout Design using the Element Connectivity Parameterization Method: Application to Three Dimensional Geometrical Nonlinear Structures

    DEFF Research Database (Denmark)

    Yoon, Gil Ho; Joung, Young Soo; Kim, Yoon Young

    2005-01-01

    The topology design optimization of “three-dimensional geometrically-nonlinear” continuum structures is still a difficult problem not only because of its problem size but also the occurrence of unstable continuum finite elements during the design optimization. To overcome this difficulty, the ele......) stiffness matrix of continuum finite elements. Therefore, any finite element code, including commercial codes, can be readily used for the ECP implementation. The key ideas and characteristics of these methods will be presented in this paper....

  10. Three-dimensional structure of Au nanoparticles supported on amorphous silica and carbon substrates

    International Nuclear Information System (INIS)

    Bruma, A; Li, Z Y

    2012-01-01

    Scanning Transmission Electron Microscope (STEM) has been employed to study the three-dimensional structure of gold (Au) nanoparticles deposited by means of thermal evaporation in high vacuum on amorphous silica (a-SiO 2 ) and amorphous carbon (a-C) supports. By performing quantitative analysis on the evolution of the high angle annular dark field (HAADF) images, we studied the influence of the nature and the temperature of support on the growth mode of gold nanoparticles.

  11. HOMOLOGY MODELING AND FUNCTIONAL CHARACTERIZATION OF THREE-DIMENSIONAL STRUCTURE OF DAHP SYNTHASE FROM BRACHYPODIUM DISTACHYON

    Directory of Open Access Journals (Sweden)

    Aditya Dev

    2013-06-01

    Full Text Available The Shikimate pathway is an attractive target for herbicides and antimicrobial agents because it is essential in microbes and plants but absent in animals. The 3-deoxy-D-arabino-heptulosonate 7-phosphate synthase (DAHPS is the first enzyme of this pathway, which is involved in the condensation of phosphoenolpyruvate (PEP and D-erythrose 4-phosphate (E4P to produce 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP. DAHPS enzymes have been divided into two types, class I and class II, based on their primary amino acid sequence and three dimensional structures. The plant DAHPS belongs to class II and is regulated differently than DAHPS from microorganisms. To understand the structural basis of such differences in DAHPS from plants and its catalytic mechanism, we have used sequence analysis, homology modeling and docking approach to generate the three dimensional models of DAHP synthase from Brachypodium distachyon (Bd-DAHPS complexed with substrate PEP for the first time. The three dimensional models of Bd-DAHPS provides a detailed knowledge of the active site and the important secondary structural regions that play significant roles in the regulatory mechanism and further may be helpful for design of specific inhibitors towards herbicide development.

  12. THREE DIMENSIONAL DIGITIZATION OF HUMAN HEAD BY FUSING STRUCTURED LIGHT AND CONTOURS

    Institute of Scientific and Technical Information of China (English)

    Jin Gang; Li Dehua; Hu Hanping; Hu Bing

    2002-01-01

    Three dimensional digitization of human head is desired in many applications. In this paper, an information fusion based scheme is presented to obtain 3-D information of human head. Structured light technology is employed to measure depth. For the special reflection areas,in which the structured light stripe can not be detected directly, the shape of the structured light stripe can be calculated from the corresponding contour. By fusing the information of structured light and the contours, the problem of reflectance influence is solved, and the whole shape of head,including hair area, can be obtained. Some good results are obtained.

  13. Three-dimensional investigation of the two-phase flow structure in a bubbly pipe flow

    International Nuclear Information System (INIS)

    Schmidl, W.; Hassan, Y.A.; Ortiz-Villafuerte, J.

    1996-01-01

    Particle image velocimetry (PIV) is a nonintrusive measurement technique that can be used to study the structure of various fluid flows. PIV is used to measure the time-varying, full-field velocity data of a particle-seeded flow field within either a two-dimensional plane or three-dimensional volume. PIV is a very efficient measurement technique since it can obtain both qualitative and quantitative spatial information about the flow field being studied. The quantitative spatial velocity information can be further processed into information of flow parameters such as vorticity and turbulence over extended areas. The objective of this study was to apply recent advances and improvements in the PIV flow measurement technique to the full-field, nonintrusive analysis of a three-dimensional, two-phase fluid flow system in such a manner that both components of the two-phase system could be experimentally quantified

  14. Three-dimensional density and compressible magnetic structure in solar wind turbulence

    Science.gov (United States)

    Roberts, Owen W.; Narita, Yasuhito; Escoubet, C.-Philippe

    2018-03-01

    The three-dimensional structure of both compressible and incompressible components of turbulence is investigated at proton characteristic scales in the solar wind. Measurements of the three-dimensional structure are typically difficult, since the majority of measurements are performed by a single spacecraft. However, the Cluster mission consisting of four spacecraft in a tetrahedral formation allows for a fully three-dimensional investigation of turbulence. Incompressible turbulence is investigated by using the three vector components of the magnetic field. Meanwhile compressible turbulence is investigated by considering the magnitude of the magnetic field as a proxy for the compressible fluctuations and electron density data deduced from spacecraft potential. Application of the multi-point signal resonator technique to intervals of fast and slow wind shows that both compressible and incompressible turbulence are anisotropic with respect to the mean magnetic field direction P⟂ ≫ P∥ and are sensitive to the value of the plasma beta (β; ratio of thermal to magnetic pressure) and the wind type. Moreover, the incompressible fluctuations of the fast and slow solar wind are revealed to be different with enhancements along the background magnetic field direction present in the fast wind intervals. The differences in the fast and slow wind and the implications for the presence of different wave modes in the plasma are discussed.

  15. Intraoperative application of geometric three-dimensional mitral valve assessment package: a feasibility study.

    Science.gov (United States)

    Mahmood, Feroze; Karthik, Swaminathan; Subramaniam, Balachundhar; Panzica, Peter J; Mitchell, John; Lerner, Adam B; Jervis, Karinne; Maslow, Andrew D

    2008-04-01

    To study the feasibility of using 3-dimensional (3D) echocardiography in the operating room for mitral valve repair or replacement surgery. To perform geometric analysis of the mitral valve before and after repair. Prospective observational study. Academic, tertiary care hospital. Consecutive patients scheduled for mitral valve surgery. Intraoperative reconstruction of 3D images of the mitral valve. One hundred and two patients had 3D analysis of their mitral valve. Successful image reconstruction was performed in 93 patients-8 patients had arrhythmias or a dilated mitral valve annulus resulting in significant artifacts. Time from acquisition to reconstruction and analysis was less than 5 minutes. Surgeon identification of mitral valve anatomy was 100% accurate. The study confirms the feasibility of performing intraoperative 3D reconstruction of the mitral valve. This data can be used for confirmation and communication of 2-dimensional data to the surgeons by obtaining a surgical view of the mitral valve. The incorporation of color-flow Doppler into these 3D images helps in identification of the commissural or perivalvular location of regurgitant orifice. With improvements in the processing power of the current generation of echocardiography equipment, it is possible to quickly acquire, reconstruct, and manipulate images to help with timely diagnosis and surgical planning.

  16. Self-assembly of three-dimensional open structures using patchy colloidal particles.

    Science.gov (United States)

    Rocklin, D Zeb; Mao, Xiaoming

    2014-10-14

    Open structures can display a number of unusual properties, including a negative Poisson's ratio, negative thermal expansion, and holographic elasticity, and have many interesting applications in engineering. However, it is a grand challenge to self-assemble open structures at the colloidal scale, where short-range interactions and low coordination number can leave them mechanically unstable. In this paper we discuss the self-assembly of three-dimensional open structures using triblock Janus particles, which have two large attractive patches that can form multiple bonds, separated by a band with purely hard-sphere repulsion. Such surface patterning leads to open structures that are stabilized by orientational entropy (in an order-by-disorder effect) and selected over close-packed structures by vibrational entropy. For different patch sizes the particles can form into either tetrahedral or octahedral structural motifs which then compose open lattices, including the pyrochlore, the hexagonal tetrastack and the perovskite lattices. Using an analytic theory, we examine the phase diagrams of these possible open and close-packed structures for triblock Janus particles and characterize the mechanical properties of these structures. Our theory leads to rational designs of particles for the self-assembly of three-dimensional colloidal structures that are possible using current experimental techniques.

  17. Three dimensional strained semiconductors

    Science.gov (United States)

    Voss, Lars; Conway, Adam; Nikolic, Rebecca J.; Leao, Cedric Rocha; Shao, Qinghui

    2016-11-08

    In one embodiment, an apparatus includes a three dimensional structure comprising a semiconductor material, and at least one thin film in contact with at least one exterior surface of the three dimensional structure for inducing a strain in the structure, the thin film being characterized as providing at least one of: an induced strain of at least 0.05%, and an induced strain in at least 5% of a volume of the three dimensional structure. In another embodiment, a method includes forming a three dimensional structure comprising a semiconductor material, and depositing at least one thin film on at least one surface of the three dimensional structure for inducing a strain in the structure, the thin film being characterized as providing at least one of: an induced strain of at least 0.05%, and an induced strain in at least 5% of a volume of the structure.

  18. Insulin as a model to teach three-dimensional structure of proteins

    Directory of Open Access Journals (Sweden)

    João Batista Teixeira da Rocha

    2018-02-01

    Proteins are the most ubiquitous macromolecules found in the living cells and have innumerous physiological functions. Therefore, it is fundamental to build a solid knowledge about the proteins three dimensional structure to better understand the living state. The hierarchical structure of proteins is usually studied in the undergraduate discipline of Biochemistry. Here we described pedagogical interventions designed to increase the preservice teacher chemistry students’ knowledge about protein structure. The activities were made using alternative and cheap materials to encourage the application of these simple methodologies by the future teachers in the secondary school. From the primary structure of insulin chains, students had to construct a three-dimensional structure of insulin. After the activities, the students highlighted an improvement of their previous knowledge about proteins structure. The construction of a tridimensional model together with other activities seems to be an efficient way to promote the learning about the structure of proteins to undergraduate students. The methodology used was inexpensiveness and simple and it can be used both in the university and in the high-school.

  19. Generation of a Three-Dimensional Kidney Structure from Pluripotent Stem Cells.

    Science.gov (United States)

    Yoshimura, Yasuhiro; Taguchi, Atsuhiro; Nishinakamura, Ryuichi

    2017-01-01

    The kidney is a vital organ that has an important role in the maintenance of homeostasis by fluid volume regulation and waste product excretion. This role cannot be performed without the three-dimensional (3D) structure of the kidney. Therefore, it is important to generate the 3D structure of the kidney when inducing functional kidney tissue or the whole organ from pluripotent stem cells. In this chapter, we describe the detailed methods to induce kidney progenitor cells from pluripotent stem cells, which are based on embryological development. We also provide a method to generate 3D kidney tissue with vascularized glomeruli upon transplantation.

  20. Endoscopic mode for three-dimensional CT display of normal and pathologic laryngeal structures

    International Nuclear Information System (INIS)

    Sanuki, Tetsuji; Hyodo, Masamitsu; Yumoto, Eiji; Yasuhara, Yoshifumi; Ochi, Takashi

    1997-01-01

    The recent development of helical (spiral) computed tomography allows collection of volumetric data to obtain high quality three-dimensional (3D) reconstructed images. The authors applied the 3D CT endoscopic imaging technique to asses normal and pathologic laryngeal structures. The latter included trauma, vocal fold atrophy, cancer of the larynx and recurrent nerve palsy. This technique was able to show normal laryngeal structures and characteristic findings of each pathology. The 3D CT endoscopic images can be rotated around any axis, allowing optimal depiction of pathologic lesion. The use of 3D CT endoscopic technique provides the display of the location and extent of pathology and affords accurate therapeutic planning. (author)

  1. Unique sail-like structure of cor triatriatum dexter in three-dimensional echocardiogram.

    Science.gov (United States)

    Low, Ting Ting; Uy, Celia Catherine C; Wong, Raymond Ching Chiew

    2014-08-01

    Cor triatriatum dexter (CTD) is an extremely rare congenital condition arising from the persistence of the right valve of the sinus venosus. It divides the right atrium (RA) into 2 separate chambers. We report a case of a 50-year-old man who had an incidental finding of CTD on transesophageal echocardiogram. An incomplete membrane of the RA was seen, and three-dimensional echocardiogram delineated the structure clearly as a triangular sail-like structure with multiple orifices and a fenestration. © 2013, Wiley Periodicals, Inc.

  2. Complete three-dimensional photonic bandgap in a simple cubic structure

    International Nuclear Information System (INIS)

    Lin, Shawn-Yu; Fleming, J. G.; Lin, Robin; Sigalas, M. M.; Biswas, R.; Ho, K. M.

    2001-01-01

    The creation of a three-dimensional (3D) photonic crystal with simple cubic (sc) symmetry is important for applications in the signal routing and 3D waveguiding of light. With a simple stacking scheme and advanced silicon processing, a 3D sc structure was constructed from a 6-in. silicon wafer. The sc structure is experimentally shown to have a complete 3D photonic bandgap in the infrared wavelength. The finite size effect is also observed, accounting for a larger absolute photonic bandgap

  3. Model - including thermal creep effects - for the analysis of three-dimensional concrete structures

    International Nuclear Information System (INIS)

    Rodriguez, C.; Rebora, B.; Favrod, J.D.

    1979-01-01

    This article presents the most recent developments and results of research carried out by IPEN to establish a mathematical model for the non-linear rheological three-dimensional analysis of massive prestressed concrete structures. The main point of these latest developments is the simulation of the creep of concrete submitted to high temperatures over a long period of time. This research, financed by the Swiss National Science Foundation, has taken an increased importance with the advent of nuclear reactor vessels of the HHT type and new conceptions concerning the cooling of their concrete (replacement of the thermal insulation by a zone of hot concrete). (orig.)

  4. An efficient closed-form solution for acoustic emission source location in three-dimensional structures

    Directory of Open Access Journals (Sweden)

    Xibing Li

    2014-02-01

    Full Text Available This paper presents an efficient closed-form solution (ECS for acoustic emission(AE source location in three-dimensional structures using time difference of arrival (TDOA measurements from N receivers, N ≥ 6. The nonlinear location equations of TDOA are simplified to linear equations. The unique analytical solution of AE sources for unknown velocity system is obtained by solving the linear equations. The proposed ECS method successfully solved the problems of location errors resulting from measured deviations of velocity as well as the existence and multiplicity of solutions induced by calculations of square roots in existed close-form methods.

  5. Electronic transport on the spatial structure of the protein: Three-dimensional lattice model

    International Nuclear Information System (INIS)

    Sarmento, R.G.; Frazão, N.F.; Macedo-Filho, A.

    2017-01-01

    Highlights: • The electronic transport on the structure of the three-dimensional lattice model of the protein is studied. • The signing of the current–voltage is directly affected by permutations of the weak bonds in the structure. • Semiconductor behave of the proteins suggest a potential application in the development of novel biosensors. - Abstract: We report a numerical analysis of the electronic transport in protein chain consisting of thirty-six standard amino acids. The protein chains studied have three-dimensional structure, which can present itself in three distinct conformations and the difference consist in the presence or absence of thirteen hydrogen-bondings. Our theoretical method uses an electronic tight-binding Hamiltonian model, appropriate to describe the protein segments modeled by the amino acid chain. We note that the presence and the permutations between weak bonds in the structure of proteins are directly related to the signing of the current–voltage. Furthermore, the electronic transport depends on the effect of temperature. In addition, we have found a semiconductor behave in the models investigated and it suggest a potential application in the development of novel biosensors for molecular diagnostics.

  6. Electronic transport on the spatial structure of the protein: Three-dimensional lattice model

    Energy Technology Data Exchange (ETDEWEB)

    Sarmento, R.G. [Departamento de Ciências Biológicas, Universidade Federal do Piauí, 64800-000 Floriano, PI (Brazil); Frazão, N.F. [Centro de Educação e Saúde, Universidade Federal de Campina Grande, 581750-000 Cuité, PB (Brazil); Macedo-Filho, A., E-mail: amfilho@gmail.com [Campus Prof. Antonio Geovanne Alves de Sousa, Universidade Estadual do Piauí, 64260-000 Piripiri, PI (Brazil)

    2017-01-30

    Highlights: • The electronic transport on the structure of the three-dimensional lattice model of the protein is studied. • The signing of the current–voltage is directly affected by permutations of the weak bonds in the structure. • Semiconductor behave of the proteins suggest a potential application in the development of novel biosensors. - Abstract: We report a numerical analysis of the electronic transport in protein chain consisting of thirty-six standard amino acids. The protein chains studied have three-dimensional structure, which can present itself in three distinct conformations and the difference consist in the presence or absence of thirteen hydrogen-bondings. Our theoretical method uses an electronic tight-binding Hamiltonian model, appropriate to describe the protein segments modeled by the amino acid chain. We note that the presence and the permutations between weak bonds in the structure of proteins are directly related to the signing of the current–voltage. Furthermore, the electronic transport depends on the effect of temperature. In addition, we have found a semiconductor behave in the models investigated and it suggest a potential application in the development of novel biosensors for molecular diagnostics.

  7. [Initial study of transthoracic echocardiography guided three-dimensional printing on the application of assessment of structural heart disease].

    Science.gov (United States)

    Zhu, Y B; Liu, J S; Wang, L Q; Guan, X; Luo, Y J; Geng, J; Geng, Q G; Lin, Y J; Zhang, L X; Li, X X; Lu, Y P

    2017-08-01

    Objective: To investigate the feasibility and diagnostic value of preoperative transthoracic echocardiography guided three dimensional printing model (TTE Guided 3DPM) on the assessment of structural heart disease (SHD). Methods: From February 2016 to October 2016, 44 patients underwent cardiac surgery in Tianjin Chest Hospital, forty-four patients were assessed preoperatively using TTE Guided 3DPM, including 25 males and 19 females, aged 3-75 years, with an average of (44±22) years. compared to conventional three dimensional transthoracic echocardiography (3D-TTE), and took direct intraoperative findings as "Golden Standard" simultaneously. There are twelve patients with SHD, including four cases with mitral prolapse, two cases with partial endocardial cushion defect, two cases with secondary atrial septal defect, two cases with rheumatic mitral stenosis, one case with tetralogy of Fallot, one case with ventricular septal defect (VSD), thirty-two patients without SHD were designed as negative control. Results: The sensitivity and specificity of TTE Guided 3DPM were greater than or equal to 3D-TTE, P value of McNemar test of 3D-TTE was greater than 0.05, the difference was not statistically significant, kappa =0.745, P Guided 3DPM was greater than 0.05, the difference was not statistically significant, kappa =0.955, P Guided 3DPM and gold standards were consistent. Compared with 3D-TTE and TTE Guided 3DPM, P value was greater than 0.05, the difference was not statistically significant, kappa =0.879, P Guided 3DPM were consistent. TTE Guided 3DPM displayed the three-dimensional structure of SHD cardiac lesions clearly, which were consistent with intraoperative findings. Conclusion: TTE Guided 3DPM provides essential information for the preoperative evaluation and decision of SHD.

  8. Three-dimensional structure of E. Coli purine nucleoside phosphorylase at 0.99 Å resolution

    Energy Technology Data Exchange (ETDEWEB)

    Timofeev, V. I., E-mail: tostars@mail.ru [Russian Academy of Sciences, Shubnikov Institute of Crystallography (Russian Federation); Abramchik, Yu. A., E-mail: ugama@yandex.ru [Russian Academy of Sciences, Shemyakin–Ovchinnikov Institute of Bioorganic Chemistry (Russian Federation); Zhukhlistova, N. E., E-mail: inna@ns.crys.ras.ru [Russian Academy of Sciences, Shubnikov Institute of Crystallography (Russian Federation); Muravieva, T. I.; Esipov, R. S. [Russian Academy of Sciences, Shemyakin–Ovchinnikov Institute of Bioorganic Chemistry (Russian Federation); Kuranova, I. P. [Russian Academy of Sciences, Shubnikov Institute of Crystallography (Russian Federation)

    2016-03-15

    Purine nucleoside phosphorylases (PNPs) catalyze the reversible phosphorolysis of nucleosides and are key enzymes involved in nucleotide metabolism. They are essential for normal cell function and can catalyze the transglycosylation. Crystals of E. coli PNP were grown in microgravity by the capillary counterdiffusion method through a gel layer. The three-dimensional structure of the enzyme was determined by the molecular-replacement method at 0.99 Å resolution. The structural features are considered, and the structure of E. coli PNP is compared with the structures of the free enzyme and its complexes with purine base derivatives established earlier. A comparison of the environment of the purine base in the complex of PNP with formycin A and of the pyrimidine base in the complex of uridine phosphorylase with thymidine revealed the main structural features of the base-binding sites. Coordinates of the atomic model determined with high accuracy were deposited in the Protein Data Bank (PDB-ID: 4RJ2).

  9. Optical chracterization and lasing in three-dimensional opal-structures

    Directory of Open Access Journals (Sweden)

    Yoshiaki eNishijima

    2015-06-01

    Full Text Available The lasing properties of dye-permeated opal pyramidal structures are compared with the lasing properties of opal films. The opal-structures studied were made by sedimentation of micro-spheres and by sol-gel inversion of the direct-opals. Forced-sedimentation by centrifugation inside wet-etched pyramidal pits on silicon surfaces was used to improve the structural quality of the direct-opal structures. Single crystalline pyramids with the base length of ∼ 100 µm were formed by centrifuged sedimentation. The lasing of dyes in the well-ordered crystalline and poly-crystalline structures showed a distinct multi-modal spectrum. Gain via a distributed feedback was responsible for the lasing since the photonic band gap was negligible in a low refractive index contrast medium; the indices of silica and ethylene glycol are 1.46 and 1.42, respectively. A disordered lasing spectrum was observed from opal films with structural defects and multi-domain regions. The three dimensional structural quality of the structures was assessed by in situ optical diffraction and confocal fluorescence. A correlation between the lasing spectrum and the three-dimensional structural quality was established. Lasing threshold of a sulforhodamine dye in a silica opal was controlled via Förster mechanism by addition of a donor rhodamine 6G dye. The lasing spectrum had a well-ordered modal structure which was spectrally stable at different excitation powers. The sharp lasing threshold characterized by a spontaneous emission coupling ratio β ' 10−2 was obtained.

  10. TIPdb-3D: the three-dimensional structure database of phytochemicals from Taiwan indigenous plants.

    Science.gov (United States)

    Tung, Chun-Wei; Lin, Ying-Chi; Chang, Hsun-Shuo; Wang, Chia-Chi; Chen, Ih-Sheng; Jheng, Jhao-Liang; Li, Jih-Heng

    2014-01-01

    The rich indigenous and endemic plants in Taiwan serve as a resourceful bank for biologically active phytochemicals. Based on our TIPdb database curating bioactive phytochemicals from Taiwan indigenous plants, this study presents a three-dimensional (3D) chemical structure database named TIPdb-3D to support the discovery of novel pharmacologically active compounds. The Merck Molecular Force Field (MMFF94) was used to generate 3D structures of phytochemicals in TIPdb. The 3D structures could facilitate the analysis of 3D quantitative structure-activity relationship, the exploration of chemical space and the identification of potential pharmacologically active compounds using protein-ligand docking. Database URL: http://cwtung.kmu.edu.tw/tipdb. © The Author(s) 2014. Published by Oxford University Press.

  11. Interaction Deep Excavation Adjacent Structure Numerical Two and Three Dimensional Modeling

    International Nuclear Information System (INIS)

    Abdallah, M.; Chehade, F. H.; Chehade, W.; Fawaz, A.

    2011-01-01

    Urban development often requires the construction of deep excavations near to buildings or other structures. We have to study complex material structure interactions where we should take into consideration several particularities. In this paper, we perform a numerical modeling with the finite element method, using PLAXIS software, of the interaction deep excavation-diaphragm wall-soil-structure in the case of non linear soil behavior. We focus our study on a comparison of the results given respectively by two and three dimensional modelings. This allows us to give some recommendations concerning the validity of twodimensional study. We perform a parametric study according to the initial loading on the structure and the struts number. (author)

  12. Elastodynamic behavior of the three dimensional layer-by-layer metamaterial structure

    International Nuclear Information System (INIS)

    Aravantinos-Zafiris, N.; Sigalas, M. M.; Economou, E. N.

    2014-01-01

    In this work, we numerically investigate for the first time the elastodynamic behavior of a three dimensional layer-by-layer rod structure, which is easy to fabricate and has already proved to be very efficient as a photonic crystal. The Finite Difference Time Domain method was used for the numerical calculations. For the rods, several materials were examined and the effects of all the geometric parameters of the structure were also numerically investigated. Additionally, two modifications of the structure were included in our calculations. The results obtained here (for certain geometric parameters), exhibiting a high ratio of longitudinal over transverse sound velocity and therefore a close approach to ideal pentamode behavior over a frequency range, clearly show that the layer-by-layer rod structure, besides being an efficient photonic crystal, is a very serious contender as an elastodynamic metamaterial.

  13. Structure of modes of smoothly irregular three-dimensional integrated optical four-layer waveguide

    International Nuclear Information System (INIS)

    Egorov, A.A.; Ajryan, Eh.A.; Sevast'yanov, A.L.; Sevast'yanov, L.A.

    2009-01-01

    As a method of research of an integrated optical multilayer waveguide, satisfying the condition of smooth modification of the shape of the studied three-dimensional structure, an asymptotic method is used. Three-dimensional fields of smoothly deforming modes of the integrated optical waveguide are circumscribed analytically. An evident dependence of the contributions of the first order of smallness in the amplitudes of the electrical and magnetic fields of the quasi-waveguide modes is obtained. The canonical type of the equations circumscribing propagation of quasi-TE and quasi-TM modes in the smoothly irregular part of a four-layer integrated optical waveguide is represented for an asymptotic method. With the help of the method of coupled waves and perturbation theory method, the shifts of complex propagation constants for quasi-TE and quasi-TM modes are obtained in an explicit form. The elaborated theory is applicable for the analysis of similar structures of dielectric, magnetic and metamaterials in a sufficiently broad band of electromagnetic wavelengths

  14. Three-dimensional flow structure measurements behind a queue of studied model vehicles

    International Nuclear Information System (INIS)

    Huang, J.F.; Chan, T.L.; Zhou, Y.

    2009-01-01

    The three-dimensional flow structures of a queue of studied model vehicles (i.e., one-, two- and three-vehicle cases) were investigated comprehensively in a closed-circuit wind tunnel using particle image velocimetry (PIV) for the typical urban vehicle speeds (i.e., 10, 30 and 50 km/h). In this three-dimensional vehicle wake, a pair of longitudinal vortices is characterized by counter-rotating and moving downstream at relatively low velocity than their surrounding flow. The flow structures of multiple studied model vehicles are dominated by the wake generated from the last studied model vehicle but the preceding studied model vehicle(s) also has/have some minor effects. Cross-sectional turbulence distribution is non-uniform in the far-wake region for all studied cases. The lowest turbulence occurs at the center part of the vehicle wake while high turbulence occurs at its two sides. As such, it may lead to considerable underestimation in turbulence magnitude if the measurement is only taken along the centerline of the vehicle wake.

  15. Preservation of three-dimensional spatial structure in the gut microbiome.

    Directory of Open Access Journals (Sweden)

    Yuko Hasegawa

    Full Text Available Preservation of three-dimensional structure in the gut is necessary in order to analyze the spatial organization of the gut microbiota and gut luminal contents. In this study, we evaluated preparation methods for mouse gut with the goal of preserving micron-scale spatial structure while performing fluorescence imaging assays. Our evaluation of embedding methods showed that commonly used media such as Tissue-Tek Optimal Cutting Temperature (OCT compound, paraffin, and polyester waxes resulted in redistribution of luminal contents. By contrast, a hydrophilic methacrylate resin, Technovit H8100, preserved three-dimensional organization. Our mouse intestinal preparation protocol optimized using the Technovit H8100 embedding method was compatible with microbial fluorescence in situ hybridization (FISH and other labeling techniques, including immunostaining and staining with both wheat germ agglutinin (WGA and 4', 6-diamidino-2-phenylindole (DAPI. Mucus could be visualized whether the sample was fixed with paraformaldehyde (PFA or with Carnoy's fixative. The protocol optimized in this study enabled simultaneous visualization of micron-scale spatial patterns formed by microbial cells in the mouse intestines along with biogeographical landmarks such as host-derived mucus and food particles.

  16. Three-dimensional structural analysis of eukaryotic flagella/cilia by electron cryo-tomography

    International Nuclear Information System (INIS)

    Bui, Khanh Huy; Pigino, Gaia; Ishikawa, Takashi

    2011-01-01

    Based on the molecular architecture revealed by electron cryo-tomography, the mechanism of the bending motion of eukaryotic flagella/cilia is discussed. Electron cryo-tomography is a potential approach to analyzing the three-dimensional conformation of frozen hydrated biological macromolecules using electron microscopy. Since projections of each individual object illuminated from different orientations are merged, electron tomography is capable of structural analysis of such heterogeneous environments as in vivo or with polymorphism, although radiation damage and the missing wedge are severe problems. Here, recent results on the structure of eukaryotic flagella, which is an ATP-driven bending organelle, from green algae Chlamydomonas are presented. Tomographic analysis reveals asymmetric molecular arrangements, especially that of the dynein motor proteins, in flagella, giving insight into the mechanism of planar asymmetric bending motion. Methodological challenges to obtaining higher-resolution structures from this technique are also discussed

  17. Method to planarize three-dimensional structures to enable conformal electrodes

    Science.gov (United States)

    Nikolic, Rebecca J; Conway, Adam M; Graff, Robert T; Reinhardt, Catherine; Voss, Lars F; Shao, Qinghui

    2012-11-20

    Methods for fabricating three-dimensional PIN structures having conformal electrodes are provided, as well as the structures themselves. The structures include a first layer and an array of pillars with cavity regions between the pillars. A first end of each pillar is in contact with the first layer. A segment is formed on the second end of each pillar. The cavity regions are filled with a fill material, which may be a functional material such as a neutron sensitive material. The fill material covers each segment. A portion of the fill material is etched back to produce an exposed portion of the segment. A first electrode is deposited onto the fill material and each exposed segment, thereby forming a conductive layer that provides a common contact to each the exposed segment. A second electrode is deposited onto the first layer.

  18. Three-dimensional structure of recombinant carboxypeptidase T from Thermoactinomyces vulgaris without calcium ions

    Science.gov (United States)

    Akparov, V. Kh.; Timofeev, V. I.; Kuranova, I. P.

    2011-07-01

    Crystals of recombinant carboxypeptidase T (CPT) from Thermoactinomyces vulgaris were grown in a capillary by the counterdiffusion method in the absence of calcium ions. The three-dimensional structure of CPT was solved at 1.69-Å resolution using the X-ray diffraction data collected from the crystals of the enzyme on the SPring-8 synchrotron radiation facility and was then refined to Rfact = 16.903% and Rfree = 18.165%. The coordinates of the refined model were deposited in the Protein Data Bank (PDB ID: 3QNV). A comparison of this structure with the structure of wild-type CPT containing bound calcium ions, which was determined earlier, revealed a number of conformational changes both in the calcium-binding sites and the enzyme active site. Based on the results of this comparison, the possible factors responsible for the difference in the catalytic activity of the two forms of the enzyme are considered.

  19. Spin-ice behavior of three-dimensional inverse opal-like magnetic structures: Micromagnetic simulations

    Science.gov (United States)

    Dubitskiy, I. S.; Syromyatnikov, A. V.; Grigoryeva, N. A.; Mistonov, A. A.; Sapoletova, N. A.; Grigoriev, S. V.

    2017-11-01

    We perform micromagnetic simulations of the magnetization distribution in inverse opal-like structures (IOLS) made from ferromagnetic materials (nickel and cobalt). It is shown that the unit cell of these complex structures, whose characteristic length is approximately 700 nm, can be divided into a set of structural elements some of which behave like Ising-like objects. A spin-ice behavior of IOLS is observed in a broad range of external magnetic fields. Numerical results describe successfully the experimental hysteresis curves of the magnetization in Ni- and Co-based IOLS. We conclude that ferromagnetic IOLS can be considered as the first realization of three-dimensional artificial spin ice. The problem is discussed of optimal geometrical properties and material characteristics of IOLS for the spin-ice rule fulfillment.

  20. Three dimensional complex plasma structures in a combined radio frequency and direct current discharge

    International Nuclear Information System (INIS)

    Mitic, S.; Morfill, G. E.; Klumov, B. A.; Khrapak, S. A.

    2013-01-01

    We report on the first detailed analysis of large three dimensional (3D) complex plasma structures in experiments performed in pure rf and combined rf+dc discharge modes. Inductively coupled plasma is generated by an rf coil wrapped around the vertically positioned cylindrical glass tube at a pressure of 0.3 mbar. In addition, dc plasma can be generated by applying voltage to the electrodes at the ends of the tube far from the rf coil. The injected monodisperse particles are levitated in the plasma below the coil. A scanning laser sheet and a high resolution camera are used to determine the 3D positions of about 10 5 particles. The observed bowl-shaped particle clouds reveal coexistence of various structures, including well-distinguished solid-like, less ordered liquid-like, and pronounced string-like phases. New criteria to identify string-like structures are proposed.

  1. Sub-15 fs multiphoton lithography of three-dimensional structures for live cell applications

    International Nuclear Information System (INIS)

    Licht, Martin; Uchugonova, Aisada; König, Karsten; Straub, Martin

    2012-01-01

    Development, morphology and intratissue location of cells are influenced by the 3D nano- and microenvironment. In this paper we demonstrate multiphoton photopolymerization to generate three-dimensional structures for cell culture applications with micro- and nanotopographic features using SU-8 photoresist and mr-NIL 6000 nanoimprint resist. Moving the focal spot of high-repetition rate near-infrared sub-15 fs pulsed laser light by a galvanometric beam scanner in combination with a piezoelectric vertical stage, nearly arbitrary trajectories of polymerized photoresist were generated. This technique can be used to generate cage structures with submicron interior features for live cell applications. Preliminary experiments with PC-3 and HT-1080 cells indicate the influence of the structures on cell behavior. (paper)

  2. Advances in high-resolution imaging--techniques for three-dimensional imaging of cellular structures.

    Science.gov (United States)

    Lidke, Diane S; Lidke, Keith A

    2012-06-01

    A fundamental goal in biology is to determine how cellular organization is coupled to function. To achieve this goal, a better understanding of organelle composition and structure is needed. Although visualization of cellular organelles using fluorescence or electron microscopy (EM) has become a common tool for the cell biologist, recent advances are providing a clearer picture of the cell than ever before. In particular, advanced light-microscopy techniques are achieving resolutions below the diffraction limit and EM tomography provides high-resolution three-dimensional (3D) images of cellular structures. The ability to perform both fluorescence and electron microscopy on the same sample (correlative light and electron microscopy, CLEM) makes it possible to identify where a fluorescently labeled protein is located with respect to organelle structures visualized by EM. Here, we review the current state of the art in 3D biological imaging techniques with a focus on recent advances in electron microscopy and fluorescence super-resolution techniques.

  3. Three-dimensional structure of the enzyme dimanganese catalase from thermus thermophilus at 1 A resolution

    International Nuclear Information System (INIS)

    Antonyuk, S.V.; Melik-Adamyan, V.R.; Popov, A.N.; Lamzin, V.S.; Hempstead, P.D.; Harrison, P.M.; Artymyuk, P.J.; Barynin, V.V.

    2000-01-01

    The crystal structures of two forms of the enzyme dimanganese catalase from Thermus Thermophilus (native and inhibited by chloride) were studied by X-ray diffraction analysis at 1.05 and 0.98 A resolution, respectively. The atomic models of the molecules were refined to the R factors 9.8 and 10%, respectively. The three-dimensional molecular structures are characterized in detail. The analysis of electron-density distributions in the active centers of the native and inhibited enzyme forms revealed that the most flexible side chains of the amino acid residues Lys162 and Glu36 exist in two interrelated conformations. This allowed us to obtain the structural data necessary for understanding the mechanism of enzymatic activity of the dimanganese catalase

  4. Measuring three-dimensional flow structures in the conductive airways using 3D-PTV

    Science.gov (United States)

    Janke, Thomas; Schwarze, Rüdiger; Bauer, Katrin

    2017-10-01

    Detailed information about flow patterns and mass transport in the conductive airways is of crucial interest to improve ventilation strategies as well as targeted drug delivery. Despite a vast number of flow studies in this field, there is still a dearth in experimental data of three-dimensional flow patterns, in particular for the validation of numerical results. Therefore, oscillating flow within a realistic model of the upper human conductive airways is studied here experimentally. The investigated range of Reynolds numbers is Re = 250-2000 and the Womersley number is varied between α = 1.9-5.1, whereby physiological flow at rest conditions is included. In employing the three-dimensional particle tracking velocimetry measurement technique, we can directly visualize airway specific flow structures as well as examine Lagrangian trajectory statistics, which has not been covered to date. The systematic variation of characteristic flow parameters in combination with the advanced visualization technique sheds new light on the mechanisms of evolving flow patterns. By determining Lagrangian properties such as pathline curvature and torsion, we find that both strongly depend on the Reynolds number. Moreover, the probability density function of the curvature reveals a unique shape for certain flow regions and resembles a turbulent like behavior at the small scales.

  5. EXPERIMENTAL RESEARCH OF THE THREE-DIMENSIONAL PERFORMANCE OF COMPOSITE STEEL AND CONCRETE STRUCTURES

    Directory of Open Access Journals (Sweden)

    Zamaliev Farit Sakhapovich

    2012-12-01

    steel-concrete slabs limits their use in the construction of residential housing. This article describes the composition, geometry, reinforcement, and anchors to enable the use of concrete slabs and steel beams. The article contains photographs that illustrate the load distribution model. Methods of testing of fiber strains of concrete slabs and steel profiles, deflections of beams, shear stresses in the layers of the "steel-to-concrete" contact area that may involve slab cracking are analyzed. Dynamics of fiber deformations of concrete slabs, steel beams, and layers of the "steel-to-concrete" contact areas, deflection development patterns, initial cracking and crack development to destruction are analyzed. The author also describes the fracture behavior of the floor model. Results of experimental studies of the three-dimensional overlapping of structural elements are compared to the test data of individual composite beams. Peculiarities of the stress-strain state of composite steel and concrete slabs, graphs of strains and stresses developing in sections of middle and external steel-and-concrete beams, deflection graphs depending on the loading intensity are provided. The findings of the experimental studies of the three-dimensional performance of composite steel-and-concrete slabs are provided, as well.

  6. Validation of Molecular Dynamics Simulations for Prediction of Three-Dimensional Structures of Small Proteins.

    Science.gov (United States)

    Kato, Koichi; Nakayoshi, Tomoki; Fukuyoshi, Shuichi; Kurimoto, Eiji; Oda, Akifumi

    2017-10-12

    Although various higher-order protein structure prediction methods have been developed, almost all of them were developed based on the three-dimensional (3D) structure information of known proteins. Here we predicted the short protein structures by molecular dynamics (MD) simulations in which only Newton's equations of motion were used and 3D structural information of known proteins was not required. To evaluate the ability of MD simulationto predict protein structures, we calculated seven short test protein (10-46 residues) in the denatured state and compared their predicted and experimental structures. The predicted structure for Trp-cage (20 residues) was close to the experimental structure by 200-ns MD simulation. For proteins shorter or longer than Trp-cage, root-mean square deviation values were larger than those for Trp-cage. However, secondary structures could be reproduced by MD simulations for proteins with 10-34 residues. Simulations by replica exchange MD were performed, but the results were similar to those from normal MD simulations. These results suggest that normal MD simulations can roughly predict short protein structures and 200-ns simulations are frequently sufficient for estimating the secondary structures of protein (approximately 20 residues). Structural prediction method using only fundamental physical laws are useful for investigating non-natural proteins, such as primitive proteins and artificial proteins for peptide-based drug delivery systems.

  7. Lagrangian Coherent Structure Analysis of Terminal Winds: Three-Dimensionality, Intramodel Variations, and Flight Analyses

    Directory of Open Access Journals (Sweden)

    Brent Knutson

    2015-01-01

    Full Text Available We present a study of three-dimensional Lagrangian coherent structures (LCS near the Hong Kong International Airport and relate to previous developments of two-dimensional (2D LCS analyses. The LCS are contrasted among three independent models and against 2D coherent Doppler light detection and ranging (LIDAR data. Addition of the velocity information perpendicular to the LIDAR scanning cone helps solidify flow structures inferred from previous studies; contrast among models reveals the intramodel variability; and comparison with flight data evaluates the performance among models in terms of Lagrangian analyses. We find that, while the three models and the LIDAR do recover similar features of the windshear experienced by a landing aircraft (along the landing trajectory, their Lagrangian signatures over the entire domain are quite different—a portion of each numerical model captures certain features resembling those LCS extracted from independent 2D LIDAR analyses based on observations.

  8. Web-based three-dimensional Virtual Body Structures: W3D-VBS.

    Science.gov (United States)

    Temkin, Bharti; Acosta, Eric; Hatfield, Paul; Onal, Erhan; Tong, Alex

    2002-01-01

    Major efforts are being made to improve the teaching of human anatomy to foster cognition of visuospatial relationships. The Visible Human Project of the National Library of Medicine makes it possible to create virtual reality-based applications for teaching anatomy. Integration of traditional cadaver and illustration-based methods with Internet-based simulations brings us closer to this goal. Web-based three-dimensional Virtual Body Structures (W3D-VBS) is a next-generation immersive anatomical training system for teaching human anatomy over the Internet. It uses Visible Human data to dynamically explore, select, extract, visualize, manipulate, and stereoscopically palpate realistic virtual body structures with a haptic device. Tracking user's progress through evaluation tools helps customize lesson plans. A self-guided "virtual tour" of the whole body allows investigation of labeled virtual dissections repetitively, at any time and place a user requires it.

  9. Graphene/polyaniline composite sponge of three-dimensional porous network structure as supercapacitor electrode

    International Nuclear Information System (INIS)

    Jiang Jiu-Xing; Zhang Xu-Zhi; Wang Zhen-Hua; Xu Jian-Jun

    2016-01-01

    As a supercapacitor electrode, the graphene/polyaniline (PANI) composite sponge with a three-dimensional (3D) porous network structure is synthesized by a simple three-step method. The three steps include an in situ polymerization, freeze-drying and reduction by hydrazine vapor. The prepared sponge has a large specific surface area and porous network structure, so it is in favor of spreading the electrolyte ion and increasing the charge transfer efficiency of the system. The process of preparation is simple, easy to operate and low cost. The composite sponge shows better electrochemical performance than the pure individual graphene sponge while PANI cannot keep the shape of a sponge. Such a composite sponge exhibits specific capacitances of 487 F·g −1 at 2 mV/s compared to pristine PANI of 397 F·g −1 . (paper)

  10. Three-Dimensional Architecture and Biogenesis of Membrane Structures Associated with Plant Virus Replication

    Directory of Open Access Journals (Sweden)

    Xuejiao Jin

    2018-01-01

    Full Text Available Positive-sense (+ RNA viruses represent the most abundant group of viruses and are dependent on the host cell machinery to replicate. One remarkable feature that occurs after (+ RNA virus entry into cells is the remodeling of host endomembranes, leading to the formation of viral replication factories. Recently, rapid progress in three-dimensional (3D imaging technologies, such as electron tomography (ET and focused ion beam-scanning electron microscopy (FIB-SEM, has enabled researchers to visualize the novel membrane structures induced by viruses at high resolution. These 3D imaging technologies provide new mechanistic insights into the viral infection cycle. In this review, we summarize the latest reports on the cellular remodeling that occurs during plant virus infection; in particular, we focus on studies that provide 3D architectural information on viral replication factories. We also outline the mechanisms underlying the formation of these membranous structures and discuss possible future research directions.

  11. A Three-Dimensional Enormous Surface Area Aluminum Microneedle Array with Nanoporous Structure

    Directory of Open Access Journals (Sweden)

    Po Chun Chen

    2013-01-01

    Full Text Available We proposed fabricating an aluminum microneedle array with a nanochannel structure on the surface by combining micromachining, electrolyte polishing, and anodization methods. The microneedle array provides a three-dimensional (3D structure that possesses several hundred times more surface area than a traditional nanochannel template. Therefore, the microneedle array can potentially be used in many technology applications. This 3D microneedle array device can not only be used for painless injection or extraction, but also for storage, highly sensitive detection, drug delivery, and microelectrodes. From the calculation we made, the microneedle array not only increases surface area, but also enlarges the capacity of the device. Therefore, the microneedle array can further be used on many detecting, storing, or drug delivering applications.

  12. A Three-Dimensional Enormous Surface Area Aluminum Microneedle Array with Nanoporous Structure

    International Nuclear Information System (INIS)

    Chen, P.Ch.; Zou, J.; Hsieh, Sh.J.; Chen, Ch.Ch.

    2013-01-01

    We proposed fabricating an aluminum micro needle array with a nano channel structure on the surface by combining micromachining, electrolyte polishing, and anodization methods. The micro needle array provides a three-dimensional (3D) structure that possesses several hundred times more surface area than a traditional nano channel template. Therefore, the micro needle array can potentially be used in many technology applications. This 3D micro needle array device can not only be used for painless injection or extraction, but also for storage, highly sensitive detection, drug delivery, and microelectrodes. From the calculation we made, the micro needle array not only increases surface area, but also enlarges the capacity of the device. Therefore, the micro needle array can further be used on many detecting, storing, or drug delivering applications.

  13. Complex three-dimensional structures in Si{1 0 0} using wet bulk micromachining

    International Nuclear Information System (INIS)

    Pal, Prem; Sato, Kazuo

    2009-01-01

    Complex three-dimensional structures for microelectromechanical systems (MEMS) are fabricated in Si{1 0 0} wafers using wet bulk micromachining. The structures are divided into two categories: fixed and freestanding. The fabrication processes for both types utilize single wafers with sequentially deposited nitride and oxide layers, local oxidation of silicon (LOCOS) and two steps of wet anisotropic etching. The fixed structures contain perfectly sharp edges. Thermally deposited oxide is used as the material for the freestanding structures. Wet etching is performed in tetramethyl ammonium hydroxide (TMAH) with and without Triton X-100 (C 14 H 22 O(C 2 H 4 O) n , n = 9–10). For the fixed structures, both etching steps are performed either in 25 wt% TMAH + Triton or pure TMAH or both, depending upon the type of the structures. In the case of freestanding systems, TMAH + Triton is utilized first, followed by pure TMAH. The fabrication methods enable densely arrayed structures, allowing the manufacture of corrugated diaphragms, compact size liquid (or gas) flow delivery systems, newly shaped mold for soft MEMS structures (e.g. PDMS (polydimethylsiloxane)) and other applications. The present research is an approach to fabricate advanced MEMS structures, extending the range of 3D structures fabricated by silicon anisotropic etching

  14. Three-dimensional Crustal Structure beneath the Tibetan Plateau Revealed by Multi-scale Gravity Analysis

    Science.gov (United States)

    Xu, C.; Luo, Z.; Sun, R.; Li, Q.

    2017-12-01

    The Tibetan Plateau, the largest and highest plateau on Earth, was uplifted, shorten and thicken by the collision and continuous convergence of the Indian and Eurasian plates since 50 million years ago, the Eocene epoch. Fine three-dimensional crustal structure of the Tibetan Plateau is helpful in understanding the tectonic development. At present, the ordinary method used for revealing crustal structure is seismic method, which is inhibited by poor seismic station coverage, especially in the central and western plateau primarily due to the rugged terrain. Fortunately, with the implementation of satellite gravity missions, gravity field models have demonstrated unprecedented global-scale accuracy and spatial resolution, which can subsequently be employed to study the crustal structure of the entire Tibetan Plateau. This study inverts three-dimensional crustal density and Moho topography of the Tibetan Plateau from gravity data using multi-scale gravity analysis. The inverted results are in agreement with those provided by the previous works. Besides, they can reveal rich tectonic development of the Tibetan Plateau: (1) The low-density channel flow can be observed from the inverted crustal density; (2) The Moho depth in the west is deeper than that in the east, and the deepest Moho, which is approximately 77 km, is located beneath the western Qiangtang Block; (3) The Moho fold, the directions of which are in agreement with the results of surface movement velocities estimated from Global Positioning System, exists clearly on the Moho topography.This study is supported by the National Natural Science Foundation of China (Grant No. 41504015), the China Postdoctoral Science Foundation (Grant No. 2015M572146), and the Surveying and Mapping Basic Research Programme of the National Administration of Surveying, Mapping and Geoinformation (Grant No. 15-01-08).

  15. Three dimensional imaging of damage in structural materials using high resolution micro-tomography

    Energy Technology Data Exchange (ETDEWEB)

    Buffiere, J.-Y. [GEMPPM UMR CNRS 5510, INSA Lyon, 20 Av. A. Einstein, 69621 Villeurbanne Cedex (France)]. E-mail: jean-yves.buffiere@insa-lyon.fr; Proudhon, H. [GEMPPM UMR CNRS 5510, INSA Lyon, 20 Av. A. Einstein, 69621 Villeurbanne Cedex (France); Ferrie, E. [GEMPPM UMR CNRS 5510, INSA Lyon, 20 Av. A. Einstein, 69621 Villeurbanne Cedex (France); Ludwig, W. [GEMPPM UMR CNRS 5510, INSA Lyon, 20 Av. A. Einstein, 69621 Villeurbanne Cedex (France); Maire, E. [GEMPPM UMR CNRS 5510, INSA Lyon, 20 Av. A. Einstein, 69621 Villeurbanne Cedex (France); Cloetens, P. [ESRF Grenoble (France)

    2005-08-15

    This paper presents recent results showing the ability of high resolution synchrotron X-ray micro-tomography to image damage initiation and development during mechanical loading of structural metallic materials. First, the initiation, growth and coalescence of porosities in the bulk of two metal matrix composites have been imaged at different stages of a tensile test. Quantitative data on damage development has been obtained and related to the nature of the composite matrix. Second, three dimensional images of fatigue crack have been obtained in situ for two different Al alloys submitted to fretting and/or uniaxial in situ fatigue. The analysis of those images shows the strong interaction of the cracks with the local microstructure and provides unique experimental data for modelling the behaviour of such short cracks.

  16. Three dimensional imaging of damage in structural materials using high resolution micro-tomography

    International Nuclear Information System (INIS)

    Buffiere, J.-Y.; Proudhon, H.; Ferrie, E.; Ludwig, W.; Maire, E.; Cloetens, P.

    2005-01-01

    This paper presents recent results showing the ability of high resolution synchrotron X-ray micro-tomography to image damage initiation and development during mechanical loading of structural metallic materials. First, the initiation, growth and coalescence of porosities in the bulk of two metal matrix composites have been imaged at different stages of a tensile test. Quantitative data on damage development has been obtained and related to the nature of the composite matrix. Second, three dimensional images of fatigue crack have been obtained in situ for two different Al alloys submitted to fretting and/or uniaxial in situ fatigue. The analysis of those images shows the strong interaction of the cracks with the local microstructure and provides unique experimental data for modelling the behaviour of such short cracks

  17. Implicit three-dimensional finite-element formulation for the nonlinear structural response of reactor components

    International Nuclear Information System (INIS)

    Kulak, R.F.; Belytschko, T.B.

    1975-09-01

    The formulation of a finite-element procedure for the implicit transient and static analysis of plate/shell type structures in three-dimensional space is described. The triangular plate/shell element can sustain both membrane and bending stresses. Both geometric and material nonlinearities can be treated, and an elastic-plastic material law has been incorporated. The formulation permits the element to undergo arbitrarily large rotations and translations; but, in its present form it is restricted to small strains. The discretized equations of motion are obtained by a stiffness method. An implicit integration algorithm based on trapezoidal integration formulas is used to integrate the discretized equations of motion in time. To ensure numerical stability, an iterative solution procedure with equilibrium checks is used

  18. Gauge structure, anomalies and mass generation in a three dimensional thirring model

    International Nuclear Information System (INIS)

    Gomes, M.; Mendes, R.S.; Ribeiro, R.F.; Silva, A.J. da.

    1990-05-01

    We consider a three dimensional model of spinor fields with a Thirring like, quadrilinear self interaction. Using either two or four component Dirac spinors, we prove that the 1/N expansion for the model is renormalizable if a gauge structure to select physical quantities is introduced. For certain values of the coupling the leading 1/N approximation exihibits bound state poles. Dynamical breaking of parity or chiral symmetry is shown to occur as a cooperative effect of different orders of 1/N, if N is smaller than the critical value N c = 128 / x 2 D' , where D is two or four depending on wether the fermion field has two or four components. (author) [pt

  19. Production of three-dimensional structures of PHB using selective laser sintering

    International Nuclear Information System (INIS)

    Pereira, Tatiana F.; Costa, Marysilvia F.; Thire, Rossana M.S.M.; Oliveira, Marcelo F.; Maia, Izaque A.; Silva, Jorge V.L.

    2011-01-01

    Selective Laser Sintering (SLS) is a technology of layer-by-layer fabrication of three-dimensional physical models directly from their computational design. The poly(3-hydroxybutyrate) (PHB) is a microbial, biodegradable and semicrystalline polyester. The objective of this work was to produce PHB parts, evaluating the reuse of material in the production of the new parts. Images of SEM of part surface showed the formation of neck that indicates sintering between PHB particles during processing. Analysis of NMR and DSC of the reused polymer showed no changes in the chemical structure and thermal properties of PHB. The parts produced from virgin and reused PHB showed no significant difference in their thermal properties. This could suggest that the reuse of raw material did not influence the process reproducibility. (author)

  20. Current Challenges in Development of a Database of Three-Dimensional Chemical Structures

    Science.gov (United States)

    Maeda, Miki H.

    2015-01-01

    We are developing a database named 3DMET, a three-dimensional structure database of natural metabolites. There are two major impediments to the creation of 3D chemical structures from a set of planar structure drawings: the limited accuracy of computer programs and insufficient human resources for manual curation. We have tested some 2D–3D converters to convert 2D structure files from external databases. These automatic conversion processes yielded an excessive number of improper conversions. To ascertain the quality of the conversions, we compared IUPAC Chemical Identifier and canonical SMILES notations before and after conversion. Structures whose notations correspond to each other were regarded as a correct conversion in our present work. We found that chiral inversion is the most serious factor during the improper conversion. In the current stage of our database construction, published books or articles have been resources for additions to our database. Chemicals are usually drawn as pictures on the paper. To save human resources, an optical structure reader was introduced. The program was quite useful but some particular errors were observed during our operation. We hope our trials for producing correct 3D structures will help other developers of chemical programs and curators of chemical databases. PMID:26075200

  1. Structured light optical microscopy for three-dimensional reconstruction of technical surfaces

    Science.gov (United States)

    Kettel, Johannes; Reinecke, Holger; Müller, Claas

    2016-04-01

    In microsystems technology quality control of micro structured surfaces with different surface properties is playing an ever more important role. The process of quality control incorporates three-dimensional (3D) reconstruction of specularand diffusive reflecting technical surfaces. Due to the demand on high measurement accuracy and data acquisition rates, structured light optical microscopy has become a valuable solution to solve this problem providing high vertical and lateral resolution. However, 3D reconstruction of specular reflecting technical surfaces still remains a challenge to optical measurement principles. In this paper we present a measurement principle based on structured light optical microscopy which enables 3D reconstruction of specular- and diffusive reflecting technical surfaces. It is realized using two light paths of a stereo microscope equipped with different magnification levels. The right optical path of the stereo microscope is used to project structured light onto the object surface. The left optical path is used to capture the structured illuminated object surface with a camera. Structured light patterns are generated by a Digital Light Processing (DLP) device in combination with a high power Light Emitting Diode (LED). Structured light patterns are realized as a matrix of discrete light spots to illuminate defined areas on the object surface. The introduced measurement principle is based on multiple and parallel processed point measurements. Analysis of the measured Point Spread Function (PSF) by pattern recognition and model fitting algorithms enables the precise calculation of 3D coordinates. Using exemplary technical surfaces we demonstrate the successful application of our measurement principle.

  2. Three-dimensional crust and upper mantle structure at the Nevada test site

    International Nuclear Information System (INIS)

    Taylor, S.R.

    1983-01-01

    The three-dimensional crust and upper mantle structure at the Nevada Test Site (NTS) is derived by combining teleseismic P wave travel time residuals with Pn source time terms. The NTS time terms and relative teleseismic residuals are calculated by treating the explosions as a network of 'receivers' which record 'shots' located at the surrounding stations. Utilization of the Pn time terms allows for better crustal resolution than is possible from teleseismic information alone. Average relative teleseismic P wave residuals show a consistent progression of positive (late arrivals) to negative residuals from east to west across the NTS. However, Pn time terms beneath Rainier Mesa are at least 0.3 and 0.5 s less than those beneath Pahute Mesa and Yucca Flat, respectively, indicating the presence of high-velocity crustal material or crustal thinning beneath Rainier Mesa. The time terms at Pahute Mesa are surprisingly uniform, and the largest time terms and residuals are observed in the northwest and southern parts of Yucca Flat. The Pn time terms show a slight correlation with the working-point velocity at the shot point for Pahute Mesa and Yucca Flat, indicating that part of the observed lateral variations are caused by shallow effects of the upper crust. Three-dimensional inversion of the travel time residuals suggests that Yucca Flat is characterized by low-velocity anomalies confined to the upper crust, Rainer Mesa by very high velocities in the upper and middle crust, and Pahute Mesa by a high-velocity anomaly extending through the crust and into the upper mantle. Relatively low velocities are observed in the lower crust beneath the Timber Mountain caldera south of Pahute Mesa with no expression in the upper mantle. These observed differences in velocity beneath the Tertiary Silent Canyon and Timber Mountain calderas may be related to their magma volume and mode of enrichment from a mantle-derived magma source

  3. Properties of three-dimensional structures prepared by Ge dewetting from Si(111) at high temperatures

    Energy Technology Data Exchange (ETDEWEB)

    Shklyaev, Alexander, E-mail: shklyaev@isp.nsc.ru [A. V. Rzhanov Institute of Semiconductor Physics, SB RAS, Novosibirsk 630090 (Russian Federation); Novosibirsk State University, Novosibirsk 630090 (Russian Federation); Bolotov, Leonid; Poborchii, Vladimir; Tada, Tetsuya [National Institute of Advanced Industrial Science and Technology, Higashi 1-1-1, Tsukuba, Ibaraki 305-8562 (Japan)

    2015-05-28

    The formation of three-dimensional (3D) structures during Ge deposition on Si(111) at about 800 °C is studied with scanning tunneling, Kelvin probe and electron microscopies, and scanning tunneling and Raman spectroscopies. The observed surface morphology is formed by dewetting of Ge from Si(111), since it occurs mainly by means of minimization of surface and interfacial energies. The dewetting proceeds through massive Si eroding around growing 3D structures, providing them to be composed of SiGe with about a 30% Ge content, and leads to the significant reduction of the SiGe/Si interface area. It is found that the SiGe top component of 3D structures forms sharp interfaces with the underlying Si. The minimization of interfacial and strain energies occurs on the way that the 3D structures appear to get the dendrite-like shape. The Ge distribution in the 3D SiGe structures is inhomogeneous in the lateral dimension with a higher Ge concentration in their central areas and Ge segregation on their surface.

  4. Three-dimensional cell manipulation and patterning using dielectrophoresis via a multi-layer scaffold structure.

    Science.gov (United States)

    Chu, H K; Huan, Z; Mills, J K; Yang, J; Sun, D

    2015-02-07

    Cell manipulation is imperative to the areas of cellular biology and tissue engineering, providing them a useful tool for patterning cells into cellular patterns for different analyses and applications. This paper presents a novel approach to perform three-dimensional (3D) cell manipulation and patterning with a multi-layer engineered scaffold. This scaffold structure employed dielectrophoresis as the non-contact mechanism to manipulate cells in the 3D domain. Through establishing electric fields via this multi-layer structure, the cells in the medium became polarized and were attracted towards the interior part of the structure, forming 3D cellular patterns. Experiments were conducted to evaluate the manipulation and the patterning processes with the proposed structure. Results show that with the presence of a voltage input, this multi-layer structure was capable of manipulating different types of biological cells examined through dielectrophoresis, enabling automatic cell patterning in the time-scale of minutes. The effects of the voltage input on the resultant cellular pattern were examined and discussed. Viability test was performed after the patterning operation and the results confirmed that majority of the cells remained viable. After 7 days of culture, 3D cellular patterns were observed through SEM. The results suggest that this scaffold and its automated dielectrophoresis-based patterning mechanism can be used to construct artificial tissues for various tissue engineering applications.

  5. Three-dimensional imaging of vortex structure in a ferroelectric nanoparticle driven by an electric field.

    Science.gov (United States)

    Karpov, D; Liu, Z; Rolo, T Dos Santos; Harder, R; Balachandran, P V; Xue, D; Lookman, T; Fohtung, E

    2017-08-17

    Topological defects of spontaneous polarization are extensively studied as templates for unique physical phenomena and in the design of reconfigurable electronic devices. Experimental investigations of the complex topologies of polarization have been limited to surface phenomena, which has restricted the probing of the dynamic volumetric domain morphology in operando. Here, we utilize Bragg coherent diffractive imaging of a single BaTiO 3 nanoparticle in a composite polymer/ferroelectric capacitor to study the behavior of a three-dimensional vortex formed due to competing interactions involving ferroelectric domains. Our investigation of the structural phase transitions under the influence of an external electric field shows a mobile vortex core exhibiting a reversible hysteretic transformation path. We also study the toroidal moment of the vortex under the action of the field. Our results open avenues for the study of the structure and evolution of polar vortices and other topological structures in operando in functional materials under cross field configurations.Imaging of topological states of matter such as vortex configurations has generally been limited to 2D surface effects. Here Karpov et al. study the volumetric structure and dynamics of a vortex core mediated by electric-field induced structural phase transition in a ferroelectric BaTiO 3 nanoparticle.

  6. Properties of three-dimensional structures prepared by Ge dewetting from Si(111) at high temperatures

    International Nuclear Information System (INIS)

    Shklyaev, Alexander; Bolotov, Leonid; Poborchii, Vladimir; Tada, Tetsuya

    2015-01-01

    The formation of three-dimensional (3D) structures during Ge deposition on Si(111) at about 800 °C is studied with scanning tunneling, Kelvin probe and electron microscopies, and scanning tunneling and Raman spectroscopies. The observed surface morphology is formed by dewetting of Ge from Si(111), since it occurs mainly by means of minimization of surface and interfacial energies. The dewetting proceeds through massive Si eroding around growing 3D structures, providing them to be composed of SiGe with about a 30% Ge content, and leads to the significant reduction of the SiGe/Si interface area. It is found that the SiGe top component of 3D structures forms sharp interfaces with the underlying Si. The minimization of interfacial and strain energies occurs on the way that the 3D structures appear to get the dendrite-like shape. The Ge distribution in the 3D SiGe structures is inhomogeneous in the lateral dimension with a higher Ge concentration in their central areas and Ge segregation on their surface

  7. An efficicient data structure for three-dimensional vertex based finite volume method

    Science.gov (United States)

    Akkurt, Semih; Sahin, Mehmet

    2017-11-01

    A vertex based three-dimensional finite volume algorithm has been developed using an edge based data structure.The mesh data structure of the given algorithm is similar to ones that exist in the literature. However, the data structures are redesigned and simplied in order to fit requirements of the vertex based finite volume method. In order to increase the cache efficiency, the data access patterns for the vertex based finite volume method are investigated and these datas are packed/allocated in a way that they are close to each other in the memory. The present data structure is not limited with tetrahedrons, arbitrary polyhedrons are also supported in the mesh without putting any additional effort. Furthermore, the present data structure also supports adaptive refinement and coarsening. For the implicit and parallel implementation of the FVM algorithm, PETSc and MPI libraries are employed. The performance and accuracy of the present algorithm are tested for the classical benchmark problems by comparing the CPU time for the open source algorithms.

  8. Potentially of using vertical and three dimensional isolation systems in nuclear structures

    International Nuclear Information System (INIS)

    Zhou, Zhiuang; Wong, Jenna; Mahin, Stephen

    2016-01-01

    Although the horizontal component of an earthquake response can be significantly reduced through the use of conventional seismic isolators, the vertical component of excitation is still transmitted directly into the structure. Records from instrumented structures, and some recent tests and analyses have actually seen increases in vertical responses in base isolated structures under the combined effects of horizontal and vertical ground motions. This issue becomes a great concern to facilities such as a Nuclear Power Plants (NPP), with specialized equipment and machinery that is not only expensive, but critical to safe operation. As such, there is considerable interest worldwide in vertical and three-dimensional (3D) isolation systems. This paper examines several vertical and 3D isolation systems that have been proposed and their potential application to modern nuclear facilities. In particular, a series of case study analyses of a modern NPP model are performed to examine the benefits and challenges associated with 3D isolation compared with horizontal isolation. It was found that compared with the general horizontal isolators, isolators that have vertical frequencies of no more than 3 Hz can effectively reduce the vertical in-structure responses for the studied NPP model. Among the studied cases, the case that has a vertical isolation frequency of 3 Hz is the one that can keep the horizontal period of the isolators as the first period while having the most flexible vertical isolator properties. When the vertical frequency of isolators reduces to 1 Hz, the rocking effect is obvious and rocking restraining devices are necessary

  9. Three dimensional simulation of giant magneto-impedance effect in thin film structures

    KAUST Repository

    Li, Bodong; Kosel, Jü rgen

    2011-01-01

    In this paper, a three dimensional model for the giant magneto-impedance (GMI) effect in thin film structures is developed using the finite element method(FEM) with a GMI permeability model embedded. One-layer, three-layer, and five-layer thin film structures are simulated. The GMI effect and the sensitivity are calculated as a function of the external magnetic field, driving frequency, and the thickness of the magnetic layers. The results show that the five-layer structure has the best performance, which is in accordance with experimental results. The GMI ratio and the sensitivity first improve with the increasing thickness of the magnetic layer but reach saturation at a certain value of the thickness. In a five-layer structure,saturation of the GMI effect becomes effective at about 3 μm thickness of the magnetic layers, where a GMI ratio of 1125% was obtained, with a corresponding sensitivity of 0.37%/A/m (29.6%/Oe).

  10. Potentially of using vertical and three dimensional isolation systems in nuclear structures

    Energy Technology Data Exchange (ETDEWEB)

    Zhou, Zhiuang [Research Institute of Structural Engineering and Disaster Reduction, Tongji University, Shanghai (China); Wong, Jenna [Lawrence Berkeley National Laboratories, Berkeley (United States); Mahin, Stephen [University of California, Berkeley (United States)

    2016-10-15

    Although the horizontal component of an earthquake response can be significantly reduced through the use of conventional seismic isolators, the vertical component of excitation is still transmitted directly into the structure. Records from instrumented structures, and some recent tests and analyses have actually seen increases in vertical responses in base isolated structures under the combined effects of horizontal and vertical ground motions. This issue becomes a great concern to facilities such as a Nuclear Power Plants (NPP), with specialized equipment and machinery that is not only expensive, but critical to safe operation. As such, there is considerable interest worldwide in vertical and three-dimensional (3D) isolation systems. This paper examines several vertical and 3D isolation systems that have been proposed and their potential application to modern nuclear facilities. In particular, a series of case study analyses of a modern NPP model are performed to examine the benefits and challenges associated with 3D isolation compared with horizontal isolation. It was found that compared with the general horizontal isolators, isolators that have vertical frequencies of no more than 3 Hz can effectively reduce the vertical in-structure responses for the studied NPP model. Among the studied cases, the case that has a vertical isolation frequency of 3 Hz is the one that can keep the horizontal period of the isolators as the first period while having the most flexible vertical isolator properties. When the vertical frequency of isolators reduces to 1 Hz, the rocking effect is obvious and rocking restraining devices are necessary.

  11. Zebrafish cardiac muscle thick filaments: isolation technique and three-dimensional structure.

    Science.gov (United States)

    González-Solá, Maryví; Al-Khayat, Hind A; Behra, Martine; Kensler, Robert W

    2014-04-15

    To understand how mutations in thick filament proteins such as cardiac myosin binding protein-C or titin, cause familial hypertrophic cardiomyopathies, it is important to determine the structure of the cardiac thick filament. Techniques for the genetic manipulation of the zebrafish are well established and it has become a major model for the study of the cardiovascular system. Our goal is to develop zebrafish as an alternative system to the mammalian heart model for the study of the structure of the cardiac thick filaments and the proteins that form it. We have successfully isolated thick filaments from zebrafish cardiac muscle, using a procedure similar to those for mammalian heart, and analyzed their structure by negative-staining and electron microscopy. The isolated filaments appear well ordered with the characteristic 42.9 nm quasi-helical repeat of the myosin heads expected from x-ray diffraction. We have performed single particle image analysis on the collected electron microscopy images for the C-zone region of these filaments and obtained a three-dimensional reconstruction at 3.5 nm resolution. This reconstruction reveals structure similar to the mammalian thick filament, and demonstrates that zebrafish may provide a useful model for the study of the changes in the cardiac thick filament associated with disease processes. Copyright © 2014 Biophysical Society. Published by Elsevier Inc. All rights reserved.

  12. Three dimensional simulation of giant magneto-impedance effect in thin film structures

    KAUST Repository

    Li, Bodong

    2011-04-04

    In this paper, a three dimensional model for the giant magneto-impedance (GMI) effect in thin film structures is developed using the finite element method(FEM) with a GMI permeability model embedded. One-layer, three-layer, and five-layer thin film structures are simulated. The GMI effect and the sensitivity are calculated as a function of the external magnetic field, driving frequency, and the thickness of the magnetic layers. The results show that the five-layer structure has the best performance, which is in accordance with experimental results. The GMI ratio and the sensitivity first improve with the increasing thickness of the magnetic layer but reach saturation at a certain value of the thickness. In a five-layer structure,saturation of the GMI effect becomes effective at about 3 μm thickness of the magnetic layers, where a GMI ratio of 1125% was obtained, with a corresponding sensitivity of 0.37%/A/m (29.6%/Oe).

  13. Growth mechanism of InGaN nanodots on three-dimensional GaN structures

    Energy Technology Data Exchange (ETDEWEB)

    Park, Donghwy; Min, Daehong; Nam, Okhyun [Department of Nano-Optical Engineering, Convergence Center for Advanced Nano-Semiconductor (CANS), Korea Polytechnic University (KPU), Siheung-si, Gyeonggi-do (Korea, Republic of)

    2017-07-15

    In this study, we investigated the growth mechanism of indium gallium nitride (InGaN) nanodots (NDs) and an InGaN layer, which were simultaneously formed on a three-dimensional (3D) gallium nitride (GaN) structure, having (0001) polar, (11-22) semi-polar, and (11-20) nonpolar facets. We observed the difference in the morphological and compositional properties of the InGaN structures. From the high resolution transmission electron microscopy (HR-TEM) images, it can be seen that the InGaN NDs were formed only on the polar and nonpolar facets, whereas an InGaN layer was formed on the semi-polar facet. The indium composition variation in all the InGaN structures was observed using scanning transmission electron microscopy (STEM) and the energy dispersive X-ray spectroscopy (EDS). The different growth mechanism can be explained by two reasons: (i) The difference in the diffusivities of indium and gallium adatoms at each facet of 3D GaN structure; and (ii) the difference in the kinetic Wulff plots of polar, semi-polar, and nonpolar GaN planes. (copyright 2017 WILEY-VCH Verlag GmbH and Co. KGaA, Weinheim)

  14. Granular gel support-enabled extrusion of three-dimensional alginate and cellular structures.

    Science.gov (United States)

    Jin, Yifei; Compaan, Ashley; Bhattacharjee, Tapomoy; Huang, Yong

    2016-06-03

    Freeform fabrication of soft structures has been of great interest in recent years. In particular, it is viewed as a critical step toward the grand vision of organ printing--the on-demand design and fabrication of three-dimensional (3D) human organ constructs for implantation and regenerative medicine. The objective of this study is to develop a novel granular gel support material-enabled, two-step gelation-based 'printing-then-gelation' approach to fabricate 3D alginate structures using filament extrusion. Specifically, a granular Carbopol microgel bath holds the ungelled alginate structure being extruded, avoiding the instantaneous gelation of each printed layer as well as resultant surface tension-induced nozzle clogging. Since Carbopol microgels react with multivalent cations, which are needed for alginate crosslinking, gelatin is introduced as a sacrificial material to make an alginate and gelatin bioink for extrusion, which gels thermally (step-one gelation) to initially stabilize the printed structure for removal from Carbopol. Then gelatin is melted and diffused away while alginate is ionically crosslinked in a 37 °C calcium chloride bath (step-two gelation), resulting in an alginate structure. The proposed 'printing-then-gelation' approach works for alginate structure fabrication, and it is also applicable for the printing of cellular constructs and other similar homogeneous soft structures using a two-step or even multi-step approach. The main conclusions are: (1) 0.8% (w/v) Carbopol bath with a neutral pH value may be most suitable for soft structure printing; (2) it is most effective to use a 0.9% (w/v) NaCl solution to facilitate the removal of residual Carbopol; and (3) alginate structures fabricated using the proposed approach demonstrate better mechanical properties than those fabricated using the conventional 'gelation-while-printing' approach.

  15. Magnetic-resonance-imaging-based three-dimensional muscle reconstruction of hip abductor muscle volume in a person with a transfemoral bone-anchored prosthesis : A feasibility study

    NARCIS (Netherlands)

    Leijendekkers, Ruud A.; Marra, Marco A.; Ploegmakers, Marieke J.M.; Van Hinte, Gerben; Frölke, Jan Paul; Van De Meent, Hendrik; Staal, J. Bart; Hoogeboom, Thomas J.; Verdonschot, Nico

    2018-01-01

    Background: Persons with transfemoral amputation typically have severe muscle atrophy of the residual limb. The effect of bone-anchored prosthesis use on existing muscle atrophy is unknown. A potentially feasible method to evaluate this is magnetic resonance imaging (MRI)-based three-dimensional

  16. Three-dimensional glue detection and evaluation based on linear structured light

    Science.gov (United States)

    Xiao, Zhitao; Yang, Ruipeng; Geng, Lei; Liu, Yanbei

    2018-01-01

    During the online glue detection of body in white (BIW), the purpose of traditional glue detection based on machine vision is the localization and segmentation of glue, which is dissatisfactory for estimating the uniformity of glue with complex shape. A three-dimensional glue detection method based on the linear structured light and the movement parameters of robot is proposed. Firstly, the linear structured light and epipolar constraint algorithm are used for sign matching of binocular vision. Then, hand-eye relationship between robot and binocular camera is utilized to unified coordinate system. Finally, a structured light stripe extraction method is proposed to extract the sub-pixel coordinates of the light strip center. Experiments results demonstrate that the propose method can estimate the shape of glue accurately. For three kinds of glue with complex shape and uneven illumination, our method can detect the positions of blemishes. The absolute error of measurement is less than 1.04mm and the relative error is less than 10% respectively, which is suitable for online glue detection in BIW.

  17. Three-dimensional habitat structure and landscape genetics: a step forward in estimating functional connectivity.

    Science.gov (United States)

    Milanesi, P; Holderegger, R; Bollmann, K; Gugerli, F; Zellweger, F

    2017-02-01

    Estimating connectivity among fragmented habitat patches is crucial for evaluating the functionality of ecological networks. However, current estimates of landscape resistance to animal movement and dispersal lack landscape-level data on local habitat structure. Here, we used a landscape genetics approach to show that high-fidelity habitat structure maps derived from Light Detection and Ranging (LiDAR) data critically improve functional connectivity estimates compared to conventional land cover data. We related pairwise genetic distances of 128 Capercaillie (Tetrao urogallus) genotypes to least-cost path distances at multiple scales derived from land cover data. Resulting β values of linear mixed effects models ranged from 0.372 to 0.495, while those derived from LiDAR ranged from 0.558 to 0.758. The identification and conservation of functional ecological networks suffering from habitat fragmentation and homogenization will thus benefit from the growing availability of detailed and contiguous data on three-dimensional habitat structure and associated habitat quality. © 2016 by the Ecological Society of America.

  18. Structural and congenital heart disease interventions: the role of three-dimensional printing.

    Science.gov (United States)

    Meier, L M; Meineri, M; Qua Hiansen, J; Horlick, E M

    2017-02-01

    Advances in catheter-based interventions in structural and congenital heart disease have mandated an increased demand for three-dimensional (3D) visualisation of complex cardiac anatomy. Despite progress in 3D imaging modalities, the pre- and periprocedural visualisation of spatial anatomy is relegated to two-dimensional flat screen representations. 3D printing is an evolving technology based on the concept of additive manufacturing, where computerised digital surface renders are converted into physical models. Printed models replicate complex structures in tangible forms that cardiovascular physicians and surgeons can use for education, preprocedural planning and device testing. In this review we discuss the different steps of the 3D printing process, which include image acquisition, segmentation, printing methods and materials. We also examine the expanded applications of 3D printing in the catheter-based treatment of adult patients with structural and congenital heart disease while highlighting the current limitations of this technology in terms of segmentation, model accuracy and dynamic capabilities. Furthermore, we provide information on the resources needed to establish a hospital-based 3D printing laboratory.

  19. Three-dimensional investigation of the two-phase flow structure in a bubbly pipe flow

    International Nuclear Information System (INIS)

    Hassan, Y.A.; Schmidl, W.D.; Ortiz-Villafuerte, J.

    1997-01-01

    Particle Image Velocimetry (PIV) is a non-intrusive measurement technique, which can be used to study the structure of various fluid flows. PIV is used to measure the time varying full field velocity data of a particle-seeded flow field within either a two-dimensional plane or three-dimensional volume. PIV is a very efficient measurement technique since it can obtain both qualitative and quantitative spatial information about the flow field being studied. This information can be further processed into information such as vorticity and pathlines. Other flow measurement techniques (Laser Doppler Velocimetry, Hot Wire Anemometry, etc...) only provide quantitative information at a single point. PIV can be used to study turbulence structures if a sufficient amount of data can be acquired and analyzed, and it can also be extended to study two-phase flows if both phases can be distinguished. In this study, the flow structure around a bubble rising in a pipe filled with water was studied in three-dimensions. The velocity of the rising bubble and the velocity field of the surrounding water was measured. Then the turbulence intensities and Reynolds stresses were calculated from the experimental data. (author)

  20. Experimental study of soil-structure interaction for proving the three dimensional thin layered element method

    International Nuclear Information System (INIS)

    Kuwabara, Y.; Ogiwara, Y.; Suzuki, T.; Tsuchiya, H.; Nakayama, M.

    1981-01-01

    It is generally recognized that the earthquake response of a structure can be significantly affected by the dynamic interaction between the structure and the surrounding soil. Dynamic soil-structure interaction effects are usually analyzed by using a lumped mass model or a finite element model. In the lumped mass model, the soil is represented by springs and dashpots based on the half-space elastic theory. Each model has its advantages and limitations. The Three Dimensional Thin Layered Element Theory has been developed by Dr. Hiroshi Tajimi based on the combined results of the abovementioned lumped mass model and finite element model. The main characteristic of this theory is that, in consideration and can be applied in the analysis of many problems in soil-structure interaction, such as those involving radiation damping, embedded structures, and multi-layered soil deposits. This paper describes test results on a small scale model used to prove the validity of the computer program based on the Thin Layered Element Theory. As a numerical example, the response analysis of a PWR nuclear power plant is carried out using this program. The vibration test model is simplified and the scale is 1/750 for line. The soil layer of the model is made of congealed gelatine. The test soil layer is 80 cm long, 35 cm wide and 10 cm thick. The super structure is a one mass model made of metal sheet spring and solid mass metal. As fixed inputs, sinusoidal waves (10, 20 gal level) are used. The displacements of the top and base of the super structure, and the accelerations and the displacements of the shaking table are measured. The main parameter of the test is the shear wave velocity of the soil layer. (orig./RW)

  1. An interactive three-dimensional virtual body structures system for anatomical training over the internet.

    Science.gov (United States)

    Temkin, Bharti; Acosta, Eric; Malvankar, Ameya; Vaidyanath, Sreeram

    2006-04-01

    The Visible Human digital datasets make it possible to develop computer-based anatomical training systems that use virtual anatomical models (virtual body structures-VBS). Medical schools are combining these virtual training systems and classical anatomy teaching methods that use labeled images and cadaver dissection. In this paper we present a customizable web-based three-dimensional anatomy training system, W3D-VBS. W3D-VBS uses National Library of Medicine's (NLM) Visible Human Male datasets to interactively locate, explore, select, extract, highlight, label, and visualize, realistic 2D (using axial, coronal, and sagittal views) and 3D virtual structures. A real-time self-guided virtual tour of the entire body is designed to provide detailed anatomical information about structures, substructures, and proximal structures. The system thus facilitates learning of visuospatial relationships at a level of detail that may not be possible by any other means. The use of volumetric structures allows for repeated real-time virtual dissections, from any angle, at the convenience of the user. Volumetric (3D) virtual dissections are performed by adding, removing, highlighting, and labeling individual structures (and/or entire anatomical systems). The resultant virtual explorations (consisting of anatomical 2D/3D illustrations and animations), with user selected highlighting colors and label positions, can be saved and used for generating lesson plans and evaluation systems. Tracking users' progress using the evaluation system helps customize the curriculum, making W3D-VBS a powerful learning tool. Our plan is to incorporate other Visible Human segmented datasets, especially datasets with higher resolutions, that make it possible to include finer anatomical structures such as nerves and small vessels. (c) 2006 Wiley-Liss, Inc.

  2. Three-dimensional crustal structure for the Mendocino Triple Junction region from local earthquake travel times

    Energy Technology Data Exchange (ETDEWEB)

    Verdonck, D.; Zandt, G. [Lawrence Livermore National Lab., CA (United States)

    1994-12-10

    The large-scale, three-dimensional geometry of the Mendocino Triple Junction at Cape Mendocino, California, was investigated by inverting nearly 19,000 P wave arrival times from over 1400 local earthquakes to estimate the three-dimensional velocity structure and hypocentral parameters. A velocity grid 175 km (N-S) by 125 km (E-W) centered near Garberville, California, was constructed with 25 km horizontal and 5 km vertical node spacing. The model was well resolved near Cape Mendocino, where the earthquakes and stations are concentrated. At about 40.6{degrees}N latitude a high-velocity gradient between 6.5 and 7.5 km/s dips gently to the south and east from about 15 km depth near the coast. Relocated hypocenters concentrate below this high gradient which the authors interpret as the oceanic crust of the subducted Gorda Plate. Therefore the depth to the top of the Gorda Plate near Cape Mendocino is interpreted to be {approximately} 15 km. The Gorda Plate appears intact and dipping {approximately}8{degrees} eastward due to subduction and flexing downward 6{degrees}-12{degrees} to the south. Both hypocenters and velocity structure suggest that the southern edge of the plate intersects the coastline at 40.3{degrees}N latitude and maintains a linear trend 15{degrees} south of east to at least 123{degrees}W longitude. The top of a large low-velocity region at 20-30 km depth extends about 50 km N-S and 75 km E-W (roughly between Garberville and Covelo) and is located above and south of the southern edge of the Gorda Plate. The authors interpret this low velocity area to be locally thickened crust (8-10 km) due to either local compressional forces associated with north-south compression caused by the northward impingement of the rigid Pacific Plate or by underthrusting of the base of the accretionary subduction complex at the southern terminous of the Cascadia Subduction Zone. 66 refs., 11 figs., 3 tabs.

  3. Three-dimensional cluster formation and structure in heterogeneous dose distribution of intensity modulated radiation therapy.

    Science.gov (United States)

    Chao, Ming; Wei, Jie; Narayanasamy, Ganesh; Yuan, Yading; Lo, Yeh-Chi; Peñagarícano, José A

    2018-05-01

    To investigate three-dimensional cluster structure and its correlation to clinical endpoint in heterogeneous dose distributions from intensity modulated radiation therapy. Twenty-five clinical plans from twenty-one head and neck (HN) patients were used for a phenomenological study of the cluster structure formed from the dose distributions of organs at risks (OARs) close to the planning target volumes (PTVs). Initially, OAR clusters were searched to examine the pattern consistence among ten HN patients and five clinically similar plans from another HN patient. Second, clusters of the esophagus from another ten HN patients were scrutinized to correlate their sizes to radiobiological parameters. Finally, an extensive Monte Carlo (MC) procedure was implemented to gain deeper insights into the behavioral properties of the cluster formation. Clinical studies showed that OAR clusters had drastic differences despite similar PTV coverage among different patients, and the radiobiological parameters failed to positively correlate with the cluster sizes. MC study demonstrated the inverse relationship between the cluster size and the cluster connectivity, and the nonlinear changes in cluster size with dose thresholds. In addition, the clusters were insensitive to the shape of OARs. The results demonstrated that the cluster size could serve as an insightful index of normal tissue damage. The clinical outcome of the same dose-volume might be potentially different. Copyright © 2018 Elsevier B.V. All rights reserved.

  4. Viscoelastic polymer flows and elastic turbulence in three-dimensional porous structures.

    Science.gov (United States)

    Mitchell, Jonathan; Lyons, Kyle; Howe, Andrew M; Clarke, Andrew

    2016-01-14

    Viscoelastic polymer solutions flowing through reservoir rocks have been found to improve oil displacement efficiency when the aqueous-phase shear-rate exceeds a critical value. A possible mechanism for this enhanced recovery is elastic turbulence that causes breakup and mobilization of trapped oil ganglia. Here, we apply nuclear magnetic resonance (NMR) pulsed field gradient (PFG) diffusion measurements in a novel way to detect increased motion of disconnected oil ganglia. The data are acquired directly from a three-dimensional (3D) opaque porous structure (sandstone) when viscoelastic fluctuations are expected to be present in the continuous phase. The measured increase in motion of trapped ganglia provides unequivocal evidence of fluctuations in the flowing phase in a fully complex 3D system. This work provides direct evidence of elastic turbulence in a realistic reservoir rock - a measurement that cannot be readily achieved by conventional laboratory methods. We support the NMR data with optical microscopy studies of fluctuating ganglia in simple two-dimensional (2D) microfluidic networks, with consistent apparent rheological behaviour of the aqueous phase, to provide conclusive evidence of elastic turbulence in the 3D structure and hence validate the proposed flow-fluctuation mechanism for enhanced oil recovery.

  5. Effects of lens extirpation with anterior vitrectomy on vitreous three-dimensional mesh structure

    Directory of Open Access Journals (Sweden)

    Yan Zhao

    2017-06-01

    Full Text Available AIM: To investigate the changes in vitreous gel structure after lens extirpation combined with anterior vitrectomy in rabbit eyes. METHODS: Twenty-eight chinchilla rabbits were divided into three groups. The control group (Group I included 16 eyes from eight rabbits who did not receive any treatment. Group II included 20 eyes from 10 rabbits that underwent lens aspiration only. Group III included 20 eyes from 10 rabbits that underwent lens aspiration combined with posterior capsulotomy and anterior vitrectomy. Eyes were harvested on the 30th and 60th day postoperatively, respectively. Changes in vitreous gel stretch length due to gravity and the rate of vitreous liquefaction were observed. The collagen content in the vitreous body was examined using the L-hydroxyproline test. Electronic microscopic images were obtained from each eyeball. RESULTS: On both the 30th and 60th day postoperatively, the vitreous gel length of group III was significantly shorter than group I and group II (P<0.05, while the rate of liquefaction of the vitreous body in group III was significantly higher than group I and group II (P<0.05. The collagen content in group III was also higher than that in group I and group II (P<0.05. CONCLUSION: Loss of vitreous gel mass is more likely to occur in the eyes of rabbits receiving anterior vitrectomy. Lensectomy combined with anterior vitrectomy may damage the stable three-dimensional mesh structure of collagen, which could aggravate vitreous gel liquefaction.

  6. Investigation of three-dimensional turbulent structures in the torsatron TJ-K

    International Nuclear Information System (INIS)

    Mahdizadeh, N.

    2007-01-01

    In this work, for the first time, the three-dimensional nature of drift waves has been verified experimentally inside the confinement region of the toroidal plasma in TJ-K. The perpendicular dynamics of turbulence has been studied with the focus on the poloidal wavenumber spectra and the scaling of the turbulent structure with the drift scale. To this end, a 64 tip Langmuir probe array has been used, which is poloidally positioned on a flux surface. For the first time, the parallel dynamics of turbulence has been investigated in the core of a toroidally confined plasma. In contrast to previous experiments, multi-probe measurements were carried out to get simultaneous information on the shape and the propagation direction of the turbulent structures. The results for the parallel wave number and the parallel propagation velocity have been compared with results from the simulation code GEM3. It is demonstrated that the propagation in the direction parallel to the magnetic field is affected by Alfven dynamics. Together, these results strongly confirm previous investigations, which have demonstrated the importance of drift-wave turbulence in TJ-K and therefore also in fusion edge plasma. (orig.)

  7. Three-dimensional quantification of structures in trabecular bone using measures of complexity

    DEFF Research Database (Denmark)

    Marwan, Norbert; Kurths, Jürgen; Thomsen, Jesper Skovhus

    2009-01-01

    The study of pathological changes of bone is an important task in diagnostic procedures of patients with metabolic bone diseases such as osteoporosis as well as in monitoring the health state of astronauts during long-term space flights. The recent availability of high-resolution three-dimensiona......The study of pathological changes of bone is an important task in diagnostic procedures of patients with metabolic bone diseases such as osteoporosis as well as in monitoring the health state of astronauts during long-term space flights. The recent availability of high-resolution three......-dimensional (3D) imaging of bone challenges the development of data analysis techniques able to assess changes of the 3D microarchitecture of trabecular bone. We introduce an approach based on spatial geometrical properties and define structural measures of complexity for 3D image analysis. These measures...... evaluate different aspects of organization and complexity of 3D structures, such as complexity of its surface or shape variability. We apply these measures to 3D data acquired by high-resolution microcomputed tomography (µCT) from human proximal tibiae and lumbar vertebrae at different stages...

  8. Three-dimensional bioprinting is not only about cell-laden structures.

    Science.gov (United States)

    Zhang, Hong-Bo; Xing, Tian-Long; Yin, Rui-Xue; Shi, Yong; Yang, Shi-Mo; Zhang, Wen-Jun

    2016-08-01

    In this review, we focused on a few obstacles that hinder three-dimensional (3D) bioprinting process in tissue engineering. One of the obstacles is the bioinks used to deliver cells. Hydrogels are the most widely used bioink materials; however, they aremechanically weak in nature and cannot meet the requirements for supporting structures, especially when the tissues, such as cartilage, require extracellular matrix to be mechanically strong. Secondly and more importantly, tissue regeneration is not only about building all the components in a way that mimics the structures of living tissues, but also about how to make the constructs function normally in the long term. One of the key issues is sufficient nutrient and oxygen supply to the engineered living constructs. The other is to coordinate the interplays between cells, bioactive agents and extracellular matrix in a natural way. This article reviews the approaches to improve the mechanical strength of hydrogels and their suitability for 3D bioprinting; moreover, the key issues of multiple cell lines coprinting with multiple growth factors, vascularization within engineered living constructs etc. were also reviewed.

  9. Three-dimensional bioprinting is not only about cell-laden structures

    Directory of Open Access Journals (Sweden)

    Hong-Bo Zhang

    2016-08-01

    Full Text Available In this review, we focused on a few obstacles that hinder three-dimensional (3D bioprinting process in tissue engineering. One of the obstacles is the bioinks used to deliver cells. Hydrogels are the most widely used bioink materials; however, they are mechanically weak in nature and cannot meet the requirements for supporting structures, especially when the tissues, such as cartilage, require extracellular matrix to be mechanically strong. Secondly and more importantly, tissue regeneration is not only about building all the components in a way that mimics the structures of living tissues, but also about how to make the constructs function normally in the long term. One of the key issues is sufficient nutrient and oxygen supply to the engineered living constructs. The other is to coordinate the interplays between cells, bioactive agents and extracellular matrix in a natural way. This article reviews the approaches to improve the mechanical strength of hydrogels and their suitability for 3D bioprinting; moreover, the key issues of multiple cell lines coprinting with multiple growth factors, vascularization within engineered living constructs etc. were also reviewed.

  10. Synthesis of three-dimensional calcium carbonate nanofibrous structure from eggshell using femtosecond laser ablation

    Directory of Open Access Journals (Sweden)

    Venkatakrishnan Krishnan

    2011-01-01

    Full Text Available Abstract Background Natural biomaterials from bone-like minerals derived from avian eggshells have been considered as promising bone substitutes owing to their biodegradability, abundance, and lower price in comparison with synthetic biomaterials. However, cell adhesion to bulk biomaterials is poor and surface modifications are required to improve biomaterial-cell interaction. Three-dimensional (3D nanostructures are preferred to act as growth support platforms for bone and stem cells. Although there have been several studies on generating nanoparticles from eggshells, no research has been reported on synthesizing 3D nanofibrous structures. Results In this study, we propose a novel technique to synthesize 3D calcium carbonate interwoven nanofibrous platforms from eggshells using high repetition femtosecond laser irradiation. The eggshell waste is value engineered to calcium carbonate nanofibrous layer in a single step under ambient conditions. Our striking results demonstrate that by controlling the laser pulse repetition, nanostructures with different nanofiber density can be achieved. This approach presents an important step towards synthesizing 3D interwoven nanofibrous platforms from natural biomaterials. Conclusion The synthesized 3D nanofibrous structures can promote biomaterial interfacial properties to improve cell-platform surface interaction and develop new functional biomaterials for a variety of biomedical applications.

  11. Electronic structures and three-dimensional effects of boron-doped carbon nanotubes

    International Nuclear Information System (INIS)

    Koretsune, Takashi; Saito, Susumu

    2008-01-01

    We study boron-doped carbon nanotubes by first-principles methods based on the density functional theory. To discuss the possibility of superconductivity, we calculate the electronic band structure and the density of states (DOS) of boron-doped (10,0) nanotubes by changing the boron density. It is found that the Fermi level density of states D(ε F ) increases upon lowering the boron density. This can be understood in terms of the rigid band picture where the one-dimensional van Hove singularity lies at the edge of the valence band in the DOS of the pristine nanotube. The effect of three-dimensionality is also considered by performing the calculations for bundled (10,0) nanotubes and boron-doped double-walled carbon nanotubes (10,0)/(19,0). From the calculation of the bundled nanotubes, it is found that interwall dispersion is sufficiently large to broaden the peaks of the van Hove singularity in the DOS. Thus, to achieve the high D(ε F ) using the bundle of nanotubes with single chirality, we should take into account the distance from each nanotube. In the case of double-walled carbon nanotubes, we find that the holes introduced to the inner tube by boron doping spread also on the outer tube, while the band structure of each tube remains almost unchanged.

  12. Investigation of three-dimensional turbulent structures in the torsatron TJ-K

    Energy Technology Data Exchange (ETDEWEB)

    Mahdizadeh, N.

    2007-02-14

    In this work, for the first time, the three-dimensional nature of drift waves has been verified experimentally inside the confinement region of the toroidal plasma in TJ-K. The perpendicular dynamics of turbulence has been studied with the focus on the poloidal wavenumber spectra and the scaling of the turbulent structure with the drift scale. To this end, a 64 tip Langmuir probe array has been used, which is poloidally positioned on a flux surface. For the first time, the parallel dynamics of turbulence has been investigated in the core of a toroidally confined plasma. In contrast to previous experiments, multi-probe measurements were carried out to get simultaneous information on the shape and the propagation direction of the turbulent structures. The results for the parallel wave number and the parallel propagation velocity have been compared with results from the simulation code GEM3. It is demonstrated that the propagation in the direction parallel to the magnetic field is affected by Alfven dynamics. Together, these results strongly confirm previous investigations, which have demonstrated the importance of drift-wave turbulence in TJ-K and therefore also in fusion edge plasma. (orig.)

  13. Three-dimensional structure of lectin from Dioclea violacea and comparative vasorelaxant effects with Dioclea rostrata

    Energy Technology Data Exchange (ETDEWEB)

    Rocha, B.A.M.; Bezerra, M.J.B.; Bezerra, G.A.; Alencar, K.L.L.; Nascimento, K.S.; Naganao, C.S.; Sampaio, A.H.; Cavada, B.S. [Universidade Federal do Ceara (UFC), Fortaleza, CE (Brazil); Delatorre, P. [Universidade Federal da Paraiba (UFPB), Joao Pessoa, PB (Brazil); Rodrigues, N.V.; Pires, A.F.; Assreuy, A.M.S. [Universidade Estadual do Ceara (UECE), Fortaleza, CE (Brazil); Marins, J.L. [Universidade Federal de Pelotas (UFPel), Pelotas, RS (Brazil)

    2012-07-01

    Full text: Lectins are a structural heterogeneous group of proteins possessing at least one non-catalytic domain that binds reversibly to a specific mono or oligosaccharide. Diocleinae lectins exhibit glucose/mannose monosaccharide binding specificity and studies of their chemical and physicochemical properties revealed a high degree of identity in their amino acid sequences and three dimensional structures. This study investigated structural/functional relationships between lectins obtained from Dioclea violacea (DVL) and Dioclea rostrata (DRL). The purified lectin (DVL) was solubilized in 20 mM Tris-HCl pH 7.6 with 5 mM CaCl{sub 2} and MnCl{sub 2} buffer and incubated during one hour before the crystallization experiments with the ligand X-Man (5-bromo-4-chloro-3-indolyl-{alpha}-D-mannose) at 3 mM. Crystals of DVL grew in condition 33 of Crystal Screen I (4M Sodium formate) and belong to the orthorhombic space group I222. The structure of DVL at 2.6 resolution was obtained by molecular replacement using the coordinates of DRL (PDB code 2ZBJ), after the last refinement the structure presented R factor of 0.23 and R free of 0.27. The crystal structures reveal differences between them and could be related to relaxant activity. The conformation of residues HIS51, HIS131 and GLU205 and others positioned at CRD lead to different lectin binding activities. In fact, the pocket in DVL is small and deep and promotes weak interaction with carbohydrates, while DRL pocket is large and shallow, allowing strong interaction between CRD and sugars. This can explain why DVL and DRL elicited different degrees of aorta relaxation showing maximal effects of 43 % and 96 %, respectively. (author)

  14. Three-dimensional intracellular structure of a whole rice mesophyll cell observed with FIB-SEM.

    Science.gov (United States)

    Oi, Takao; Enomoto, Sakiko; Nakao, Tomoyo; Arai, Shigeo; Yamane, Koji; Taniguchi, Mitsutaka

    2017-07-01

    Ultrathin sections of rice leaf blades observed two-dimensionally using a transmission electron microscope (TEM) show that the chlorenchyma is composed of lobed mesophyll cells, with intricate cell boundaries, and lined with chloroplasts. The lobed cell shape and chloroplast positioning are believed to enhance the area available for the gas exchange surface for photosynthesis in rice leaves. However, a cell image revealing the three-dimensional (3-D) ultrastructure of rice mesophyll cells has not been visualized. In this study, a whole rice mesophyll cell was observed using a focused ion beam scanning electron microscope (FIB-SEM), which provides many serial sections automatically, rapidly and correctly, thereby enabling 3-D cell structure reconstruction. Rice leaf blades were fixed chemically using the method for conventional TEM observation, embedded in resin and subsequently set in the FIB-SEM chamber. Specimen blocks were sectioned transversely using the FIB, and block-face images were captured using the SEM. The sectioning and imaging were repeated overnight for 200-500 slices (each 50 nm thick). The resultant large-volume image stacks ( x = 25 μm, y = 25 μm, z = 10-25 μm) contained one or two whole mesophyll cells. The 3-D models of whole mesophyll cells were reconstructed using image processing software. The reconstructed cell models were discoid shaped with several lobes around the cell periphery. The cell shape increased the surface area, and the ratio of surface area to volume was twice that of a cylinder having the same volume. The chloroplasts occupied half the cell volume and spread as sheets along the cell lobes, covering most of the inner cell surface, with adjacent chloroplasts in close contact with each other. Cellular and sub-cellular ultrastructures of a whole mesophyll cell in a rice leaf blade are demonstrated three-dimensionally using a FIB-SEM. The 3-D models and numerical information support the hypothesis that rice mesophyll

  15. Novel highly sensitive and wearable pressure sensors from conductive three-dimensional fabric structures

    International Nuclear Information System (INIS)

    Li, Jianfeng; Xu, Bingang

    2015-01-01

    Pressure sensors based on three-dimensional fabrics have all the excellent properties of the textile substrate: excellent compressibility, good air permeability and moisture transmission ability, which will find applications ranging from the healthcare industry to daily usage. In this paper, novel pressure sensors based on 3D spacer fabrics have been developed by a proposed multi-coating method. By this coating method, carbon black can be coated uniformly on the silicon elastomer which is attached and slightly cured on the 3D fabric surface beforehand. The as-made pressure sensors have good conductivity and can measure external pressure up to 283 kPa with an electrical conductivity range of 9.8 kΩ. The sensitivity of 3D fabric pressure sensors can be as high as 50.31×10 −3 kPa −1 , which is better than other textile based pressure sensors. When the as-made sensors are pressed, their electrical resistance will decrease because of more conductive connections and bending of fibers in the spacer layer. The sensing mechanism related to fiber bending has been explored by using an equivalent resistance model. The newly developed 3D sensor devices can be designed to exhibit different sensing performances by simply changing the structures of fabric substrate, which endows this kind of device more flexibility in related applications. (paper)

  16. Beacon: A three-dimensional structural analysis code for bowing history of fast breeder reactor cores

    International Nuclear Information System (INIS)

    Miki, K.

    1979-01-01

    The core elements of an LMFBR are bowed due to radial gradients of both temperature and neutron flux in the core. Since all hexagonal elements are multiply supported by adjacent elements or the restraint system, restraint forces and bending stresses are induced. In turn, these forces and stresses are relaxed by irradiation enhanced creep of the material. The analysis of the core bowing behavior requires a three-dimensional consideration of the mechanical interactions among the core elements, because the core consists of different kinds of elements and of fuel assemblies with various burnup histories. A new computational code BEACON has been developed for analyzing the bowing behavior of an LMFBR's core in three dimensions. To evaluate mechanical interactions among core elements, the code uses the analytical method of the earlier SHADOW code. BEACON analyzes the mechanical interactions in three directions, which form angles of 60 0 with one another. BEACON is applied to the 60 0 sector of a typical LMFBR's core for analyzing the bowing history during one equilibrium cycle. 120 core elements are treated, assuming the boundary condition of rotational symmetry. The application confirms that the code can be an effective tool for parametric studies as well as for detailed structural analysis of LMFBR's core. (orig.)

  17. Novel sst2-selective somatostatin agonists. Three-dimensional consensus structure by NMR

    Science.gov (United States)

    Grace, Christy Rani R.; Erchegyi, Judit; Koerber, Steven C.; Reubi, Jean Claude; Rivier, Jean; Riek, Roland

    2008-01-01

    The three-dimensional NMR structures of six octapeptide agonist analogues of somatostatin (SRIF) in the free form are described. These analogues, with the basic sequence H-DPhe/Phe2-c[Cys3-Xxx7-DTrp8-Lys9-Thr10-Cys14]-Thr-NH2 (the numbering refers to the position in native SRIF), with Xxx7 being Ala/Aph, exhibit potent and highly selective binding to human SRIF type 2 (sst2) receptors. The backbone of these sst2-selective analogues have the usual type-II’ β-turn reported in the literature for sst2/3/5-subtype-selective analogues. Correlating biological results and NMR studies led to the identification of the side chains of DPhe2, DTrp8 and Lys9 as the necessary components of the sst2 pharmacophore. This is the first study to show that the aromatic ring at position 7 (Phe7) is not critical for sst2 binding and that it plays an important role in sst3 and sst5 binding. This pharmacophore is therefore different from that proposed by others for sst2/3/5 analogues. PMID:16854054

  18. Evaluating mental workload of two-dimensional and three-dimensional visualization for anatomical structure localization.

    Science.gov (United States)

    Foo, Jung-Leng; Martinez-Escobar, Marisol; Juhnke, Bethany; Cassidy, Keely; Hisley, Kenneth; Lobe, Thom; Winer, Eliot

    2013-01-01

    Visualization of medical data in three-dimensional (3D) or two-dimensional (2D) views is a complex area of research. In many fields 3D views are used to understand the shape of an object, and 2D views are used to understand spatial relationships. It is unclear how 2D/3D views play a role in the medical field. Using 3D views can potentially decrease the learning curve experienced with traditional 2D views by providing a whole representation of the patient's anatomy. However, there are challenges with 3D views compared with 2D. This current study expands on a previous study to evaluate the mental workload associated with both 2D and 3D views. Twenty-five first-year medical students were asked to localize three anatomical structures--gallbladder, celiac trunk, and superior mesenteric artery--in either 2D or 3D environments. Accuracy and time were taken as the objective measures for mental workload. The NASA Task Load Index (NASA-TLX) was used as a subjective measure for mental workload. Results showed that participants viewing in 3D had higher localization accuracy and a lower subjective measure of mental workload, specifically, the mental demand component of the NASA-TLX. Results from this study may prove useful for designing curricula in anatomy education and improving training procedures for surgeons.

  19. Important factors for the three-dimensional reconstruction of neuronal structures from serial ultrathin sections

    Directory of Open Access Journals (Sweden)

    Yoshiyuki Kubota

    2009-05-01

    Full Text Available Quantitative analysis of anatomical synaptic connectivity in microcircuits depends upon accurate 3-dimentional reconstructions of synaptic ultrastructure using electron microscopy of serial ultrathin sections. Here we address two pitfalls in current methodology that lead to inaccurate reconstructions and compromise conclusions drawn from the data. The first pitfall is inaccurate determination of ultrathin section thickness, which negatively affects the three-dimensional shape of reconstructions and therefore impairs quantitative measurement of synaptic structures. Secondly, current methodology significantly underestimates the number of synaptic junctions, with only two-thirds or less of genuine synaptic contacts being identified in dendrites that radiate within the plane of section. Here we propose a new methodology utilizing precise optical measurements of section thickness and successive observations of synaptic elements across serial ultrathin sections that corrects for these limitations to allow accurate 3-dimentional reconstruction of synaptic ultrastructure. We use this methodology to reveal that parvalbumin-expressing cortical interneurons have a much higher synaptic density than previously shown. This result suggests that this technique will be useful for re-examining synaptic connectivity of other cell types.

  20. Altimetric signal and three-dimensional structure of the sea in the Channel of Sicily

    Science.gov (United States)

    Nardelli, Bruno Buongiorno; Santoleri, Rosalia; Iudicone, Daniele; Zoffoli, Simona; Marullo, Salvatore

    1999-09-01

    The 1996 Altimeter/Synoptic Mesoscale Plancton Experiment (ALT/SYMPLEX) was specifically designed to perform in situ measurements simultaneous with the passage of TOPEX/POSEIDON (T/P) and ERS 2 over selected tracks in the central and eastern Sicily Channel. This experiment made it possible to have, for the first time, a validation of altimetry with in situ data over the Mediterranean, where weak dynamics results in a modest sea elevation, rarely exceeding 10 cm. Historical infrared and altimetric satellite data were first analyzed in order to study the variability of the circulation in the area. The comparative and integrative analysis of simultaneous satellite data and in situ measurements permitted investigation of the relation between the altimeter-derived surface topography and the three-dimensional structure of the sea. The Pearson correlation coefficients between altimeter data and dynamic heights along track resulted to be 0.72-0.89 (T/P) and 0.88 (ERS 2) when using conventional repeat track analysis. For T/P, a correlation value of 0.87 was found for time differences computed basing on a collinear analysis technique. This analysis also led to the identification of a strong barotropic component of the velocity field located near the Sicilian continental shelf, where it is responsible for approximately 60% of the signal.

  1. Non-Linear Three Dimensional Finite Elements for Composite Concrete Structures

    Directory of Open Access Journals (Sweden)

    O. Kohnehpooshi

    Full Text Available Abstract The current investigation focused on the development of effective and suitable modelling of reinforced concrete component with and without strengthening. The modelling includes physical and constitutive models. New interface elements have been developed, while modified constitutive law have been applied and new computational algorithm is utilised. The new elements are the Truss-link element to model the interaction between concrete and reinforcement bars, the interface element between two plate bending elements and the interface element to represent the interfacial behaviour between FRP, steel plates and concrete. Nonlinear finite-element (FE codes were developed with pre-processing. The programme was written using FORTRAN language. The accuracy and efficiency of the finite element programme were achieved by analyzing several examples from the literature. The application of the 3D FE code was further enhanced by carrying out the numerical analysis of the three dimensional finite element analysis of FRP strengthened RC beams, as well as the 3D non-linear finite element analysis of girder bridge. Acceptable distributions of slip, deflection, stresses in the concrete and FRP plate have also been found. These results show that the new elements are effective and appropriate to be used for structural component modelling.

  2. Structure and trapping of three-dimensional dust clouds in a capacitively coupled rf-discharge

    International Nuclear Information System (INIS)

    Arp, O.; Block, D.; Piel, A.

    2005-01-01

    In this survey the recently found 'Coulomb balls' are discussed, which show an unusual kind of crystalline order. These three-dimensional dust clouds consisting of hundreds or thousands of micrometer-sized dust particles have a spherical shape and exist in a wide range of plasma conditions. Coulomb balls are optically highly transparent and have macroscopic dimensions of several millimeters in diameter. The clouds allow for the observation of each single particle and thus the complete reconstruction of the crystal structure by means of video microscopy techniques. The particles are arranged in distinct nested shells in which they form patterns with mostly five and six neighbors. The confinement of Coulomb balls by dielectric walls involves electric forces, surface charges, ion drag forces, and thermophoretic levitation. The thermophoretic force field is measured with tracer particles and particle image velocimetry (PIV). The electric forces are derived from simulations with the two-dimensional SIGLO-2D code. It is shown the the sum of all confining forces results in a stable potential well that describes levitation and spherical confinement of the Coulomb ball

  3. Three-dimensional structural representation of the sleep-wake adaptability.

    Science.gov (United States)

    Putilov, Arcady A

    2016-01-01

    Various characteristics of the sleep-wake cycle can determine the success or failure of individual adjustment to certain temporal conditions of the today's society. However, it remains to be explored how many such characteristics can be self-assessed and how they are inter-related one to another. The aim of the present report was to apply a three-dimensional structural representation of the sleep-wake adaptability in the form of "rugby cake" (scalene or triaxial ellipsoid) to explain the results of analysis of the pattern of correlations of the responses to the initial 320-item list of a new inventory with scores on the six scales designed for multidimensional self-assessment of the sleep-wake adaptability (Morning and Evening Lateness, Anytime and Nighttime Sleepability, and Anytime and Daytime Wakeability). The results obtained for sample consisting of 149 respondents were confirmed by the results of similar analysis of earlier collected responses of 139 respondents to the same list of 320 items and responses of 1213 respondents to the 72 items of one of the earlier established questionnaire tools. Empirical evidence was provided in support of the model-driven prediction of the possibility to identify items linked to as many as 36 narrow (6 core and 30 mixed) adaptabilities of the sleep-wake cycle. The results enabled the selection of 168 items for self-assessment of all these adaptabilities predicted by the rugby cake model.

  4. Potentiality of Using Vertical and Three-Dimensional Isolation Systems in Nuclear Structures

    Directory of Open Access Journals (Sweden)

    Zhiguang Zhou

    2016-10-01

    Full Text Available Although the horizontal component of an earthquake response can be significantly reduced through the use of conventional seismic isolators, the vertical component of excitation is still transmitted directly into the structure. Records from instrumented structures, and some recent tests and analyses have actually seen increases in vertical responses in base isolated structures under the combined effects of horizontal and vertical ground motions. This issue becomes a great concern to facilities such as a Nuclear Power Plants (NPP, with specialized equipment and machinery that is not only expensive, but critical to safe operation. As such, there is considerable interest worldwide in vertical and three-dimensional (3D isolation systems. This paper examines several vertical and 3D isolation systems that have been proposed and their potential application to modern nuclear facilities. In particular, a series of case study analyses of a modern NPP model are performed to examine the benefits and challenges associated with 3D isolation compared with horizontal isolation. It was found that compared with the general horizontal isolators, isolators that have vertical frequencies of no more than 3 Hz can effectively reduce the vertical in-structure responses for the studied NPP model. Among the studied cases, the case that has a vertical isolation frequency of 3 Hz is the one that can keep the horizontal period of the isolators as the first period while having the most flexible vertical isolator properties. When the vertical frequency of isolators reduces to 1 Hz, the rocking effect is obvious and rocking restraining devices are necessary.

  5. Three-Dimensional Structures of Thermal Tides Simulated by a Venus GCM

    Science.gov (United States)

    Takagi, Masahiro; Sugimoto, Norihiko; Ando, Hiroki; Matsuda, Yoshihisa

    2018-02-01

    Thermal tides in the Venus atmosphere are investigated by using a GCM named as AFES-Venus. The three-dimensional structures of wind and temperature associated with the thermal tides obtained in our model are fully examined and compared with observations. The result shows that the wind and temperature distributions of the thermal tides depend complexly on latitude and altitude in the cloud layer, mainly because they consist of vertically propagating and trapped modes with zonal wave numbers of 1-4, each of which predominates in different latitudes and altitudes under the influence of mid- and high-latitude jets. A strong circulation between the subsolar and antisolar (SS-AS) points, which is equivalent to a diurnal component of the thermal tides, is superposed on the superrotation. The vertical velocity of SS-AS circulation is about 10 times larger than that of the zonal-mean meridional circulation (ZMMC) in 60-70 km altitudes. It is suggested that the SS-AS circulation could contribute to the material transport, and its upward motion might be related to the UV dark region observed in the subsolar and early afternoon regions in low latitudes. The terdiurnal and quaterdiurnal tides, which may be excited by the nonlinear interactions among the diurnal and semidiurnal tides in middle and high latitudes, are detected in the solar-fixed Y-shape structure formed in the vertical wind field in the upper cloud layer. The ZMMC is weak and has a complex structure in the cloud layer; the Hadley circulation is confined to latitudes equatorward of 30°, and the Ferrel-like one appears in middle and high latitudes.

  6. Three-dimensional structure of wind turbine wakes as measured by scanning lidar

    Science.gov (United States)

    Bodini, Nicola; Zardi, Dino; Lundquist, Julie K.

    2017-08-01

    The lower wind speeds and increased turbulence that are characteristic of turbine wakes have considerable consequences on large wind farms: turbines located downwind generate less power and experience increased turbulent loads. The structures of wakes and their downwind impacts are sensitive to wind speed and atmospheric variability. Wake characterization can provide important insights for turbine layout optimization in view of decreasing the cost of wind energy. The CWEX-13 field campaign, which took place between June and September 2013 in a wind farm in Iowa, was designed to explore the interaction of multiple wakes in a range of atmospheric stability conditions. Based on lidar wind measurements, we extend, present, and apply a quantitative algorithm to assess wake parameters such as the velocity deficits, the size of the wake boundaries, and the location of the wake centerlines. We focus on wakes from a row of four turbines at the leading edge of the wind farm to explore variations between wakes from the edge of the row (outer wakes) and those from turbines in the center of the row (inner wakes). Using multiple horizontal scans at different elevations, a three-dimensional structure of wakes from the row of turbines can be created. Wakes erode very quickly during unstable conditions and can in fact be detected primarily in stable conditions in the conditions measured here. During stable conditions, important differences emerge between the wakes of inner turbines and the wakes of outer turbines. Further, the strong wind veer associated with stable conditions results in a stretching of the wake structures, and this stretching manifests differently for inner and outer wakes. These insights can be incorporated into low-order wake models for wind farm layout optimization or for wind power forecasting.

  7. Mapping genetic variations to three-dimensional protein structures to enhance variant interpretation: a proposed framework.

    Science.gov (United States)

    Glusman, Gustavo; Rose, Peter W; Prlić, Andreas; Dougherty, Jennifer; Duarte, José M; Hoffman, Andrew S; Barton, Geoffrey J; Bendixen, Emøke; Bergquist, Timothy; Bock, Christian; Brunk, Elizabeth; Buljan, Marija; Burley, Stephen K; Cai, Binghuang; Carter, Hannah; Gao, JianJiong; Godzik, Adam; Heuer, Michael; Hicks, Michael; Hrabe, Thomas; Karchin, Rachel; Leman, Julia Koehler; Lane, Lydie; Masica, David L; Mooney, Sean D; Moult, John; Omenn, Gilbert S; Pearl, Frances; Pejaver, Vikas; Reynolds, Sheila M; Rokem, Ariel; Schwede, Torsten; Song, Sicheng; Tilgner, Hagen; Valasatava, Yana; Zhang, Yang; Deutsch, Eric W

    2017-12-18

    The translation of personal genomics to precision medicine depends on the accurate interpretation of the multitude of genetic variants observed for each individual. However, even when genetic variants are predicted to modify a protein, their functional implications may be unclear. Many diseases are caused by genetic variants affecting important protein features, such as enzyme active sites or interaction interfaces. The scientific community has catalogued millions of genetic variants in genomic databases and thousands of protein structures in the Protein Data Bank. Mapping mutations onto three-dimensional (3D) structures enables atomic-level analyses of protein positions that may be important for the stability or formation of interactions; these may explain the effect of mutations and in some cases even open a path for targeted drug development. To accelerate progress in the integration of these data types, we held a two-day Gene Variation to 3D (GVto3D) workshop to report on the latest advances and to discuss unmet needs. The overarching goal of the workshop was to address the question: what can be done together as a community to advance the integration of genetic variants and 3D protein structures that could not be done by a single investigator or laboratory? Here we describe the workshop outcomes, review the state of the field, and propose the development of a framework with which to promote progress in this arena. The framework will include a set of standard formats, common ontologies, a common application programming interface to enable interoperation of the resources, and a Tool Registry to make it easy to find and apply the tools to specific analysis problems. Interoperability will enable integration of diverse data sources and tools and collaborative development of variant effect prediction methods.

  8. CEASEMT system: the COCO code. Automatic network of planar and three-dimensional structures

    International Nuclear Information System (INIS)

    Charras, Thierry; Hoffmann, Alain.

    1977-01-01

    COCO is a code written in Fortran IV for IBM 360; it is intended to meshing bi- or tri-dimensional structures: planar structures, shells and beams, pipes in space. The existence of a real language makes possible a simple flexible use of COCO. Due to its modular structure COCO can incorporate new feasibilities if needed. The elements can have 2, 3, 4, 6, 8, 15, 20 vertices at will. COCO makes it possible to divide the network of the structure in independent sectors and gather them together through new numbering. Partial results can be verified at any time by listing or displaying them on a cathode screen [fr

  9. Three-dimensional structure of the human immunodeficiency virus type 1 matrix protein.

    Science.gov (United States)

    Massiah, M A; Starich, M R; Paschall, C; Summers, M F; Christensen, A M; Sundquist, W I

    1994-11-25

    The HIV-1 matrix protein forms an icosahedral shell associated with the inner membrane of the mature virus. Genetic analyses have indicated that the protein performs important functions throughout the viral life-cycle, including anchoring the transmembrane envelope protein on the surface of the virus, assisting in viral penetration, transporting the proviral integration complex across the nuclear envelope, and localizing the assembling virion to the cell membrane. We now report the three-dimensional structure of recombinant HIV-1 matrix protein, determined at high resolution by nuclear magnetic resonance (NMR) methods. The HIV-1 matrix protein is the first retroviral matrix protein to be characterized structurally and only the fourth HIV-1 protein of known structure. NMR signal assignments required recently developed triple-resonance (1H, 13C, 15N) NMR methodologies because signals for 91% of 132 assigned H alpha protons and 74% of the 129 assignable backbone amide protons resonate within chemical shift ranges of 0.8 p.p.m. and 1 p.p.m., respectively. A total of 636 nuclear Overhauser effect-derived distance restraints were employed for distance geometry-based structure calculations, affording an average of 13.0 NMR-derived distance restraints per residue for the experimentally constrained amino acids. An ensemble of 25 refined distance geometry structures with penalties (sum of the squares of the distance violations) of 0.32 A2 or less and individual distance violations under 0.06 A was generated; best-fit superposition of ordered backbone heavy atoms relative to mean atom positions afforded root-mean-square deviations of 0.50 (+/- 0.08) A. The folded HIV-1 matrix protein structure is composed of five alpha-helices, a short 3(10) helical stretch, and a three-strand mixed beta-sheet. Helices I to III and the 3(10) helix pack about a central helix (IV) to form a compact globular domain that is capped by the beta-sheet. The C-terminal helix (helix V) projects away

  10. Characteristics of sandwich-type structural elements built of advanced composite materials from three dimensional fabrics

    Directory of Open Access Journals (Sweden)

    Castejón, L.

    1997-12-01

    Full Text Available Sandwich-type structures have proved to be alternatives of great success for several fields of application, and specially in the building sector. This is due to their outstanding properties of .specific rigidity and strength against bending loads and other range of advantages like fatigue and impact resistance, attainment of flat and smooth surfaces, high electric and thermal insulation, design versatility and some others. However, traditional sandwich structures present problems like their tendency towards delamination, stress concentrations in bores or screwed Joints, and pre resistance. These problems are alleviated thanks to the use of new sandwich structures built using three dimensional structures of advanced composite materials, maintaining the present advantages for more traditional sandwich structures. At this rate, these new structures can be applied in several areas where conventional sandwich structures used to be like walls, partitions, floor and ceiling structures, domes, vaults and dwellings, but with greater success.

    Las estructuras tipo sándwich han demostrado ser alternativas de gran éxito para diversos campos de aplicación y, en concreto, en el sector de la construcción, listo es gracias a sus excelentes propiedades de rigidez y resistencia específica frente a cargas de flexión y otra larga lista de ventajas, a la que pertenecen, por ejemplo, su buena resistencia a fatiga, resistencia al impacto, obtención de superficies lisas y suaves, elevado aislamiento térmico y eléctrico, versatilidad de diseño y otras. Sin embargo, las estructuras sándwich, tradicionales presentan una problemática consistente en su tendencia a la delaminación, concentraciones de tensiones ¿aparecidas ante la existencia de agujeros o uniones atornilladas y resistencia al fuego. Estos problemas son pifiados gracias a la aplicación de estructuras novedosas tipo sándwich, construidas a partir de tejidos tridimensionales de materiales

  11. Linkage mechanisms in the vertebrate skull: Structure and function of three-dimensional, parallel transmission systems.

    Science.gov (United States)

    Olsen, Aaron M; Westneat, Mark W

    2016-12-01

    Many musculoskeletal systems, including the skulls of birds, fishes, and some lizards consist of interconnected chains of mobile skeletal elements, analogous to linkage mechanisms used in engineering. Biomechanical studies have applied linkage models to a diversity of musculoskeletal systems, with previous applications primarily focusing on two-dimensional linkage geometries, bilaterally symmetrical pairs of planar linkages, or single four-bar linkages. Here, we present new, three-dimensional (3D), parallel linkage models of the skulls of birds and fishes and use these models (available as free kinematic simulation software), to investigate structure-function relationships in these systems. This new computational framework provides an accessible and integrated workflow for exploring the evolution of structure and function in complex musculoskeletal systems. Linkage simulations show that kinematic transmission, although a suitable functional metric for linkages with single rotating input and output links, can give misleading results when applied to linkages with substantial translational components or multiple output links. To take into account both linear and rotational displacement we define force mechanical advantage for a linkage (analogous to lever mechanical advantage) and apply this metric to measure transmission efficiency in the bird cranial mechanism. For linkages with multiple, expanding output points we propose a new functional metric, expansion advantage, to measure expansion amplification and apply this metric to the buccal expansion mechanism in fishes. Using the bird cranial linkage model, we quantify the inaccuracies that result from simplifying a 3D geometry into two dimensions. We also show that by combining single-chain linkages into parallel linkages, more links can be simulated while decreasing or maintaining the same number of input parameters. This generalized framework for linkage simulation and analysis can accommodate linkages of differing

  12. Three-dimensional structure and stoichiometry of Helmintosporium victoriae190S totivirus

    International Nuclear Information System (INIS)

    Caston, Jose R.; Luque, Daniel; Trus, Benes L.; Rivas, German; Alfonso, Carlos; Gonzalez, Jose M.; Carrascosa, Jose L.; Annamalai, Padmanaban; Ghabrial, Said A.

    2006-01-01

    Most double-stranded RNA viruses have a characteristic capsid consisting of 60 asymmetric coat protein dimers in a so-called T = 2 organization, a feature probably related to their unique life cycle. These capsids organize the replicative complex(es) that is actively involved in genome transcription and replication. Available structural data indicate that their RNA-dependent RNA polymerase (RDRP) is packaged as an integral capsid component, either as a replicative complex at the pentameric vertex (as in reovirus capsids) or as a fusion protein with the coat protein (as in some totivirus). In contrast with members of the family Reoviridae, there are two well-established capsid arrangements for dsRNA fungal viruses, exemplified by the totiviruses L-A and UmV and the chrysovirus PcV. Whereas L-A and UmV have a canonical T = 2 capsid, the PcV capsid is based on a T = 1 lattice composed of 60 capsid proteins. We used cryo-electron microscopy combined with three-dimensional reconstruction techniques and hydrodynamic analysis to determine the structure at 13.8 A resolution of Helminthosporium victoriae 190S virus (Hv190SV), a totivirus isolated from a filamentous fungus. The Hv190SV capsid has a smooth surface and is based on a T = 2 lattice with 60 equivalent dimers. Unlike the RDRP of some other totiviruses, which are expressed as a capsid protein-RDRP fusion protein, the Hv190SV RDRP is incorporated into the capsid as a separate, nonfused protein, free or non-covalently associated to the capsid interior

  13. Three-dimensional seismic velocity structure and earthquake relocations at Katmai, Alaska

    Science.gov (United States)

    Murphy, Rachel; Thurber, Clifford; Prejean, Stephanie G.; Bennington, Ninfa

    2014-01-01

    We invert arrival time data from local earthquakes occurring between September 2004 and May 2009 to determine the three-dimensional (3D) upper crustal seismic structure in the Katmai volcanic region. Waveforms for the study come from the Alaska Volcano Observatory's permanent network of 20 seismic stations in the area (predominantly single-component, short period instruments) plus a densely spaced temporary array of 11 broadband, 3-component stations. The absolute and relative arrival times are used in a double-difference seismic tomography inversion to solve for 3D P- and S-wave velocity models for an area encompassing the main volcanic centers. The relocated hypocenters provide insight into the geometry of seismogenic structures in the area, revealing clustering of events into four distinct zones associated with Martin, Mageik, Trident-Novarupta, and Mount Katmai. The seismic activity extends from about sea level to 2 km depth (all depths referenced to mean sea level) beneath Martin, is concentrated near 2 km depth beneath Mageik, and lies mainly between 2 and 4 km depth below Katmai and Trident-Novarupta. Many new features are apparent within these earthquake clusters. In particular, linear features are visible within all clusters, some associated with swarm activity, including an observation of earthquake migration near Trident in 2008. The final velocity model reveals a possible zone of magma storage beneath Mageik, but there is no clear evidence for magma beneath the Katmai-Novarupta area where the 1912 eruptive activity occurred, suggesting that the storage zone for that eruption may have largely been evacuated, or remnant magma has solidified.

  14. Diversity of dermal denticle structure in sharks: Skin surface roughness and three-dimensional morphology.

    Science.gov (United States)

    Ankhelyi, Madeleine V; Wainwright, Dylan K; Lauder, George V

    2018-05-29

    Shark skin is covered with numerous placoid scales or dermal denticles. While previous research has used scanning electron microscopy and histology to demonstrate that denticles vary both around the body of a shark and among species, no previous study has quantified three-dimensional (3D) denticle structure and surface roughness to provide a quantitative analysis of skin surface texture. We quantified differences in denticle shape and size on the skin of three individual smooth dogfish sharks (Mustelus canis) using micro-CT scanning, gel-based surface profilometry, and histology. On each smooth dogfish, we imaged between 8 and 20 distinct areas on the body and fins, and obtained further comparative skin surface data from leopard, Atlantic sharpnose, shortfin mako, spiny dogfish, gulper, angel, and white sharks. We generated 3D images of individual denticles and measured denticle volume, surface area, and crown angle from the micro-CT scans. Surface profilometry was used to quantify metrology variables such as roughness, skew, kurtosis, and the height and spacing of surface features. These measurements confirmed that denticles on different body areas of smooth dogfish varied widely in size, shape, and spacing. Denticles near the snout are smooth, paver-like, and large relative to denticles on the body. Body denticles on smooth dogfish generally have between one and three distinct ridges, a diamond-like surface shape, and a dorsoventral gradient in spacing and roughness. Ridges were spaced on average 56 µm apart, and had a mean height of 6.5 µm, comparable to denticles from shortfin mako sharks, and with narrower spacing and lower heights than other species measured. We observed considerable variation in denticle structure among regions on the pectoral, dorsal, and caudal fins, including a leading-to-trailing edge gradient in roughness for each region. Surface roughness in smooth dogfish varied around the body from 3 to 42 microns. © 2018 Wiley Periodicals, Inc.

  15. Dacron graft as replacement to dissected aorta: A three-dimensional fluid-structure-interaction analysis.

    Science.gov (United States)

    Jayendiran, R; Nour, B M; Ruimi, A

    2018-02-01

    Aortic dissection (AD) is a serious medical condition characterized by a tear in the intima, the inner layer of the aortic walls. In such occurrence, blood is being diverted to the media (middle) layer and may result in patient death if not quickly attended. In the case where the diseased portion of the aorta needs to be replaced, one common surgical technique is to use a graft made of Dacron, a synthetic fabric. We investigate the response of a composite human aortic segment-Dacron graft structure subjected to blood flow using the three-dimensional fluid-structure-interaction (FSI) capability in Abaqus. We obtain stress and strain profiles in each of the three layers of the aortic walls as well as in the Dacron graft. Results are compared when elastic and hyperelastic models are used and when isotropy vs. anisotropy is assumed. The more complex case (hyperelastic-anisotropy) is represented by the Holzapfel-Gasser-Ogden (HGO) model which also accounts for the orientation of the fibers present in the tissues. The fluid flow is taken as Newtonian, incompressible, pulsatile and turbulent. The simulation show that for all the cases, the von Mises stress distribution at aorta-Dacron interface is well below the ultimate strength of the aorta. No significant change in radial displacement at the interface of the two materials due to blood flow is observed. Computation cost is also addressed and results show that the hyperelastic-anisotropic model takes about three times longer to run than the elastic isotropic case. Trade-off between accuracy and computational cost has to be weighted. Copyright © 2017 Elsevier Ltd. All rights reserved.

  16. Structural, functional and evolutionary study of in silico three dimensional model of pneumolysin

    International Nuclear Information System (INIS)

    Lutfullah, G.; Taj, S.; Bashir, K.; Khattak, S.U.

    2017-01-01

    Streptococcus pneumoniae, a gram-positive cocci shaped bacteria, is the major human pathogen, causing diseases like septic meningitis, otitis media, sinusitis, pneumonia and septicemia. The objective of present study is to gain more knowledge about the function of important domain of the toxin pneumolysin. This study aims to analyze the structural and functional features of pneumolysin and to investigate the residues involved in its pathogenicity.The major virulence factor of this bacterium is a protein, pneumolysin, which is the member of thiol-activated cytolysins. From the three dimensional homology model of the present study, it was found that pneumolysin has four domains, out of which domain 4 is of great importance. It was observed that Cys 428 and Trp 433 of pneumolysin are of great importance and any mutation in this region highly reduces its cytotoxicity. Cys 428 forms hydrophobic contact with Ala 373 and Trp 436 of the conserved region, while Trp 433 is bonded with Trp 436 and Arg 426 through hydrogen interactions .The particular cysteine residue is present at position 428 and is also sandwiched between beta-sheet and Trp 436. In pneumolysin, the undecapeptide or the Trp-rich loop spans the region (amino acid 427 to 437) and several single amino acid substitutions within this region reduce the cytolytic activity of pneumolysin by up to 99.9% as reported previously. The primary structure of pneumolysin has a total eight tryptophan residues and one cysteine. The undecapeptide region has three tryptophan and one cysteine residue containing 11 amino acid sequence i.e ECTGLAWEWWR. Cysteine 428 of pneumolysin present in trp-rich motif is responsible to act on cholestrol. Pairwise alignment reveals that pneumolysin do not have the N-terminus signal peptide sequence which is present in the template i.e. perfringolysin. This shows that pneumolysin is an intracellular protein and released only upon cell lysis. (author)

  17. Three-dimensional Shock Structure of the Orion KL Outflow with IGRINS

    Science.gov (United States)

    Oh, Heeyoung; Pyo, Tae-Soo; Kaplan, Kyle; Yuk, In-Soo; Park, Byeong-Gon; Mace, Gregory; Park, Chan; Chun, Moo-Young; Pak, Soojong; Kim, Kang-Min; Sok Oh, Jae; Jeong, Ueejeong; Yu, Young Sam; Lee, Jae-Joon; Kim, Hwihyun; Hwang, Narae; Lee, Hye-In; Nguyen Le, Huynh Anh; Lee, Sungho; Jaffe, Daniel T.

    2016-12-01

    We report a study of the three-dimensional (3D) outflow structure of a 15″ × 13″ area around the H2 peak 1 in Orion KL with slit-scan observations (13 slits) using the Immersion Grating Infrared Spectrograph. The datacubes have a high-velocity resolution (˜7.5 km s-1), provide high-contrast imaging within ultra-narrow bands, and enable the detection of the main stream of the previously reported H2 outflow fingers. We identified 31 distinct fingers in the H2 1-0 S(1) λ2.122 μm emission. The line profile at each finger shows multiple-velocity peaks with a strong low-velocity component around the systemic velocity at {V}{LSR} = +8 km s-1 and high-velocity emission (| {V}{LSR}| = 45-135 km s-1), indicating a typical bow-shock. The observed radial velocity gradients of ˜4 km s-1 arcsec-1 agree well with the velocities inferred from large-scale proper motions, where the projected motion is proportional to the distance from a common origin. We construct a conceptual 3D map of the fingers with estimated inclination angles of 57°-74°. The extinction difference (ΔA v > 10 mag) between blueshifted and redshifted fingers indicates high internal extinction. The extinction, the overall angular spread, and the scale of the flow argue for an ambient medium with a very high density (105-106 cm-3), consistent with molecular line observations of the Orion Molecular Cloud core. The radial velocity gradients and the 3D distributions of the fingers together support the hypothesis of a simultaneous radial explosion of the Orion KL outflow. This paper includes data taken at The McDonald Observatory of The University of Texas at Austin.

  18. Three-dimensional P velocity structure of the crust and upper mantle under Beijing region

    Energy Technology Data Exchange (ETDEWEB)

    Quan, A.; Liu, F.; Sun, Y.

    1980-04-01

    By use of the teleseismic P arrival times at 15 stations of the Beijing network for 120 events distributed over various azimuths, we studied the three-dimensional P velocity structure under the Beijing region. In calculating the theoretic travel time, we adopted the source parameters given in BISC, and used the J-B model as the standard model of earth. On inversion, we adopted singular value decomposition as a generalized inversion package, which can be used for solving very large over-determined systems of equations Gm = t without resorting to normal equations G/sup T/Gm = G/sup T/t. The results are that within the crust and upper mantle under the Beijing region there are clear lateral differences. In the results obtained by use of data from 1972 to 1975, it can be seen that there are three different zones of P-velocity. In the southeast Beijing region, P velocity is lower than that of the normal model by 10 to 14% within the crust, and by 8 to 9% within the upper mantle. The northwest Beijing region is a higher-velocity zone, within which the average P-velocity is faster than that of the normal model by about 9%. It disappears after entering into the upper mantle. The central part of this region is a normal zone. On the surface, the distribution of these P velocity variations corresponds approximately to the distribution of the over-burden. But in the deeper region, the distribution of velocity variation agrees with the distribution of seismicity. It is interesting to note that the hypocenters of several major earthquakes in this region, e.g., the Sanhe-Pinggu earthquake (1679, M = 8), the Shacheng earthquake (1730, M = 6-3/4) and the Tangshan earthquake (1976, M = 7.8), are all located very close to this boundary of these P-velocity variation zones.

  19. A proposal of a three-dimensional CT measurement method of maxillofacial structure

    International Nuclear Information System (INIS)

    Tanaka, Ray; Hayashi, Takafumi

    2007-01-01

    Three-dimensional CT measurement is put in practice in order to grasp the pathological condition on diseases such as the temporomandibular joint disorder, maxillofacial anomaly, jaw deformity, or fracture which cause the morphologic changes of the maxillofacial bones. On the 3D measurement, the unique system that is obtained by volume rendering 3D images with a simultaneous reference of axial images combined with coronal and sagittal multi-planar reconstruction (MPR) images (we call this MPR referential method), is employed in order to define the measurement points. Our purpose in this report is to indicate the usefulness of this unique method by comparing with the common way to define the measurement points on only 3D reconstruction images without consulting of MPR images. Clinical CT data obtained from a male patient with skeletal malocclusion was used. Contiguous axial images were reconstructed at 4 times magnification, with a reconstruction interval of 0.5 mm, focused on the temporomandibular joint region in his left side. After these images were converted to Digital Imaging and Communications in Medicine (DICOM) format and sent to personal computer (PC), 3D reconstruction image was created using free 3D DICOM medical image viewer. The coordinates of 3 measurement points (the lateral and medial pole of the mandibular condyle, and the left foramen ovale) were defined with MPR images (MPR coordinates) as reference coordinates, and then the coordinates that were defined on only 3D reconstruction image without consulting to MPR images (3D coordinates) were compared to those of MPR coordinates. Three examiners were engaged independently 10 times for every measurement point. In our result, there was no correspondence between 3D coordinates and MPR coordinates, and contribution of 3D coordinates showed a variety in every measurement point and in every observer. We deemed that ''MPR referential method'' is useful to assess the location of the target point of anatomical

  20. Three-Dimensional Elastomeric Scaffolds Designed with Cardiac-Mimetic Structural and Mechanical Features

    Science.gov (United States)

    Neal, Rebekah A.; Jean, Aurélie; Park, Hyoungshin; Wu, Patrick B.; Hsiao, James; Engelmayr, George C.; Langer, Robert

    2013-01-01

    Tissue-engineered constructs, at the interface of material science, biology, engineering, and medicine, have the capacity to improve outcomes for cardiac patients by providing living cells and degradable biomaterials that can regenerate the native myocardium. With an ultimate goal of both delivering cells and providing mechanical support to the healing heart, we designed three-dimensional (3D) elastomeric scaffolds with (1) stiffnesses and anisotropy mimicking explanted myocardial specimens as predicted by finite-element (FE) modeling, (2) systematically varied combinations of rectangular pore pattern, pore aspect ratio, and strut width, and (3) structural features approaching tissue scale. Based on predicted mechanical properties, three scaffold designs were selected from eight candidates for fabrication from poly(glycerol sebacate) by micromolding from silicon wafers. Large 20×20 mm scaffolds with high aspect ratio features (5:1 strut height:strut width) were reproducibly cast, cured, and demolded at a relatively high throughput. Empirically measured mechanical properties demonstrated that scaffolds were cardiac mimetic and validated FE model predictions. Two-layered scaffolds providing fully interconnected pore networks were fabricated by layer-by-layer assembly. C2C12 myoblasts cultured on one-layered scaffolds exhibited specific patterns of cell elongation and interconnectivity that appeared to be guided by the scaffold pore pattern. Neonatal rat heart cells cultured on two-layered scaffolds for 1 week were contractile, both spontaneously and in response to electrical stimulation, and expressed sarcomeric α-actinin, a cardiac biomarker. This work not only demonstrated several scaffold designs that promoted functional assembly of rat heart cells, but also provided the foundation for further computational and empirical investigations of 3D elastomeric scaffolds for cardiac tissue engineering. PMID:23190320

  1. Processing of three-dimensional structures of Nuclear Medicine in PET modality

    International Nuclear Information System (INIS)

    Pacheco, Edward Florez; Furuie, Sergio Shiguemi

    2013-01-01

    The nuclear medicine, as a specialty to obtain medical images is very important, and it has became one of the main procedures utilized in health care centers to analyze the metabolic behavior of the patient. This project was based on medical images obtained by the PET modality (Positron Emission Tomography). Thus, we developed a framework for processing Nuclear Medicine three-dimensional images of the PET modality, which is composed of consecutive steps that start with the generation of standard images (gold standard) by using simulated images of the Left Ventricular Heart, such as phantoms obtained from the NCAT-4D software. Then, Poisson quantum noise was introduced into the whole volume to simulate the characteristic noises in PET images. Subsequently, the pre-processing step was executed by using specific 3D filters, such as the median filter, the weighted Gaussian filter, and the Anscombe/Wiener filter. Then the segmentation process, which is based on the fuzzy connectedness theory, was implemented. For that purpose four different 3D approaches were implemented: Generic, LIFO, kTetaFOEMS, and dynamic weight algorithm. Finally, an assessment procedure was used as a measurement tool to quantify three parameters (true positive, false positive and maximum distance) that determined the level of efficiency and precision of our process. It was found that the pair filter - segmenter formed by the Anscombe/Wiener filter together with the Fuzzy segmenter based on dynamic weights provided the best results, with VP and FP rates of 98.49 ±0.27% and 2.19 ±0.19%, respectively, for the simulation of the left ventricular volume. Along with the set of choices made during the processing structure, the project was finished with the analysis of a small number of volumes that belonged to a real PET test, thus the quantification of the volumes was obtained. (author)

  2. Pulse-Like Rupture Induced by Three-Dimensional Fault Zone Flower Structures

    KAUST Repository

    Pelties, Christian

    2014-07-04

    © 2014, Springer Basel. Faults are often embedded in low-velocity fault zones (LVFZ) caused by material damage. Previous 2D dynamic rupture simulations (Huang and Ampuero, 2011; Huang et al., 2014) showed that if the wave velocity contrast between the LVFZ and the country rock is strong enough, ruptures can behave as pulses, i.e. with local slip duration (rise time) much shorter than whole rupture duration. Local slip arrest (healing) is generated by waves reflected from the LVFZ–country rock interface. This effect is robust against a wide range of fault zone widths, absence of frictional healing, variation of initial stress conditions, attenuation, and off-fault plasticity. These numerical studies covered two-dimensional problems with fault-parallel fault zone structures. Here, we extend previous work to 3D and geometries that are more typical of natural fault zones, including complexities such as flower structures with depth-dependent velocity and thickness, and limited fault zone depth extent. This investigation requires high resolution and flexible mesh generation, which are enabled here by the high-order accurate arbitrary high-order derivatives discontinuous Galerkin method with an unstructured tetrahedral element discretization (Peltieset al., 2012). We show that the healing mechanism induced by waves reflected in the LVFZ also operates efficiently in such three-dimensional fault zone structures and that, in addition, a new healing mechanism is induced by unloading waves generated when the rupture reaches the surface. The first mechanism leads to very short rise time controlled by the LVFZ width to wave speed ratio. The second mechanism leads to generally longer, depth-increasing rise times, is also conditioned by the existence of an LVFZ, and persists at some depth below the bottom of the LVFZ. Our simulations show that the generation of slip pulses by these two mechanisms is robust to the depth extent of the LVFZ and to the position of the hypocenter

  3. Three-dimensional neuroimaging

    International Nuclear Information System (INIS)

    Toga, A.W.

    1990-01-01

    This book reports on new neuroimaging technologies that are revolutionizing the study of the brain be enabling investigators to visualize its structure and entire pattern of functional activity in three dimensions. The book provides a theoretical and practical explanation of the new science of creating three-dimensional computer images of the brain. The coverage includes a review of the technology and methodology of neuroimaging, the instrumentation and procedures, issues of quantification, analytic protocols, and descriptions of neuroimaging systems. Examples are given to illustrate the use of three-dimensional enuroimaging to quantitate spatial measurements, perform analysis of autoradiographic and histological studies, and study the relationship between brain structure and function

  4. Bi-directional evolutionary structural optimization for strut-and-tie modelling of three-dimensional structural concrete

    Science.gov (United States)

    Shobeiri, Vahid; Ahmadi-Nedushan, Behrouz

    2017-12-01

    This article presents a method for the automatic generation of optimal strut-and-tie models in reinforced concrete structures using a bi-directional evolutionary structural optimization method. The methodology presented is developed for compliance minimization relying on the Abaqus finite element software package. The proposed approach deals with the generation of truss-like designs in a three-dimensional environment, addressing the design of corbels and joints as well as bridge piers and pile caps. Several three-dimensional examples are provided to show the capabilities of the proposed framework in finding optimal strut-and-tie models in reinforced concrete structures and verifying its efficiency to cope with torsional actions. Several issues relating to the use of the topology optimization for strut-and-tie modelling of structural concrete, such as chequerboard patterns, mesh-dependency and multiple load cases, are studied. In the last example, a design procedure for detailing and dimensioning of the strut-and-tie models is given according to the American Concrete Institute (ACI) 318-08 provisions.

  5. Three-dimensional fluid-structure interaction dynamics of a pool-reactor in-tank component

    International Nuclear Information System (INIS)

    Kulak, R.F.

    1979-01-01

    The safety evaluation of reactor-components often involves the analysis of various types of fluid/structural components interacting in three-dimensional space. For example, in the design of a pool-type reactor several vital in-tank components such as the primary pumps and the intermediate heat exchangers are contained within the primary tank. Typically, these components are suspended from the deck structure and largely submersed in the sodium pool. Because of this positioning these components are vulnerable to structural damage due to pressure wave propagation in the tank during a CDA. In order to assess the structural integrity of these components it is necessary to perform a dynamic analysis in three-dimensional space which accounts for the fluid-structure coupling. A model is developed which has many of the salient features of this fluid-structural component system

  6. Coherent structures and flow topology of transitional separated-reattached flow over two and three dimensional geometrical shapes

    Science.gov (United States)

    Diabil, Hayder Azeez; Li, Xin Kai; Abdalla, Ibrahim Elrayah

    2017-09-01

    Large-scale organized motions (commonly referred to coherent structures) and flow topology of a transitional separated-reattached flow have been visualised and investigated using flow visualisation techniques. Two geometrical shapes including two-dimensional flat plate with rectangular leading edge and three-dimensional square cylinder are chosen to shed a light on the flow topology and present coherent structures of the flow over these shapes. For both geometries and in the early stage of the transition, two-dimensional Kelvin-Helmholtz rolls are formed downstream of the leading edge. They are observed to be twisting around the square cylinder while they stay flat in the case of the two-dimensional flat plate. For both geometrical shapes, the two-dimensional Kelvin-Helmholtz rolls move downstream of the leading edge and they are subjected to distortion to form three-dimensional hairpin structures. The flow topology in the flat plate is different from that in the square cylinder. For the flat plate, there is a merging process by a pairing of the Kelvin-Helmholtz rolls to form a large structure that breaks down directly into many hairpin structures. For the squire cylinder case, the Kelvin-Helmholtz roll evolves topologically to form a hairpin structure. In the squire cylinder case, the reattachment length is much shorter and a forming of the three-dimensional structures is closer to the leading edge than that in the flat plate case.

  7. Wave propagation properties of frame structures. Formulation for three-dimensional frame structures

    International Nuclear Information System (INIS)

    Nishida, Akemi

    2006-01-01

    Since it is generally difficult to predict the occurrence of natural disasters such as earth-quakes, a performance management system that constantly maintains the safety and functionality of structures is required, particularly for critical structures like nuclear power plants. In order to realize such a system, it is becoming important to carry out detailed modeling procedures and analyses to better understand actual phenomena. The aim of our research is to determine the dynamic behavior - especially the wave propagation phenomena - of piping systems in nuclear power plants, which are complicated assemblages of parts. The spectral element method is adopted in this study, and the formulation considering a shear deformation independently for a frame element is described. The Timoshenko beam theory is introduced for the purpose of this formulation. The validity of the presented element will be shown through comparisons with the conventional beam element. (author)

  8. Time-of-Flight Three Dimensional Neutron Diffraction in Transmission Mode for Mapping Crystal Grain Structures

    DEFF Research Database (Denmark)

    Cereser, Alberto; Strobl, Markus; Hall, Stephen A.

    2017-01-01

    constituting the material. This article presents a new non-destructive 3D technique to study centimeter-sized bulk samples with a spatial resolution of hundred micrometers: time-of-flight three-dimensional neutron diffraction (ToF 3DND). Compared to existing analogous X-ray diffraction techniques, ToF 3DND......-of-flight neutron beamline. The technique was developed and tested with data collected at the Materials and Life Science Experimental Facility of the Japan Proton Accelerator Complex (J-PARC) for an iron sample. We successfully reconstructed the shape of 108 grains and developed an indexing procedure...

  9. A method for three-dimensional structural analysis of reinforced concrete containment

    International Nuclear Information System (INIS)

    Kulak, R.F.; Fiala, C.

    1989-01-01

    A finite element method designed to assist reactor safety analysts in the three-dimensional numerical simulation of reinforced concrete containments to normal and off-normal mechanical loadings is presented. The development of a lined reinforced concrete plate element is described in detail, and the implementation of an empirical transverse shear failure criteria is discussed. The method is applied to the analysis of a 1/6th scale reinforced concrete containment model subjected to static internal pressurization. 11 refs., 14 figs., 1 tab

  10. Three-dimensional bioprinting of complex cell laden alginate hydrogel structures.

    Science.gov (United States)

    Tabriz, Atabak Ghanizadeh; Hermida, Miguel A; Leslie, Nicholas R; Shu, Wenmiao

    2015-12-21

    Different bioprinting techniques have been used to produce cell-laden alginate hydrogel structures, however these approaches have been limited to 2D or simple three-dimension (3D) structures. In this study, a new extrusion based bioprinting technique was developed to produce more complex alginate hydrogel structures. This was achieved by dividing the alginate hydrogel cross-linking process into three stages: primary calcium ion cross-linking for printability of the gel, secondary calcium cross-linking for rigidity of the alginate hydrogel immediately after printing and tertiary barium ion cross-linking for long-term stability of the alginate hydrogel in culture medium. Simple 3D structures including tubes were first printed to ensure the feasibility of the bioprinting technique and then complex 3D structures such as branched vascular structures were successfully printed. The static stiffness of the alginate hydrogel after printing was 20.18 ± 1.62 KPa which was rigid enough to sustain the integrity of the complex 3D alginate hydrogel structure during the printing. The addition of 60 mM barium chloride was found to significantly extend the stability of the cross-linked alginate hydrogel from 3 d to beyond 11 d without compromising the cellular viability. The results based on cell bioprinting suggested that viability of U87-MG cells was 93 ± 0.9% immediately after bioprinting and cell viability maintained above 88% ± 4.3% in the alginate hydrogel over the period of 11 d.

  11. High power microwave source with a three dimensional printed metamaterial slow-wave structure

    International Nuclear Information System (INIS)

    French, David M.; Shiffler, Don

    2016-01-01

    For over the last decade, the concept of metamaterials has led to new approaches for considering the interaction of radiation with complex structures. However, practical manifestations of such a device operating at high power densities have proven difficult to achieve due to the resonant nature of metamaterials and the resultant high electric fields, which place severe constraints on manufacturing the slow wave structures. In this paper, we describe the first experimental manifestation of a high power microwave device utilizing a metallic slow wave structure (metamaterial-like) fabricated using additive manufacturing. The feasibility of utilizing additive manufacturing as a technique for building these relatively complicated structures has thus been demonstrated. The MW class microwave source operates in the C-band and shows frequency tunablility with electron beam voltage. The basic electromagnetic characteristics of this device, the construction using additive manufacturing, and the basic performance as a microwave oscillator are considered. Due to the tunable nature of the device, it shows promise not only as an oscillator but also as a microwave amplifier. Therefore, the dispersive characteristics and a discussion of the anticipated gain is included as it relates to an amplifier configuration.

  12. High power microwave source with a three dimensional printed metamaterial slow-wave structure

    Energy Technology Data Exchange (ETDEWEB)

    French, David M.; Shiffler, Don [Air Force Research Laboratory, Directed Energy Directorate, Albuquerque, New Mexico 871117 (United States)

    2016-05-15

    For over the last decade, the concept of metamaterials has led to new approaches for considering the interaction of radiation with complex structures. However, practical manifestations of such a device operating at high power densities have proven difficult to achieve due to the resonant nature of metamaterials and the resultant high electric fields, which place severe constraints on manufacturing the slow wave structures. In this paper, we describe the first experimental manifestation of a high power microwave device utilizing a metallic slow wave structure (metamaterial-like) fabricated using additive manufacturing. The feasibility of utilizing additive manufacturing as a technique for building these relatively complicated structures has thus been demonstrated. The MW class microwave source operates in the C-band and shows frequency tunablility with electron beam voltage. The basic electromagnetic characteristics of this device, the construction using additive manufacturing, and the basic performance as a microwave oscillator are considered. Due to the tunable nature of the device, it shows promise not only as an oscillator but also as a microwave amplifier. Therefore, the dispersive characteristics and a discussion of the anticipated gain is included as it relates to an amplifier configuration.

  13. The crystal structures of three pyrazine-2,5-dicarb-oxamides: three-dimensional supra-molecular structures.

    Science.gov (United States)

    Cati, Dilovan S; Stoeckli-Evans, Helen

    2017-05-01

    The complete mol-ecules of the title compounds, N 2 , N 5 -bis-(pyridin-2-ylmeth-yl)pyrazine-2,5-dicarboxamide, C 18 H 16 N 6 O 2 (I), 3,6-dimethyl- N 2 , N 5 -bis-(pyridin-2-yl-meth-yl)pyrazine-2,5-dicarboxamide, C 20 H 20 N 6 O 2 (II), and N 2 , N 5 -bis-(pyridin-4-ylmeth-yl)pyrazine-2,5-dicarboxamide, C 18 H 16 N 6 O 2 (III), are generated by inversion symmetry, with the pyrazine rings being located about centres of inversion. Each mol-ecule has an extended conformation with the pyridine rings inclined to the pyrazine ring by 89.17 (7)° in (I), 75.83 (8)° in (II) and by 82.71 (6)° in (III). In the crystal of (I), mol-ecules are linked by N-H⋯N hydrogen bonds, forming layers lying parallel to the bc plane. The layers are linked by C-H⋯O hydrogen bonds, forming a three-dimensional supra-molecular structure. In the crystal of (II), mol-ecules are also linked by N-H⋯N hydrogen bonds, forming layers lying parallel to the (10-1) plane. As in (I), the layers are linked by C-H⋯O hydrogen bonds, forming a three-dimensional supra-molecular structure. In the crystal of (III), mol-ecules are again linked by N-H⋯N hydrogen bonds, but here form corrugated sheets lying parallel to the bc plane. Within the sheets, neighbouring pyridine rings are linked by offset π-π inter-actions [inter-centroid distance = 3.739 (1) Å]. The sheets are linked by C-H⋯O hydrogen bonds, forming a three-dimensional supra-molecular structure. Compound (I) crystallizes in the monoclinic space group P 2 1 / c . Another monoclinic polymorph, space group C 2/ c , has been reported on by Cockriel et al. [ Inorg. Chem. Commun. (2008), 11 , 1-4]. The mol-ecular structures of the two polymorphs are compared.

  14. Three-dimensional dose distribution in contrast-enhanced digital mammography using Gafchromic XR-QA2 films: Feasibility study

    International Nuclear Information System (INIS)

    Hwang, Yi-Shuan; Lin, Yu-Ying; Cheung, Yun-Chung; Tsai, Hui-Yu

    2014-01-01

    This study was aimed to establish three-dimensional dose distributions for contrast-enhanced digital mammography (CEDM) using self-developed Gafchromic XR-QA2 films. Dose calibration and distribution evaluations were performed on a full-field digital mammography unit with dual energy (DE) contrast-enhanced option. Strategy for dose calibration of films in the DE mode was based on the data obtained from common target/filter/kVp combinations used clinically and the dose response model modified from Rampado's model. Dose derived from films were also verified by measured data from an ionization chamber. The average difference of dose was 8.9% in the dose range for clinical uses. Three-dimensional dose distributions were estimated using triangular acrylic phantom equipped with the mammography system. Five pieces of film sheets were separately placed between the acrylic slabs to evaluate the dose distribution at different depths. After normalizing the dose in each pixel to the maximum dose at the top-center position of the acrylic, normalized dose distribution for transverse, coronal and sagittal planes, could thus be obtained. The depth dose distribution evaluated in this study may further serve as a reference for evaluating the patient glandular dose at different depths based on the entrance exposure information. - Highlights: • CEDM techniques can enhance contrast uptake areas and suppress background tissue. • Dose for the dual-energy acquisition is about 20% higher than standard mode. • A new method is proposed to estimate the 3D dose distribution in dual-energy CEDM. • Depth of normalized dose ratio of 0.5 is less than but near 1 cm in the DE mode

  15. A computationally efficient simulator for three-dimensional Monte Carlo simulation of ion implantation into complex structures

    International Nuclear Information System (INIS)

    Li Di; Wang Geng; Chen Yang; Li Lin; Shrivastav, Gaurav; Oak, Stimit; Tasch, Al; Banerjee, Sanjay; Obradovic, Borna

    2001-01-01

    A physically-based three-dimensional Monte Carlo simulator has been developed within UT-MARLOWE, which is capable of simulating ion implantation into multi-material systems and arbitrary topography. Introducing the third dimension can result in a severe CPU time penalty. In order to minimize this penalty, a three-dimensional trajectory replication algorithm has been developed, implemented and verified. More than two orders of magnitude savings of CPU time have been observed. An unbalanced Octree structure was used to decompose three-dimensional structures. It effectively simplifies the structure, offers a good balance between modeling accuracy and computational efficiency, and allows arbitrary precision of mapping the Octree onto desired structure. Using the well-established and validated physical models in UT-MARLOWE 5.0, this simulator has been extensively verified by comparing the integrated one-dimensional simulation results with secondary ion mass spectroscopy (SIMS). Two options, the typical case and the worst scenario, have been selected to simulate ion implantation into poly-silicon under various scenarios using this simulator: implantation into a random, amorphous network, and implantation into the worst-case channeling condition, into (1 1 0) orientated wafers

  16. Magneto-electrochemical recovery of diluted metals using three-dimensionally structured electrodes

    Science.gov (United States)

    Fernández, Dámaris; Romeral, Luis; Lyons, Michael E. G.

    2015-04-01

    In a typical metal recovery process, where highly purified metals are obtained from a concentrated electrolyte, usually the cathodic electrodes are planar and can be described mainly as bi-dimensional. This leads to a low space-time yield and low normalized space velocity with an impact on production rates. New requirements of low-energy consumption yet intensive production factories impose the need to adequate electrodes in order to comply. Furthermore, a reduction in the number of steps required to achieve a product would be ideal. This suggests that direct electro-precipitation of metals contained in diluted electrolytes would be in principle a desirable technique to implement. However, the less concentrated the solution, the higher the IR drop becomes, making the process more energy-consuming and current efficiency strongly decays. Good potential alternatives arise from three-dimensionally designed electrodes in the form of mesh, porous or fluidized beds, for instance, and several examples are well known in literature. Nevertheless, current efficiency can still be a problem in the more diluted electrolytes. Furthermore, the anodic electrode, where the counter reaction takes place, plays also an important role in determining the current efficiency of the overall process. In this case, the liquid-to-gas phase transition implies that the electrodes get a strong gas shield that increases the IR drop. Whereas shifting from bi-dimensional to three-dimensional electrodes could provide an alternative for achieving better performances, it is still far from the expected targets. Therefore alternative or complementary techniques to improve efficiency are required. It is well known that magnetic fields coupled with electric fields enhance mass transport via de Lorentz and other forces. In this work, the applications and properties of three-dimensional arrays subject to magnetic field interactions are examined and compared with the traditional bi-dimensional electrodes

  17. Three dimensional periodic foundations for base seismic isolation

    International Nuclear Information System (INIS)

    Yan, Y; Mo, Y L; Cheng, Z; Shi, Z; Menq, F; Tang, Y

    2015-01-01

    Based on the concept of phononic crystals, periodic foundations made of periodic materials are investigated in this paper. The periodic foundations can provide low frequency band gaps, which cover the main frequency ranges of seismic waves. Therefore, the periodic foundations are able to protect the upper structures during earthquake events. In this paper, the basic theory of three dimensional periodic foundations is studied and the finite element method was used to conduct the sensitivity study. A simplified three-dimensional periodic foundation with a superstructure was tested in the field and the feasibility of three dimensional periodic foundations was proved. The test results showed that the response of the upper structure with the three dimensional periodic foundation was reduced under excitation waves with the main frequency falling in the attenuation zones. The finite element analysis results are consistent with the experimental data, indicating that three dimensional periodic foundations are a feasible way of reducing seismic vibrations. (paper)

  18. Submicron three-dimensional structures fabricated by reverse contact UV nanoimprint lithography

    DEFF Research Database (Denmark)

    Kehagias, N.; Reboud, Vincent; Chansin, G.

    2006-01-01

    The fabrication of a three-dimensional multilayered nanostructure is demonstrated with a newly developed nanofabrication technique, namely, reverse contact ultraviolet nanoimprint lithography. This technique is a combination of reverse nanoimprint lithography and contact ultraviolet lithography....... In this process, a UV cross-linkable polymer and a thermoplastic polymer are spin coated onto a patterned hybrid metal-quartz stamp. These thin polymer films are then transferred from the stamp to the substrate by contact at a suitable temperature and pressure. The whole assembly is then exposed to UV light....... After separation of the stamp and the substrate, the unexposed polymer areas are rinsed away with acetone leaving behind the negative features of the original stamp with no residual layer....

  19. Structural Analysis of Three-dimensional Human Neural Tissue derived from Induced Pluripotent Stem Cells

    DEFF Research Database (Denmark)

    Terrence Brooks, Patrick; Rasmussen, Mikkel Aabech; Hyttel, Poul

    2016-01-01

    Objective: The present study aimed at establishing a method for production of a three-dimensional (3D) human neural tissue derived from induced pluripotent stem cells (iPSCs) and analyzing the outcome by a combination of tissue ultrastructure and expression of neural markers. Methods: A two......-step cell culture procedure was implemented by subjecting human iPSCs to a 3D scaffoldbased neural differentiation protocol. First, neural fate-inducing small molecules were used to create a neuroepithelial monolayer. Second, the monolayer was trypsinized into single cells and seeded into a porous...... polystyrene scaffold and further cultured to produce a 3D neural tissue. The neural tissue was characterized by a combination of immunohistochemistry and transmission electron microscopy (TEM). Results: iPSCs developed into a 3D neural tissue expressing markers for neural progenitor cells, early neural...

  20. Charge transport in the electrospun nanofiber composite membrane's three-dimensional fibrous structure

    Science.gov (United States)

    DeGostin, Matthew B.; Peracchio, Aldo A.; Myles, Timothy D.; Cassenti, Brice N.; Chiu, Wilson K. S.

    2016-03-01

    In this paper, a Fiber Network (FN) ion transport model is developed to simulate the three-dimensional fibrous microstructural morphology that results from the electrospinning membrane fabrication process. This model is able to approximate fiber layering within a membrane as well as membrane swelling due to water uptake. The discrete random fiber networks representing membranes are converted to resistor networks and solved for current flow and ionic conductivity. Model predictions are validated by comparison with experimental conductivity data from electrospun anion exchange membranes (AEM) and proton exchange membranes (PEM) for fuel cells as well as existing theories. The model is capable of predicting in-plane and thru-plane conductivity and takes into account detailed membrane characteristics, such as volume fraction, fiber diameter, fiber conductivity, and membrane layering, and as such may be used as a tool for advanced electrode design.

  1. Designing spatial correlation of quantum dots: towards self-assembled three-dimensional structures

    International Nuclear Information System (INIS)

    Bortoleto, J R R; Zelcovit, J G; Gutierrez, H R; Bettini, J; Cotta, M A

    2008-01-01

    Buried two-dimensional arrays of InP dots were used as a template for the lateral ordering of self-assembled quantum dots. The template strain field can laterally organize compressive (InAs) as well as tensile (GaP) self-assembled nanostructures in a highly ordered square lattice. High-resolution transmission electron microscopy measurements show that the InAs dots are vertically correlated to the InP template, while the GaP dots are vertically anti-correlated, nucleating in the position between two buried InP dots. Finite InP dot size effects are observed to originate InAs clustering but do not affect GaP dot nucleation. The possibility of bilayer formation with different vertical correlations suggests a new path for obtaining three-dimensional pseudocrystals

  2. Method for the determination of the three-dimensional structure of ultrashort relativistic electron bunches

    Energy Technology Data Exchange (ETDEWEB)

    Geloni, Gianluca; Ilinski, Petr; Saldin, Evgeni; Schneidmiller, Evgeni; Yurkov, Mikhail

    2009-05-15

    We describe a novel technique to characterize ultrashort electron bunches in Xray Free-Electron Lasers. Namely, we propose to use coherent Optical Transition Radiation to measure three-dimensional (3D) electron density distributions. Our method relies on the combination of two known diagnostics setups, an Optical Replica Synthesizer (ORS) and an Optical Transition Radiation (OTR) imager. Electron bunches are modulated at optical wavelengths in the ORS setup.When these electron bunches pass through a metal foil target, coherent radiation pulses of tens MW power are generated. It is thereafter possible to exploit advantages of coherent imaging techniques, such as direct imaging, diffractive imaging, Fourier holography and their combinations. The proposed method opens up the possibility of real-time, wavelength-limited, single-shot 3D imaging of an ultrashort electron bunch. (orig.)

  3. Posture, speed, and habitat structure: three-dimensional hindlimb kinematics of two species of padless geckos.

    Science.gov (United States)

    Fuller, Patrick O; Higham, Timothy E; Clark, Andrew J

    2011-04-01

    Differences in habitat use are often correlated with differences in morphology and behavior, while animals in similar habitats often exhibit similarities in form and function. However, this has not been tested extensively among lizards, especially geckos. Most studies of gecko locomotion have focused on the ability to adhere to surfaces. However, there are several species of geckos that have either secondarily lost adhesive capabilities or simply lack the capability. We quantified the three-dimensional locomotor kinematics for two desert-dwelling padless geckos, Teratoscincus scincus and Eublepharis macularius, on a level trackway over a range of speeds. Our results indicate that T. scincus landed with a high relative hip height of 48.7 ± 2.4% of total limb length at footfall, while E. macularius exhibited hip heights averaging only 36.0 ± 1.8% of total limb length for footfall. The three-dimensional knee angle of T. scincus averaged 120.6 ± 3.9° at footfall, while E. macularius averaged only 101.6 ± 1.8° at footfall. In addition, the femur of E. macularius was elevated to a much greater extent (i.e., was closer to being perpendicular to the long axis of the body) than that of T. scincus and every other lizard that has been studied, suggesting they move with a "hyper-sprawled" posture. Both of these gecko species live in deserts, but T. scincus is psammophilic while E. macularius inhabits a rocky, more densely vegetated environment. Benefits of the more upright posture of T. scincus on open sandy habitat may include a greater field of view and more efficient locomotion. The more sprawled posture of E. macularius may lower its center of gravity and aid in balance while climbing on rocks or shrubs. Copyright © 2011 Elsevier GmbH. All rights reserved.

  4. Structure and coarsening at the surface of a dry three-dimensional aqueous foam.

    Science.gov (United States)

    Roth, A E; Chen, B G; Durian, D J

    2013-12-01

    We utilize total-internal reflection to isolate the two-dimensional surface foam formed at the planar boundary of a three-dimensional sample. The resulting images of surface Plateau borders are consistent with Plateau's laws for a truly two-dimensional foam. Samples are allowed to coarsen into a self-similar scaling state where statistical distributions appear independent of time, except for an overall scale factor. There we find that statistical measures of side number distributions, size-topology correlations, and bubble shapes are all very similar to those for two-dimensional foams. However, the size number distribution is slightly broader, and the shapes are slightly more elongated. A more obvious difference is that T2 processes now include the creation of surface bubbles, due to rearrangement in the bulk, and von Neumann's law is dramatically violated for individual bubbles. But nevertheless, our most striking finding is that von Neumann's law appears to holds on average, namely, the average rate of area change for surface bubbles appears to be proportional to the number of sides minus six, but with individual bubbles showing a wide distribution of deviations from this average behavior.

  5. The band structures of three-dimensional nonlinear plasma photonic crystals

    Directory of Open Access Journals (Sweden)

    Hai-Feng Zhang

    2018-01-01

    Full Text Available In this paper, the properties of the photonic band gaps (PBGs for three-dimensional (3D nonlinear plasma photonic crystals (PPCs are theoretically investigated by the plane wave expansion method, whose equations for calculations also are deduced. The configuration of 3D nonlinear PPCs is the Kerr nonlinear dielectric spheres (Kerr effect is considered inserted in the plasma background with simple-cubic lattices. The inserted dielectric spheres are Kerr nonlinear dielectrics whose relative permittivities are the functions of the external light intensity. Three different Kerr nonlinear dielectrics are considered, which can be expressed as the functions of space coordinates. The influences of the parameters for the Kerr nonlinear dielectrics on the PBGs also are discussed. The calculated results demonstrate that the locations, bandwidths and number of PBGs can be manipulated with the different Kerr nonlinear dielectrics. Compared with the conventional 3D dielectric PCs and PPCs with simple-cubic lattices, the more PBGs or larger PBG can be achieved in the 3D nonlinear PPCs. Those results provide a new way to design the novel devices based on the PPCs.

  6. Structure of the electromagnetic field in three-dimensional Hall magnetohydrodynamic turbulence

    International Nuclear Information System (INIS)

    Dmitruk, Pablo; Matthaeus, W.H.

    2006-01-01

    Numerical simulations of freely evolving three-dimensional compressible magnetohydrodynamics (MHD) are performed, with and without the Hall term in Ohm's law. The parameter controlling the presence of the Hall term is the ratio of the ion skin depth to the macroscopic scale of the turbulence. The ion skin depth is set to be slightly larger than the dissipation length scale (controlled by the resistivity) for the Hall MHD simulations, while it is set to zero for non-Hall MHD simulations. Small initial cross helicity, hybrid helicity, and magnetic helicity are considered. The system is left to evolve for a few turbulent characteristic times and the magnetic field and electric field are analyzed in real and wavenumber space. Distributions (histograms) of the fields are also computed. It is found that the turbulent magnetic field (as well as the velocity field) is almost unaffected by the presence of the Hall term, while the electric field is affected at scales smaller than the ion skin depth, that is, close to the dissipation range in these simulations. The importance of each term in Ohm's law for the electric field is analyzed in wavenumber space. Furthermore, reconnection-like zones are identified, where the importance of each term in Ohm's law can be seen in real space. Reconnection-like zones with magnetic field B=0 (or small) and B≠0 are found within the turbulent state of the system

  7. Fabrication of three-dimensional ordered nanodot array structures by a thermal dewetting method

    International Nuclear Information System (INIS)

    Li Zhenxing; Yoshino, Masahiko; Yamanaka, Akinori

    2012-01-01

    A new fabrication method for three-dimensional nanodot arrays with low cost and high throughput is developed in this paper. In this process, firstly a 2D nanodot array is fabricated by combination of top-down and bottom-up approaches. A nanoplastic forming technique is utilized as the top-down approach to fabricate a groove grid pattern on an Au layer deposited on a substrate, and self-organization by thermal dewetting is employed as the bottom-up approach. On the first-layer nanodot array, SiO 2 is deposited as a spacer layer. Au is then deposited on the spacer layer and thermal dewetting is conducted to fabricate a second-layer nanodot array. The effective parameters influencing dot formation on the second layer, including Au layer thickness and SiO 2 layer thickness, are studied. It is demonstrated that a 3D nanodot array of good vertical alignment is obtained by repeating the SiO 2 deposition, Au deposition and thermal dewetting. The mechanism of the dot agglomeration process is studied based on geometrical models. The effects of the spacer layer thickness and Au layer thickness on the morphology and alignment of the second-layer dots are discussed. (paper)

  8. Rapid fabrication of three-dimensional structures for dielectrophoretic sorting of lipid-containing organisms

    International Nuclear Information System (INIS)

    Schor, Alisha R; Buie, Cullen R

    2016-01-01

    In this work, we demonstrate a microfluidic particle sorter consisting of three-dimensional, conducting microposts. Our sorter uses dielectrophoresis (DEP) to sort high- and low-lipid phenotypes of the yeast Yarrowia lipolytica . Y. lipolytica is one of the many microorganisms being explored as a hydrocarbon source for biodiesel, Omega-3 additives, and other products derived from fatty acids. A rapid, non-destructive, lipid-based sorting tool would accelerate the commercialization of these products. Our device consists of an array of 105, 25 μ m wide gold microposts that span the height of a 15 μ m channel. This array generates an electric field in a microfluidic device that is uniform through the channel height, but has a custom-shaped non-uniformity in the horizontal directions. This is crucial in order to achieve continuous sorting using DEP, as it ensures all cells are exposed to the same conditions throughout the channel height. By using very low currents (100 μ A), we are able to electroplate these post arrays in fewer than 15 min. This is an order of magnitude improvement over previous reports of electroplated microstructures. With an applied signal of 250 MHz, 2.6 V pp in our device, we separate a heterogeneous population with a purity of 97.8% in the low-lipid stream and 71.4% in the high-lipid stream. The high-lipid stream purity can be improved by adjusting the spacing of the array. This unique protocol for the rapid fabrication of 3D microstructures has enabled the creation of a non-invasive sorting tool for genetically engineered, lipid-producing organisms. The ability to screen organisms based on lipid content will alleviate one of the major bottlenecks in commercialization of microbial biofuels. (paper)

  9. The Three-Dimensional Structure of HH 32 from GMOS IFU Spectroscopy

    Science.gov (United States)

    Beck, Tracy L.; Riera, A.; Raga, A. C.; Aspin, C.

    2004-01-01

    We present new high-resolution spectroscopic observations of the Herbig-Haro object HH 32 from system verification observations made with the GMOS IFU at Gemini North Observatory. The three-dimensional spectral data cover a 8.7"×5.85" spatial field and 4820-7040 Å spectral region centered on the HH 32 A knot complex. We show the position-dependent line profiles and radial velocity channel maps of the Hα line, as well as line ratio velocity channel maps of [O III] λ5007/Hα, [O I] λ6300/Hα, [N II] λ6583/Hα, [S II] λλ(6716+6730)/Hα, and [S II] λ6716/λ6730. We find that the line emission and the line ratios vary significantly on spatial scales of ~1" and over velocities of ~50 km s-1. A ``3/2-dimensional'' bow shock model is qualitatively successful at reproducing the general features of the radial velocity channel maps, but it does not show the same complexity as the data, and it fails to reproduce the line ratios in our high spatial resolution maps. The observations of HH 32 A show two or three superposed bow shocks with separations of ~3", which we interpret as evidence of a line-of-sight superposition of two or three working surfaces located along the redshifted body of the HH 32 outflow. Based on observations obtained at the Gemini Observatory, which is operated by the Association of Universities for Research in Astronomy, Inc., under a cooperative agreement with the National Science Foundation on behalf of the Gemini partnership: the NSF, the Particle Physics and Astronomy Research Council (United Kingdom), the National Research Council (Canada), CONICYT (Chile), the Australian Research Council (Australia), CNPq (Brazil), and CONICET (Argentina).

  10. Learning the Cell Structures with Three-Dimensional Models: Students' Achievement by Methods, Type of School and Questions' Cognitive Level

    Science.gov (United States)

    Lazarowitz, Reuven; Naim, Raphael

    2014-01-01

    The cell topic was taught to 9th-grade students in three modes of instruction: (a) students "hands-on," who constructed three-dimensional cell organelles and macromolecules during the learning process; (b) teacher demonstration of the three-dimensional model of the cell structures; and (c) teaching the cell topic with the regular…

  11. Three-dimensional structure determination protocol for noncrystalline biomolecules using x-ray free-electron laser diffraction imaging.

    Science.gov (United States)

    Oroguchi, Tomotaka; Nakasako, Masayoshi

    2013-02-01

    Coherent and intense x-ray pulses generated by x-ray free-electron laser (XFEL) sources are paving the way for structural determination of noncrystalline biomolecules. However, due to the small scattering cross section of electrons for x rays, the available incident x-ray intensity of XFEL sources, which is currently in the range of 10(12)-10(13) photons/μm(2)/pulse, is lower than that necessary to perform single-molecule diffraction experiments for noncrystalline biomolecules even with the molecular masses of megadalton and submicrometer dimensions. Here, we propose an experimental protocol and analysis method for visualizing the structure of those biomolecules by the combined application of coherent x-ray diffraction imaging and three-dimensional reconstruction methods. To compensate the small scattering cross section of biomolecules, in our protocol, a thin vitreous ice plate containing several hundred biomolecules/μm(2) is used as sample, a setup similar to that utilized by single-molecule cryoelectron microscopy. The scattering cross section of such an ice plate is far larger than that of a single particle. The images of biomolecules contained within irradiated areas are then retrieved from each diffraction pattern, and finally provide the three-dimensional electron density model. A realistic atomic simulation using large-scale computations proposed that the three-dimensional structure determination of the 50S ribosomal subunit embedded in a vitreous ice plate is possible at a resolution of 0.8 nm when an x-ray beam of 10(16) photons/500×500 nm(2)/pulse is available.

  12. Elfin: An algorithm for the computational design of custom three-dimensional structures from modular repeat protein building blocks.

    Science.gov (United States)

    Yeh, Chun-Ting; Brunette, T J; Baker, David; McIntosh-Smith, Simon; Parmeggiani, Fabio

    2018-02-01

    Computational protein design methods have enabled the design of novel protein structures, but they are often still limited to small proteins and symmetric systems. To expand the size of designable proteins while controlling the overall structure, we developed Elfin, a genetic algorithm for the design of novel proteins with custom shapes using structural building blocks derived from experimentally verified repeat proteins. By combining building blocks with compatible interfaces, it is possible to rapidly build non-symmetric large structures (>1000 amino acids) that match three-dimensional geometric descriptions provided by the user. A run time of about 20min on a laptop computer for a 3000 amino acid structure makes Elfin accessible to users with limited computational resources. Protein structures with controlled geometry will allow the systematic study of the effect of spatial arrangement of enzymes and signaling molecules, and provide new scaffolds for functional nanomaterials. Copyright © 2017 Elsevier Inc. All rights reserved.

  13. Label-free three-dimensional (3D) structural imaging in live cells using intrinsic optical refractive index

    KAUST Repository

    Liu, Chen

    2017-04-14

    Here we report a method for visualization of volumetric structural information of live biological samples with no exogenous contrast agents. The process is made possible through a technique that involves generation, synthesis and analysis of three-dimensional (3D) Fourier components of light diffracted by the sample. This leads to the direct recovery of quantitative cellular morphology with no iterative procedures for reduced computational complexity. Combing with the fact that the technique is easily adaptive to any imaging platform and requires minimum sample preparation, our proposed method is particularly promising for observing fast, volumetric and dynamic events previously only accessible through staining methods.

  14. Label-free three-dimensional (3D) structural imaging in live cells using intrinsic optical refractive index

    KAUST Repository

    Liu, Chen; Malek, Michael; Poon, Ivan K. H.; Jiang, Lanzhou; Sheppard, Colin J. R.; Roberts, Ann; Quiney, Harry; Zhang, Douguo; Yuan, Xiaocong; Lin, Jiao; Depeursinge, Christian; Marquet, Pierre; Kou, Shan Shan

    2017-01-01

    Here we report a method for visualization of volumetric structural information of live biological samples with no exogenous contrast agents. The process is made possible through a technique that involves generation, synthesis and analysis of three-dimensional (3D) Fourier components of light diffracted by the sample. This leads to the direct recovery of quantitative cellular morphology with no iterative procedures for reduced computational complexity. Combing with the fact that the technique is easily adaptive to any imaging platform and requires minimum sample preparation, our proposed method is particularly promising for observing fast, volumetric and dynamic events previously only accessible through staining methods.

  15. Preliminary study of the application of transthoracic echocardiography-guided three-dimensional printing for the assessment of structural heart disease.

    Science.gov (United States)

    Zhu, Yanbo; Liu, Jianshi; Wang, Lianqun; Guan, Xin; Luo, Yongjuan; Geng, Jie; Geng, Qingguo; Lin, Yunjia; Zhang, Lixia; Li, Xixue; Lu, Yaping

    2017-12-01

    To investigate the feasibility and diagnostic value of a preoperative transthoracic echocardiography-guided three-dimensional printed model (TTE-guided 3DPM) for the assessment of structural heart disease (SHD). Fourty-four patients underwent cardiac surgery at Tianjin Chest Hospital. The patients were preoperatively assessed using TTE-guided 3DPM, which was compared to conventional three-dimensional transthoracic echocardiography (3DTTE) along with direct intraoperative findings, which were considered the "gold standard." Twelve patients had SHD, including four with mitral prolapse, two with partial endocardial cushion defects, two with secondary atrial septal defects, two with rheumatic mitral stenosis, one with tetralogy of Fallot, and one with a ventricular septal defect (VSD). Thirty-two patients who did not have SHDs were designated as the negative control group. The sensitivity and specificity of the TTE-guided 3DPM were greater than or equal to those of the 3DTTE. The P-value of the McNemar test of 3DTTE was >.05, which indicates that the difference was not statistically significant (Kappa = 0.745, P guided 3DPM was >.05, which indicates that the difference was not statistically significant (Kappa = 0.955, P guided 3DPM resulted in a P-value >.05, which indicates that the difference was not statistically significant (Kappa = 0.879, P guided 3DPM displayed the 3D structure of SHDs and cardiac lesions clearly and was consistent with the intra-operative findings. Transthoracic echocardiography-guided three-dimensional printed model (TTE-guided 3DPM) provides essential information for preoperative evaluation and decision making for patients with SHDs. © 2017, Wiley Periodicals, Inc.

  16. Seismic response analysis of soil-structure interactive system using a coupled three-dimensional FE-IE method

    International Nuclear Information System (INIS)

    Ryu, Jeong-Soo; Seo, Choon-Gyo; Kim, Jae-Min; Yun, Chung-Bang

    2010-01-01

    This paper proposes a slightly new three-dimensional radial-shaped dynamic infinite elements fully coupled to finite elements for an analysis of soil-structure interaction system in a horizontally layered medium. We then deal with a seismic analysis technique for a three-dimensional soil-structure interactive system, based on the coupled finite-infinite method in frequency domain. The dynamic infinite elements are simulated for the unbounded domain with wave functions propagating multi-generated wave components. The accuracy of the dynamic infinite element and effectiveness of the seismic analysis technique may be demonstrated through a typical compliance analysis of square surface footing, an L-shaped mat concrete footing on layered soil medium and two kinds of practical seismic analysis tests. The practical analyses are (1) a site response analysis of the well-known Hualien site excited by all travelling wave components (primary, shear, Rayleigh waves) and (2) a generation of a floor response spectrum of a nuclear power plant. The obtained dynamic results show good agreement compared with the measured response data and numerical values of other soil-structure interaction analysis package.

  17. The shikimate pathway: review of amino acid sequence, function and three-dimensional structures of the enzymes.

    Science.gov (United States)

    Mir, Rafia; Jallu, Shais; Singh, T P

    2015-06-01

    The aromatic compounds such as aromatic amino acids, vitamin K and ubiquinone are important prerequisites for the metabolism of an organism. All organisms can synthesize these aromatic metabolites through shikimate pathway, except for mammals which are dependent on their diet for these compounds. The pathway converts phosphoenolpyruvate and erythrose 4-phosphate to chorismate through seven enzymatically catalyzed steps and chorismate serves as a precursor for the synthesis of variety of aromatic compounds. These enzymes have shown to play a vital role for the viability of microorganisms and thus are suggested to present attractive molecular targets for the design of novel antimicrobial drugs. This review focuses on the seven enzymes of the shikimate pathway, highlighting their primary sequences, functions and three-dimensional structures. The understanding of their active site amino acid maps, functions and three-dimensional structures will provide a framework on which the rational design of antimicrobial drugs would be based. Comparing the full length amino acid sequences and the X-ray crystal structures of these enzymes from bacteria, fungi and plant sources would contribute in designing a specific drug and/or in developing broad-spectrum compounds with efficacy against a variety of pathogens.

  18. Mesoscale Eddies in the Northwestern Pacific Ocean: Three-Dimensional Eddy Structures and Heat/Salt Transports

    Science.gov (United States)

    Dong, Di; Brandt, Peter; Chang, Ping; Schütte, Florian; Yang, Xiaofeng; Yan, Jinhui; Zeng, Jisheng

    2017-12-01

    The region encompassing the Kuroshio Extension (KE) in the Northwestern Pacific Ocean (25°N-45°N and 130°E-180°E) is one of the most eddy-energetic regions of the global ocean. The three-dimensional structures and transports of mesoscale eddies in this region are comprehensively investigated by combined use of satellite data and Argo profiles. With the allocation of Argo profiles inside detected eddies, the spatial variations of structures of eddy temperature and salinity anomalies are analyzed. The results show that eddies predominantly have subsurface (near-surface) intensified temperature and salinity anomalies south (north) of the KE jet, which is related to different background stratifications between these regions. A new method based on eddy trajectories and the inferred three-dimensional eddy structures is proposed to estimate heat and salt transports by eddy movements in a Lagrangian framework. Spatial distributions of eddy transports are presented over the vicinity of the KE for the first time. The magnitude of eddy-induced meridional heat (freshwater volume) transport is on the order of 0.01 PW (103 m3/s). The eddy heat transport divergence results in an oceanic heat loss south and heat gain north of the KE, thereby reinforcing and counteracting the oceanic heat loss from air-sea fluxes south and north of the KE jet, respectively. It also suggests a poleward heat transport across the KE jet due to eddy propagation.

  19. A simplified description of the three-dimensional structure of agroforestry trees for use with a radiative transfer model

    International Nuclear Information System (INIS)

    Meloni, S.

    1998-01-01

    To simulate transmitted radiation in agroforestry systems, radiative transfer models usually require a detailed three-dimensional description of the tree canopy. We propose here a simplification of the description of the three-dimensional structure of wild cherry trees (Prunus avium). The simplified tree description was tested against the detailed one for five-year-old wild cherry. It allowed accurate simulation of transmitted radiation and avoided tedious measurements of tree structure. The simplified description was then applied to older trees. Allometric relationships were used to compute the parameters not available on free-grown trees. The transmitted radiation in an agroforestry system was simulated at four different ages: 5, 10, 15 and 20 years. The trees were planted on a 5 m square grid. Two row orientations, chosen to provide different transmitted radiation patterns, were tested: north/south and north- east/south-west. The simulations showed that the daily mean transmitted radiation was reduced from 92% of incident radiation under five-year-old trees to 37% under 20-year-old trees. The variability of transmitted radiation increased with tree growth. The row orientation had only small effects on the shaded area at the beginning and end of the day when solar elevation was low. (author)

  20. Structural origin of dynamic heterogeneity in three-dimensional colloidal glass formers and its link to crystal nucleation.

    Science.gov (United States)

    Kawasaki, Takeshi; Tanaka, Hajime

    2010-06-16

    The physical understanding of glass transition remains a major challenge of physics and materials science. Among various glass-forming liquids, a colloidal liquid interacting with hard-core repulsion is now regarded as one of the most ideal model systems. Here we study the structure and dynamics of three-dimensional polydisperse colloidal liquids by Brownian dynamics simulations. We reveal that medium-range crystalline bond orientational order of the hexagonal close packed structure grows in size and lifetime with increasing packing fraction. We show that dynamic heterogeneity may be a direct consequence of this transient structural ordering, which suggests its origin is thermodynamic rather than kinetic. We also reveal that nucleation of crystals preferentially occurs in regions of high medium-range order, reflecting the low crystal-liquid interfacial energy there. These findings may shed new light not only on the fundamental nature of the glass transition, but also the mechanism of crystal nucleation.

  1. Two-photon polymerization of metal ions doped acrylate monomers and oligomers for three-dimensional structure fabrication

    International Nuclear Information System (INIS)

    Duan Xuanming; Sun Hongbo; Kaneko, Koshiro; Kawata, Satoshi

    2004-01-01

    We have investigated two-photon polymerization of metal ions doped acrylate monomers and oligomers which is applied for three-dimensional (3D) micro/nano-structure fabrication. Titanium (IV) ions doped urethane acrylate photopolymerizable resins were synthesized, and their optical and polymerization properties were investigated. The resolution of two-photon polymerization for micro/nanofabrication was evaluated. Titanium dioxide (TiO 2 ) nanoparticles were generated in the polymer matrix of micron-sized polymer structures. A 3D diamond photonic crystal structure, which consisted of polymer composite materials of TiO 2 nanoparticles, was successfully fabricated by direct laser writing and its photonic bandgap was confirmed. This work would give us a new solution for producing 3D micro/nanodevices of functional polymer composite materials

  2. Use of three-dimensional parameters in the analysis of crystal structures under compression

    DEFF Research Database (Denmark)

    Balic Zunic, Tonci

    2007-01-01

    . For a complete understanding of structural changes, the behaviour of all coordination polyhedra plus the voids that separate them must be investigated. The structural voids in a framework are identified by a Voronoi tessellation. It can be performed e.g. on the anionic framework alone to find the centres...... information. Accurate determination of atomic coordinations is difficult in cases where a clear bond gap does not exist. In such instances the most reliable existing method is the determination of atomic domains in electron density, which can be performed even for experimental high-pressure crystal structure...

  3. Canine hippocampal formation composited into three-dimensional structure using MPRAGE.

    Science.gov (United States)

    Jung, Mi-Ae; Nahm, Sang-Soep; Lee, Min-Su; Lee, In-Hye; Lee, Ah-Ra; Jang, Dong-Pyo; Kim, Young-Bo; Cho, Zang-Hee; Eom, Ki-Dong

    2010-07-01

    This study was performed to anatomically illustrate the living canine hippocampal formation in three-dimensions (3D), and to evaluate its relationship to surrounding brain structures. Three normal beagle dogs were scanned on a MR scanner with inversion recovery segmented 3D gradient echo sequence (known as MP-RAGE: Magnetization Prepared Rapid Gradient Echo). The MRI data was manually segmented and reconstructed into a 3D model using the 3D slicer software tool. From the 3D model, the spatial relationships between hippocampal formation and surrounding structures were evaluated. With the increased spatial resolution and contrast of the MPRAGE, the canine hippocampal formation was easily depicted. The reconstructed 3D image allows easy understanding of the hippocampal contour and demonstrates the structural relationship of the hippocampal formation to surrounding structures in vivo.

  4. Three-dimensional solution structure of lactoferricin B, an antimicrobial peptide derived from bovine lactoferrin.

    Science.gov (United States)

    Hwang, P M; Zhou, N; Shan, X; Arrowsmith, C H; Vogel, H J

    1998-03-24

    The solution structure of bovine lactoferricin (LfcinB) has been determined using 2D 1H NMR spectroscopy. LfcinB is a 25-residue antimicrobial peptide released by pepsin cleavage of lactoferrin, an 80 kDa iron-binding glycoprotein with many immunologically important functions. The NMR structure of LfcinB reveals a somewhat distorted antiparallel beta-sheet. This contrasts with the X-ray structure of bovine lactoferrin, in which residues 1-13 (of LfcinB) form an alpha-helix. Hence, this region of lactoferricin B appears able to adopt a helical or sheetlike conformation, similar to what has been proposed for the amyloidogenic prion proteins and Alzheimer's beta-peptides. LfcinB has an extended hydrophobic surface comprised of residues Phe1, Cys3, Trp6, Trp8, Pro16, Ile18, and Cys20. The side chains of these residues are well-defined in the NMR structure. Many hydrophilic and positively charged residues surround the hydrophobic surface, giving LfcinB an amphipathic character. LfcinB bears numerous similarities to a vast number of cationic peptides which exert their antimicrobial activities through membrane disruption. The structures of many of these peptides have been well characterized, and models of their membrane-permeabilizing mechanisms have been proposed. The NMR solution structure of LfcinB may be more relevant to membrane interaction than that suggested by the X-ray structure of intact lactoferrin. Based on the solution structure, it is now possible to propose potential mechanisms for the antimicrobial action of LfcinB.

  5. The retro-GCN4 leucine zipper sequence forms a stable three-dimensional structure

    Science.gov (United States)

    Mittl, Peer R. E.; Deillon, Christine; Sargent, David; Liu, Niankun; Klauser, Stephan; Thomas, Richard M.; Gutte, Bernd; Grütter, Markus G.

    2000-01-01

    The question of whether a protein whose natural sequence is inverted adopts a stable fold is still under debate. We have determined the 2.1-Å crystal structure of the retro-GCN4 leucine zipper. In contrast to the two-stranded helical coiled-coil GCN4 leucine zipper, the retro-leucine zipper formed a very stable, parallel four-helix bundle, which now lends itself to further structural and functional studies. PMID:10716989

  6. Integrability and Poisson Structures of Three Dimensional Dynamical Systems and Equations of Hydrodynamic Type

    Science.gov (United States)

    Gumral, Hasan

    Poisson structure of completely integrable 3 dimensional dynamical systems can be defined in terms of an integrable 1-form. We take advantage of this fact and use the theory of foliations in discussing the geometrical structure underlying complete and partial integrability. We show that the Halphen system can be formulated in terms of a flat SL(2,R)-valued connection and belongs to a non-trivial Godbillon-Vey class. On the other hand, for the Euler top and a special case of 3-species Lotka-Volterra equations which are contained in the Halphen system as limiting cases, this structure degenerates into the form of globally integrable bi-Hamiltonian structures. The globally integrable bi-Hamiltonian case is a linear and the sl_2 structure is a quadratic unfolding of an integrable 1-form in 3 + 1 dimensions. We complete the discussion of the Hamiltonian structure of 2-component equations of hydrodynamic type by presenting the Hamiltonian operators for Euler's equation and a continuum limit of Toda lattice. We present further infinite sequences of conserved quantities for shallow water equations and show that their generalizations by Kodama admit bi-Hamiltonian structure. We present a simple way of constructing the second Hamiltonian operators for N-component equations admitting some scaling properties. The Kodama reduction of the dispersionless-Boussinesq equations and the Lax reduction of the Benney moment equations are shown to be equivalent by a symmetry transformation. They can be cast into the form of a triplet of conservation laws which enable us to recognize a non-trivial scaling symmetry. The resulting bi-Hamiltonian structure generates three infinite sequences of conserved densities.

  7. A new three-dimensional manufacturing service composition method under various structures using improved Flower Pollination Algorithm

    Science.gov (United States)

    Zhang, Wenyu; Yang, Yushu; Zhang, Shuai; Yu, Dejian; Chen, Yong

    2018-05-01

    With the growing complexity of customer requirements and the increasing scale of manufacturing services, how to select and combine the single services to meet the complex demand of the customer has become a growing concern. This paper presents a new manufacturing service composition method to solve the multi-objective optimization problem based on quality of service (QoS). The proposed model not only presents different methods for calculating the transportation time and transportation cost under various structures but also solves the three-dimensional composition optimization problem, including service aggregation, service selection, and service scheduling simultaneously. Further, an improved Flower Pollination Algorithm (IFPA) is proposed to solve the three-dimensional composition optimization problem using a matrix-based representation scheme. The mutation operator and crossover operator of the Differential Evolution (DE) algorithm are also used to extend the basic Flower Pollination Algorithm (FPA) to improve its performance. Compared to Genetic Algorithm, DE, and basic FPA, the experimental results confirm that the proposed method demonstrates superior performance than other meta heuristic algorithms and can obtain better manufacturing service composition solutions.

  8. An improvement of the filter diagonalization-based post-processing method applied to finite difference time domain calculations of three-dimensional phononic band structures

    International Nuclear Information System (INIS)

    Su Xiaoxing; Zhang Chuanzeng; Ma Tianxue; Wang Yuesheng

    2012-01-01

    When three-dimensional (3D) phononic band structures are calculated by using the finite difference time domain (FDTD) method with a relatively small number of iterations, the results can be effectively improved by post-processing the FDTD time series (FDTD-TS) based on the filter diagonalization method (FDM), instead of the classical fast Fourier transform. In this paper, we propose a way to further improve the performance of the FDM-based post-processing method by introducing a relatively large number of observing points to record the FDTD-TS. To this end, the existing scheme of FDTD-TS preprocessing is modified. With the new preprocessing scheme, the processing efficiency of a single FDTD-TS can be improved significantly, and thus the entire post-processing method can have sufficiently high efficiency even when a relatively large number of observing points are used. The feasibility of the proposed method for improvement is verified by the numerical results.

  9. Three-dimensional fluid-structure interaction case study on cubical fluid cavity with flexible bottom

    Science.gov (United States)

    Ghelardi, Stefano; Rizzo, Cesare; Villa, Diego

    2017-12-01

    In this paper, we report our study on a numerical fluid-structure interaction problem originally presented by Mok et al. (2001) in two dimensions and later studied in three dimensions by Valdés Vazquez (2007), Lombardi (2012), and Trimarchi (2012). We focus on a 3D test case in which we evaluated the sensitivity of several input parameters on the fluid and structural results. In particular, this analysis provides a starting point from which we can look deeper into specific aspects of these simulations and analyze more realistic cases, e.g., in sails design. In this study, using the commercial software ADINA™, we addressed a well-known unsteadiness problem comprising a square box representing the fluid domain with a flexible bottom modeled with structural shell elements. We compared data from previously published work whose authors used the same numerical approach, i.e., a partitioned approach coupling a finite volume solver (for the fluid domain) and a finite element solver (for the solid domain). Specifically, we established several benchmarks and made comparisons with respect to fluid and solid meshes, structural element types, and structural damping, as well as solution algorithms. Moreover, we compared our method with a monolithic finite element solution method. Our comparisons of new and old results provide an outline of best practices for such simulations.

  10. Determination of the three-dimensional structure for weakly aligned biomolecules by NMR spectroscopy

    International Nuclear Information System (INIS)

    Shahkhatuni, Astghik A; Shahkhatuni, Aleksan G

    2002-01-01

    The key achievements and the potential of NMR spectroscopy for weakly aligned biomolecules are considered. Due to weak alignment, it becomes possible to determine a number of NMR parameters dependent on the orientation of biomolecules, which are averaged to zero in usual isotropic media. The addition of new orientational constraints to standard procedures of 3D structure determination markedly increases the achievable accuracy. The possibility of structure determination for biomolecules using only orientation-dependent parameters without invoking other NMR data is discussed. The methods of orientation, experimental techniques, and calculation methods are systematised. The main results obtained and the prospects of using NMR spectroscopy of weakly aligned systems to study different classes of biomolecules and to solve various problems of molecular biology are analysed. Examples of biomolecules whose structures have been determined using orientation-dependent parameters are given. The bibliography includes 508 references.

  11. Nanoforging - Innovation in three-dimensional processing and shaping of nanoscaled structures.

    Science.gov (United States)

    Landefeld, Andreas; Rösler, Joachim

    2014-01-01

    This paper describes the shaping of freestanding objects out of metallic structures in the nano- and submicron size. The technique used, called nanoforging, is very similar to the macroscopic forging process. With spring actuated tools produced by focused ion beam milling, controlled forging is demonstrated. With only three steps, a conical bar stock is transformed to a flat- and semicircular bent bar stock. Compared with other forming techniques in the reduced scale, nanoforging represents a beneficial approach in forming freestanding metallic structures, due to its simplicity, and supplements other forming techniques.

  12. Nanoforging – Innovation in three-dimensional processing and shaping of nanoscaled structures

    Directory of Open Access Journals (Sweden)

    Andreas Landefeld

    2014-07-01

    Full Text Available Background: This paper describes the shaping of freestanding objects out of metallic structures in the nano- and submicron size. The technique used, called nanoforging, is very similar to the macroscopic forging process.Results: With spring actuated tools produced by focused ion beam milling, controlled forging is demonstrated. With only three steps, a conical bar stock is transformed to a flat- and semicircular bent bar stock.Conclusion: Compared with other forming techniques in the reduced scale, nanoforging represents a beneficial approach in forming freestanding metallic structures, due to its simplicity, and supplements other forming techniques.

  13. Three-dimensional segmentation and skeletonization to build an airway tree data structure for small animals

    International Nuclear Information System (INIS)

    Chaturvedi, Ashutosh; Lee, Zhenghong

    2005-01-01

    Quantitative analysis of intrathoracic airway tree geometry is important for objective evaluation of bronchial tree structure and function. Currently, there is more human data than small animal data on airway morphometry. In this study, we implemented a semi-automatic approach to quantitatively describe airway tree geometry by using high-resolution computed tomography (CT) images to build a tree data structure for small animals such as rats and mice. Silicon lung casts of the excised lungs from a canine and a mouse were used for micro-CT imaging of the airway trees. The programming language IDL was used to implement a 3D region-growing threshold algorithm for segmenting out the airway lung volume from the CT data. Subsequently, a fully-parallel 3D thinning algorithm was implemented in order to complete the skeletonization of the segmented airways. A tree data structure was then created and saved by parsing through the skeletonized volume using the Python programming language. Pertinent information such as the length of all airway segments was stored in the data structure. This approach was shown to be accurate and efficient for up to six generations for the canine lung cast and ten generations for the mouse lung cast

  14. Three-dimensional Morphology and X-ray Scattering Structure of ...

    Indian Academy of Sciences (India)

    Aqueous tert-Butanol Mixtures: A Molecular Dynamics Study. SUPREET KAUR and ... In addition to this, we also observe dimers and small clusters of water molecules in the TBA-rich regime. ... formed MC18 and subsequently MD19,20 simulation studies for ... such analysis on water-TBA structure has not been reported in ...

  15. Self-Assembly of Colloidal Spheres into One, Two, and Three Dimensional Structures

    NARCIS (Netherlands)

    Guo, Y.

    2017-01-01

    The main goal of this thesis is to increase our understanding of colloidal self-assembly processes and develop new strategies to assemble colloidal building blocks into more sophisticated and well-defined super-structures. Self-assembly is a spontaneous process in which a disordered system of

  16. Three-dimensional structure of the Hck SH2 domain in solution

    International Nuclear Information System (INIS)

    Zhang Weixing; Smithgall, Thomas E.; Gmeiner, William H.

    1997-01-01

    The hematopoietic cellular kinase (Hck) is a member of the Src family of non-receptor protein-tyrosine kinases that is expressed predominantly in granulocytes, monocytes and macrophages. Recent observations suggest that Hck may be activated in HIV-infected macrophages and in chronic myelogenous leukemia cells that express Bcr-Abl. In order to increase our understanding of the structural basis for regulation of Hck activity under normal and pathological conditions, we have solved the solution structure of the uncomplexed Hck SH2 domain using NMR spectroscopy.A novel procedure that uses intraresidueH NTM H α distances as references for converting NOE intensities into distance restraints has been described. A total of 1757 significant experimental restraints were derived from NMR spectroscopic data including 238 medium-range and 487 long-range distance restraints and 177 torsion angle restraints. These restraints were used in a simulated annealing procedure to generate 20 structures with the program DYANA. Superimposition of residues 5-104 upon the mean coordinate set yielded an average atomic rmsd values of 0.42 ± 0.08 A for the N,C α ,C' atoms and 0.81 ± 0.08 A for all heavy atoms. Rmsd values for those residues in the regions of ordered secondary structure were 0.27 ± 0.04 A for the N,C α ,C' atoms and 0.73 ± 0.06 A for all heavy atoms

  17. Identifying three-dimensional structures of autophosphorylation complexes in crystals of protein kinases

    Science.gov (United States)

    Xu, Qifang; Malecka, Kimberly L.; Fink, Lauren; Jordan, E. Joseph; Duffy, Erin; Kolander, Samuel; Peterson, Jeffrey; Dunbrack, Roland L.

    2016-01-01

    Protein kinase autophosphorylation is a common regulatory mechanism in cell signaling pathways. Crystal structures of several homomeric protein kinase complexes have a serine, threonine, or tyrosine autophosphorylation site of one kinase monomer located in the active site of another monomer, a structural complex that we call an “autophosphorylation complex.” We developed and applied a structural bioinformatics method to identify all such autophosphorylation kinase complexes in X-ray crystallographic structures in the Protein Data Bank (PDB). We identified 15 autophosphorylation complexes in the PDB, of which 5 complexes had not previously been described in the publications describing the crystal structures. These 5 consist of tyrosine residues in the N-terminal juxtamembrane regions of colony stimulating factor 1 receptor (CSF1R, Tyr561) and EPH receptor A2 (EPHA2, Tyr594), tyrosine residues in the activation loops of the SRC kinase family member LCK (Tyr394) and insulin-like growth factor 1 receptor (IGF1R, Tyr1166), and a serine in a nuclear localization signal region of CDC-like kinase 2 (CLK2, Ser142). Mutations in the complex interface may alter autophosphorylation activity and contribute to disease; therefore we mutated residues in the autophosphorylation complex interface of LCK and found that two mutations impaired autophosphorylation (T445V and N446A) and mutation of Pro447 to Ala, Gly, or Leu increased autophosphorylation. The identified autophosphorylation sites are conserved in many kinases, suggesting that, by homology, these complexes may provide insight into autophosphorylation complex interfaces of kinases that are relevant drug targets. PMID:26628682

  18. Three-dimensional structure of phosphoribosyl pyrophosphate synthetase from E. coli at 2.71 Å resolution

    Energy Technology Data Exchange (ETDEWEB)

    Timofeev, V. I., E-mail: inna@ns.crys.ras.ru, E-mail: tostars@mail.ru, E-mail: ugama@yandex.ru [Russian Academy of Sciences, Shubnikov Institute of Crystallography (Russian Federation); Abramchik, Yu. A. [Russian Academy of Sciences, Shemyakin–Ovchinnikov Institute of Bioorganic Chemistry (Russian Federation); Zhukhlistova, N. E. [Russian Academy of Sciences, Shubnikov Institute of Crystallography (Russian Federation); Muravieva, T. I.; Esipov, R. S. [Russian Academy of Sciences, Shemyakin–Ovchinnikov Institute of Bioorganic Chemistry (Russian Federation); Kuranova, I. P. [Russian Academy of Sciences, Shubnikov Institute of Crystallography (Russian Federation)

    2016-01-15

    Phosphoribosyl pyrophosphate synthetase from Escherichia coli was cloned, purified, and crystallized. Single crystals of the enzyme were grown under microgravity. The X-ray diffraction data set was collected at the Spring-8 synchrotron facility and used to determine the three-dimensional structure of the enzyme by the molecular-replacement method at 2.71 Å resolution. The active and regulatory sites in the molecule of E. coli phosphoribosyl pyrophosphate synthetase were revealed by comparison with the homologous protein from Bacillus subtilis, the structure of which was determined in a complex with functional ligands. The conformations of polypeptide-chain fragments surrounding and composing the active and regulatory sites were shown to be identical in both proteins.

  19. On-chip micro-power: three-dimensional structures for micro-batteries and micro-supercapacitors

    Science.gov (United States)

    Beidaghi, Majid; Wang, Chunlei

    2010-04-01

    With the miniaturization of portable electronic devices, there is a demand for micro-power source which can be integrated on the semiconductor chips. Various micro-batteries have been developed in recent years to generate or store the energy that is needed by microsystems. Micro-supercapacitors are also developed recently to couple with microbatteries and energy harvesting microsystems and provide the peak power. Increasing the capacity per footprint area of micro-batteries and micro-supercapacitors is a great challenge. One promising route is the manufacturing of three dimensional (3D) structures for these micro-devices. In this paper, the recent advances in fabrication of 3D structure for micro-batteries and micro-supercapacitors are briefly reviewed.

  20. Three-dimensional solution structure of Cucurbita maxima trypsin inhibitor-V determined by NMR spectroscopy.

    Science.gov (United States)

    Cai, M; Gong, Y; Kao, J L; Krishnamoorthi, R

    1995-04-18

    The solution structure of Cucurbita maxima trypsin inhibitor-V (CMTI-V), which is also a specific inhibitor of the blood coagulation protein, factor XIIa, was determined by 1H NMR spectroscopy in combination with a distance-geometry and simulated annealing algorithm. Sequence-specific resonance assignments were made for all the main-chain and most of the side-chain hydrogens. Stereospecific assignments were also made for some of the beta-, gamma-, delta-, and epsilon-hydrogens and valine methyl hydrogens. The ring conformations of all six prolines in the inhibitor were determined on the basis of 1H-1H vicinal coupling constant patterns; most of the proline ring hydrogens were stereospecifically assigned on the basis of vicinal coupling constant and intraresidue nuclear Overhauser effect (NOE) patterns. Distance constraints were determined on the basis of NOEs between pairs of hydrogens. Dihedral angle constraints were determined from estimates of scalar coupling constants and intraresidue NOEs. On the basis of 727 interproton distance and 111 torsion angle constraints, which included backbone phi angles and side-chain chi 1, chi 2, chi 3, and chi 4 angles, 22 structures were calculated by a distance geometry algorithm and refined by energy minimization and simulated annealing methods. Both main-chain and side-chain atoms are well-defined, except for a loop region, two terminal residues, and some side-chain atoms located on the molecular surface. The average root mean squared deviation in the position for equivalent atoms between the 22 individual structures and the mean structure obtained by averaging their coordinates is 0.58 +/- 0.06 A for the main-chain atoms and 1.01 +/- 0.07 A for all the non-hydrogen atoms of residues 3-40 and 49-67. These structures were compared to the X-ray crystallographic structure of another protein of the same inhibitor family-chymotrypsin inhibitor-2 from barley seeds [CI-2; McPhalen, C. A., & James, M. N. G. (1987) Biochemistry 26

  1. Three-dimensional internal structure of an entire alpine rockglacier, detected by Electrical Resistivity Imaging

    Science.gov (United States)

    Emmert, Adrian; Kneisel, Christof

    2017-04-01

    Uertsch rockglacier (46.61° N, 9.84°E, ca. 2500m asl.) is a tongue-shaped 300m x 100m landform at the head of a small high mountain valley in the Eastern Swiss Alps. Located at the lower end of possible permafrost existence, the rockglacier shows indications of permafrost decay although borehole temperature measurements exhibit an at least partly occurrence of permanently frozen subsurface conditions. To delimit the extent of the frozen area and to characterize subsurface structures, we performed three adjacent 3-D Electrical Resistivity Imaging (ERI) surveys consisting of data from altogether 138 merged 2-D profiles, covering nearly the entire rockglacier by an investigation area of more than 2.5 ha. More than 47000 data points of Wenner-Schlumberger and Dipol-Dipol electrode arrays grant sufficient data coverage. Ground-truthing was achieved through borehole temperature measurements and multiple comparative ground-penetrating radar (GPR) and seismic refraction tomography (SRT) surveys. Results show that the rockglacier today lacks a consistent permafrost table and only shows a patchy permafrost distribution. Several structures differing in geometry and electric resistivity show a complex pattern of ice-rich, ice-poor and ice-free areas. We could identify glacial influence in the root zone of the rockglacier, where a 3200m2 perennial surface ice field is visible. In a downslope direction, a shallow layer of high resistivity values, which is limited to the shallow subsurface, follows the ice field and indicates a genesis by refreezing meltwater. The central part of the rockglacier also shows traces of glacial interaction by the occurrence of a several meters thick buried ice patch in the shallow subsurface at a marginal position. Next to this position, in an area where longitudinal surface ridges are exposed, modelled resistivity values indicate frozen conditions with relatively low ice content, limited to the shallow subsurface. We assume that these structures

  2. Three-dimensional structure of the Upper Scorpius association with the Gaia first data release

    Science.gov (United States)

    Galli, Phillip A. B.; Joncour, Isabelle; Moraux, Estelle

    2018-06-01

    Using new proper motion data from recently published catalogues, we revisit the membership of previously identified members of the Upper Scorpius association. We confirmed 750 of them as cluster members based on the convergent point method, compute their kinematic parallaxes, and combined them with Gaia parallaxes to investigate the 3D structure and geometry of the association using a robust covariance method. We find a mean distance of 146 ± 3 ± 6 pc and show that the morphology of the association defined by the brightest (and most massive) stars yields a prolate ellipsoid with dimensions of 74 × 38 × 32 pc3, while the faintest cluster members define a more elongated structure with dimensions of 98 × 24 × 18 pc3. We suggest that the different properties of both populations are an imprint of the star formation history in this region.

  3. Three-dimensional stacked structured ASIC devices and methods of fabrication thereof

    Science.gov (United States)

    Shinde, Subhash L.; Teifel, John; Flores, Richard S.; Jarecki Jr., Robert L.; Bauer, Todd

    2015-11-19

    A 3D stacked sASIC is provided that includes a plurality of 2D reconfigurable structured structured ASIC (sASIC) levels interconnected through hard-wired arrays of 3D vias. The 2D sASIC levels may contain logic, memory, analog functions, and device input/output pad circuitry. During fabrication, these 2D sASIC levels are stacked on top of each other and fused together with 3D metal vias. Such 3D vias may be fabricated as through-silicon vias (TSVs). They may connect to the back-side of the 2D sASIC level, or they may be connected to top metal pads on the front-side of the 2D sASIC level.

  4. Three-dimensionality of space in the structure of the periodic table of chemical elements

    International Nuclear Information System (INIS)

    Veremeichik, T. F.

    2006-01-01

    The effect of the dimension of the 3D homogeneous and isotropic Euclidean space, and the electron spin on the self-organization of the electron systems of atoms of chemical elements is considered. It is shown that the finite dimension of space creates the possibility of periodicity in the structure of an electron cloud, while the value of the dimension determines the number of stable systems of electrons at different levels of the periodic table of chemical elements and some characteristics of the systems. The conditions for the stability of systems of electrons and the electron system of an atom as a whole are considered. On the basis of the results obtained, comparison with other hierarchical systems (nanostructures and biological structures) is performed

  5. Three-dimensional Structure of a Viral Genome-delivery Portal Vertex

    Energy Technology Data Exchange (ETDEWEB)

    A Olia; P Prevelige Jr.; J Johnson; G Cingolani

    2011-12-31

    DNA viruses such as bacteriophages and herpesviruses deliver their genome into and out of the capsid through large proteinaceous assemblies, known as portal proteins. Here, we report two snapshots of the dodecameric portal protein of bacteriophage P22. The 3.25-{angstrom}-resolution structure of the portal-protein core bound to 12 copies of gene product 4 (gp4) reveals a {approx}1.1-MDa assembly formed by 24 proteins. Unexpectedly, a lower-resolution structure of the full-length portal protein unveils the unique topology of the C-terminal domain, which forms a {approx}200-{angstrom}-long {alpha}-helical barrel. This domain inserts deeply into the virion and is highly conserved in the Podoviridae family. We propose that the barrel domain facilitates genome spooling onto the interior surface of the capsid during genome packaging and, in analogy to a rifle barrel, increases the accuracy of genome ejection into the host cell.

  6. Three-dimensional ordered particulate structures: Method to retrieve characteristics from photonic band gap data

    Science.gov (United States)

    Miskevich, Alexander A.; Loiko, Valery A.

    2015-01-01

    A method to retrieve characteristics of ordered particulate structures, such as photonic crystals, is proposed. It is based on the solution of the inverse problem using data on the photonic band gap (PBG). The quasicrystalline approximation (QCA) of the theory of multiple scattering of waves and the transfer matrix method (TMM) are used. Retrieval of the refractive index of particles is demonstrated. Refractive indices of the artificial opal particles are estimated using the published experimental data.

  7. Integrating Substrateless Electrospinning with Textile Technology for Creating Biodegradable Three-Dimensional Structures.

    Science.gov (United States)

    Joseph, John; Nair, Shantikumar V; Menon, Deepthy

    2015-08-12

    The present study describes a unique way of integrating substrateless electrospinning process with textile technology. We developed a new collector design that provided a pressure-driven, localized cotton-wool structure in free space from which continuous high strength yarns were drawn. An advantage of this integration was that the textile could be drug/dye loaded and be developed into a core-sheath architecture with greater functionality. This method could produce potential nanotextiles for various biomedical applications.

  8. [Three dimensional structure of the connective tissue papillae of the tongue in Suncus murinus].

    Science.gov (United States)

    Kobayashi, K; Miyata, K; Iwasaki, S; Takahashi, K

    1989-08-01

    The surface structure of the connective tissue papillae (CP) of Suncus murinus tongue was observed by SEM after fixing with Karnovsky's fixative and removal of the epithelial cell layer with 3N or 8N HCl. On the surface of the slender conical tongue, there are densely distributed filiform papillae among which fungiform papillae are seen sporadically. A pair of vallate papillae are situated in the posterior region of the tongue. Filiform papillae appear somewhat different externally depending on the dorsal surface of the anterior tongue. At the tip of the tongue, filiform papillae are of a slender conical shape and have a slight depression in the anterior basal portion. The CP of these is seen as a spherical protrusion on which a shallow groove runs in the anteroposterior direction. In the middle region, somewhat large filiform papillae contain CP having one or two small round head-like structures on each spherical protrusion. These head-like structures are increased in number in the posterior region. In the most posterior region of the anterior tongue, there are distributed large filiform papillae having several slender protrusions that surround a basal anterior depression. These large branched filiform papillae have a glove finger like CP. Small conical filiform papillae are distributed in the posterior marginal region of the anterior tongue which have CP of a horse-shoe like protrusion that opens in the anterior direction. Spherical fungiform papillae have CP which are thick columnar in shape with many lateral thin folds running vertically and having a round depression on the top of each. CP of the vallate papillae appear as a beehive like structure.(ABSTRACT TRUNCATED AT 250 WORDS)

  9. Three-dimensional midwater camouflage from a novel two-component photonic structure in hatchetfish skin.

    Science.gov (United States)

    Rosenthal, Eric I; Holt, Amanda L; Sweeney, Alison M

    2017-05-01

    The largest habitat by volume on Earth is the oceanic midwater, which is also one of the least understood in terms of animal ecology. The organisms here exhibit a spectacular array of optical adaptations for living in a visual void that have only barely begun to be described. We describe a complex pattern of broadband scattering from the skin of Argyropelecus sp., a hatchetfish found in the mesopelagic zone of the world's oceans. Hatchetfish skin superficially resembles the unpolished side of aluminium foil, but on closer inspection contains a complex composite array of subwavelength-scale dielectric structures. The superficial layer of this array contains dielectric stacks that are rectangular in cross-section, while the deeper layer contains dielectric bundles that are elliptical in cross-section; the cells in both layers have their longest dimension running parallel to the dorsal-ventral axis of the fish. Using the finite-difference time-domain approach and photographic radiometry, we explored the structural origins of this scattering behaviour and its environmental consequences. When the fish's flank is illuminated from an arbitrary incident angle, a portion of the scattered light exits in an arc parallel to the fish's anterior-posterior axis. Simultaneously, some incident light is also scattered downwards through the complex birefringent skin structure and exits from the ventral photophores. We show that this complex scattering pattern will provide camouflage simultaneously against the horizontal radially symmetric solar radiance in this habitat, and the predatory bioluminescent searchlights that are common here. The structure also directs light incident on the flank of the fish into the downwelling, silhouette-hiding counter-illumination of the ventral photophores. © 2017 The Authors.

  10. Study of Three-dimensional Magnetic Structure and the Successive Eruptive Nature of Active Region 12371

    Science.gov (United States)

    Vemareddy, P.; Demóulin, P.

    2018-04-01

    We study the magnetic structure of a successively erupting sigmoid in active region 12371 by modeling the quasi-static coronal field evolution with nonlinear force-free field (NLFFF) equilibria. Helioseismic and Magnetic Imager/Solar Dynamic Observatory vector magnetograms are used as input to the NLFFF model. In all eruption events, the modeled structure resembles the observed pre-eruptive coronal sigmoid and the NLFFF core field is a combination of double inverse-J-shaped and inverse-S field lines with dips touching the photosphere. Such field lines are formed by the flux cancellation reconnection of opposite-J field lines at bald-patch locations, which in turn implies the formation of a weakly twisted flux-rope (FR) from large-scale sheared arcade field lines. Later on, this FR undergoes coronal tether-cutting reconnection until a coronal mass ejection is triggered. The modeled structure captured these major features of sigmoid-to-arcade-to-sigmoid transformation, which is reoccuring under continuous photospheric flux motions. Calculations of the field line twist reveal a fractional increase followed by a decrease of the number of pixels having a range of twist. This traces the buildup process of a twisted core field by slow photospheric motions and the relaxation after eruption, respectively. Our study infers that the large eruptivity of this AR is due to a steep decrease of the background coronal field meeting the torus instability criteria at a low height (≈40 Mm) in contrast to noneruptive ARs.

  11. Three-dimensional structure of a schistosome serpin revealing an unusual configuration of the helical subdomain

    Energy Technology Data Exchange (ETDEWEB)

    Granzin, Joachim [Institute of Complex Systems, ICS-6: Structural Biochemistry, Forschungszentrum Jülich, 52425 Jülich (Germany); Huang, Ying; Topbas, Celalettin [Department of Cell Biology, Lerner Research Institute, Cleveland Clinic, Cleveland, OH 44195 (United States); Huang, Wenying [Department of Cancer Biology, Lerner Research Institute, Cleveland Clinic, Cleveland, OH 44195 (United States); Wu, Zhiping [Department of Cell Biology, Lerner Research Institute, Cleveland Clinic, Cleveland, OH 44195 (United States); Misra, Saurav [Department of Molecular Cardiology, Lerner Research Institute, Cleveland Clinic, Cleveland, OH 44195 (United States); Hazen, Stanley L. [Department of Cell Biology, Lerner Research Institute, Cleveland Clinic, Cleveland, OH 44195 (United States); Blanton, Ronald E. [Department of Infectious Diseases, Case Western Reserve University, Cleveland, OH 44190 (United States); Lee, Xavier [Department of Cell Biology, Lerner Research Institute, Cleveland Clinic, Cleveland, OH 44195 (United States); Weiergräber, Oliver H., E-mail: o.h.weiergraeber@fz-juelich.de [Institute of Complex Systems, ICS-6: Structural Biochemistry, Forschungszentrum Jülich, 52425 Jülich (Germany)

    2012-06-01

    The crystal structure of ShSPI, a serpin from the blood fluke S. haematobium, reveals some peculiar features of the helical subdomain which have not been observed previously in the serpin superfamily. Parasitic organisms are constantly challenged by the defence mechanisms of their respective hosts, which often depend on serine protease activities. Consequently, protease inhibitors such as those belonging to the serpin superfamily have emerged as protective elements that support the survival of the parasites. This report describes the crystal structure of ShSPI, a serpin from the trematode Schistosoma haematobium. The protein is exposed on the surface of invading cercaria as well as of adult worms, suggesting its involvement in the parasite–host interaction. While generally conforming to the well established serpin fold, the structure reveals several distinctive features, mostly concerning the helical subdomain of the protein. It is proposed that these peculiarities are related to the unique biological properties of a small serpin subfamily which is conserved among pathogenic schistosomes.

  12. Three-dimensional thermal structure and seismogenesis in the Tohoku and Hokkaido subduction system

    Science.gov (United States)

    van Keken, P. E.; Kita, S.; Nakajima, J.; Bengtson, A. K.; Hacker, B. R.; Abers, G. A.

    2010-12-01

    The Northern Japan arc is characterized by fast subduction of old oceanic lithosphere. The high density instrumentation and high seismicity make this an ideal natural laboratory to study the interplay between subduction zone dynamics, dehydration, migration of fluids, and seismogenesis. In this study we use high resolution finite element models to predict the thermal structure of the subduction slab below Tohoku (Northern Honshu) and Hokkaido. These models allow us to predict the pressure, temperature and mineralogy of the subducted crust and mantle. We use these models to predict the (p,T) conditions of earthquakes that are relocated with a precision of around 1 km by double difference techniques. Below Northern Hokkaido and Tohoku we find that the earthquake activity is strong in crust and the uppermost mantle for temperatures seismic moment. The strongest 3D variations in this arc occur below southern Hokkaido. This 200 km wide region is characterized by a change in trench geometry, anomalously low heatflow and an anomalous velocity structure in the mantle wedge. Tomographic imaging suggest that continental crust is subducted to significant depth, thereby insulating the subducting slab from the hot mantle wedge at least at intermediate depths. The thermal insulation is also suggested by the deepening of the earthquakes in the slab (Kita et al., EPSL, 2010). This region may be characterized by active crustal erosion which would lead to a further blanketing of the crust by a sedimentary layer. Further modifications in thermal structure are possible due to the 3D wedge flow that is generated by the along-arc variations in trench geometry. We quantitatively verify the relative importance of these processes using 2D and 3D dynamical models. Without the seismically imaged crustal structure the earthquake temperatures are significantly elevated compared to the Tohoku and (northern) Hokkaido sections. If we take the modified crustal structure into account we find a (p

  13. New indium selenite-oxalate and indium oxalate with two- and three-dimensional structures

    International Nuclear Information System (INIS)

    Cao Junjun; Li Guodong; Chen Jiesheng

    2009-01-01

    Two new indium(III) compounds with extended structures, [In 2 (SeO 3 ) 2 (C 2 O 4 )(H 2 O) 2 ].2H 2 O (I) and [NH 3 (CH 2 ) 2 NH 3 ][In(C 2 O 4 ) 2 ] 2 .5H 2 O (II), have been prepared under mild hydrothermal conditions and structurally characterized by single-crystal X-ray diffraction, thermogravimetric analysis and infrared spectroscopy. Compound I crystallizes in the triclinic system, space group P-1, with a=5.2596(11) A, b=6.8649(14) A, c=9.3289(19) A, α=101.78(3) o , β=102.03(3) o , γ=104.52(3) o , while compound II crystallizes in the orthorhombic system, space group Fdd2, with a=15.856(3) A, b=31.183(6) A, c=8.6688(17) A. In compound I, indium-selenite chains are bridged by oxalate units to form two-dimensional (2D) In 2 (SeO 3 ) 2 C 2 O 4 layers, separated by non-coordinating water molecules. In compound II, the indium atoms are connected through the oxalate units to generate a 3D open framework containing cross-linked 12- and 8-membered channels. - Graphical abstract: Two new indium(III) compounds have been hydrothermally synthesized and structurally characterized. In I, the indium-selenite chains are bridged by oxalate units to form 2D In 2 (SeO 3 ) 2 C 2 O 4 layers. In II, the indium atoms are connected through the oxalate units to generate a 3D open framework containing cross-linked 12- and 8-membered ring channels

  14. Adaptive contact elements for three-dimensional fluid-structure interfaces

    International Nuclear Information System (INIS)

    Kulak, R.F.

    1985-01-01

    A finite element method is developed for treating the mechanics of contact between two deformable bodies which occurs, for example, at fluid-structure interfaces. The method uses a family of adaptive contact elements, which are based upon the penalty method, to handle all of the possible contact configurations that can occur between the discretized contacting bodies. The contact element's nodal connectivity is allowed to change during the computations in order to accommodate finite sliding. The infusion of these elements in the interface results in satisfying the force equilibrium condition during contact. The methodology has been implemented into the NEPTUNE code. Results are presented for an illustrative problem

  15. Adaptive contact elements for three-dimensional fluid-structure interfaces

    Energy Technology Data Exchange (ETDEWEB)

    Kulak, R.F.

    1985-01-01

    A finite element method is developed for treating the mechanics of contact between two deformable bodies which occurs, for example, at fluid-structure interfaces. The method uses a family of adaptive contact elements, which are based upon the penalty method, to handle all of the possible contact configurations that can occur between the discretized contacting bodies. The contact element's nodal connectivity is allowed to change during the computations in order to accommodate finite sliding. The infusion of these elements in the interface results in satisfying the force equilibrium condition during contact. The methodology has been implemented into the NEPTUNE code. Results are presented for an illustrative problem.

  16. Three-dimensional structure and cyanobacterial activity within a desert biological soil crust.

    Science.gov (United States)

    Raanan, Hagai; Felde, Vincent J M N L; Peth, Stephan; Drahorad, Sylvie; Ionescu, Danny; Eshkol, Gil; Treves, Haim; Felix-Henningsen, Peter; Berkowicz, Simon M; Keren, Nir; Horn, Rainer; Hagemann, Martin; Kaplan, Aaron

    2016-02-01

    Desert biological soil crusts (BSCs) are formed by adhesion of soil particles to polysaccharides excreted by filamentous cyanobacteria, the pioneers and main producers in this habitat. Biological soil crust destruction is a central factor leading to land degradation and desertification. We study the effect of BSC structure on cyanobacterial activity. Micro-scale structural analysis using X-ray microtomography revealed a vesiculated layer 1.5-2.5 mm beneath the surface in close proximity to the cyanobacterial location. Light profiles showed attenuation with depth of 1%-5% of surface light within 1 mm but also revealed the presence of 'light pockets', coinciding with the vesiculated layer, where the irradiance was 10-fold higher than adjacent crust parts at the same depth. Maximal photosynthetic activity, examined by O2 concentration profiles, was observed 1 mm beneath the surface and another peak in association with the 'light pockets'. Thus, photosynthetic activity may not be visible to currently used remote sensing techniques, suggesting that BSCs' contribution to terrestrial productivity is underestimated. Exposure to irradiance higher than 10% full sunlight diminished chlorophyll fluorescence, whereas O2 evolution and CO2 uptake rose, indicating that fluorescence did not reflect cyanobacterial photosynthetic activity. Our data also indicate that although resistant to high illumination, the BSC-inhabiting cyanobacteria function as 'low-light adapted' organisms. © 2015 Society for Applied Microbiology and John Wiley & Sons Ltd.

  17. Three-dimensional structure and dynamics of wine tannin-saliva protein complexes. A multitechnique approach.

    Science.gov (United States)

    Simon, Cécile; Barathieu, Karine; Laguerre, Michel; Schmitter, Jean-Marie; Fouquet, Eric; Pianet, Isabelle; Dufourc, Erick J

    2003-09-09

    The interactions between the B3 (catechin-4alpha,8-catechin) red wine tannin and the human salivary protein fragment IB7(14) (SPPGKPQGPPPQGG) were monitored by (1)H magic angle spinning NMR, circular dichroism, electrospray ionization mass spectrometry, and molecular modeling. It is found that the secondary structure of IB7(14) is made of a type II helix (collagen helix) and random coil. The central glycine 8 appears to act as a flexible rotula separating two helix II regions. Three tannin molecules tightly complex the peptide, without modifying its secondary structure, but seem to reduce its conformational dynamics. The binding dissociation constant is in the millimolar range. B3 tannins with a "tweezers" conformation bind to the hydrophilic side of the saliva peptide, suggesting that the principal driving forces toward association are governed by hydrogen bonding between the carbonyl functions of proline residues and both the phenol and catechol OH groups. These findings are further discussed in the frame of an astringency phenomenon.

  18. Controlled molecular self-assembly of complex three-dimensional structures in soft materials.

    Science.gov (United States)

    Huang, Changjin; Quinn, David; Suresh, Subra; Hsia, K Jimmy

    2018-01-02

    Many applications in tissue engineering, flexible electronics, and soft robotics call for approaches that are capable of producing complex 3D architectures in soft materials. Here we present a method using molecular self-assembly to generate hydrogel-based 3D architectures that resembles the appealing features of the bottom-up process in morphogenesis of living tissues. Our strategy effectively utilizes the three essential components dictating living tissue morphogenesis to produce complex 3D architectures: modulation of local chemistry, material transport, and mechanics, which can be engineered by controlling the local distribution of polymerization inhibitor (i.e., oxygen), diffusion of monomers/cross-linkers through the porous structures of cross-linked polymer network, and mechanical constraints, respectively. We show that oxygen plays a role in hydrogel polymerization which is mechanistically similar to the role of growth factors in tissue growth, and the continued growth of hydrogel enabled by diffusion of monomers/cross-linkers into the porous hydrogel similar to the mechanisms of tissue growth enabled by material transport. The capability and versatility of our strategy are demonstrated through biomimetics of tissue morphogenesis for both plants and animals, and its application to generate other complex 3D architectures. Our technique opens avenues to studying many growth phenomena found in nature and generating complex 3D structures to benefit diverse applications. Copyright © 2017 the Author(s). Published by PNAS.

  19. Three-dimensional resistivity structure of Furnas volcano (Azores archipelago, Portugal) revealed by magnetotelluric data

    Science.gov (United States)

    Kiyan, Duygu; Hogg, Colin; Rath, Volker; Byrdina, Svetlana; Vandemeulebrouck, Jean; Revil, Andre; Silva, Catarina; Viveiros, Fatima; Ferreira, Teresa; Carmo, Rita

    2017-04-01

    The Furnas volcano is the eastern-most of the three active central volcanoes of Sao Miguel Island. The main caldera formed about 30 ka BP, followed by a younger eruption at 10-12 ka BP, which is responsible for the steep topography of more than 200 m in the target area. It contains several very young eruptive centers, and a shallow caldera lake. Tectonic features of varying directions have been identified in the caldera and its vicinity (Carmo et al., 2015). In the northern part of the caldera, containing the fumarole field of Caldeiras das Furnas, a detailed map of surface CO2 emissions was recently made available (Viveiros et al., 2010). Following a pilot survey of 13 AudioMagnetoTelluric soundings (AMT) and Electrical Resistivity Tomography (ERT) data collected along two profiles in the eastern part of Furnas caldera in 2015, a second campaign was completed in June 2016, yielding a total of 39 separate soundings including 15 broad-band magnetotelluric (MT) soundings to image the electrical conductivity of the subsurface. The data quality achieved by both techniques is very good, and initial results indicate a general correlation between regions of elevated conductivity at depth and the mapped surface CO2 emissions, suggesting that they may both be caused by the presence hydrothermal fluids. Dimensionality and directionality analysis using the WALDIM (Marti et al., 2009) approach in conjunction with Phase Tensor (Caldwell et al., 2004) indicate that the geo-electrical structure needs to be inverted in 3-D. Indicators of directionality derived from the analysis follow the general geological, fault dominated structural trend of NE-SW of Sao Miguel Island. A quantitative analysis of the potential influence of the Atlantic Ocean indicates that MT data up to 1 second period can be used in inversions with confidence without including the ocean. The 3-D inversions thus have been performed including only high-resolution topography and the Furnas lake bathymetry data

  20. A New Approach for Structural Monitoring of Large Dams with a Three-Dimensional Laser Scanner

    Directory of Open Access Journals (Sweden)

    José Sánchez

    2008-09-01

    Full Text Available Driven by progress in sensor technology, computer methods and data processing capabilities, 3D laser scanning has found a wide range of new application fields in recent years. Particularly, monitoring the static and dynamic behaviour of large dams has always been a topic of great importance, due to the impact these structures have on the whole landscape where they are built. The main goal of this paper is to show the relevance and novelty of the laserscanning methodology developed, which incorporates different statistical and modelling approaches not considered until now. As a result, the methods proposed in this paper have provided the measurement and monitoring of the large “Las Cogotas” dam (Avila, Spain.

  1. Finite element formulation for fluid-structure interaction in three-dimensional space

    International Nuclear Information System (INIS)

    Kulak, R.F.

    1979-01-01

    A development is presented for a three-dimension hexahedral hydrodynamic finite-element. Using trilinear shape functions and assuming a constant pressure field in each element, simple relations were obtained for internal nodal forces. Because the formulation was based upon a rate approach it was applicable to problems involving large displacements. This element was incorporated into an existing plate-shell finite element code. Diagonal mass matrices were used and the resulting discrete equations of motion were solved using explicit temporal integrator. Results for several problems were presented which compare numerical predictions to closed form analytical solutions. In addition, the fluid-structure interaction problem of a fluid-filled, cylindrical vessel containing internal cylinders was studied. The internal cylinders were cantilever supported from the top cover of the vessel and were periodically located circumferentially at a fixed radius. A pressurized cylindrical cavity located at the bottom of the vessel at its centerline provided the loading

  2. Three-dimensional ordered particulate structures: Method to retrieve characteristics from photonic band gap data

    International Nuclear Information System (INIS)

    Miskevich, Alexander A.; Loiko, Valery A.

    2015-01-01

    A method to retrieve characteristics of ordered particulate structures, such as photonic crystals, is proposed. It is based on the solution of the inverse problem using data on the photonic band gap (PBG). The quasicrystalline approximation (QCA) of the theory of multiple scattering of waves and the transfer matrix method (TMM) are used. Retrieval of the refractive index of particles is demonstrated. Refractive indices of the artificial opal particles are estimated using the published experimental data. - Highlights: • A method to retrieve characteristics of photonic crystals is proposed. • The method is based on the inverse problem solution using the photonic band gap data. • Retrieval of the refractive index of photonic crystal particles is demonstrated. • Retrieval results show inhomogeneous distribution of synthetic opal particle pores

  3. DHMPIV and Tomo-PIV measurements of three-dimensional structures in a turbulent boundary layer

    Science.gov (United States)

    Amili, O.; Atkinson, C.; Soria, J.

    In turbulent boundary layers, a large portion of total turbulence production happens in the near wall region, y/δ memory intensive reconstruction algorithm. It is based on a multiplicative line-of-sight (MLOS) estimation that determines possible particle locations in the volume, followed by simultaneous iterative correction. Application of MLOS-SART and MART to a turbulent boundary layer at Refθ=2200 using a 4 camera Tomo-PIV system with a volume of 1000×1000×160 voxels is discussed. In addition, near wall velocity measurement attempt made by digital holographic microscopic particle image velocimetry (DHMPIV). The technique provides a solution to overcome the poor axial accuracy and the low spatial resolution which are common problems in digital holography [5]. By reducing the depth of focus by at least one order of magnitude as well as increasing the lateral spatial resolution, DHMPIV provides the opportunity to resolve the small-scale structures existing in near wall layers.

  4. Three-dimensional simulation of large-scale structure in the universe

    Energy Technology Data Exchange (ETDEWEB)

    Centrella, J.; Melott, A.L.

    1983-09-15

    High and low density cloud-in-cell models were used to simulate the nonlinear growth of adiabatic perturbations in collisionless matter to demonstrate the development of a cellular structure in the universe. Account was taken of a short wvelength cutoff in collisionless matter, with a focus on resolving filaments and low density pancakes. The calculations were performed with a Friedmann-Robertson-Walker model, and the gravitational potential of dark matter was obtained through solution of the Poisson equation. The simulation began with z between 100-1000, and initial particle velocities were set at zero. Spherically symmetric voids were observed to form, then colide and interact. Sufficient particles were employed to avoid depletion during nonlinear collapse. No galaxies formed during the epoch studied, which has implications for the significance of dark, baryonic matter in the present universe.

  5. Three-Dimensional Atomic Structure of Metastable Nanoclusters in Doped Semiconductors

    Science.gov (United States)

    Couillard, Martin; Radtke, Guillaume; Knights, Andrew P.; Botton, Gianluigi A.

    2011-10-01

    Aberration-corrected scanning transmission electron microscopy is used to determine the atomic structure of nanoclusters of cerium dopant atoms embedded in silicon. By channeling electrons along two crystallographic orientations, we identify a characteristic zinc-blende chemical ordering within CeSi clusters coherent with the silicon host matrix. Strain energy limits the size of these ordered arrangements to just above 1 nm. With the local order identified, we then determine the atomic configuration of an individual subnanometer cluster by quantifying the scattering intensity under weak channeling condition in terms of the number of atoms. Analysis based on single-atom visualization also evidences the presence of split-vacancy impurity complexes, which supports the hypothesis of a vacancy-assisted formation of these metastable CeSi nanophases.

  6. Three dimensional, numerical analysis of an elasto hydrodynamic lubrication using fluid structure interaction (FSI) approach

    Science.gov (United States)

    Hanoca, P.; Ramakrishna, H. V.

    2018-03-01

    This work is related to develop a methodology to model and simulate the TEHD using the sequential application of CFD and CSD. The FSI analyses are carried out using ANSYS Workbench. In this analysis steady state, 3D Navier-Stoke equations along with energy equation are solved. Liquid properties are introduced where the viscosity and density are the function of pressure and temperature. The cavitation phenomenon is adopted in the analysis. Numerical analysis has been carried at different speeds and surfaces temperatures. During the analysis, it was found that as speed increases, hydrodynamic pressures will also increases. The pressure profile obtained from the Roelands equation is more sensitive to the temperature as compared to the Barus equation. The stress distributions specify the significant positions in the bearing structure. The developed method is capable of giving latest approaching into the physics of elasto hydrodynamic lubrication.

  7. Three-Dimensional Shear Wave Velocity Structure of the Peru Flat Slab Subduction Segment

    Science.gov (United States)

    Knezevic Antonijevic, S.; Wagner, L. S.; Beck, S. L.; Zandt, G.; Long, M. D.

    2012-12-01

    Recent studies focused on flat slab subduction segments in central Chile (L. S. Wagner, 2006) and Alaska (B. R. Hacker and G. A. Aber, 2012) suggest significant differences in seismic velocity structures, and hence, composition in the mantle wedge between flat and normal "steep" subducting slabs. Instead of finding the low velocities and high Vp/Vs ratios common in normal subduction zones, these studies find low Vp, high Vs, and very low Vp/Vs above flat slabs. This may indicate the presence of dry, cold material in the mantle wedge. In order to investigate the seismic velocities of the upper mantle above the Peruvian flat segment, we have inverted for 2D Rayleigh wave phase velocity maps using data from the currently deployed 40 station PULSE seismic network and some adjacent stations from the CAUGHT seismic network. We then used the sensitivity of surface waves to shear wave velocity structure with depth to develop a 3D shear wave velocity model. This model will allow us to determine the nature of the mantle lithosphere above the flat slab, and how this may have influenced the development of local topography. For example, dry conditions (high Vs velocities) above the flat slab would imply greater strength of this material, possibly making it capable of causing further inland overthrusting, while wet conditions (low Vs) would imply weaker material. This could provide some insight into the ongoing debate over whether the Fitzcarrald arch (along the northern most flank of the Altiplano) could be a topographical response to the subducted Nazca ridge hundred kilometers away from the trench (N. Espurt, 2012, P. Baby, 2005, V. A. Ramos, 2012) or not (J. Martinod, 2005, M. Wipf, 2008, T. Gerya, 2008).

  8. Three-dimensional thermal structure of the South Polar Vortex of Venus

    Science.gov (United States)

    Hueso, Ricardo; Garate-Lopez, Itziar; Garcia-Muñoz, Antonio; Sánchez-Lavega, Agustín

    2014-11-01

    We have analyzed thermal infrared images provided by the VIRTIS-M instrument aboard Venus Express (VEX) to obtain high resolution thermal maps of the Venus south polar region between 55 and 85 km altitudes. The maps investigate three different dynamical configurations of the polar vortex including its classical dipolar shape, a regularly oval shape and a transition shape between the different configurations of the vortex. We apply the atmospheric model described by García Muñoz et al. (2013) and a variant of the retrieval algorithm detailed in Grassi et al. (2008) to obtain maps of temperature over the Venus south polar region in the quoted altitude range. These maps are discussed in terms of cloud motions and relative vorticity distribution obtained previously (Garate-Lopez et al. 2013). Temperature maps retrieved at 55 - 63 km show the same structures that are observed in the ~5 µm radiance images. This altitude range coincides with the optimal expected values of the cloud top altitude at polar latitudes and magnitudes derived from the analysis of ~5 µm images are measured at this altitude range. We also study the imprint of the vortex on the thermal field above the cloud level which extends up to 80 km. From the temperature maps, we also study the vertical stability of different atmospheric layers. The cold collar is clearly the most statically stable structure at polar latitudes, while the vortex and subpolar latitudes show lower stability values. Furthermore, the hot filaments present within the vortex at 55-63 km exhibit lower values of static stability than their immediate surroundings.ReferencesGarate-Lopez et al. Nat. Geosci. 6, 254-257 (2013).García Muñoz et al. Planet. Space Sci. 81, 65-73 (2013).Grassi, D. et al. J. Geophys. Res. 113, 1-12 (2008).AcknowledgementsWe thank ESA for supporting Venus Express, ASI, CNES and the other national space agencies supporting VIRTIS on VEX and their principal investigators G. Piccioni and P. Drossart. This work

  9. Segmentation of internal brain structures in three-dimensional nuclear magnetic resonance imaging

    International Nuclear Information System (INIS)

    Geraud, Th.

    1998-01-01

    For neurological studies, the in vivo aspect of imaging systems is very attractive. Brain images are currently a classical tool used in clinical routine and research. The most appropriate system to observe brain anatomy is tridimensional magnetic resonance imaging, and a major issue of image processing is to segment automatically cerebral structures. This is the scope of our thesis. The number of applications is steadily growing: morphometric measurements, pathology detection, surgery planning, getting a reference for functional studies,a and so forth. The use of pattern recognition to classify the different cerebral tissues from the only radiometric levels of the images is limited. Even supervised, these methods can not lead to distinguish easily several classes of grey matter. When these methods are automatic, their use has to be empirical in order to ensure robust results, and has to be restricted to regions of interest in order to get reliable results. As these methods do not fully respect the spatial consistency of classes in the images, we have introduced contextual information with the help of different formalisms. With Markovian regularization, we have shown that energetic terms of localization permit the separation of two grey classes: cortex and central nuclei. With mathematical morphology, we have proposed processing chains dedicated to several cerebral objects; in particular, brain segmentation is robust and reproducible, and we have successfully obtained individual markers for lateral ventricles, caudate nuclei, putamen and thalami. We have also proposed a contextual method to estimate pure tissue characteristics from a rough segmentation. Our main contribution has been to present a recognition method which is progressive and atlas guided. The originality of this method is manifold. At first, it takes into account structural information processed as flexible spatial constraints the formalism of which relies on fuzzy set theory and information fusion

  10. Age-Based Comparison of Human Dendritic Spine Structure Using Complete Three-Dimensional Reconstructions

    Science.gov (United States)

    Benavides-Piccione, Ruth; Fernaud-Espinosa, Isabel; Robles, Victor; Yuste, Rafael; DeFelipe, Javier

    2013-01-01

    Dendritic spines of pyramidal neurons are targets of most excitatory synapses in the cerebral cortex. Recent evidence suggests that the morphology of the dendritic spine could determine its synaptic strength and learning rules. However, unfortunately, there are scant data available regarding the detailed morphology of these structures for the human cerebral cortex. In the present study, we analyzed over 8900 individual dendritic spines that were completely 3D reconstructed along the length of apical and basal dendrites of layer III pyramidal neurons in the cingulate cortex of 2 male humans (aged 40 and 85 years old), using intracellular injections of Lucifer Yellow in fixed tissue. We assembled a large, quantitative database, which revealed a major reduction in spine densities in the aged case. Specifically, small and short spines of basal dendrites and long spines of apical dendrites were lost, regardless of the distance from the soma. Given the age difference between the cases, our results suggest selective alterations in spines with aging in humans and indicate that the spine volume and length are regulated by different biological mechanisms. PMID:22710613

  11. Multiscale Pressure-Balanced Structures in Three-dimensional Magnetohydrodynamic Turbulence

    Energy Technology Data Exchange (ETDEWEB)

    Yang, Liping; Zhang, Lei; Feng, Xueshang [SIGMA Weather Group, State Key Laboratory for Space Weather, National Space Science Center, Chinese Academy of Sciences, 100190, Beijing (China); He, Jiansen; Tu, Chuanyi; Wang, Linghua [School of Earth and Space Sciences, Peking University, 100871 Beijing (China); Li, Shengtai [Theoretical Division, MS B284, Los Alamos National Laboratory, Los Alamos, NM 87545 (United States); Marsch, Eckart [Institute for Experimental and Applied Physics, Christian Albrechts University at Kiel, D-24118 Kiel (Germany); Wang, Xin, E-mail: jshept@gmail.com [School of Space and Environment, Beihang University, 100191 Beijing (China)

    2017-02-10

    Observations of solar wind turbulence indicate the existence of multiscale pressure-balanced structures (PBSs) in the solar wind. In this work, we conduct a numerical simulation to investigate multiscale PBSs and in particular their formation in compressive magnetohydrodynamic turbulence. By the use of the higher-order Godunov code Athena, a driven compressible turbulence with an imposed uniform guide field is simulated. The simulation results show that both the magnetic pressure and the thermal pressure exhibit a turbulent spectrum with a Kolmogorov-like power law, and that in many regions of the simulation domain they are anticorrelated. The computed wavelet cross-coherence spectra of the magnetic pressure and the thermal pressure, as well as their space series, indicate the existence of multiscale PBSs, with the small PBSs being embedded in the large ones. These multiscale PBSs are likely to be related to the highly oblique-propagating slow-mode waves, as the traced multiscale PBS is found to be traveling in a certain direction at a speed consistent with that predicted theoretically for a slow-mode wave propagating in the same direction.

  12. A novel approach to fabrication of three-dimensional porous titanium with controllable structure

    Energy Technology Data Exchange (ETDEWEB)

    Wang, Dong; Li, Qiuyan; Xu, Mingqin; Jiang, Guofeng; Zhang, Yunxia [Shanghai Key Laboratory of Materials Laser Processing and Modification, and State Key Laboratory of Metal Matrix Composites, School of Materials Science and Engineering, Shanghai Jiao Tong University, Shanghai 200240 (China); He, Guo, E-mail: ghe@sjtu.edu.cn [Shanghai Key Laboratory of Materials Laser Processing and Modification, and State Key Laboratory of Metal Matrix Composites, School of Materials Science and Engineering, Shanghai Jiao Tong University, Shanghai 200240 (China); Collaborative Innovation Center for Advanced Ship and Deep-Sea Exploration, Shanghai 200240 (China)

    2017-02-01

    A new approach to fabrication of porous titanium by using the molybdenum wire as space holder was developed, in which titanium liquid was cast into the entangled molybdenum wires in a vacuum environment, and followed by etching off the space holder material in an aqua regia solution. This infiltration casting and acid corrosion method fabricated the porous titanium with different porosities with a pore diameter of 0.4 mm. The porous titanium with the porosity of 32–47% exhibited the Young's modulus in the range of 23–62 GPa and the yielding strength in the range of 76–192 MPa. The adhesion and spreadability of the bovine osteoblast cells on the porous titanium were also evaluated in vitro. The porous titanium with 47% porosity has great potential for implant applications. - Highlights: • A new approach to fabrication of porous titanium was developed. • The 3D morphology of the interconnected porous structure can be exactly controlled. • The as-prepared porous titanium exhibits adequate yielding strength. • The elastic modulus of the porous titanium matches well with that of cortical bone. • The as-prepared porous titanium has great potential for implant applications.

  13. Development of a novel starch with a three-dimensional ordered macroporous structure for improving the dissolution rate of felodipine

    Energy Technology Data Exchange (ETDEWEB)

    Hao, Yanna; Wu, Chao, E-mail: wuchao27@126.com; Zhao, Zongzhe; Zhao, Ying; Xu, Jie; Qiu, Yang; Jiang, Jie; Yu, Tong; Ma, Chunyu; Zhou, Buyun

    2016-01-01

    In this study, silica nanospheres with different particle sizes were used as hard template for synthesis of a starch with a novel three-dimensional ordered macroporous structure (3DOMTS). As a pharmaceutical adjuvant, 3DOMTS was used to improve the dissolution rate and oral relative bioavailability of water-insoluble drugs. Felodipine (FDP) was chosen as a model drug and was loaded into the 3DOMTS by solvent evaporation. FDP loading into 3DOMTS with different pore sizes was characterized by scanning electron microscopy (SEM), transmission electron microscopy (TEM), differential scanning calorimeter (DSC), powder X-ray diffractometer (PXRD) and Fourier-Transform Infrared (FTIR). The results obtained showed that FDP was present in the pores in an amorphic or microcrystalline state. The in vitro dissolution results showed that 3DOMTS could effectively improve the dissolution rate of FDP in comparison with commercial common tablets. Pharmacokinetic results indicated that the oral relative bioavailability of self-made FDP–3DOMTS tablets were 184%, showing that 3DOMTS produced a significantly increased oral absorption of FDP. In conclusion, 3DOMTS exhibits the dual potential of improving the dissolution rate of poorly water soluble drugs and the novel filler produced by direct compression technology confirming that 3DOMTS will be useful for many applications in the field of pharmaceutics. - Highlights: • We successfully prepared a starch with a novel three-dimensional ordered macroporous structure (3DOMTS). • 3DOMTS can suppress the crystallinity of the drug to maintain it at amorphous state. • In vivo and in vitro experiments proved that 3DOMTS can improve the solubility and bioavailability of felodipine.

  14. Fabrication of three-dimensional polymer quadratic nonlinear grating structures by layer-by-layer direct laser writing technique

    Science.gov (United States)

    Bich Do, Danh; Lin, Jian Hung; Diep Lai, Ngoc; Kan, Hung-Chih; Hsu, Chia Chen

    2011-08-01

    We demonstrate the fabrication of a three-dimensional (3D) polymer quadratic nonlinear (χ(2)) grating structure. By performing layer-by-layer direct laser writing (DLW) and spin-coating approaches, desired photobleached grating patterns were embedded in the guest--host dispersed-red-1/poly(methylmethacrylate) (DR1/PMMA) active layers of an active-passive alternative multilayer structure through photobleaching of DR1 molecules. Polyvinyl-alcohol and SU8 thin films were deposited between DR1/PMMA layers serving as a passive layer to separate DR1/PMMA active layers. After applying the corona electric field poling to the multilayer structure, nonbleached DR1 molecules in the active layers formed polar distribution, and a 3D χ(2) grating structure was obtained. The χ(2) grating structures at different DR1/PMMA nonlinear layers were mapped by laser scanning second harmonic (SH) microscopy, and no cross talk was observed between SH images obtained from neighboring nonlinear layers. The layer-by-layer DLW technique is favorable to fabricating hierarchical 3D polymer nonlinear structures for optoelectronic applications with flexible structural design.

  15. COGNAC: a web server for searching and annotating hydrogen-bonded base interactions in RNA three-dimensional structures.

    Science.gov (United States)

    Firdaus-Raih, Mohd; Hamdani, Hazrina Yusof; Nadzirin, Nurul; Ramlan, Effirul Ikhwan; Willett, Peter; Artymiuk, Peter J

    2014-07-01

    Hydrogen bonds are crucial factors that stabilize a complex ribonucleic acid (RNA) molecule's three-dimensional (3D) structure. Minute conformational changes can result in variations in the hydrogen bond interactions in a particular structure. Furthermore, networks of hydrogen bonds, especially those found in tight clusters, may be important elements in structure stabilization or function and can therefore be regarded as potential tertiary motifs. In this paper, we describe a graph theoretical algorithm implemented as a web server that is able to search for unbroken networks of hydrogen-bonded base interactions and thus provide an accounting of such interactions in RNA 3D structures. This server, COGNAC (COnnection tables Graphs for Nucleic ACids), is also able to compare the hydrogen bond networks between two structures and from such annotations enable the mapping of atomic level differences that may have resulted from conformational changes due to mutations or binding events. The COGNAC server can be accessed at http://mfrlab.org/grafss/cognac. © The Author(s) 2014. Published by Oxford University Press on behalf of Nucleic Acids Research.

  16. Three-dimensional drip infusion CT cholangiography in patients with suspected obstructive biliary disease: a retrospective analysis of feasibility and adverse reaction to contrast material

    International Nuclear Information System (INIS)

    Persson, A; Dahlström, N; Smedby, Ö; Brismar, TB

    2006-01-01

    Computed Tomography Cholangiography (CTC) is a fast and widely available alternative technique to visualise hepatobiliary disease in patients with an inconclusive ultrasound when MRI cannot be performed. The method has previously been relatively unknown and sparsely used, due to concerns about adverse reactions and about image quality in patients with impaired hepatic function and thus reduced contrast excretion. In this retrospective study, the feasibility and the frequency of adverse reactions of CTC when using a drip infusion scheme based on bilirubin levels were evaluated. The medical records of patients who had undergone upper abdominal spiral CT with subsequent three-dimensional rendering of the biliary tract by means of CTC during seven years were retrospectively reviewed regarding serum bilirubin concentration, adverse reaction and presence of visible contrast media in the bile ducts at CT examination. In total, 153 consecutive examinations in 142 patients were reviewed. Contrast media was observed in the bile ducts at 144 examinations. In 110 examinations, the infusion time had been recorded in the medical records. Among these, 42 examinations had an elevated bilirubin value (>19 umol/L). There were nine patients without contrast excretion; 3 of which had a normal bilirubin value and 6 had an elevated value (25–133 umol/L). Two of the 153 examinations were inconclusive. One subject (0.7%) experienced a minor adverse reaction – a pricking sensation in the face. No other adverse effects were noted. We conclude that drip infusion CTC with an infusion rate of the biliary contrast agent iotroxate governed by the serum bilirubin value is a feasible and safe alternative to MRC in patients with and without impaired biliary excretion. In this retrospective study the feasibility and the frequency of adverse reactions when using a drip infusion scheme based on bilirubin levels has been evaluated

  17. Quaternionic and Poisson-Lie structures in three-dimensional gravity: The cosmological constant as deformation parameter

    International Nuclear Information System (INIS)

    Meusburger, C.; Schroers, B. J.

    2008-01-01

    Each of the local isometry groups arising in three-dimensional (3d) gravity can be viewed as a group of unit (split) quaternions over a ring which depends on the cosmological constant. In this paper we explain and prove this statement and use it as a unifying framework for studying Poisson structures associated with the local isometry groups. We show that, in all cases except for the case of Euclidean signature with positive cosmological constant, the local isometry groups are equipped with the Poisson-Lie structure of a classical double. We calculate the dressing action of the factor groups on each other and find, among others, a simple and unified description of the symplectic leaves of SU(2) and SL(2,R). We also compute the Poisson structure on the dual Poisson-Lie groups of the local isometry groups and on their Heisenberg doubles; together, they determine the Poisson structure of the phase space of 3d gravity in the so-called combinatorial description

  18. Constructing Repairable Meta-Structures of Ultra-Broad-Band Electromagnetic Absorption from Three-Dimensional Printed Patterned Shells.

    Science.gov (United States)

    Song, Wei-Li; Zhou, Zhili; Wang, Li-Chen; Cheng, Xiao-Dong; Chen, Mingji; He, Rujie; Chen, Haosen; Yang, Yazheng; Fang, Daining

    2017-12-13

    Ultra-broad-band electromagnetic absorption materials and structures are increasingly attractive for their critical role in competing with the advanced broad-band electromagnetic detection systems. Mechanically soft and weak wax-based materials composites are known to be insufficient to serve in practical electromagnetic absorption applications. To break through such barriers, here we developed an innovative strategy to enable the wax-based composites to be robust and repairable meta-structures by employing a three-dimensional (3D) printed polymeric patterned shell. Because of the integrated merits from both the dielectric loss wax-based composites and mechanically robust 3D printed shells, the as-fabricated meta-structures enable bear mechanical collision and compression, coupled with ultra-broad-band absorption (7-40 and 75-110 GHz, reflection loss  smaller than -10 dB) approaching state-of-the-art electromagnetic absorption materials. With the assistance of experiment and simulation methods, the design advantages and mechanism of employing such 3D printed shells for substantially promoting the electromagnetic absorption performance have been demonstrated. Therefore, such universal strategy that could be widely extended to other categories of wax-based composites highlights a smart stage on which high-performance practical multifunction meta-structures with ultra-broad-band electromagnetic absorption could be envisaged.

  19. Modelling of three-dimensional structures of cytochromes P450 11B1 and 11B2.

    Science.gov (United States)

    Belkina, N V; Lisurek, M; Ivanov, A S; Bernhardt, R

    2001-12-15

    The final steps of the biosynthesis of glucocorticoids and mineralocorticoids in the adrenal cortex require the action of two different cytochromes P450--CYP11B1 and CYP11B2. Homology modelling of the three-dimensional structures of these cytochromes was performed based on crystallographic coordinates of two bacterial P450s, CYP102 (P450BM-3) and CYP108 (P450terp). Principal attention was given to the modelling of the active sites and a comparison of the active site structures of CYP11B1 and CYP11B2 was performed. It can be demonstrated that key residue contacts within the active site appear to depend on the orientation of the heme. The obtained 3D structures of CYP11B1 and CYP11B2 were used for investigation of structure-function relationships of these enzymes. Previously obtained results on naturally occurring mutants and on mutants obtained by site-directed mutagenesis are discussed.

  20. Time-Domain Three Dimensional BE-FE Method for Transient Response of Floating Structures Under Unsteady Loads

    Directory of Open Access Journals (Sweden)

    R. E. S. Ismail

    Full Text Available Abstract This paper presents a direct time-domain three dimensional (3D numerical procedure to simulate the transient response of very large floating structures (VLFS subjected to unsteady external loads as well as moving mass. The proposed procedure employs the Boundary Element and Finite Element methods (FEM-BEM. The floating structure and the surrounding fluid are discretized by 4-node isoparametric finite elements (FE and by 4-node constant boundary elements (BE, respectively. Structural analysis is based on Mindlin's plate theory. The equation of motion is constructed taking into account the effect of inertia loading due to the moving mass. In order to obtain the hydrodynamic forces (added mass and radiation damping, the coupled natural frequencies are first obtained by an iterative method, since hydrodynamic forces become frequency-dependent. Then the Newark integration method is employed to solve the equation of motion for structural system. In order to prove the validity of the present method, a FORTRAN program is developed and numerical examples are carried out to compare its results with those of published experimental results of a scale model of VLFS under a weight drop and airplane landing and takeoff in still water condition. The comparisons show very good agreement.

  1. Three-dimensional structure of the Trypanosome flagellum suggests that the paraflagellar rod functions as a biomechanical spring.

    Directory of Open Access Journals (Sweden)

    Louise C Hughes

    Full Text Available Flagellum motility is critical for normal human development and for transmission of pathogenic protozoa that cause tremendous human suffering worldwide. Biophysical principles underlying motility of eukaryotic flagella are conserved from protists to vertebrates. However, individual cells exhibit diverse waveforms that depend on cell-specific elaborations on basic flagellum architecture. Trypanosoma brucei is a uniflagellated protozoan parasite that causes African sleeping sickness. The T. brucei flagellum is comprised of a 9+2 axoneme and an extra-axonemal paraflagellar rod (PFR, but the three-dimensional (3D arrangement of the underlying structural units is poorly defined. Here, we use dual-axis electron tomography to determine the 3D architecture of the T. brucei flagellum. We define the T. brucei axonemal repeating unit. We observe direct connections between the PFR and axonemal dyneins, suggesting a mechanism by which mechanochemical signals may be transmitted from the PFR to axonemal dyneins. We find that the PFR itself is comprised of overlapping laths organized into distinct zones that are connected through twisting elements at the zonal interfaces. The overall structure has an underlying 57 nm repeating unit. Biomechanical properties inferred from PFR structure lead us to propose that the PFR functions as a biomechanical spring that may store and transmit energy derived from axonemal beating. These findings provide insight into the structural foundations that underlie the distinctive flagellar waveform that is a hallmark of T. brucei cell motility.

  2. Three-Dimensional Reconstruction of the Virtual Plant Branching Structure Based on Terrestrial LIDAR Technologies and L-System

    Science.gov (United States)

    Gong, Y.; Yang, Y.; Yang, X.

    2018-04-01

    For the purpose of extracting productions of some specific branching plants effectively and realizing its 3D reconstruction, Terrestrial LiDAR data was used as extraction source of production, and a 3D reconstruction method based on Terrestrial LiDAR technologies combined with the L-system was proposed in this article. The topology structure of the plant architectures was extracted using the point cloud data of the target plant with space level segmentation mechanism. Subsequently, L-system productions were obtained and the structural parameters and production rules of branches, which fit the given plant, was generated. A three-dimensional simulation model of target plant was established combined with computer visualization algorithm finally. The results suggest that the method can effectively extract a given branching plant topology and describes its production, realizing the extraction of topology structure by the computer algorithm for given branching plant and also simplifying the extraction of branching plant productions which would be complex and time-consuming by L-system. It improves the degree of automation in the L-system extraction of productions of specific branching plants, providing a new way for the extraction of branching plant production rules.

  3. ERATO - a computer program for the calculation of induced eddy-currents in three-dimensional conductive structures

    International Nuclear Information System (INIS)

    Benner, J.

    1985-10-01

    The computer code ERATO is used for the calculation of eddy-currents in three-dimensional conductive structures and their secondary magnetic field. ERATO is a revised version of the code FEDIFF, developed at IPP Garching. For the calculation the Finite-Element-Network (FEN) method is used, where the structure is simulated by an equivalent electric network. In the ERATO-code, the calculation of the finite-element discretization, the eddy-current analysis, and the final evaluation of the results are done in separate programs. So the eddy-current analysis as the central step is perfectly independent of a special geometry. For the finite-element discretization there are two so called preprocessors, which treat a torus-segment and a rectangular, flat plate. For the final evaluation postprocessors are used, by which the current-distributions can be printed and plotted. In the report, the theoretical foundation of the FEN-Method is discussed, the structure and the application of the programs (preprocessors, analysis-program, postprocessors, supporting programs) are shown, and two examples for calculations are presented. (orig.) [de

  4. Towards large-scale mapping of urban three-dimensional structure using Landsat imagery and global elevation datasets

    Science.gov (United States)

    Wang, P.; Huang, C.

    2017-12-01

    The three-dimensional (3D) structure of buildings and infrastructures is fundamental to understanding and modelling of the impacts and challenges of urbanization in terms of energy use, carbon emissions, and earthquake vulnerabilities. However, spatially detailed maps of urban 3D structure have been scarce, particularly in fast-changing developing countries. We present here a novel methodology to map the volume of buildings and infrastructures at 30 meter resolution using a synergy of Landsat imagery and openly available global digital surface models (DSMs), including the Shuttle Radar Topography Mission (SRTM), ASTER Global Digital Elevation Map (GDEM), ALOS World 3D - 30m (AW3D30), and the recently released global DSM from the TanDEM-X mission. Our method builds on the concept of object-based height profile to extract height metrics from the DSMs and use a machine learning algorithm to predict height and volume from the height metrics. We have tested this algorithm in the entire England and assessed our result using Lidar measurements in 25 England cities. Our initial assessments achieved a RMSE of 1.4 m (R2 = 0.72) for building height and a RMSE of 1208.7 m3 (R2 = 0.69) for building volume, demonstrating the potential of large-scale applications and fully automated mapping of urban structure.

  5. THREE-DIMENSIONAL RECONSTRUCTION OF THE VIRTUAL PLANT BRANCHING STRUCTURE BASED ON TERRESTRIAL LIDAR TECHNOLOGIES AND L-SYSTEM

    Directory of Open Access Journals (Sweden)

    Y. Gong

    2018-04-01

    Full Text Available For the purpose of extracting productions of some specific branching plants effectively and realizing its 3D reconstruction, Terrestrial LiDAR data was used as extraction source of production, and a 3D reconstruction method based on Terrestrial LiDAR technologies combined with the L-system was proposed in this article. The topology structure of the plant architectures was extracted using the point cloud data of the target plant with space level segmentation mechanism. Subsequently, L-system productions were obtained and the structural parameters and production rules of branches, which fit the given plant, was generated. A three-dimensional simulation model of target plant was established combined with computer visualization algorithm finally. The results suggest that the method can effectively extract a given branching plant topology and describes its production, realizing the extraction of topology structure by the computer algorithm for given branching plant and also simplifying the extraction of branching plant productions which would be complex and time-consuming by L-system. It improves the degree of automation in the L-system extraction of productions of specific branching plants, providing a new way for the extraction of branching plant production rules.

  6. Accurate facade feature extraction method for buildings from three-dimensional point cloud data considering structural information

    Science.gov (United States)

    Wang, Yongzhi; Ma, Yuqing; Zhu, A.-xing; Zhao, Hui; Liao, Lixia

    2018-05-01

    Facade features represent segmentations of building surfaces and can serve as a building framework. Extracting facade features from three-dimensional (3D) point cloud data (3D PCD) is an efficient method for 3D building modeling. By combining the advantages of 3D PCD and two-dimensional optical images, this study describes the creation of a highly accurate building facade feature extraction method from 3D PCD with a focus on structural information. The new extraction method involves three major steps: image feature extraction, exploration of the mapping method between the image features and 3D PCD, and optimization of the initial 3D PCD facade features considering structural information. Results show that the new method can extract the 3D PCD facade features of buildings more accurately and continuously. The new method is validated using a case study. In addition, the effectiveness of the new method is demonstrated by comparing it with the range image-extraction method and the optical image-extraction method in the absence of structural information. The 3D PCD facade features extracted by the new method can be applied in many fields, such as 3D building modeling and building information modeling.

  7. High spatial resolution measurements of large-scale three-dimensional structures in a turbulent boundary layer

    Science.gov (United States)

    Atkinson, Callum; Buchmann, Nicolas; Kuehn, Matthias; Soria, Julio

    2011-11-01

    Large-scale three-dimensional (3D) structures in a turbulent boundary layer at Reθ = 2000 are examined via the streamwise extrapolation of time-resolved stereo particle image velocimetry (SPIV) measurements in a wall-normal spanwise plane using Taylor's hypothesis. Two overlapping SPIV systems are used to provide a field of view similar to that of direct numerical simulations (DNS) on the order of 50 δ × 1 . 5 δ × 3 . 0 δ in the streamwise, wall-normal and spanwise directions, respectively, with an interrogation window size of 40+ ×20+ ×60+ wall units. Velocity power spectra are compared with DNS to examine the effective resolution of these measurements and two-point correlations are performed to investigate the integral length scales associated with coherent velocity and vorticity fluctuations. Individual coherent structures are detected to provide statistics on the 3D size, spacing, and angular orientation of large-scale structures, as well as their contribution to the total turbulent kinetic energy and Reynolds shear stress. The support of the ARC through Discovery (and LIEF) grants is gratefully acknowledged.

  8. IDENTIFICATION OF WIND LOAD APPLIED TO THREE-DIMENSIONAL STRUCTURES BY VIRTUE OF ITS SIMULATION IN THE WIND TUNNEL

    Directory of Open Access Journals (Sweden)

    Doroshenko Sergey Aleksandrovich

    2012-10-01

    Full Text Available The authors discuss wind loads applied to a set of two buildings. The wind load is simulated with the help of the wind tunnel. In the Russian Federation, special attention is driven to the aerodynamics of high-rise buildings and structures. According to the Russian norms, identification of aerodynamic coefficients for high-rise buildings, as well as the influence of adjacent buildings and structures, is performed on the basis of models of structures exposed to wind impacts simulated in the wind tunnel. This article deals with the results of the wind tunnel test of buildings. The simulation was carried out with the involvement of a model of two twenty-three storied buildings. The experiment was held in a wind tunnel of the closed type at in the Institute of Mechanics of Moscow State University. Data were compared at the zero speed before and after the experiment. LabView software was used to process the output data. Graphs and tables were developed in the Microsoft Excel package. GoogleSketchUp software was used as a visualization tool. The three-dimensional flow formed in the wind tunnel can't be adequately described by solving the two-dimensional problem. The aerodynamic experiment technique is used to analyze the results for eighteen angles of the wind attack.

  9. In vitro assessment of three dimensional dense chitosan-based structures to be used as bioabsorbable implants.

    Science.gov (United States)

    Guitian Oliveira, Nuno; Sirgado, Tatiana; Reis, Luís; Pinto, Luís F V; da Silva, Cláudia Lobato; Ferreira, Frederico Castelo; Rodrigues, Alexandra

    2014-12-01

    Chitosan biocompatibility and biodegradability properties make this biopolymer promising for the development of advanced internal fixation devices for orthopedic applications. This work presents a detailed study on the production and characterization of three dimensional (3D) dense, non-porous, chitosan-based structures, with the ability to be processed in different shapes, and also with high strength and stiffness. Such features are crucial for the application of such 3D structures as bioabsorbable implantable devices. The influence of chitosan's molecular weight and the addition of one plasticizer (glycerol) on 3D dense chitosan-based products' biomechanical properties were explored. Several specimens were produced and in vitro studies were performed in order to assess the cytotoxicity of these specimens and their physical behavior throughout the enzymatic degradation experiments. The results point out that glycerol does not impact on cytotoxicity and has a high impact in improving mechanical properties, both elasticity and compressive strength. In addition, human mesenchymal stem/stromal cells (MSC) were used as an ex-vivo model to study cell adhesion and proliferation on these structures, showing promising results with fold increase values in total cell number similar to the ones obtained in standard cell culture flasks. Copyright © 2014 Elsevier Ltd. All rights reserved.

  10. Utilizing Three-Dimensional Printing Technology to Assess the Feasibility of High-Fidelity Synthetic Ventricular Septal Defect Models for Simulation in Medical Education.

    Science.gov (United States)

    Costello, John P; Olivieri, Laura J; Krieger, Axel; Thabit, Omar; Marshall, M Blair; Yoo, Shi-Joon; Kim, Peter C; Jonas, Richard A; Nath, Dilip S

    2014-07-01

    The current educational approach for teaching congenital heart disease (CHD) anatomy to students involves instructional tools and techniques that have significant limitations. This study sought to assess the feasibility of utilizing present-day three-dimensional (3D) printing technology to create high-fidelity synthetic heart models with ventricular septal defect (VSD) lesions and applying these models to a novel, simulation-based educational curriculum for premedical and medical students. Archived, de-identified magnetic resonance images of five common VSD subtypes were obtained. These cardiac images were then segmented and built into 3D computer-aided design models using Mimics Innovation Suite software. An Objet500 Connex 3D printer was subsequently utilized to print a high-fidelity heart model for each VSD subtype. Next, a simulation-based educational curriculum using these heart models was developed and implemented in the instruction of 29 premedical and medical students. Assessment of this curriculum was undertaken with Likert-type questionnaires. High-fidelity VSD models were successfully created utilizing magnetic resonance imaging data and 3D printing. Following instruction with these high-fidelity models, all students reported significant improvement in knowledge acquisition (P 3D printing technology to create high-fidelity heart models with complex intracardiac defects. Furthermore, this tool forms the foundation for an innovative, simulation-based educational approach to teach students about CHD and creates a novel opportunity to stimulate their interest in this field. © The Author(s) 2014.

  11. Three-dimensional architectural and structural analysis--a transition in concept and design from Delaire's cephalometric analysis.

    Science.gov (United States)

    Lee, S-H; Kil, T-J; Park, K-R; Kim, B C; Kim, J-G; Piao, Z; Corre, P

    2014-09-01

    The aim of this study was to present a systematic sequence for three-dimensional (3D) measurement and cephalometry, provide the norm data for computed tomography-based 3D architectural and structural cephalometric analysis, and validate the 3D data through comparison with Delaire's two-dimensional (2D) lateral cephalometric data for the same Korean adults. 2D and 3D cephalometric analyses were performed for 27 healthy subjects and the measurements of both analyses were then individually and comparatively analyzed. Essential diagnostic tools for 3D cephalometry with modified definitions of the points, planes, and measurements were set up based on a review of the conceptual differences between two and three dimensions. Some 2D and 3D analysis results were similar, though significant differences were found with regard to craniofacial angle (C1-F1), incisal axis angles, cranial base length (C2), and cranial height (C3). The discrepancy in C2 and C3 appeared to be directly related to the magnification of 2D cephalometric images. Considering measurement discrepancies between 2D and 3D Delaire's analyses due to differences in concept and design, 3D architectural and structural analysis needs to be conducted based on norms and a sound 3D basis for the sake of its accurate application and widespread adoption. Copyright © 2014 International Association of Oral and Maxillofacial Surgeons. Published by Elsevier Ltd. All rights reserved.

  12. Three-dimensional nano-heterojunction networks: a highly performing structure for fast visible-blind UV photodetectors.

    Science.gov (United States)

    Nasiri, Noushin; Bo, Renheng; Fu, Lan; Tricoli, Antonio

    2017-02-02

    Visible-blind ultraviolet photodetectors are a promising emerging technology for the development of wide bandgap optoelectronic devices with greatly reduced power consumption and size requirements. A standing challenge is to improve the slow response time of these nanostructured devices. Here, we present a three-dimensional nanoscale heterojunction architecture for fast-responsive visible-blind UV photodetectors. The device layout consists of p-type NiO clusters densely packed on the surface of an ultraporous network of electron-depleted n-type ZnO nanoparticles. This 3D structure can detect very low UV light densities while operating with a near-zero power consumption of ca. 4 × 10 -11 watts and a low bias of 0.2 mV. Most notably, heterojunction formation decreases the device rise and decay times by 26 and 20 times, respectively. These drastic enhancements in photoresponse dynamics are attributed to the stronger surface band bending and improved electron-hole separation of the nanoscale NiO/ZnO interface. These findings demonstrate a superior structural design and a simple, low-cost CMOS-compatible process for the engineering of high-performance wearable photodetectors.

  13. Three-dimensionally structured silicon as a substrate for the MOVPE growth of GaN nanoLEDs

    Energy Technology Data Exchange (ETDEWEB)

    Fuendling, Soenke; Li, Shunfeng; Soekmen, Uensal; Merzsch, Stephan; Peiner, Erwin; Wehmann, Hergo-Heinrich; Waag, Andreas [Institut fuer Halbleitertechnik, TU Braunschweig, Braunschweig (Germany); Hinze, Peter; Weimann, Thomas [Physikalisch-Technische Bundesanstalt (PTB), Braunschweig (Germany); Jahn, Uwe; Trampert, Achim; Riechert, Henning [Paul-Drude-Institut fuer Festkoerperelektronik, Berlin (Germany)

    2009-06-15

    Three-dimensionally patterned Si(111) substrates are used to grow GaN based heterostructures by metalorganic vapour phase epitaxy, with the goal of fabricating well controlled, defect reduced GaN-based nanoLEDs. In contrast to other approaches to achieve GaN nanorods, we employed silicon substrates with deep etched nanopillars to control the GaN nanorods growth by varying the size and distance of the Si pillars. The small footprint of GaN nanorods grown on Si pillars minimise the influence of the lattice mismatched substrate and improve the material quality. For the Si pillars an inductively coupled plasma dry-etching process at cryogenic temperature has been developed. An InGaN/GaN multi quantum well (MQW) structure has been incorporated into the GaN nanorods. We found GaN nanostructures grown on top of the silicon pillars with a pyramidal shape. This shape results from a competitive growth on different facets as well as from surface diffusion of the growth species. Spatially resolved optical properties of the structures are analysed by cathodoluminescence. Strongly spatial-dependent MQW emission spectra indicate the growth rate differences on top of the rods. (copyright 2009 WILEY-VCH Verlag GmbH and Co. KGaA, Weinheim) (orig.)

  14. The three-dimensional structure of CFA/I adhesion pili: traveler's diarrhea bacteria hang on by a spring.

    Science.gov (United States)

    Mu, Xiang-Qi; Savarino, Stephen J; Bullitt, Esther

    2008-02-22

    To survive the harsh environment of a churning intestinal tract, bacteria attach to the host epithelium via thin fibers called pili (or fimbriae). Enterotoxigenic Escherichia coli bacteria expressing colonization factor antigen I (CFA/I) pili and related pili are the most common known bacterial cause of diarrheal disease, including traveler's diarrhea. CFA/I pili, assembled via the alternate chaperone pathway, are essential for binding and colonization of the small bowel by these pathogenic bacteria. Herein, we elucidate unique structural features of CFA/I pili that appear to optimize their function as bacterial tethers in the intestinal tract. Using transmission electron microscopy of negatively stained samples in combination with iterative three-dimensional helical reconstruction methods for image processing, we determined the structure of the CFA/I pilus filament. Our results indicate that strong end-to-end protein interactions and weak interactions between the coils of a sturdy spring-like helix provide the combination of strength, stability, and flexibility required to sustain bacterial adhesion and incite intestinal disease. We propose that CFA/I pili behave like a spring to maintain attachment to the gut lining during vortex mixing and downward flow of the intestinal contents, thereby persisting long enough for these bacteria to colonize the host epithelium and cause enteric disease.

  15. Three-dimensional electromagnetic strong turbulence. II. Wave packet collapse and structure of wave packets during strong turbulence

    International Nuclear Information System (INIS)

    Graham, D. B.; Robinson, P. A.; Cairns, Iver H.; Skjaeraasen, O.

    2011-01-01

    Large-scale simulations of wave packet collapse are performed by numerically solving the three-dimensional (3D) electromagnetic Zakharov equations, focusing on individual wave packet collapses and on wave packets that form in continuously driven strong turbulence. The collapse threshold is shown to decrease as the electron thermal speed ν e /c increases and as the temperature ratio T i /T e of ions to electrons decreases. Energy lost during wave packet collapse and dissipation is shown to depend on ν e /c. The dynamics of density perturbations after collapse are studied in 3D electromagnetic strong turbulence for a range of T i /T e . The structures of the Langmuir, transverse, and total electric field components of wave packets during strong turbulence are investigated over a range of ν e /c. For ν e /c e /c > or approx. 0.17, transverse modes become trapped in density wells and contribute significantly to the structure of the total electric field. At all ν e /c, the Langmuir energy density contours of wave packets are predominantly oblate (pancake shaped). The transverse energy density contours of wave packets are predominantly prolate (sausage shaped), with the major axis being perpendicular to the major axes of the Langmuir component. This results in the wave packet becoming more nearly spherical as ν e /c increases, and in turn generates more spherical density wells during collapse. The results obtained are compared with previous 3D electrostatic results and 2D electromagnetic results.

  16. Nanoparticle-Mediated Physical Exfoliation of Aqueous-Phase Graphene for Fabrication of Three-Dimensionally Structured Hybrid Electrodes.

    Science.gov (United States)

    Lee, Younghee; Choi, Hojin; Kim, Min-Sik; Noh, Seonmyeong; Ahn, Ki-Jin; Im, Kyungun; Kwon, Oh Seok; Yoon, Hyeonseok

    2016-01-27

    Monodispersed polypyrrole (PPy) nanospheres were physically incorporated as guest species into stacked graphene layers without significant property degradation, thereby facilitating the formation of unique three-dimensional hybrid nanoarchitecture. The electrochemical properties of the graphene/particulate PPy (GPPy) nanohybrids were dependent on the sizes and contents of the PPy nanospheres. The nanohybrids exhibited optimum electrochemical performance in terms of redox activity, charge-transfer resistance, and specific capacitance at an 8:1 PPy/graphite (graphene precursor) weight ratio. The packing density of the alternately stacked nanohybrid structure varied with the nanosphere content, indicating the potential for high volumetric capacitance. The nanohybrids also exhibited good long-term cycling stability because of a structural synergy effect. Finally, fabricated nanohybrid-based flexible all-solid state capacitor cells exhibited good electrochemical performance in an acidic electrolyte with a maximum energy density of 8.4 Wh kg(-1) or 1.9 Wh L(-1) at a maximum power density of 3.2 kW kg(-1) or 0.7 kW L(-1); these performances were based on the mass or packing density of the electrode materials.

  17. Fabrication of three-dimensional millimeter-height structures using direct ultraviolet lithography on liquid-state photoresist for simple and fast manufacturing

    Science.gov (United States)

    Kim, Jungkwun; Yoon, Yong-Kyu

    2015-07-01

    A rapid three-dimensional (3-D) ultraviolet (UV) lithography process for the fabrication of millimeter-tall high aspect ratio complex structures is presented. The liquid-state negative-tone photosensitive polyurethane, LF55GN, has been directly photopatterned using multidirectionally projected UV light for 3-D micropattern formation. The proposed lithographic scheme enabled us to overcome the maximum height obtained with a photopatternable epoxy, SU8, which has been conventionally most commonly used for the fabrication of tall and high aspect ratio microstructures. Also, the fabrication process time has been significantly reduced by eliminating photoresist-baking steps. Computer-controlled multidirectional UV lithography has been employed to fabricate 3-D structures, where the UV-exposure substrate is dynamically tilt-rotating during UV exposure to create various 3-D ray traces in the polyurethane layer. LF55GN has been characterized to provide feasible fabrication conditions for the multidirectional UV lithography. Very tall structures including a 6-mm tall triangular slab and a 5-mm tall hexablaze have been successfully fabricated. A 4.5-mm tall air-lifted polymer-core bowtie monopole antenna, which is the tallest monopole structure fabricated by photolithography and subsequent metallization, has been successfully demonstrated. The antenna shows a resonant radiation frequency of 12.34 GHz, a return loss of 36 dB, and a 10 dB bandwidth of 7%.

  18. Enhanced photocatalytic properties of hierarchical three-dimensional TiO{sub 2} grown on femtosecond laser structured titanium substrate

    Energy Technology Data Exchange (ETDEWEB)

    Huang, Ting, E-mail: huangting@bjut.edu.cn; Lu, Jinlong; Xiao, Rongshi; Wu, Qiang; Yang, Wuxiong

    2017-05-01

    Highlights: • The hierarchical 3D-TiO{sub 2} is fabricated on femtosecond laser structured Ti substrate. • The formation mechanism of hierarchical 3D-TiO{sub 2} is proposed. • The structure-induced improvement of photocatalytic activity is reported. - Abstract: Three-dimensional micro-/nanostructured TiO{sub 2} (3D-TiO{sub 2}) fabricated on titanium substrate effectively improves its performance in photocatalysis, dye-sensitized solar cell and lithium-ion battery applications. In this study, the hierarchical 3D-TiO{sub 2} with anatase phase directly grown on femtosecond laser structured titanium substrate is reported. First, the primary columnar arrays were fabricated on the surface of titanium substrate by femtosecond laser structuring. Next, the secondary nano-sheet substructures were grown on the primary columnar arrays by NaOH hydrothermal treatment. Followed by ion-exchange process in HCl and annealing in the air, the hierarchical anatase 3D-TiO{sub 2} was achieved. The hierarchical anatase 3D-TiO{sub 2} exhibited enhanced performances in light harvesting and absorption ability compared to that of nano-sheet TiO{sub 2} grown on flat titanium surface without femtosecond laser structuring. The photocatalytic degradation of methyl orange reveals that photocatalytic efficiency of the hierarchical anatase 3D-TiO{sub 2} was improved by a maximum of 57% compared to that of nano-sheet TiO{sub 2} (55% vs 35%). Meanwhile, the hierarchical anatase 3D-TiO{sub 2} remained mechanically stable and constant in consecutive degradation cycles, which promises significance in practical application.

  19. RECONSTRUCTING THE SUBSURFACE THREE-DIMENSIONAL MAGNETIC STRUCTURE OF A SOLAR ACTIVE REGION USING SDO/HMI OBSERVATIONS

    International Nuclear Information System (INIS)

    Chintzoglou, Georgios; Zhang Jie

    2013-01-01

    A solar active region (AR) is a three-dimensional (3D) magnetic structure formed in the convection zone, whose property is fundamentally important for determining the coronal structure and solar activity when emerged. However, our knowledge of the detailed 3D structure prior to its emergence is rather poor, largely limited by the low cadence and sensitivity of previous instruments. Here, using the 45 s high-cadence observations from the Helioseismic and Magnetic Imager on board the Solar Dynamics Observatory, we are able for the first time to reconstruct a 3D data cube and infer the detailed subsurface magnetic structure of NOAA AR 11158, and to characterize its magnetic connectivity and topology. This task is accomplished with the aid of the image-stacking method and advanced 3D visualization. We find that the AR consists of two major bipoles or four major polarities. Each polarity in 3D shows interesting tree-like structure, i.e., while the root of the polarity appears as a single tree-trunk-like tube, the top of the polarity has multiple branches consisting of smaller and thinner flux tubes which connect to the branches of the opposite polarity that is similarly fragmented. The roots of the four polarities align well along a straight line, while the top branches are slightly non-coplanar. Our observations suggest that an active region, even appearing highly complicated on the surface, may originate from a simple straight flux tube that undergoes both horizontal and vertical bifurcation processes during its rise through the convection zone.

  20. Characterization of coherent structures in three-dimensional turbulent flows using the finite-size Lyapunov exponent

    International Nuclear Information System (INIS)

    Bettencourt, João H; López, Cristóbal; Hernández-García, Emilio

    2013-01-01

    In this paper, we use the finite-size Lyapunov exponent (FSLE) to characterize Lagrangian coherent structures in three-dimensional (3D) turbulent flows. Lagrangian coherent structures act as the organizers of transport in fluid flows and are crucial to understand their stirring and mixing properties. Generalized maxima (ridges) of the FSLE fields are used to locate these coherent structures. 3D FSLE fields are calculated in two phenomenologically distinct turbulent flows: a wall-bounded flow (channel flow) and a regional oceanic flow obtained by the numerical solution of the primitive equations where two-dimensional (2D) turbulence dominates. In the channel flow, autocorrelations of the FSLE field show that the structure is substantially different from the near wall to the mid-channel region and relates well to the more widely studied Eulerian coherent structure of the turbulent channel flow. The ridges of the FSLE field have complex shapes due to the 3D character of the turbulent fluctuations. In the oceanic flow, strong horizontal stirring is present and the flow regime is similar to that of 2D turbulence where the domain is populated by coherent eddies that interact strongly. This in turn results in the presence of high FSLE lines throughout the domain leading to strong non-local mixing. The ridges of the FSLE field are quasi-vertical surfaces, indicating that the horizontal dynamics dominates the flow. Indeed, due to rotation and stratification, vertical motions in the ocean are much less intense than horizontal ones. This suppression is absent in the channel flow, as the 3D character of the FSLE ridges shows. This article is part of a special issue of Journal of Physics A: Mathematical and Theoretical devoted to ‘Lyapunov analysis: from dynamical systems theory to applications’. (paper)

  1. Three-dimensional P-wave velocity structure derived from local earthquakes at the Katmai group of volcanoes, Alaska

    Science.gov (United States)

    Jolly, A.D.; Moran, S.C.; McNutt, S.R.; Stone, D.B.

    2007-01-01

    The three-dimensional P-wave velocity structure beneath the Katmai group of volcanoes is determined by inversion of more than 10,000 rays from over 1000 earthquakes recorded on a local 18 station short-period network between September 1996 and May 2001. The inversion is well constrained from sea level to about 6??km below sea level and encompasses all of the Katmai volcanoes; Martin, Mageik, Trident, Griggs, Novarupta, Snowy, and Katmai caldera. The inversion reduced the average RMS travel-time error from 0.22??s for locations from the standard one-dimensional model to 0.13??s for the best three-dimensional model. The final model, from the 6th inversion step, reveals a prominent low velocity zone (3.6-5.0??km/s) centered at Katmai Pass and extending from Mageik to Trident volcanoes. The anomaly has values about 20-25% slower than velocities outboard of the region (5.0-6.5??km/s). Moderately low velocities (4.5-6.0??km/s) are observed along the volcanic axis between Martin and Katmai Caldera. Griggs volcano, located about 10??km behind (northwest of) the volcanic axis, has unremarkable velocities (5.0-5.7??km/s) compared to non-volcanic regions. The highest velocities are observed between Snowy and Griggs volcanoes (5.5-6.5??km/s). Relocated hypocenters for the best 3-D model are shifted significantly relative to the standard model with clusters of seismicity at Martin volcano shifting systematically deeper by about 1??km to depths of 0 to 4??km below sea level. Hypocenters for the Katmai Caldera are more tightly clustered, relocating beneath the 1912 scarp walls. The relocated hypocenters allow us to compare spatial frequency-size distributions (b-values) using one-dimensional and three-dimensional models. We find that the distribution of b is significantly changed for Martin volcano, which was characterized by variable values (0.8 < b < 2.0) with standard locations and more uniform values (0.8 < b < 1.2) after relocation. Other seismic clusters at Mageik (1.2 < b

  2. Evaluation of Artificial Caudal Fin for Fish Robot with Two Joints by Using Three-Dimensional Fluid-Structure Simulation

    Directory of Open Access Journals (Sweden)

    Yogo Takada

    2013-01-01

    Full Text Available A fish robot with image sensors is useful to research for underwater creatures such as fish. However, the propulsion velocity of a fish robot is very slow compared with live fish. It is necessary to swim at a speed several times faster than the speed of the current robots for various usages. Therefore, we are searching for the method of making the robot swim fast. The simulation before making the robot is important. We have made the computational simulation program of three-dimensional fluid-structure analysis. The flow around the caudal fin can be examined by analyzing the fin as an elastic body. We compared the results of numerical analysis with the results of PIV measurement. Both were agreed well. Because the performance of a fish robot with two joints is better than that of a fish robot with one joint, we searched for an excellent fin for the fish robot with two joints by using CFD. We confirmed that the swimming performance of a fish robot becomes very good when the caudal fin is rigid except for the root of the fin which is comparatively flexible.

  3. Band structure of a three-dimensional topological insulator quantum wire in the presence of a magnetic field.

    Science.gov (United States)

    Liu, Zhe; Jiang, Liwei; Zheng, Yisong

    2016-07-13

    By means of a numerical diagonalization approach, we calculate the electronic structure of a three-dimensional topological insulator (3DTI) quantum wire (QW) in the presence of a magnetic field. The QW can be viewed as a 3DTI film with lateral surfaces, when its rectangular cross section has a large aspect ratio. Our calculation indicates that nonchiral edge states emerge because of the confined states at the lateral surfaces. These states completely cover the valence band region among the Landau levels, which reasonably account for the absence of the [Formula: see text] quantum Hall effect in the relevant experimental works. In an ultrathin 3DTI film, inversion between the electron-type and hole-type bands occurs, which leads to the so-called pseudo-spin Hall effect. In a 3DTI QW with a square cross section, a tilting magnetic field can establish well-defined Landau levels in all four surfaces. In such a case, the quantum Hall edge states are localized at the square corners, characterized by the linearly crossing one-dimensional band profile. And they can be shifted between the adjacent corners by simply rotating the magnetic field.

  4. New Three-Dimensional Porous Electrode Concept: Vertically-Aligned Carbon Nanotubes Directly Grown on Embroidered Copper Structures

    Directory of Open Access Journals (Sweden)

    Noemí Aguiló-Aguayo

    2017-12-01

    Full Text Available New three-dimensional (3D porous electrode concepts are required to overcome limitations in Li-ion batteries in terms of morphology (e.g., shapes, dimensions, mechanical stability (e.g., flexibility, high electroactive mass loadings, and electrochemical performance (e.g., low volumetric energy densities and rate capabilities. Here a new electrode concept is introduced based on the direct growth of vertically-aligned carbon nanotubes (VA-CNTs on embroidered Cu current collectors. The direct growth of VA-CNTs was achieved by plasma-enhanced chemical vapor deposition (PECVD, and there was no application of any post-treatment or cleaning procedure. The electrochemical behavior of the as-grown VA-CNTs was analyzed by charge/discharge cycles at different specific currents and with electrochemical impedance spectroscopy (EIS measurements. The results were compared with values found in the literature. The as-grown VA-CNTs exhibit higher specific capacities than graphite and pristine VA-CNTs found in the literature. This together with the possibilities that the Cu embroidered structures offer in terms of specific surface area, total surface area, and designs provide a breakthrough in new 3D electrode concepts.

  5. New Three-Dimensional Porous Electrode Concept: Vertically-Aligned Carbon Nanotubes Directly Grown on Embroidered Copper Structures.

    Science.gov (United States)

    Aguiló-Aguayo, Noemí; Amade, Roger; Hussain, Shahzad; Bertran, Enric; Bechtold, Thomas

    2017-12-11

    New three-dimensional (3D) porous electrode concepts are required to overcome limitations in Li-ion batteries in terms of morphology (e.g., shapes, dimensions), mechanical stability (e.g., flexibility, high electroactive mass loadings), and electrochemical performance (e.g., low volumetric energy densities and rate capabilities). Here a new electrode concept is introduced based on the direct growth of vertically-aligned carbon nanotubes (VA-CNTs) on embroidered Cu current collectors. The direct growth of VA-CNTs was achieved by plasma-enhanced chemical vapor deposition (PECVD), and there was no application of any post-treatment or cleaning procedure. The electrochemical behavior of the as-grown VA-CNTs was analyzed by charge/discharge cycles at different specific currents and with electrochemical impedance spectroscopy (EIS) measurements. The results were compared with values found in the literature. The as-grown VA-CNTs exhibit higher specific capacities than graphite and pristine VA-CNTs found in the literature. This together with the possibilities that the Cu embroidered structures offer in terms of specific surface area, total surface area, and designs provide a breakthrough in new 3D electrode concepts.

  6. Three-dimensional structure of laser-modified Ti6Al4V and bone interface revealed with STEM tomography

    International Nuclear Information System (INIS)

    Grandfield, Kathryn; Palmquist, Anders; Engqvist, Håkan

    2013-01-01

    The early interaction between an implant's surface and bone is a leading factor for implant success, where multiple surface properties contribute to improved bone anchorage. An important parameter is surface topography, both on the micron and nanoscale. Laser-modification has been performed in the thread valleys of Ti6Al4V screws to alter their surface chemistry and topography to form a nanostructured surface titanium-dioxide. Implants were placed in the rabbit tibia, removed with surrounding bone after 8 weeks, fixated, dried and resin embedded. Focused ion beam milling (FIB) was used to prepare specimens from the resin blocks for transmission electron microscopy (TEM). Z-contrast electron tomography offered the possibility to explore the interfacial structure with high-resolution in three-dimensions. With this technique, collagen fibers of the surrounding bone appear to have been laid down parallel to the implant surface. Accordingly, visualization of the laser-modified interface with nanoscale three-dimensional resolution, as offered by Z-contrast electron tomography, gives new insights into bone bonding mechanisms between roughened titanium-dioxide surfaces and bone

  7. Three-dimensional spatial structures of solar wind turbulence from 10 000-km to 100-km scales

    Directory of Open Access Journals (Sweden)

    Y. Narita

    2011-10-01

    Full Text Available Using the four Cluster spacecraft, we have determined the three-dimensional wave-vector spectra of fluctuating magnetic fields in the solar wind. Three different solar wind intervals of Cluster data are investigated for this purpose, representing three different spatial scales: 10 000 km, 1000 km, and 100 km. The spectra are determined using the wave telescope technique (k-filtering technique without assuming the validity of Taylor's frozen-in-flow hypothesis nor are any assumptions made as to the symmetry properties of the fluctuations. We find that the spectra are anisotropic on all the three scales and the power is extended primarily in the directions perpendicular to the mean magnetic field, as might be expected of two-dimensional turbulence, however, the analyzed fluctuations are not axisymmetric. The lack of axisymmetry invalidates some earlier techniques using single spacecraft observations that were used to estimate the percentage of magnetic energy residing in quasi-two-dimensional power. However, the dominance of two-dimensional turbulence is consistent with the relatively long mean free paths of cosmic rays in observed in the heliosphere. On the other hand, the spectra also exhibit secondary extended structures oblique from the mean magnetic field direction. We discuss possible origins of anisotropy and asymmetry of solar wind turbulence spectra.

  8. Variability of three-dimensional sea breeze structure in southern France: observations and evaluation of empirical scaling laws

    Science.gov (United States)

    Drobinski, P.; Bastin, S.; Dabas, A.; Delville, P.; Reitebuch, O.

    2006-08-01

    Sea-breeze dynamics in southern France is investigated using an airborne Doppler lidar, a meteorological surface station network and radiosoundings, in the framework of the ESCOMPTE experiment conducted during summer 2001 in order to evaluate the role of thermal circulations on pollutant transport and ventilation. The airborne Doppler lidar WIND contributed to three-dimensional (3-D) mapping of the sea breeze circulation in an unprecedented way. The data allow access to the onshore and offshore sea breeze extents (xsb), and to the sea breeze depth (zsb) and intensity (usb). They also show that the return flow of the sea breeze circulation is very seldom seen in this area due to (i) the presence of a systematic non zero background wind, and (ii) the 3-D structure of the sea breeze caused by the complex coastline shape and topography. A thorough analysis is conducted on the impact of the two main valleys (Rhône and Durance valleys) affecting the sea breeze circulation in the area. Finally, this dataset also allows an evaluation of the existing scaling laws used to derive the sea breeze intensity, depth and horizontal extent. The main results of this study are that (i) latitude, cumulative heating and surface friction are key parameters of the sea breeze dynamics; (ii) in presence of strong synoptic flow, all scaling laws fail in predicting the sea breeze characteristics (the sea breeze depth, however being the most accurately predicted); and (iii) the ratio zsb/usb is approximately constant in the sea breeze flow.

  9. Three-dimensionally spiral structure of the water stream induced by a centrifugal stirrer in large aqua-cultural ponds

    Science.gov (United States)

    Itano, Tomoaki; Inagaki, Taishi; Nakamura, Choji; Sugihara-Seki, Masako; Hyodo, Jinsuke

    2017-11-01

    We have conducted measurements of the water stream produced by a mechanical stirrer (diameter 2.4[m], electric power 50[W]) located in shallow rectangular reservoirs (small 0.7[ha], large 3.7[ha]), which may be employed as a cost-efficient aerator for the aqua-cultural purpose, with the aid of both particle tracking velocimetry by passive tracers floating on the surface and direct measurement by electro-magnetic velocimeter under the surface. The present measurements indicate that the stirrer drives primarily the horizontally rotating water stream and secondarily the vertical convection between the surface and the bottom of the reservoir, which results in the three-dimensionally spiral-shaped water streams scaled vertically by just a meter but horizontally by more than ten meters. It is suggested that the spiral structure driven by the stirrer may activate the underwater vertical mixing and enhance dissolved oxygen at the bottom of aqua-cultural pond more effectively than the paddle-wheel aerators commonly used in aqua-cultural ponds. This research was financially supported in part by the Kansai University Fund for Supporting Young Scholars, 2016-2017.

  10. Documentation and analysis of traumatic injuries in clinical forensic medicine involving structured light three-dimensional surface scanning versus photography.

    Science.gov (United States)

    Shamata, Awatif; Thompson, Tim

    2018-05-10

    Non-contact three-dimensional (3D) surface scanning has been applied in forensic medicine and has been shown to mitigate shortcoming of traditional documentation methods. The aim of this paper is to assess the efficiency of structured light 3D surface scanning in recording traumatic injuries of live cases in clinical forensic medicine. The work was conducted in Medico-Legal Centre in Benghazi, Libya. A structured light 3D surface scanner and ordinary digital camera with close-up lens were used to record the injuries and to have 3D and two-dimensional (2D) documents of the same traumas. Two different types of comparison were performed. Firstly, the 3D wound documents were compared to 2D documents based on subjective visual assessment. Additionally, 3D wound measurements were compared to conventional measurements and this was done to determine whether there was a statistical significant difference between them. For this, Friedman test was used. The study established that the 3D wound documents had extra features over the 2D documents. Moreover; the 3D scanning method was able to overcome the main deficiencies of the digital photography. No statistically significant difference was found between the 3D and conventional wound measurements. The Spearman's correlation established strong, positive correlation between the 3D and conventional measurement methods. Although, the 3D surface scanning of the injuries of the live subjects faced some difficulties, the 3D results were appreciated, the validity of 3D measurements based on the structured light 3D scanning was established. Further work will be achieved in forensic pathology to scan open injuries with depth information. Crown Copyright © 2018. Published by Elsevier Ltd. All rights reserved.

  11. Three dimensional analysis of self-structuring organic thin films using time-of-flight secondary ion mass spectrometry

    Energy Technology Data Exchange (ETDEWEB)

    Mayerhofer, Karl E.; Heier, Jakob; Maniglio, Ylenia; Keller, Beat Andreas, E-mail: beat.keller@empa.ch

    2011-07-01

    Selective sub-micrometer structuring of phase-separating organic semiconductor materials has recently got into focus for providing the opportunity of further improvements in optoelectronic device applications. Here we present a 3D-time-of-flight secondary ion mass spectrometry (3D-TOF-SIMS) depth profiling investigation on spin-coated blends consisting of [6,6]-phenyl-C{sub 61}-butyric acid methyl ester (PCBM) and a cationic cyanine dye (1,1'-diethyl-3,3,3',3'-tetramethylcarbocyanine iodide). TOF-SIMS provides the required lateral and depth resolution to resolve material and molecular inhomogeneities and phase separation in the blend. The data are illustrating the three-dimensional arrangement of the substances involved and confirm results of earlier studies using atomic force microscopy, UV-vis spectroscopy and x-ray photoelectron spectroscopy, and which have shown well distinguishable morphological features. The formation of this domain structure has been found to be dependent on the absolute as well as the individual film thickness, in accordance with models based on thin liquid two-layer films. Honey-comb like primary structures with micrometer dimension were found in samples containing small amounts of dye molecules in the deposition solution. In this case a thin dye deposit on PCBM was detected, which is well separated from the dye layer at the substrate. For this type of sample, we discuss an extended model of film formation based on partial depletion of dye molecules during film solidification, resulting in two individual dye layers.

  12. Four Mixed-Ligand Zn(II Three-Dimensional Metal-Organic Frameworks: Synthesis, Structural Diversity, and Photoluminescent Property

    Directory of Open Access Journals (Sweden)

    Chih-Chieh Wang

    2017-11-01

    Full Text Available Assemblies of four three-dimensional (3D mixed-ligand coordination polymers (CPs having formulas, {[Zn2(bdc2(4-bpdh]·C2H5OH·2H2O}n (1, [Zn(bdc(4-bpdh]n (2, {[Zn2(bdc2(4-bpdh2]·(4-bpdh}n (3, and {[Zn(bdc(4-bpdh]·C2H5OH}n (4 (bdc2− = dianion of 1,4-benzenedicarboxylic acid, 4-bpdh = 2,5-bis(4-pyridyl-3,4-diaza-2,4-hexadiene have been synthesized and structurally characterized by single-crystal X-ray diffraction method. Structural determination reveals that the coordination numbers (geometry of Zn(II ions in 1, 2, 3, and 4 are five (distorted square-pyramidal (SP, six (distorted octahedral (Oh, five (trigonal-bipyramidal (TBP, and four (tetrahedral (Td, respectively, and are bridged by 4-bpdh with bis-monodentate coordination mode and bdc2− ligands with bis-bidentate in 1, chelating/bidentate in 2, bis-monodentate and bis-bidentate in 3, and bis-monodentate in 4, to generate two-fold interpenetrating 3D cube-like metal-organic framework (MOF with pcu topology, non-interpenetrating 3D MOF, two-fold interpenetrating 3D rectangular-box-like MOF with pcu topology and five-fold interpenetrating diamondoid-like MOF with dia topology, respectively. These different intriguing architectures indicate that the coordination numbers and geometries of Zn(II ions, coordination modes of bdc2− ligand, and guest molecules play important roles in the construction of MOFs and the formation of the structural topologies and interpenetrations. Thermal stabilities, and photoluminescence study of 1–4 were also studied in detail. The complexes exhibit ligands based photoluminescence properties at room temperature.

  13. The Safety and Feasibility of Three-Dimensional Visualization Technology Assisted Right Posterior Lobe Allied with Part of V and VIII Sectionectomy for Right Hepatic Malignancy Therapy.

    Science.gov (United States)

    Hu, Min; Hu, Haoyu; Cai, Wei; Mo, Zhikang; Xiang, Nan; Yang, Jian; Fang, Chihua

    2018-05-01

    Hepatectomy is the optimal method for liver cancer; the virtual liver resection based on three-dimensional visualization technology (3-DVT) could provide better preoperative strategy for surgeon. We aim to introduce right posterior lobe allied with part of V and VIII sectionectomy assisted by 3-DVT as a promising treatment for massive or multiple right hepatic malignancies to retain maximum residual liver volume on the basis of R0 resection. Among 126 consecutive patients who underwent hepatectomy, 9 (7%) underwent right posterior lobe allied with part of V and VIII sectionectomy. 21 (17%) underwent right hemihepatectomy (RH). The virtual RH was performed with 3-DVT, which provided better observation of spatial position relationship between tumor and vessels, and the more accurate estimation of the remnant liver volume. If remnant liver volume was right posterior lobe allied with part of V and VIII sectionectomy should be undergone. Then, the precut line ought to be planned on the basis of protecting the portal branch of subsegment 5 and 8. The postoperative outcome of patients was compared before and after propensity score matching. Nine patients meeting the eligibility criteria received right posterior lobe allied with part of V and VIII sectionectomy. The variables, including the overall mean operation time, blood transfusion, operation length, liver function, and postoperative complications, were similar between two groups before and after propensity matching. The postoperative first, third, fifth, and seventh days mean value of aspartate aminotransferase (AST), alanine aminotransferase (ALT), albumin (ALB), and total bilirubin had no significant difference compared with preoperative value. One patient in each group had recurrence six months after surgery. Right posterior lobe allied with part of V and VIII sectionectomy based on 3-DVT is safe and feasible surgery way, and can be a very promising method in massive or multiple right hepatic malignancy therapy.

  14. Investigation of deformation of elements of three-dimensional reinforced concrete structures located in the soil, interacting with each other through rubber gaskets

    Science.gov (United States)

    Berezhnoi, D. V.; Balafendieva, I. S.; Sachenkov, A. A.; Sekaeva, L. R.

    2017-06-01

    In work the technique of calculation of elements of three-dimensional reinforced concrete substructures located in a soil, interacting with each other through rubber linings is realized. To describe the interaction of deformable structures with the ground, special “semi-infinite” finite elements are used. A technique has been implemented that allows one to describe the contact interaction of three-dimensional structures by means of a special contact finite element with specific properties. The obtained numerical results are compared with the experimental data, their good agreement is noted.

  15. Study of structural attachments of a pool type LMFBR vessel through seismic analysis of a simplified three dimensional finite element model

    International Nuclear Information System (INIS)

    Ahmed, H.; Ma, D.

    1979-01-01

    A simplified three dimensional finite element model of a pool type LMFBR in conjunction with the computer program ANSYS is developed and scoping results of seismic analysis are produced. Through this study various structural attachments of a pool type LMFBR like the reactor vessel skirt support, the pump support and reactor shell-support structure interfaces are studied. This study also provides some useful results on equivalent viscous damping approach and some improvements to the treatment of equivalent viscous damping are recommended. This study also sets forth pertinent guidelines for detailed three dimensional finite element seismic analysis of pool type LMFBR

  16. Determination of the real structure of artificial and natural opals on the basis of three-dimensional reconstructions of reciprocal space

    NARCIS (Netherlands)

    Eliseev, A.A.; Gorozhankin, D.F.; Napolskii, K.S.; Petukhov, A.V.; Sapoletova, N.A.; Vasilieva, A.V.; Grigoryeva, N.A.; Mistonov, A.A.; Belov, D.V.; Bouwman, W.G.; Kvashnina, K.; Chernyshov, D.Y.; Bosak, A.A.; Grigoriev, S.V.

    2009-01-01

    The distribution of the scattering intensity in the reciprocal space for natural and artificial opals has been reconstructed from a set of small-angle X-ray diffraction patterns. The resulting three-dimensional intensity maps are used to analyze the defect structure of opals. The structure of

  17. Three-dimensional flow structure and patterns of bed shear stress in an evolving compound meander bend

    Science.gov (United States)

    Engel, Frank; Rhoads, Bruce L.

    2016-01-01

    Compound meander bends with multiple lobes of maximum curvature are common in actively evolving lowland rivers. Interaction among spatial patterns of mean flow, turbulence, bed morphology, bank failures and channel migration in compound bends is poorly understood. In this paper, acoustic Doppler current profiler (ADCP) measurements of the three-dimensional (3D) flow velocities in a compound bend are examined to evaluate the influence of channel curvature and hydrologic variability on the structure of flow within the bend. Flow structure at various flow stages is related to changes in bed morphology over the study timeframe. Increases in local curvature within the upstream lobe of the bend reduce outer bank velocities at morphologically significant flows, creating a region that protects the bank from high momentum flow and high bed shear stresses. The dimensionless radius of curvature in the upstream lobe is one-third less than that of the downstream lobe, with average bank erosion rates less than half of the erosion rates for the downstream lobe. Higher bank erosion rates within the downstream lobe correspond to the shift in a core of high velocity and bed shear stresses toward the outer bank as flow moves through the two lobes. These erosion patterns provide a mechanism for continued migration of the downstream lobe in the near future. Bed material size distributions within the bend correspond to spatial patterns of bed shear stress magnitudes, indicating that bed material sorting within the bend is governed by bed shear stress. Results suggest that patterns of flow, sediment entrainment, and planform evolution in compound meander bends are more complex than in simple meander bends. Moreover, interactions among local influences on the flow, such as woody debris, local topographic steering, and locally high curvature, tend to cause compound bends to evolve toward increasing planform complexity over time rather than stable configurations.

  18. Three-dimensional seismic velocity structure of Mauna Loa and Kilauea volcanoes in Hawaii from local seismic tomography

    Science.gov (United States)

    Lin, Guoqing; Shearer, Peter M.; Matoza, Robin S.; Okubo, Paul G.; Amelung, Falk

    2016-01-01

    We present a new three-dimensional seismic velocity model of the crustal and upper mantle structure for Mauna Loa and Kilauea volcanoes in Hawaii. Our model is derived from the first-arrival times of the compressional and shear waves from about 53,000 events on and near the Island of Hawaii between 1992 and 2009 recorded by the Hawaiian Volcano Observatory stations. The Vp model generally agrees with previous studies, showing high-velocity anomalies near the calderas and rift zones and low-velocity anomalies in the fault systems. The most significant difference from previous models is in Vp/Vs structure. The high-Vp and high-Vp/Vs anomalies below Mauna Loa caldera are interpreted as mafic magmatic cumulates. The observed low-Vp and high-Vp/Vs bodies in the Kaoiki seismic zone between 5 and 15 km depth are attributed to the underlying volcaniclastic sediments. The high-Vp and moderate- to low-Vp/Vs anomalies beneath Kilauea caldera can be explained by a combination of different mafic compositions, likely to be olivine-rich gabbro and dunite. The systematically low-Vp and low-Vp/Vs bodies in the southeast flank of Kilauea may be caused by the presence of volatiles. Another difference between this study and previous ones is the improved Vp model resolution in deeper layers, owing to the inclusion of events with large epicentral distances. The new velocity model is used to relocate the seismicity of Mauna Loa and Kilauea for improved absolute locations and ultimately to develop a high-precision earthquake catalog using waveform cross-correlation data.

  19. Three-dimensional nanometer scale analyses of precipitate structures and local compositions in titanium aluminide engineering alloys

    Science.gov (United States)

    Gerstl, Stephan S. A.

    Titanium aluminide (TiAl) alloys are among the fastest developing class of materials for use in high temperature structural applications. Their low density and high strength make them excellent candidates for both engine and airframe applications. Creep properties of TiAl alloys, however, have been a limiting factor in applying the material to a larger commercial market. In this research, nanometer scale compositional and structural analyses of several TiAl alloys, ranging from model Ti-Al-C ternary alloys to putative commercial alloys with 10 components are investigated utilizing three dimensional atom probe (3DAP) and transmission electron microscopies. Nanometer sized borides, silicides, and carbide precipitates are involved in strengthening TiAl alloys, however, chemical partitioning measurements reveal oxygen concentrations up to 14 at. % within the precipitate phases, resulting in the realization of oxycarbide formation contributing to the precipitation strengthening of TiAl alloys. The local compositions of lamellar microstructures and a variety of precipitates in the TiAl system, including boride, silicide, binary carbides, and intermetallic carbides are investigated. Chemical partitioning of the microalloying elements between the alpha2/gamma lamellar phases, and the precipitate/gamma-matrix phases are determined. Both W and Hf have been shown to exhibit a near interfacial excess of 0.26 and 0.35 atoms nm-2 respectively within ca. 7 nm of lamellar interfaces in a complex TiAl alloy. In the case of needle-shaped perovskite Ti3AlC carbide precipitates, periodic domain boundaries are observed 5.3+/-0.8 nm apart along their growth axis parallel to the TiAl[001] crystallographic direction with concomitant composition variations after 24 hrs. at 800°C.

  20. Three-dimensional quantitative structure-permeability relationship analysis for a series of inhibitors of rhinovirus replication.

    Science.gov (United States)

    Ekins, S; Durst, G L; Stratford, R E; Thorner, D A; Lewis, R; Loncharich, R J; Wikel, J H

    2001-01-01

    Multiple three-dimensional quantitative structure-activity relationship (3D-QSAR) approaches were applied to predicting passive Caco-2 permeability for a series of 28 inhibitors of rhinovirus replication. Catalyst, genetic function approximation (GFA) with MS-WHIM descriptors, CoMFA, and VolSurf were all used for generating 3D-quantitative structure permeability relationships utilizing a training set of 19 molecules. Each of these approaches was then compared using a test set of nine molecules not present in the training set. Statistical parameters for the test set predictions (r(2) and leave-one-out q(2)) were used to compare the models. It was found that the Catalyst pharmacophore model was the most predictive (test set of predicted versus observed permeability, r(2) = 0.94). This model consisted of a hydrogen bond acceptor, hydrogen bond donor, and ring aromatic feature with a training set correlation of r(2) = 0.83. The CoMFA model consisted of three components with an r(2) value of 0.96 and produced good predictions for the test set (r(2) = 0.84). VolSurf resulted in an r(2) value of 0.76 and good predictions for the test set (r(2) = 0.83). Test set predictions with GFA/WHIM descriptors (r(2) = 0.46) were inferior when compared with the Catalyst, CoMFA, and VolSurf model predictions in this evaluation. In summary it would appear that the 3D techniques have considerable value in predicting passive permeability for a congeneric series of molecules, representing a valuable asset for drug discovery.

  1. Formation of a stable, three-dimensional porous structure with self-assembled glass spheres using the plasma-induced electromeniscus phenomenon

    International Nuclear Information System (INIS)

    Matsuura, Hiroshi; Tanikawa, Tamio; Ando, Yasuhisa; Miyake, Koji; Sasaki, Shinya

    2006-01-01

    We develop a method for fabricating a stable, three-dimensional porous structure with self-assembled glass spheres. This three-dimensional (3D) self-assembly of glass spheres is achieved using the electromeniscus phenomenon, which is associated with a microscale solution current. The current encloses a group of glass spheres, carries the spheres, and assembles them three dimensionally with its surface tension at the desired site. The assembled glass spheres are fixed using a plasma-induced reaction combined with thermal treatment of the solution. These assembled microscale spheres create a large number of openings with extensive surface areas. This extensive area among 3D porous structures would be particularly useful for fabricating high-performance catalysts and high-resolution hydrogen sensors

  2. Characterization of iron ferromagnetism by the local atomic volume: from three-dimensional structures to isolated atoms.

    Science.gov (United States)

    Zhang, Lei; Sob, M; Wu, Zhe; Zhang, Ying; Lu, Guang-Hong

    2014-02-26

    We present a comprehensive study of the relationship between the ferromagnetism and the structural properties of Fe systems from three-dimensional ones to isolated atoms based on the spin-density functional theory. We have found a relation between the magnetic moment and the volume of the Voronoi polyhedron, determining, in most cases, the value of the total magnetic moment as a function of this volume with an average accuracy of ±0.28 μ(B) and of the 3d magnetic moment with an average accuracy of ±0.07 μ(B) when the atomic volume is larger than 22 ų. It is demonstrated that this approach is applicable for many three-dimensional systems, including high-symmetry structures of perfect body-centered cubic (bcc), face-centered cubic (fcc), hexagonal close-packed (hcp), double hexagonal close-packed (dhcp), and simple cubic (sc) crystals, as well as for lower-symmetry ones, for example atoms near a grain boundary (GB) or a surface, around a vacancy or in a linear chain (for low-dimensional cases, we provide a generalized definition of the Voronoi polyhedron). Also, we extend the validity of the Stoner model to low-dimensional structures, such as atomic chains, free-standing monolayers and surfaces, determining the Stoner parameter for these systems. The ratio of the 3d-exchange splitting to the magnetic moment, corresponding to the Stoner parameter, is found to be I(3d) = (0.998 ± 0.006) eV /μ(B) for magnetic moments up to 3.0 μ(B). Further, the 3d exchange splitting changes nearly linearly in the region of higher magnetic moments (3.0-4.0 μ(B)) and the corresponding Stoner exchange parameter equals I(h)(3d) = (0.272 ± 0.006) eV /μ(B). The existence of these two regions reflects the fact that, with increasing Voronoi volume, the 3d bands separate first and, consequently, the 3d magnetic moment increases. When the Voronoi volume is sufficiently large (≥22 ų), the separation of the 3d bands is complete and the magnetic moment reaches a value of 3.0

  3. Characterization of iron ferromagnetism by the local atomic volume: from three-dimensional structures to isolated atoms

    International Nuclear Information System (INIS)

    Zhang, Lei; Šob, M; Wu, Zhe; Zhang, Ying; Lu, Guang-Hong

    2014-01-01

    We present a comprehensive study of the relationship between the ferromagnetism and the structural properties of Fe systems from three-dimensional ones to isolated atoms based on the spin-density functional theory. We have found a relation between the magnetic moment and the volume of the Voronoi polyhedron, determining, in most cases, the value of the total magnetic moment as a function of this volume with an average accuracy of ±0.28 μ B and of the 3d magnetic moment with an average accuracy of ±0.07 μ B when the atomic volume is larger than 22 Å 3 . It is demonstrated that this approach is applicable for many three-dimensional systems, including high-symmetry structures of perfect body-centered cubic (bcc), face-centered cubic (fcc), hexagonal close-packed (hcp), double hexagonal close-packed (dhcp), and simple cubic (sc) crystals, as well as for lower-symmetry ones, for example atoms near a grain boundary (GB) or a surface, around a vacancy or in a linear chain (for low-dimensional cases, we provide a generalized definition of the Voronoi polyhedron). Also, we extend the validity of the Stoner model to low-dimensional structures, such as atomic chains, free-standing monolayers and surfaces, determining the Stoner parameter for these systems. The ratio of the 3d-exchange splitting to the magnetic moment, corresponding to the Stoner parameter, is found to be I 3d = (0.998 ± 0.006) eV /μ B for magnetic moments up to 3.0 μ B . Further, the 3d exchange splitting changes nearly linearly in the region of higher magnetic moments (3.0–4.0 μ B ) and the corresponding Stoner exchange parameter equals I 3d h =(0.272±0.006) eV/μ B . The existence of these two regions reflects the fact that, with increasing Voronoi volume, the 3d bands separate first and, consequently, the 3d magnetic moment increases. When the Voronoi volume is sufficiently large (≥22 Å 3 ), the separation of the 3d bands is complete and the magnetic moment reaches a value of 3.0

  4. Three-dimensional cellular automaton-finite element modeling of solidification grain structures for arc-welding processes

    International Nuclear Information System (INIS)

    Chen, Shijia; Guillemot, Gildas; Gandin, Charles-André

    2016-01-01

    Solidification grain structure has significant impact on the final properties of welded parts using fusion welding processes. Direct simulation of grain structure at industrial scale is yet rarely reported in the literature and remains a challenge. A three-dimensional (3D) coupled Cellular Automaton (CA) – Finite Element (FE) model is presented that predicts the grain structure formation during multiple passes Gas Tungsten Arc Welding (GTAW) and Gas Metal Arc Welding (GMAW). The FE model is established in a level set (LS) approach that tracks the evolution of the metal-shielding gas interface due to the addition of metal. The FE method solves the mass, energy and momentum conservation equations for the metal plus shielding gas system based on an adaptive mesh (FE mesh). Fields are projected in a second FE mesh, named CA mesh. A CA grid made of a regular lattice of cubic cells is created to overlay the fixed CA mesh. The CA model based on the CA grid simulates the melting and growth of the grain boundaries in the liquid pool. In order to handle large computational domains while keeping reasonable computational costs, parallel computations and dynamic strategies for the allocation/deallocation of the CA grid are introduced. These strategies correspond to significant optimizations of the computer memories that are demonstrated. The 3D CAFE model is first applied to the simple configuration of single linear passes by GTAW of a duplex stainless steel URANUS 2202. It is then applied to a more persuasive example considering GMAW in spray transfer mode during multiple passes to fill a V-groove chamfer. Simulations reveal the possibility to handle domains with millions of grains in representative domain sizes while following the formation of textures that result from the growth competition among columnar grains. -- Graphical abstract: Simulated 3D grain structure (3D CAFE model) for GTAW multiple linear passes at the surface of a duplex stainless steel (URANUS 22002

  5. Three-dimensional structure of a glycosylated cell surface antigen from D. discoideum: a primordial adhesion motif

    International Nuclear Information System (INIS)

    Mabbutt, B.C.; Swarbrick, J.; Cubeddu, L.; Hill, A.

    1999-01-01

    Full text: We have determined the solution structure of pre-spore specific antigen (PsA), a predominant cell surface glycoprotein from the slime mould Dictyostelium discoideum. The structure and function of this protein suggests that it serves as a molecular signal for multicellular organisation, and that it may also be an adhesion motif mediating direct cell-cell contact. PsA consists of a 90-residue N-terminal globular domain tethered to the cell membrane via a heavily O-glycosylated stalk and a GPI anchor. No homologous sequences have been identified for the N-terminal domain. At Macquarie University, the D. discoideum organism has been well developed as a eukaryotic expression host for glycosylated proteins. For NMR, we have engineered a soluble form of PsA (residues 1-122) containing the globular 'head' and the glycopeptide linker. 15 N- and 15 N/ 13 C-labelled PsA was generated in this organism via a protocol that is readily adaptable for the cost-effective production of milligram quantities of other isotopically labelled recombinant proteins. Using 3D heteronuclear NMR, we have solved the three-dimensional structure of the PsA glycoprotein. It defines an eight stranded β-sandwich of five-on-three topology in a unique arrangement. A long loop is constrained by a cis proline residue and a disulphide bond to form an opening across one end of the sandwich, exposing portions of the hydrophobic interior. We postulate that this distortion of the sandwich fold structures a binding site. Structural and dynamics information was also obtained concerning the intact glycopeptide linker of the protein, which comprises a repeating P-T-V-T motif. In our recombinant form, each Thr residue is modified by a single GlcNAc sugar. This simple structure yields interpretable NMR spectra, which show the glycosylated linker to be in extended conformation, and undergoing distinctly different mobility from the globular domain. These same sugar residues provide an ideal attachment

  6. Two and three dimensional characterization of Zucchini Yellow Mosaic Virus induced structural alterations in Cucurbita pepo L. plants.

    Science.gov (United States)

    Zellnig, Günther; Pöckl, Michael Herbert; Möstl, Stefan; Zechmann, Bernd

    2014-05-01

    Infection of plants by Zucchini Yellow Mosaic Virus (ZYMV) induces severe ultrastructural changes. The aim of this study was to investigate ultrastructural changes during ZYMV-infection in Cucurbita pepo L. plants on the two and three dimensional (2D and 3D) level and to correlate these changes with the spread of ZYMV throughout the plant by transmission electron microscopy (TEM) and image analysis. This study revealed that after inoculation of the cotyledons ZYMV moved into roots [3 days post inoculation (dpi)], then moved upwards into the stem and apical meristem (5 dpi), then into the first true leaf (7 dpi) and could finally be found in all plant parts (9 dpi). ZYMV-infected cells contained viral inclusion bodies in the form of cylindrical inclusions (CIs). These CIs occurred in four different forms throughout the cytosol of roots and leaves: scrolls and pinwheels when cut transversely and long tubular structures and bundles of filaments when cut longitudinally. 3D reconstruction of ZYMV-infected cells containing scrolls revealed that they form long tubes throughout the cytosol. The majority has a preferred orientation and an average length and width of 3 μm and 120 nm, respectively. Image analysis revealed an increased size of cells and vacuoles (107% and 447%, respectively) in younger ZYMV-infected leaves leading to a similar ratio of cytoplasm to vacuole (about 1:1) in older and younger ZYMV-infected leaves which indicates advanced cell growth in younger tissues. The collected data advances the current knowledge about ZYMV-induced ultrastructural changes in Cucurbita pepo. Copyright © 2014 The Authors. Published by Elsevier Inc. All rights reserved.

  7. Variability of three-dimensional sea breeze structure in southern France: observations and evaluation of empirical scaling laws

    Directory of Open Access Journals (Sweden)

    P. Drobinski

    2006-08-01

    Full Text Available Sea-breeze dynamics in southern France is investigated using an airborne Doppler lidar, a meteorological surface station network and radiosoundings, in the framework of the ESCOMPTE experiment conducted during summer 2001 in order to evaluate the role of thermal circulations on pollutant transport and ventilation. The airborne Doppler lidar WIND contributed to three-dimensional (3-D mapping of the sea breeze circulation in an unprecedented way. The data allow access to the onshore and offshore sea breeze extents (xsb, and to the sea breeze depth (zsb and intensity (usb. They also show that the return flow of the sea breeze circulation is very seldom seen in this area due to (i the presence of a systematic non zero background wind, and (ii the 3-D structure of the sea breeze caused by the complex coastline shape and topography. A thorough analysis is conducted on the impact of the two main valleys (Rhône and Durance valleys affecting the sea breeze circulation in the area.

    Finally, this dataset also allows an evaluation of the existing scaling laws used to derive the sea breeze intensity, depth and horizontal extent. The main results of this study are that (i latitude, cumulative heating and surface friction are key parameters of the sea breeze dynamics; (ii in presence of strong synoptic flow, all scaling laws fail in predicting the sea breeze characteristics (the sea breeze depth, however being the most accurately predicted; and (iii the ratio zsb/usb is approximately constant in the sea breeze flow.

  8. Variability of three-dimensional sea breeze structure in southern France: observations and evaluation of empirical scaling laws

    Directory of Open Access Journals (Sweden)

    P. Drobinski

    2006-08-01

    Full Text Available Sea-breeze dynamics in southern France is investigated using an airborne Doppler lidar, a meteorological surface station network and radiosoundings, in the framework of the ESCOMPTE experiment conducted during summer 2001 in order to evaluate the role of thermal circulations on pollutant transport and ventilation. The airborne Doppler lidar WIND contributed to three-dimensional (3-D mapping of the sea breeze circulation in an unprecedented way. The data allow access to the onshore and offshore sea breeze extents (xsb, and to the sea breeze depth (zsb and intensity (usb. They also show that the return flow of the sea breeze circulation is very seldom seen in this area due to (i the presence of a systematic non zero background wind, and (ii the 3-D structure of the sea breeze caused by the complex coastline shape and topography. A thorough analysis is conducted on the impact of the two main valleys (Rhône and Durance valleys affecting the sea breeze circulation in the area. Finally, this dataset also allows an evaluation of the existing scaling laws used to derive the sea breeze intensity, depth and horizontal extent. The main results of this study are that (i latitude, cumulative heating and surface friction are key parameters of the sea breeze dynamics; (ii in presence of strong synoptic flow, all scaling laws fail in predicting the sea breeze characteristics (the sea breeze depth, however being the most accurately predicted; and (iii the ratio zsb/usb is approximately constant in the sea breeze flow.

  9. Three-dimensional grain structure of sintered bulk strontium titanate from X-ray diffraction contrast tomography

    DEFF Research Database (Denmark)

    Syha, M.; Rheinheimer, W.; Bäurer, M.

    2012-01-01

    The three-dimensional grain boundary network of sintered bulk strontium titanate is reconstructed using X-ray diffraction contrast tomography, a non-destructive technique for determining the grain shape and crystallographic orientation in polycrystals that is ideally suited for detailed studies...

  10. Overview of Three-Dimensional Atomic-Resolution Holography and Imaging Techniques: Recent Advances in Local-Structure Science

    Science.gov (United States)

    Daimon, Hiroshi

    2018-06-01

    Local three-dimensional (3D) atomic arrangements without periodicity have not been able to be studied until recently. Recently, several holographies and related techniques have been developed to reveal the 3D atomic arrangement around specific atoms with no translational symmetry. This review gives an overview of these new local 3D atomic imaging techniques.

  11. Fine structure of modal focusing effect in a three dimensional plasma-sheath-lens formed by disk electrodes

    DEFF Research Database (Denmark)

    Stamate, Eugen; Yamaguchi, Masahito

    2015-01-01

    Modal and discrete focusing effects associated with three-dimensional plasma-sheath-lenses show promising potential for applications in ion beam extraction, mass spectrometry, plasma diagnostics and for basic studies of plasma sheath. The ion focusing properties can be adjusted by controlling the...

  12. A high-spatial-resolution three-dimensional detector array for 30-200 keV X-rays based on structured scintillators

    DEFF Research Database (Denmark)

    Olsen, Ulrik Lund; Schmidt, Søren; Poulsen, Henning Friis

    2008-01-01

    A three-dimensional X-ray detector for imaging 30-200 keV photons is described. It comprises a set of semi-transparent structured scintillators, where each scintillator is a regular array of waveguides in silicon, and with pores filled with CsI. The performance of the detector is described...

  13. Coherent optical nonlinearities and phase relaxation of quasi-three-dimensional and quasi-two-dimensional excitons in ZnSxSe1 - x/ZnSe structures

    DEFF Research Database (Denmark)

    Wagner, Hans Peter; Schätz, A.; Maier, R.

    1997-01-01

    We investigate the dephasing of heavy-hole excitons in different free-standing ZnSxSe1-x/ZnSe layer structures by spectrally resolved transient four-wave mixing. ZnSe layers of 80, 8, and 4 nm thickness with ternary barriers are studied, representing the crossover from quasi-three-dimensional to ...

  14. Three dimensional canonical transformations

    International Nuclear Information System (INIS)

    Tegmen, A.

    2010-01-01

    A generic construction of canonical transformations is given in three-dimensional phase spaces on which Nambu bracket is imposed. First, the canonical transformations are defined as based on cannonade transformations. Second, it is shown that determination of the generating functions and the transformation itself for given generating function is possible by solving correspondent Pfaffian differential equations. Generating functions of type are introduced and all of them are listed. Infinitesimal canonical transformations are also discussed as the complementary subject. Finally, it is shown that decomposition of canonical transformations is also possible in three-dimensional phase spaces as in the usual two-dimensional ones.

  15. Structure of the Lithosphere-Asthenosphere Boundary Onshore and Offshore the California Continental Margin from Three-Dimensional Seismic Anisotropy

    Science.gov (United States)

    Gomez, C. D.; Escobar, L., Sr.; Rathnayaka, S.; Weeraratne, D. S.; Kohler, M. D.

    2016-12-01

    The California continental margin, a major transform plate boundary in continental North America, is the locus of complex tectonic stress fields that are important in interpreting both remnant and ongoing deformational strain. Ancient subduction of the East Pacific Rise spreading center, the rotation and translation of tectonic blocks and inception of the San Andreas fault all contribute to the dynamic stress fields located both onshore and offshore southern California. Data obtained by the ALBACORE (Asthenospheric and Lithospheric Broadband Architecture from the California Offshore Region Experiment) and the CISN (California Integrated Seismic Network) seismic array are analyzed for azimuthal anisotropy of Rayleigh waves from 80 teleseismic events at periods 16 - 78 s. Here we invert Rayleigh wave data for shear wave velocity structure and three-dimensional seismic anisotropy in the thee regions designated within the continental margin including the continent, seafloor and California Borderlands. Preliminary results show that seismic anisotropy is resolved in multiple layers and can be used to determine the lithosphere-asthenosphere boundary (LAB) in offshore and continental regions. The oldest seafloor in our study at age 25-35 Ma indicates that the anisotropic transition across the LAB occurs at 73 km +/- 25 km with the lithospheric fast direction oriented WNW-ESE, consistent with current Pacific plate motion direction. The continent region west of the San Andreas indicates similar WNW-ESE anisotropy and LAB depth. Regions east of the San Andreas fault indicate NW-SE anisotropy transitioning to a N-S alignment at 80 km depth north of the Garlock fault. The youngest seafloor (15 - 25 Ma) and outer Borderlands indicate a more complex three layer fabric where shallow lithospheric NE-SW fast directions are perpendicular with ancient Farallon subduction arc, a mid-layer with E-W fast directions are perpendicular to remnant fossil fabric, and the deepest layer

  16. Three-dimensional Upper Crustal Velocity and Attenuation Structures of the Central Tibetan Plateau from Local Earthquake Tomography

    Science.gov (United States)

    Zhou, B.; Liang, X.; Lin, G.; Tian, X.; Zhu, G.; Mechie, J.; Teng, J.

    2017-12-01

    A series of V-shaped conjugate strike-slip faults are the most spectacular geologic features in the central Tibetan plateau. A previous study suggested that this conjugate strike-slip fault system accommodates the east-west extension and coeval north-south contraction. Another previous study suggested that the continuous convergence between the Indian and Eurasian continents and the eastward asthenospheric flow generated lithospheric paired general-shear (PGS) deformation, which then caused the development of conjugate strike-slip faults in central Tibet. Local seismic tomography can image three dimensional upper-crustal velocity and attenuation structures in central Tibet, which will provide us with more information about the spatial distribution of physical properties and compositional variations around the conjugate strike-slip fault zone. Ultimately, this information could improve our understanding of the development mechanism of the conjugate strike-slip fault system. In this study, we collected 6,809 Pg and 2,929 Sg arrival times from 414 earthquakes recorded by the temporary SANDWICH and permanent CNSN networks from November 2013 to November 2015. We also included 300 P and 17 S arrival times from 12 shots recorded by the INDEPTH III project during the summer of 1998 in the velocity tomography. We inverted for preliminary Vp and Vp/Vs models using the SIMUL2000 tomography algorithm, and then relocated the earthquakes with these preliminary velocity models. After that, we inverted for the final velocity models with these improved source locations and origin times. After the velocity inversion, we performed local attenuation tomography using t* measurements from the same dataset with an already existing approach. There are correlated features in the velocity and attenuation structures. From the surface to 10 km depth, the study area is dominated by high Vp and Qp anomalies. However, from 10 km to 20 km depth, there is a low Vp and Qp zone distributed along the

  17. Feasibility of in vivo three-dimensional T 2* mapping using dicarboxy-PROXYL and CW-EPR-based single-point imaging.

    Science.gov (United States)

    Kubota, Harue; Komarov, Denis A; Yasui, Hironobu; Matsumoto, Shingo; Inanami, Osamu; Kirilyuk, Igor A; Khramtsov, Valery V; Hirata, Hiroshi

    2017-06-01

    The aim of this study was to demonstrate the feasibility of in vivo three-dimensional (3D) relaxation time T 2 * mapping of a dicarboxy-PROXYL radical using continuous-wave electron paramagnetic resonance (CW-EPR) imaging. Isotopically substituted dicarboxy-PROXYL radicals, 3,4-dicarboxy-2,2,5,5-tetra( 2 H 3 )methylpyrrolidin-(3,4- 2 H 2 )-(1- 15 N)-1-oxyl ( 2 H, 15 N-DCP) and 3,4-dicarboxy-2,2,5,5-tetra( 2 H 3 )methylpyrrolidin-(3,4- 2 H 2 )-1-oxyl ( 2 H-DCP), were used in the study. A clonogenic cell survival assay was performed with the 2 H-DCP radical using squamous cell carcinoma (SCC VII) cells. The time course of EPR signal intensities of intravenously injected 2 H, 15 N-DCP and 2 H-DCP radicals were determined in tumor-bearing hind legs of mice (C3H/HeJ, male, n = 5). CW-EPR-based single-point imaging (SPI) was performed for 3D T 2 * mapping. 2 H-DCP radical did not exhibit cytotoxicity at concentrations below 10 mM. The in vivo half-life of 2 H, 15 N-DCP in tumor tissues was 24.7 ± 2.9 min (mean ± standard deviation [SD], n = 5). The in vivo time course of the EPR signal intensity of the 2 H, 15 N-DCP radical showed a plateau of 10.2 ± 1.2 min (mean ± SD) where the EPR signal intensity remained at more than 90% of the maximum intensity. During the plateau, in vivo 3D T 2 * maps with 2 H, 15 N-DCP were obtained from tumor-bearing hind legs, with a total acquisition time of 7.5 min. EPR signals of 2 H, 15 N-DCP persisted long enough after bolus intravenous injection to conduct in vivo 3D T 2 * mapping with CW-EPR-based SPI.

  18. Dynamics and Structure of Three-Dimensional Trans-Alfvenic Jets. II. The Effect of Density and Winds

    OpenAIRE

    Hardee, Philip; Rosen, Alexander

    2002-01-01

    Two three-dimensional magnetohydrodynamical simulations of strongly magnetized conical jets, one with a poloidal and one with a helical magnetic field, have been performed. In the poloidal simulation a significant sheath (wind) of magnetized moving material developed and partially stabilized the jet to helical twisting. The fundamental pinch mode was not similarly affected and emission knots developed in the poloidal simulation. Thus, astrophysical jets surrounded by outflowing winds could de...

  19. Three-dimensional quantitative structure-activity relationships and docking studies of some structurally diverse flavonoids and design of new aldose reductase inhibitors

    Directory of Open Access Journals (Sweden)

    Utpal Chandra De

    2015-01-01

    Full Text Available Aldose reductase (AR plays an important role in the development of several long-term diabetic complications. Inhibition of AR activities is a strategy for controlling complications arising from chronic diabetes. Several AR inhibitors have been reported in the literature. Flavonoid type compounds are shown to have significant AR inhibition. The objective of this study was to perform a computational work to get an idea about structural insight of flavonoid type compounds for developing as well as for searching new flavonoid based AR inhibitors. The data-set comprising 68 flavones along with their pIC 50 values ranging from 0.44 to 4.59 have been collected from literature. Structure of all the flavonoids were drawn in Chembiodraw Ultra 11.0, converted into corresponding three-dimensional structure, saved as mole file and then imported to maestro project table. Imported ligands were prepared using LigPrep option of maestro 9.6 version. Three-dimensional quantitative structure-activity relationships and docking studies were performed with appropriate options of maestro 9.6 version installed in HP Z820 workstation with CentOS 6.3 (Linux. A model with partial least squares factor 5, standard deviation 0.2482, R 2 = 0.9502 and variance ratio of regression 122 has been found as the best statistical model.

  20. Equilibrium: three-dimensional configurations

    International Nuclear Information System (INIS)

    Anon.

    1987-01-01

    This chapter considers toroidal MHD configurations that are inherently three-dimensional. The motivation for investigation such complicated equilibria is that they possess the potential for providing toroidal confinement without the need of a net toroidal current. This leads to a number of advantages with respect to fusion power generation. First, the attractive feature of steady-state operation becomes more feasible since such configurations no longer require a toroidal current transformer. Second, with zero net current, one potentially dangerous class of MHD instabilities, the current-driven kink modes, is eliminated. Finally, three-dimensional configurations possess nondegenerate flux surfaces even in the absence of plasma pressure and plasma current. Although there is an enormous range of possible three-dimensional equilibria, the configurations of interest are accurately described as axisymmetric tori with superimposed helical fields; furthermore, they possess no net toroidal current. Instead, two different and less obvious restoring forces are developed: the helical sideband force and the toroidal dipole current force. Each is discussed in detail in Chapter 7. A detailed discussion of the parallel current constraint, including its physical significance, is given in section 7.2. A general analysis of helical sideband equilibria, along with a detailed description of the Elmo bumpy torus, is presented in sections 7.3 and 7.4. A general description of toroidal dipole-current equilibria, including a detailed discussion of stellarators, heliotrons, and torsatrons, is given in sections 7.5 and 7.6

  1. Fabrication of triple-layered bifurcated vascular scaffold with a certain degree of three-dimensional structure

    Science.gov (United States)

    Liu, Yuanyuan; Jiang, Weijian; Yang, Yang; Pu, Huayan; Peng, Yan; Xin, Liming; Zhang, Yi; Sun, Yu

    2018-01-01

    Constructing vascular scaffolds is important in tissue engineering. However, scaffolds with characteristics such as multiple layers and a certain degree of spatial morphology still cannot be readily constructed by current vascular scaffolds fabrication techniques. This paper presents a three-layered bifurcated vascular scaffold with a curved structure. The technique combines 3D printed molds and casting hydrogel and fugitive ink to create vessel-mimicking constructs with customizable structural parameters. Compared with other fabrication methods, the technique can create more native-like 3D geometries. The diameter and wall thickness of the fabricated constructs can be independently controlled, providing a feasible approach for vascular scaffold construction. Enzymatically-crosslinked gelatin was used as the scaffold material. The morphology and mechanical properties were evaluated. Human umbilical cord derived endothelial cells (HUVECs) were seeded on the scaffolds and cultured for 72 h. Cell viability and morphology were assessed. The results showed that the proposed process had good application potentials, and will hopefully provide a feasible approach for constructing vascular scaffolds.

  2. The structure of a three-dimensional boundary layer subjected to streamwise-varying spanwise-homogeneous pressure gradient

    International Nuclear Information System (INIS)

    Bentaleb, Y.; Leschziner, M.A.

    2013-01-01

    Highlights: • We study a spatially-evolving three-dimensional boundary layer. • We impose a streamwise-varying spanwise-homogeneous pressure gradient. • A collateral flow is formed close to the wall, and this is investigated alongside the skewed upper part of the boundary layer. • A wide range of flow-physical properties have been studied. -- Abstract: A spatially-evolving three-dimensional boundary layer, subjected to a streamwise-varying spanwise-homogeneous pressure gradient, equivalent to a body force, is investigated by way of direct numerical simulation. The pressure gradient, prescribed to change its sign half-way along the boundary layer, provokes strong skewing of the velocity vector, with a layer of nearly collateral flow forming close to the wall up to the position of maximum spanwise velocity. A wide range of flow-physical properties have been studied, with particular emphasis on the near-wall layer, including second-moments, major budget contributions and wall-normal two-point correlations of velocity fluctuations and their angles, relative to wall-shear fluctuations. The results illustrate the complexity caused by skewing, including a damping in turbulent mixing and a significant lag between strains and stresses. The study has been undertaken in the context of efforts to develop and test novel hybrid LES–RANS schemes for non-equilibrium near-wall flows, with an emphasis on three-dimensional near-wall straining. Fundamental flow-physical issues aside, the data derived should be of particular relevance to a priori studies of second-moment RANS closure and the development and validation of RANS-type near-wall approximations implemented in LES schemes for high-Reynolds-number complex flows

  3. Structural characterization of self-assembled semiconductor islands by three-dimensional X-ray diffraction mapping in reciprocal space

    International Nuclear Information System (INIS)

    Holy, V.; Mundboth, K.; Mokuta, C.; Metzger, T.H.; Stangl, J.; Bauer, G.; Boeck, T.; Schmidbauer, M.

    2008-01-01

    For the first time self-organized epitaxially grown semiconductor islands were investigated by a full three-dimensional mapping of the scattered X-ray intensity in reciprocal space. Intensity distributions were measured in a coplanar diffraction geometry around symmetric and asymmetric Bragg reflections. The 3D intensity maps were compared with theoretical simulations based on continuum-elasticity simulations of internal strains in the islands and on kinematical scattering theory whereby local chemical composition and strain profiles of the islands were retrieved

  4. Three-dimensional structure of Wza, the protein required for translocation of group 1 capsular polysaccharide across the outer membrane of Escherichia coli.

    Science.gov (United States)

    Beis, Konstantinos; Collins, Richard F; Ford, Robert C; Kamis, Alhaji B; Whitfield, Chris; Naismith, James H

    2004-07-02

    Wza is a highly conserved multimeric outer membrane protein complex required for the surface expression of the serotype K30 group 1 capsular polysaccharide in Escherichia coli. Here we present the first three-dimensional structure of this type of polysaccharide exporter at a 15.5-A resolution obtained using single particle averaging on a dataset of cryo-negatively stained protein. Previous structural studies on purified Wza have revealed a homo-oligomeric ring structure that is most probably composed of eight subunits. Symmetry analysis of the three-dimensional structure combined with biochemical two- and three-dimensional crystallographic data strongly suggest that Wza is an octameric complex with a C4 quasi-rotational symmetry and is organized as a tetramer of dimeric subunits. Wza is best described as a stack of two 4-A high rings with differing diameters providing a mushroom-like aspect from the side. The larger ring has a distinctive square shape with a diameter of 115 A, whereas the smaller is almost circular with a diameter of 90 A. In the center of the complex and enclosed by the four symmetrical arms is a small elliptical cagelike cavity of approximately 40 A in diameter. The central cavity is effectively sealed at the top and bottom of the complex but has small inter-arm holes when viewed from the side. We discuss the structure of this complex and implications in the surface translocation of cell-surface polysaccharide.

  5. Comparing the Microsoft Kinect to a traditional mouse for adjusting the viewed tissue densities of three-dimensional anatomical structures

    Science.gov (United States)

    Juhnke, Bethany; Berron, Monica; Philip, Adriana; Williams, Jordan; Holub, Joseph; Winer, Eliot

    2013-03-01

    Advancements in medical image visualization in recent years have enabled three-dimensional (3D) medical images to be volume-rendered from magnetic resonance imaging (MRI) and computed tomography (CT) scans. Medical data is crucial for patient diagnosis and medical education, and analyzing these three-dimensional models rather than two-dimensional (2D) slices would enable more efficient analysis by surgeons and physicians, especially non-radiologists. An interaction device that is intuitive, robust, and easily learned is necessary to integrate 3D modeling software into the medical community. The keyboard and mouse configuration does not readily manipulate 3D models because these traditional interface devices function within two degrees of freedom, not the six degrees of freedom presented in three dimensions. Using a familiar, commercial-off-the-shelf (COTS) device for interaction would minimize training time and enable maximum usability with 3D medical images. Multiple techniques are available to manipulate 3D medical images and provide doctors more innovative ways of visualizing patient data. One such example is windowing. Windowing is used to adjust the viewed tissue density of digital medical data. A software platform available at the Virtual Reality Applications Center (VRAC), named Isis, was used to visualize and interact with the 3D representations of medical data. In this paper, we present the methodology and results of a user study that examined the usability of windowing 3D medical imaging using a Kinect™ device compared to a traditional mouse.

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

    Science.gov (United States)

    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.

  7. Feasibility of three-dimensional ultrashort echo time magnetic resonance imaging at 1.5 T for the diagnosis of skull fractures

    Energy Technology Data Exchange (ETDEWEB)

    Wu, Hao; Zhong, Yu-min; Zhang, Hong; Lin, Yi; Zhu, Ming [Shanghai Jiao Tong University School of Medicine, Department of Radiology, Shanghai Children' s Medical Center, Shanghai (China); Nie, Quan-min; Guo, Lie-mei; Yang, Xi [Shanghai Jiao Tong University School of Medicine, Department of Neurosurgery Ren Ji Hospital, Shanghai (China); Chen, Wei-bo; Dai, Yong-ming [Philips Healthcare, Shanghai (China); Xu, Jian-rong [Shanghai Jiao Tong University School of Medicine, Department of Radiology, Ren Ji Hospital, Shanghai (China)

    2016-01-15

    To investigate the feasibility of ultrashort echo time (UTE) magnetic resonance imaging (MRI) for the diagnosis of skull fractures. The skull fracture models of ten Bama pigs and 364 patients with craniocerebral trauma were subjected to computed tomography (CT), UTE and conventional MRI sequences. The accuracy of UTE imaging in skull fracture diagnosis was analysed using receiver operating characteristic (ROC) curve analysis, McNemar's test and Kappa values. Differences among CT, UTE imaging and anatomical measurement (AM) values for linear fractures (LFs) and depressed fractures (DFs) were compared using one-way ANOVA and a paired-samples t-test. UTE imaging clearly demonstrated skull structures and fractures. The accuracy, validity and reliability of UTE MRI were excellent, with no significant differences between expert readings (P > 0.05; Kappa, 0.899). The values obtained for 42 LFs and 13 DFs in the ten specimens were not significantly different among CT, UTE MRI and AMs, while those obtained for 55 LFs and ten DFs in 44 patients were not significantly different between CT and UTE MRI (P > 0.05). UTE MRI sequences are feasible for the evaluation of skull structures and fractures, with no radiation exposure, particularly for paediatric and pregnant patients. (orig.)

  8. Determination of Three-Dimensional Morphology and Inner Structure of Second-Phase Inclusions in Metals by Non-Aqueous Solution Electrolytic and Room Temperature Organic Methods

    OpenAIRE

    Jing Guo; Keming Fang; Hanjie Guo; Yiwa Luo; Shengchao Duan; Xiao Shi; Wensheng Yang

    2018-01-01

    The secondary-phase particles in metals, particularly those composed of non-metallic materials, are often detrimental to the mechanical properties of metals; thus, it is crucial to control inclusion formation and growth. One of the challenges is determining the three-dimensional morphology and inner structures of such inclusions. In this study, a non-aqueous solution electrolytic method and a room-temperature organic technique were developed based on the principle of electrochemistry to deter...

  9. Elastocapillary fabrication of three-dimensional microstructures

    NARCIS (Netherlands)

    van Honschoten, J.W.; Berenschot, Johan W.; Ondarcuhu, T.; Sanders, Remco G.P.; Sundaram, J.; Elwenspoek, Michael Curt; Tas, Niels Roelof

    2010-01-01

    We describe the fabrication of three-dimensional microstructures by means of capillary forces. Using an origami-like technique, planar silicon nitride structures of various geometries are folded to produce three-dimensional objects of 50–100 m. Capillarity is a particularly effective mechanism since

  10. Analyses of magnetic structures and nuclear-density distribution by the structure-refinement and three-dimensional visualization systems RIETAN-FP-VENUS

    International Nuclear Information System (INIS)

    Izumi, Fujio; Momma, Koichi

    2010-01-01

    We have been developing a multi-purpose pattern-fitting system RIETAN-FP and a three-dimensional visualization system VENUS, which have been extensively used for structure refinements of various metal and inorganic materials from neutron powder diffraction data. At first, their outlines and the history of their developments are shortly looked back. The second part describes procedures for analyzing collinear magnetic structures with the combination of VESTA in the VENUS system and RIETAN-FP by taking BiCoO 3 for instance. Finally, a new C++ program, Dysnomia, for the maximum entropy method is introduced with emphasis on its new features. Dysnomia excels its predecessor, PRIMA, in computation speed, memory efficiency, scalability, and reliability. In particular, addition of a normal-distribution constraint is effective in obtaining nuclear-density distribution that is physically and chemically reasonable. (author)

  11. Experimental observations of the three-dimensional wake structures and dynamics generated by a rigid, bioinspired pitching panel

    Science.gov (United States)

    King, Justin T.; Kumar, Rajeev; Green, Melissa A.

    2018-03-01

    The effects of changing Strouhal number on the three-dimensional wake produced by a rigid, bioinspired trapezoidal pitching panel are analyzed through the use of stereoscopic particle image velocimetry over a Strouhal number range of 0.17-0.56. The results show that for all cases, at least some section of the wake comprises an alternating series of interacting vortex rings. The behavior of the flows induced by these vortex rings is consistent with the wake phenomena of spanwise compression and transverse expansion. Increases in Strouhal number correspond to an increased rate of spanwise compression, a greater amount of transverse expansion, and the movement of the location of wake breakdown onset upstream.

  12. Three-Dimensional Flows

    CERN Document Server

    Araujo, Vitor; Viana, Marcelo

    2010-01-01

    In this book, the authors present the elements of a general theory for flows on three-dimensional compact boundaryless manifolds, encompassing flows with equilibria accumulated by regular orbits. The book aims to provide a global perspective of this theory and make it easier for the reader to digest the growing literature on this subject. This is not the first book on the subject of dynamical systems, but there are distinct aspects which together make this book unique. Firstly, this book treats mostly continuous time dynamical systems, instead of its discrete counterpart, exhaustively treated

  13. Three dimensional system integration

    CERN Document Server

    Papanikolaou, Antonis; Radojcic, Riko

    2010-01-01

    Three-dimensional (3D) integrated circuit (IC) stacking is the next big step in electronic system integration. It enables packing more functionality, as well as integration of heterogeneous materials, devices, and signals, in the same space (volume). This results in consumer electronics (e.g., mobile, handheld devices) which can run more powerful applications, such as full-length movies and 3D games, with longer battery life. This technology is so promising that it is expected to be a mainstream technology a few years from now, less than 10-15 years from its original conception. To achieve thi

  14. Butterfly Wings Are Three-Dimensional: Pupal Cuticle Focal Spots and Their Associated Structures in Junonia Butterflies.

    Science.gov (United States)

    Taira, Wataru; Otaki, Joji M

    2016-01-01

    Butterfly wing color patterns often contain eyespots, which are developmentally determined at the late larval and early pupal stages by organizing activities of focal cells that can later form eyespot foci. In the pupal stage, the focal position of a future eyespot is often marked by a focal spot, one of the pupal cuticle spots, on the pupal surface. Here, we examined the possible relationships of the pupal focal spots with the underneath pupal wing tissues and with the adult wing eyespots using Junonia butterflies. Large pupal focal spots were found in two species with large adult eyespots, J. orithya and J. almana, whereas only small pupal focal spots were found in a species with small adult eyespots, J. hedonia. The size of five pupal focal spots on a single wing was correlated with the size of the corresponding adult eyespots in J. orithya. A pupal focal spot was a three-dimensional bulge of cuticle surface, and the underside of the major pupal focal spot exhibited a hollowed cuticle in a pupal case. Cross sections of a pupal wing revealed that the cuticle layer shows a curvature at a focal spot, and a positional correlation was observed between the cuticle layer thickness and its corresponding cell layer thickness. Adult major eyespots of J. orithya and J. almana exhibited surface elevations and depressions that approximately correspond to the coloration within an eyespot. Our results suggest that a pupal focal spot is produced by the organizing activity of focal cells underneath the focal spot. Probably because the focal cell layer immediately underneath a focal spot is thicker than that of its surrounding areas, eyespots of adult butterfly wings are three-dimensionally constructed. The color-height relationship in adult eyespots might have an implication in the developmental signaling for determining the eyespot color patterns.

  15. Butterfly Wings Are Three-Dimensional: Pupal Cuticle Focal Spots and Their Associated Structures in Junonia Butterflies.

    Directory of Open Access Journals (Sweden)

    Wataru Taira

    Full Text Available Butterfly wing color patterns often contain eyespots, which are developmentally determined at the late larval and early pupal stages by organizing activities of focal cells that can later form eyespot foci. In the pupal stage, the focal position of a future eyespot is often marked by a focal spot, one of the pupal cuticle spots, on the pupal surface. Here, we examined the possible relationships of the pupal focal spots with the underneath pupal wing tissues and with the adult wing eyespots using Junonia butterflies. Large pupal focal spots were found in two species with large adult eyespots, J. orithya and J. almana, whereas only small pupal focal spots were found in a species with small adult eyespots, J. hedonia. The size of five pupal focal spots on a single wing was correlated with the size of the corresponding adult eyespots in J. orithya. A pupal focal spot was a three-dimensional bulge of cuticle surface, and the underside of the major pupal focal spot exhibited a hollowed cuticle in a pupal case. Cross sections of a pupal wing revealed that the cuticle layer shows a curvature at a focal spot, and a positional correlation was observed between the cuticle layer thickness and its corresponding cell layer thickness. Adult major eyespots of J. orithya and J. almana exhibited surface elevations and depressions that approximately correspond to the coloration within an eyespot. Our results suggest that a pupal focal spot is produced by the organizing activity of focal cells underneath the focal spot. Probably because the focal cell layer immediately underneath a focal spot is thicker than that of its surrounding areas, eyespots of adult butterfly wings are three-dimensionally constructed. The color-height relationship in adult eyespots might have an implication in the developmental signaling for determining the eyespot color patterns.

  16. Biomimetic fabrication and tunable wetting properties of three-dimensional hierarchical ZnO structures by combining soft lithography templated with lotus leaf and hydrothermal treatments

    OpenAIRE

    Dai, Shuxi; Zhang, Dianbo; Shi, Qing; Han, Xiao; Wang, Shujie; Du, Zuliang

    2013-01-01

    Three-dimensional hierarchical ZnO films with lotus-leaf-like micro/nano structures were successfully fabricated via a biomimetic route combining sol-gel technique, soft lithography and hydrothermal treatments. PDMS mold replicated from a fresh lotus leaf was used to imprint microscale pillar structures directly into a ZnO sol film. Hierarchical ZnO micro/nano structures were subsequently fabricated by a low-temperature hydrothermal growth of secondary ZnO nanorod arrays on the micro-structur...

  17. Three Dimensional Dirac Semimetals

    Science.gov (United States)

    Zaheer, Saad

    2014-03-01

    Dirac points on the Fermi surface of two dimensional graphene are responsible for its unique electronic behavior. One can ask whether any three dimensional materials support similar pseudorelativistic physics in their bulk electronic spectra. This possibility has been investigated theoretically and is now supported by two successful experimental demonstrations reported during the last year. In this talk, I will summarize the various ways in which Dirac semimetals can be realized in three dimensions with primary focus on a specific theory developed on the basis of representations of crystal spacegroups. A three dimensional Dirac (Weyl) semimetal can appear in the presence (absence) of inversion symmetry by tuning parameters to the phase boundary separating a bulk insulating and a topological insulating phase. More generally, we find that specific rules governing crystal symmetry representations of electrons with spin lead to robust Dirac points at high symmetry points in the Brillouin zone. Combining these rules with microscopic considerations identifies six candidate Dirac semimetals. Another method towards engineering Dirac semimetals involves combining crystal symmetry and band inversion. Several candidate materials have been proposed utilizing this mechanism and one of the candidates has been successfully demonstrated as a Dirac semimetal in two independent experiments. Work carried out in collaboration with: Julia A. Steinberg, Steve M. Young, J.C.Y. Teo, C.L. Kane, E.J. Mele and Andrew M. Rappe.

  18. Fully automated reconstruction of three-dimensional vascular tree structures from two orthogonal views using computational algorithms and productionrules

    Science.gov (United States)

    Liu, Iching; Sun, Ying

    1992-10-01

    A system for reconstructing 3-D vascular structure from two orthogonally projected images is presented. The formidable problem of matching segments between two views is solved using knowledge of the epipolar constraint and the similarity of segment geometry and connectivity. The knowledge is represented in a rule-based system, which also controls the operation of several computational algorithms for tracking segments in each image, representing 2-D segments with directed graphs, and reconstructing 3-D segments from matching 2-D segment pairs. Uncertain reasoning governs the interaction between segmentation and matching; it also provides a framework for resolving the matching ambiguities in an iterative way. The system was implemented in the C language and the C Language Integrated Production System (CLIPS) expert system shell. Using video images of a tree model, the standard deviation of reconstructed centerlines was estimated to be 0.8 mm (1.7 mm) when the view direction was parallel (perpendicular) to the epipolar plane. Feasibility of clinical use was shown using x-ray angiograms of a human chest phantom. The correspondence of vessel segments between two views was accurate. Computational time for the entire reconstruction process was under 30 s on a workstation. A fully automated system for two-view reconstruction that does not require the a priori knowledge of vascular anatomy is demonstrated.

  19. Three-dimensional Printing and 3D Slicer: Powerful Tools in Understanding and Treating Structural Lung Disease.

    Science.gov (United States)

    Cheng, George Z; San Jose Estepar, Raul; Folch, Erik; Onieva, Jorge; Gangadharan, Sidhu; Majid, Adnan

    2016-05-01

    Recent advances in the three-dimensional (3D) printing industry have enabled clinicians to explore the use of 3D printing in preprocedural planning, biomedical tissue modeling, and direct implantable device manufacturing. Despite the increased adoption of rapid prototyping and additive manufacturing techniques in the health-care field, many physicians lack the technical skill set to use this exciting and useful technology. Additionally, the growth in the 3D printing sector brings an ever-increasing number of 3D printers and printable materials. Therefore, it is important for clinicians to keep abreast of this rapidly developing field in order to benefit. In this Ahead of the Curve, we review the history of 3D printing from its inception to the most recent biomedical applications. Additionally, we will address some of the major barriers to wider adoption of the technology in the medical field. Finally, we will provide an initial guide to 3D modeling and printing by demonstrating how to design a personalized airway prosthesis via 3D Slicer. We hope this information will reduce the barriers to use and increase clinician participation in the 3D printing health-care sector. Copyright © 2016 American College of Chest Physicians. Published by Elsevier Inc. All rights reserved.

  20. Three-dimensional vertical Si nanowire MOS capacitor model structure for the study of electrical versus geometrical Si nanowire characteristics

    Science.gov (United States)

    Hourdakis, E.; Casanova, A.; Larrieu, G.; Nassiopoulou, A. G.

    2018-05-01

    Three-dimensional (3D) Si surface nanostructuring is interesting towards increasing the capacitance density of a metal-oxidesemiconductor (MOS) capacitor, while keeping reduced footprint for miniaturization. Si nanowires (SiNWs) can be used in this respect. With the aim of understanding the electrical versus geometrical characteristics of such capacitors, we fabricated and studied a MOS capacitor with highly ordered arrays of vertical Si nanowires of different lengths and thermal silicon oxide dielectric, in comparison to similar flat MOS capacitors. The high homogeneity and ordering of the SiNWs allowed the determination of the single SiNW capacitance and intrinsic series resistance, as well as other electrical characteristics (density of interface states, flat-band voltage and leakage current) in relation to the geometrical characteristics of the SiNWs. The SiNW capacitors demonstrated increased capacitance density compared to the flat case, while maintaining a cutoff frequency above 1 MHz, much higher than in other reports in the literature. Finally, our model system has been shown to constitute an excellent platform for the study of SiNW capacitors with either grown or deposited dielectrics, as for example high-k dielectrics for further increasing the capacitance density. This will be the subject of future work.

  1. Determination of the real structure of artificial and natural opals on the basis of three-dimensional reconstructions of reciprocal space

    Science.gov (United States)

    Eliseev, A. A.; Gorozhankin, D. F.; Napolskii, K. S.; Petukhov, A. V.; Sapoletova, N. A.; Vasilieva, A. V.; Grigoryeva, N. A.; Mistonov, A. A.; Byelov, D. V.; Bouwman, W. G.; Kvashnina, K. O.; Chernyshov, D. Yu.; Bosak, A. A.; Grigoriev, S. V.

    2009-10-01

    The distribution of the scattering intensity in the reciprocal space for natural and artificial opals has been reconstructed from a set of small-angle X-ray diffraction patterns. The resulting three-dimensional intensity maps are used to analyze the defect structure of opals. The structure of artificial opals can be satisfactorily described in the Wilson probability model with the prevalence of layers in the fcc environment. The diffraction patterns observed for a natural opal confirm the presence of sufficiently long unequally occupied fcc domains.

  2. Three dimensional MEMS supercapacitors

    Energy Technology Data Exchange (ETDEWEB)

    Sun, Wei

    2011-10-15

    The overall objective of this research is to achieve compact supercapacitors with high capacitance, large power density, and long cycle life for using as micro power sources to drive low power devices and sensors. The main shortcoming of supercapacitors as a power source is that its energy density typically is about 1/10 of that of batteries. To achieve compact supercapacitors of large energy density, supercapacitors must be developed with high capacitance and power density which are mainly depended on the effective surface area of the electrodes of the supercapacitors. Many studies have been done to increase the effective surface area by modifying the electrode materials, however, much less investigations are focus on machining the electrodes. In my thesis work, micro- and nano-technologies are applied as technology approaches for machining the electrodes with three dimensional (3D) microstructures. More specific, Micro-electro-mechanical system (MEMS) fabrication process flow, which integrates the key process such as LIGA-like (German acronym for Lithographie, Galvanoformung, Abformung, which mean Lithography, Electroplating and Molding) technology or DRIE (deep reactive ion etching), has been developed to enable innovative designs of 3D MEMS supercapacitors which own the electrodes of significantly increased geometric area. Two types of 3D MEMS supercapcitors, based on LIGA-like and DRIE technology respectively, were designed and successfully created. The LIGA-like based 3D MEMS supercapacitor is with an interdigital 3D structure, and consists of silicon substrate, two electroplated nickel current collectors, two PPy (poly pyrrole) electrodes, and solid state electrolyte. The fabrication process flow developed includes the flowing key processes, SU-8 lithography, nickel electroplating, PPy polymerization and solid state electrolyte coating. Electrochemical tests showed that the single electrode of the supercapacitor has the specific capacitance of 0.058 F cm-2

  3. The Nanoscale Observation of the Three-Dimensional Structures of Neurosynapses, Membranous Conjunctions Between Cultured Hippocampal Neurons and Their Significance in the Development of Epilepsy.

    Science.gov (United States)

    Sun, Lan; Jiang, Shuang; Tang, Xianhua; Zhang, Yingge; Qin, Luye; Jiang, Xia; Yu, Albert Cheung Hoi

    2016-12-01

    The nanoscale three-dimensional structures of neurosynapses are unknown, and the neuroanatomical basis of epilepsy remains to be elucidated. Here, we studied the nanoscale three-dimensional synapses between hippocampal neurons, and membranous conjunctions between neurons were found with atomic force microscopy (AFM) and confirmed by transmission electron microscope (TEM), and their pathophysiological significance was primarily investigated. The neurons and dendrites were marked by MAP-2, axons by neurofilament 200, and synapses by synapsin I immunological staining. In the synapsin I-positive neurite ends of the neurons positively stained with MAP-2 and neurofilament 200, neurosynapses with various nanoscale morphology and structure could be found by AFM. The neurosynapses had typical three-dimensional structures of synaptic triplet including the presynaptic neurite end, synaptic cleft of 30 ∼ 40 in chemical synapses and 2 ∼ 6 nm in electrical ones, the postsynaptic neurite or dendrite spine, the typical neurite end button, the distinct pre- and postsynaptic membranes, and the obvious thickening of the postsynaptic membranes or neurites. Some membranous connections including membrane-like junctions (MLJ) and fiber-tube links (FTL) without triplet structures and cleft were found between neurons. The development frequencies of the two membranous conjunctions increased while those of the synaptic conjunctions decreased between the neurons from Otx1 knock-out mice in comparison with those between the neurons from normal mice. These results suggested that the neuroanatomical basis of Otx1 knock-out epilepsy is the combination of the decreased synaptic conjunctions and the increased membranous conjunctions.

  4. Development of a High-Order Navier-Stokes Solver Using Flux Reconstruction to Simulate Three-Dimensional Vortex Structures in a Curved Artery Model

    Science.gov (United States)

    Cox, Christopher

    Low-order numerical methods are widespread in academic solvers and ubiquitous in industrial solvers due to their robustness and usability. High-order methods are less robust and more complicated to implement; however, they exhibit low numerical dissipation and have the potential to improve the accuracy of flow simulations at a lower computational cost when compared to low-order methods. This motivates our development of a high-order compact method using Huynh's flux reconstruction scheme for solving unsteady incompressible flow on unstructured grids. We use Chorin's classic artificial compressibility formulation with dual time stepping to solve unsteady flow problems. In 2D, an implicit non-linear lower-upper symmetric Gauss-Seidel scheme with backward Euler discretization is used to efficiently march the solution in pseudo time, while a second-order backward Euler discretization is used to march in physical time. We verify and validate implementation of the high-order method coupled with our implicit time stepping scheme using both steady and unsteady incompressible flow problems. The current implicit time stepping scheme is proven effective in satisfying the divergence-free constraint on the velocity field in the artificial compressibility formulation. The high-order solver is extended to 3D and parallelized using MPI. Due to its simplicity, time marching for 3D problems is done explicitly. The feasibility of using the current implicit time stepping scheme for large scale three-dimensional problems with high-order polynomial basis still remains to be seen. We directly use the aforementioned numerical solver to simulate pulsatile flow of a Newtonian blood-analog fluid through a rigid 180-degree curved artery model. One of the most physiologically relevant forces within the cardiovascular system is the wall shear stress. This force is important because atherosclerotic regions are strongly correlated with curvature and branching in the human vasculature, where the

  5. Study of the Evolution of the Electric Structure of a Convective Cloud Using the Data of a Numerical Nonstationary Three-Dimensional Model

    Science.gov (United States)

    Veremey, N. E.; Dovgalyuk, Yu. A.; Zatevakhin, M. A.; Ignatyev, A. A.; Morozov, V. N.

    2014-04-01

    Numerical nonstationary three-dimensional model of a convective cloud with parameterized description of microphysical processes with allowance for the electrization processes is considered. The results of numerical modeling of the cloud evolution for the specified atmospheric conditions are presented. The spatio-temporal distribution of the main cloud characteristics including the volume charge density and the electric field is obtained. The calculation results show that the electric structure of the cloud is different at its various life stages, i.e., it varies from unipolar to dipolar and then to tripolar. This conclusion is in fair agreement with the field studies.

  6. A cell adhesion molecule mimetic, FGL peptide, induces alterations in synapse and dendritic spine structure in the dentate gyrus of aged rats: a three-dimensional ultrastructural study

    DEFF Research Database (Denmark)

    Popov, Victor I; Medvedev, Nikolay I; Kraev, Igor V

    2008-01-01

    pits. Three-dimensional analysis showed a significant decrease in both post-synaptic density and apposition zone curvature of mushroom spines following FGL treatment, whereas for thin spines the convexity of the apposition zone increased. These data indicate that FGL induces large changes in the fine...... 100 serial ultrathin sections. FGL affected neither hippocampal volume nor spine or synaptic density in the middle molecular layer of the dentate gyrus. However, it increased the ratio of mushroom to thin spines, number of multivesicular bodies and also increased the frequency of appearance of coated...... structure of synapses and dendritic spines in hippocampus of aged rats, complementing data showing its effect on cognitive processes....

  7. Direct correlations of structural and optical properties of three-dimensional GaN/InGaN core/shell micro-light emitting diodes

    Science.gov (United States)

    Sadat Mohajerani, Matin; Müller, Marcus; Hartmann, Jana; Zhou, Hao; Wehmann, Hergo-H.; Veit, Peter; Bertram, Frank; Christen, Jürgen; Waag, Andreas

    2016-05-01

    Three-dimensional (3D) InGaN/GaN quantum-well (QW) core-shell light emitting diodes (LEDs) are a promising candidate for the future solid state lighting. In this contribution, we study direct correlations of structural and optical properties of the core-shell LEDs using highly spatially-resolved cathodoluminescence spectroscopy (CL) in combination with scanning electron microscopy (SEM) and scanning transmission electron microscopy (STEM). Temperature-dependent resonant photoluminescence (PL) spectroscopy has been performed to understand recombination mechanisms and to estimate the internal quantum efficiency (IQE).

  8. RNA FRABASE 2.0: an advanced web-accessible database with the capacity to search the three-dimensional fragments within RNA structures

    Directory of Open Access Journals (Sweden)

    Wasik Szymon

    2010-05-01

    Full Text Available Abstract Background Recent discoveries concerning novel functions of RNA, such as RNA interference, have contributed towards the growing importance of the field. In this respect, a deeper knowledge of complex three-dimensional RNA structures is essential to understand their new biological functions. A number of bioinformatic tools have been proposed to explore two major structural databases (PDB, NDB in order to analyze various aspects of RNA tertiary structures. One of these tools is RNA FRABASE 1.0, the first web-accessible database with an engine for automatic search of 3D fragments within PDB-derived RNA structures. This search is based upon the user-defined RNA secondary structure pattern. In this paper, we present and discuss RNA FRABASE 2.0. This second version of the system represents a major extension of this tool in terms of providing new data and a wide spectrum of novel functionalities. An intuitionally operated web server platform enables very fast user-tailored search of three-dimensional RNA fragments, their multi-parameter conformational analysis and visualization. Description RNA FRABASE 2.0 has stored information on 1565 PDB-deposited RNA structures, including all NMR models. The RNA FRABASE 2.0 search engine algorithms operate on the database of the RNA sequences and the new library of RNA secondary structures, coded in the dot-bracket format extended to hold multi-stranded structures and to cover residues whose coordinates are missing in the PDB files. The library of RNA secondary structures (and their graphics is made available. A high level of efficiency of the 3D search has been achieved by introducing novel tools to formulate advanced searching patterns and to screen highly populated tertiary structure elements. RNA FRABASE 2.0 also stores data and conformational parameters in order to provide "on the spot" structural filters to explore the three-dimensional RNA structures. An instant visualization of the 3D RNA

  9. The analysis of three-dimensional effects of nitanium palatal expander 2 and hyrax maxillary expansion appliances on craniofacial structures: A finite element study

    Directory of Open Access Journals (Sweden)

    Avinash Kumar

    2017-01-01

    Full Text Available Objectives: To analyze three-dimensional effects of stress distribution and displacement on the craniofacial structures, following the application of forces from Nitanium Palatal Expander 2 (NPE2 and Hyrax appliance in early mixed dentition period using finite element analysis. Materials and Methods: Three-dimensional finite element models of the young dried human skull, NPE2 and Hyrax were constructed, and the initial activation of the expanders was simulated to carry out the analysis and to evaluate the von misses stresses and displacement on the craniofacial structures. Results: Both the models demonstrated the highest stresses at the mid-palatal suture, with maximum posterior dislocation. The inferior nasal floor showed highest downward displacement and point A showed outward, backward, and upward displacement in both the models. The pattern of stress distribution was almost similar in both the groups, but NPE2 revealed lower magnitude stresses than Hyrax. The cusp of the erupting canine and the mesiobuccal cusp of the second molar showed outward, backward, and downward displacement signifying eruption pattern following maxillary expansion. Conclusions: Nickel titanium palatal expander-2 and Hyrax produced similar stress pattern in early mixed dentition period finite element model. We conclude from this finite element method study that NPE2 is equally effective as Hyrax when used in early mixed dentition period as it exhibits orthopedic nature of expansion with minimal residual stresses in the craniofacial structures.

  10. Three dimensional energy profile:

    International Nuclear Information System (INIS)

    Kowsari, Reza; Zerriffi, Hisham

    2011-01-01

    The provision of adequate, reliable, and affordable energy has been considered as a cornerstone of development. More than one-third of the world's population has a very limited access to modern energy services and suffers from its various negative consequences. Researchers have been exploring various dimensions of household energy use in order to design strategies to provide secure access to modern energy services. However, despite more than three decades of effort, our understanding of household energy use patterns is very limited, particularly in the context of rural regions of the developing world. Through this paper, the past and the current trends in the field of energy analysis are investigated. The literature on rural energy and energy transition in developing world has been explored and the factors affecting households' decisions on energy use are listed. The and the factors affecting households' decisions on energy use are listed. The gaps identified in the literature on rural household energy analysis provide a basis for developing an alternative model that can create a more realistic view of household energy use. The three dimensional energy profile is presented as a new conceptual model for assessment of household energy use. This framework acts as a basis for building new theoretical and empirical models of rural household energy use. - Highlights: ► Reviews literature on household energy, energy transitions and decision-making in developing countries. ► Identifies gaps in rural household energy analysis and develops a new conceptual framework. ► The 3-d energy profile provides a holistic view of household energy system characteristics. ► Illustrates the use of the framework for understanding household energy transitions.

  11. Three-dimensional echocardiography

    International Nuclear Information System (INIS)

    Buck, Thomas

    2011-01-01

    Presents tips and tricks for beginners and experts Provides educational material for 3D training courses Features comprehensively illustrated cases Includes an accompanying DVD with video clips of all sample cases Three-dimensional echocardiography is the most recent fundamental advancement in echocardiography. Since real-time 3D echocardiography became commercially available in 2002, it has rapidly been accepted in echo labs worldwide. This book covers all clinically relevant aspects of this fascinating new technology, including a comprehensive explanation of its basic principles, practical aspects of clinical application, and detailed descriptions of specific uses in the broad spectrum of clinically important heart disease. The book was written by a group of well-recognized international experts in the field, who have not only been involved in the scientific and clinical evolution of 3D echocardiography since its inception but are also intensively involved in expert training courses. As a result, the clear focus of this book is on the practical application of 3D echocardiography in daily clinical routine with tips and tricks for both beginners and experts, accompanied by more than 150 case examples comprehensively illustrated in more than 800 images and more than 500 videos provided on a DVD. In addition to an in-depth review of the most recent literature on real-time 3D echocardiography, this book represents an invaluable reference work for beginners and expert users of 3D echocardiography. - Tips and tricks for beginners and experts - Educational material for 3D training courses - Comprehensively illustrated cases - DVD with video clips of all sample cases.

  12. Multilocality and fusion rules on the generalized structure functions in two-dimensional and three-dimensional Navier-Stokes turbulence.

    Science.gov (United States)

    Gkioulekas, Eleftherios

    2016-09-01

    Using the fusion-rules hypothesis for three-dimensional and two-dimensional Navier-Stokes turbulence, we generalize a previous nonperturbative locality proof to multiple applications of the nonlinear interactions operator on generalized structure functions of velocity differences. We call this generalization of nonperturbative locality to multiple applications of the nonlinear interactions operator "multilocality." The resulting cross terms pose a new challenge requiring a new argument and the introduction of a new fusion rule that takes advantage of rotational symmetry. Our main result is that the fusion-rules hypothesis implies both locality and multilocality in both the IR and UV limits for the downscale energy cascade of three-dimensional Navier-Stokes turbulence and the downscale enstrophy cascade and inverse energy cascade of two-dimensional Navier-Stokes turbulence. We stress that these claims relate to nonperturbative locality of generalized structure functions on all orders and not the term-by-term perturbative locality of diagrammatic theories or closure models that involve only two-point correlation and response functions.

  13. Three-dimensional analysis of the magnetic structure in Hokkaido, Japan; Hokkaido no sanjigen jiki kozo kaiseki

    Energy Technology Data Exchange (ETDEWEB)

    Makino, M [Geological Survey of Japan, Tsukuba (Japan)

    1996-10-01

    The magnetic structure in Hokkaido was quantitatively analyzed by the magnetic anomaly distribution. This paper describes its characteristics. Detection of structural boundaries and 3-D analysis of double-layer structure were conducted for the regional magnetic data in a region with about 500 km square. There was not so large difference in patterns of magnetic anomaly distribution between the case that the direction of magnetization was set at 45{degree} to the west during the geomagnetic conversion according to Segawa and Oshima and the case that it was set as same as the current geomagnetic direction. The method of Blakely and Simpson was useful to detect the boundaries of magnetic structures. The structural boundaries obtained were more linear than the iso-magnetic contour lines. A new method has been conceived in which the approximation of 3-D magnetic structure analysis can be deduced, and the irregularity of magnetic basement can be determined by the repeated calculation. In practice, this method was applied to the magnetic data in the whole Hokkaido. The calculation was stably converged. It was found that the magnetic structure obtained in the Kamuikotan/Ishikari-Kitakami magnetic belt exhibited a fault structure having steep slopes accompanied by the basin structure in the western boundaries. 19 refs., 6 figs.

  14. Elastocapillary folding of three dimensional micro-structures using water pumped through the wafer via a silicon nitride tube

    NARCIS (Netherlands)

    Legrain, A.B.H.; Berenschot, Johan W.; Sanders, Remco G.P.; Ma, Kechun; Tas, Niels Roelof; Abelmann, Leon

    2011-01-01

    In this paper we present the first investigation of a batch method for folding of threedimensional micrometer-sized silicon nitride structures by capillary forces. Silicon nitride tubes have been designed and fabricated using DRIE at the center of the planar origami patterns of the structures. Water

  15. Identification, Characterization, and Three-Dimensional Structure of the Novel Circular Bacteriocin, Enterocin NKR-5-3B, from Enterococcus faecium.

    Science.gov (United States)

    Himeno, Kohei; Rosengren, K Johan; Inoue, Tomoko; Perez, Rodney H; Colgrave, Michelle L; Lee, Han Siean; Chan, Lai Y; Henriques, Sónia Troeira; Fujita, Koji; Ishibashi, Naoki; Zendo, Takeshi; Wilaipun, Pongtep; Nakayama, Jiro; Leelawatcharamas, Vichien; Jikuya, Hiroyuki; Craik, David J; Sonomoto, Kenji

    2015-08-11

    Enterocin NKR-5-3B, one of the multiple bacteriocins produced by Enterococcus faecium NKR-5-3, is a 64-amino acid novel circular bacteriocin that displays broad-spectrum antimicrobial activity. Here we report the identification, characterization, and three-dimensional nuclear magnetic resonance solution structure determination of enterocin NKR-5-3B. Enterocin NKR-5-3B is characterized by four helical segments that enclose a compact hydrophobic core, which together with its circular backbone impart high stability and structural integrity. We also report the corresponding structural gene, enkB, that encodes an 87-amino acid precursor peptide that undergoes a yet to be described enzymatic processing that involves adjacent cleavage and ligation of Leu(24) and Trp(87) to yield the mature (circular) enterocin NKR-5-3B.

  16. Polarimetric and Interferometric Synthetic Aperture Radar ; a new way to quantify three-dimensional structure of Earth and planetary surfaces

    Data.gov (United States)

    National Aeronautics and Space Administration — The PolInSAR technique is designed to greatly improve estimates of forest biomass and ecosystem 3D structure . This application is also of special interest in the...

  17. Energetic ion driven Alfven eigenmodes in Large Helical Device plasmas with three-dimensional magnetic structure and their impact on energetic ion transport

    International Nuclear Information System (INIS)

    Toi, K; Yamamoto, S; Nakajima, N; Ohdachi, S; Sakakibara, S; Osakabe, M; Murakami, S; Watanabe, K Y; Goto, M; Kawahata, K; Kolesnichenko, Ya I; Masuzaki, S; Morita, S; Narihara, K; Narushima, Y; Takeiri, Y; Tanaka, K; Tokuzawa, T; Yamada, H; Yamada, I; Yamazaki, K

    2004-01-01

    In the Large Helical Device (LHD), energetic ion driven Alfven eigenmodes (AEs) and their impact on energetic ion transport have been studied. The magnetic configuration of the LHD is three-dimensional and has negative magnetic shear over a whole plasma radius in the low beta regime. These features introduce the characteristic structures of the shear Alfven spectrum. In particular, a core-localized type of toroidicity-induced AE (TAE) is most likely because the TAE gap frequency rapidly increases towards the plasma edge. Moreover, helicity-induced AEs (HAEs) can be generated through a toroidal mode coupling as well as poloidal one in the three-dimensional configuration. The following experimental results have been obtained in LHD plasmas heated by tangential neutral beam injection: (1) observation of core-localized TAEs having odd as well as even parity, (2) eigenmode transition of the core-localized TAE to global AEs (GAEs), which phenomenon is very similar to that in a reversed shear tokamak, (3) observation of HAEs of which the frequency is about eight times higher than the TAE gap frequency, (4) enhanced radial transport/loss of energetic ions caused by bursting TAEs in a relatively high beta regime, and (5) seed formation of internal transport barriers induced by TAE-induced energetic ion transport. These results will be important and interesting information for AE physics in toroidal plasmas

  18. Evaluation of changes in left ventricular structure and function in hypertensive patients with coronary artery disease after PCI using real-time three-dimensional echocardiography.

    Science.gov (United States)

    Meng, Yanhong; Zong, Ling; Zhang, Ziteng; Han, Youdong; Wang, Yanhui

    2018-02-01

    We aimed to evaluate the changes in left ventricular structure and function in hypertensive patients with coronary artery disease before and after percutaneous coronary intervention (PCI) using real-time three-dimensional echocardiography. Two hundred and eighty hypertensive patients with coronary artery disease undergoing PCI and 120 cases who did not receive PCI in our hospital were selected as the subjects of our study. All patients were administered with routine antiplatelet, anticoagulant, lipid-lowering, antihypertensive, dilating coronary artery and other medications. The left ventricular systolic function and systolic synchrony index changes before and after subjects were treated by PCI were analyzed using three-dimensional echocardiography. At 2 days before surgery, there were no significant differences in the left ventricular end-diastolic volume, left ventricular end-systolic volume (LVESV) and ejection fraction (EF) between the two patient groups (P>0.05). At 3 months and 9 months, the two key time points after PCI, the LVESV level in the PCI group was distinctly decreased, while EF was significantly increased (P0.05); however, the parameters of time from the corresponding segment of the myocardium to the minimal systolic volume in patients in the PCI group were significantly reduced at 3 and 9 months after surgery (PPCI accurately and in real-time, which may play a significant role.

  19. Three-dimensional ICT reconstruction

    International Nuclear Information System (INIS)

    Zhang Aidong; Li Ju; Chen Fa; Sun Lingxia

    2005-01-01

    The three-dimensional ICT reconstruction method is the hot topic of recent ICT technology research. In the context, qualified visual three-dimensional ICT pictures are achieved through multi-piece two-dimensional images accumulation by, combining with thresholding method and linear interpolation. Different direction and different position images of the reconstructed pictures are got by rotation and interception respectively. The convenient and quick method is significantly instructive to more complicated three-dimensional reconstruction of ICT images. (authors)

  20. Three-dimensional ICT reconstruction

    International Nuclear Information System (INIS)

    Zhang Aidong; Li Ju; Chen Fa; Sun Lingxia

    2004-01-01

    The three-dimensional ICT reconstruction method is the hot topic of recent ICT technology research. In the context qualified visual three-dimensional ICT pictures are achieved through multi-piece two-dimensional images accumulation by order, combining with thresholding method and linear interpolation. Different direction and different position images of the reconstructed pictures are got by rotation and interception respectively. The convenient and quick method is significantly instructive to more complicated three-dimensional reconstruction of ICT images. (authors)

  1. Two and three dimensional simulation of disk-loaded travelling-wave output structures for high-power klystrons

    International Nuclear Information System (INIS)

    Eppley, K.R.

    1994-01-01

    The authors have developed algorithms for designing disk-loaded travelling-wave output structures for X-band klystrons to be used in the SLAC NLC. They use either a four or five cell structure in a π/2 mode. The disk radii are tapered to produce an approximately constant gradient. The matching calculation is not performed on the tapered structure, but rather on a coupler whose input and output cells are the same as the final cell of the tapered structure, and whose interior cells are the same as the penultimate cell in the tapered structure. 2-D calculations using CONDOR model the waveguide as a radial transmission line of adjustable impedance. 3-D calculations with MAFIA model the actual rectangular waveguide and coupling slot. A good match is obtained by adjusting the impedance of the final cell. In 3-D, this requires varying both the radius of the cell and the width of the aperture. When the output cell with the best match is inserted in the tapered structure, they obtain excellent cold-test agreement between the 2-D and 3-D models. They use hot-test simulations with CONDOR to design the structure with maximum efficiency and minimum surface fields. The azimuthal asymmetry due to the coupling iris can increase the peak fields by 20 to 30 percent. They can reduce this problem by making the final cavity with a non-circular cross section. With proper dimensions, they can keep a good match while reducing the azimuthal asymmetry to 6 percent. They have designed circuits at 11.424 Ghz for several different perveances. At 440 kV, microperveance 1.2, they calculate 83 MW, 54 percent efficiency, peak surface field 76 MV/m. At microperveance 0.8, they calculate 60 MW, 58 percent efficiency, peak field 67 MV/m. At 465 kV, microperveance 0.6, they calculate 55 MW, 62 percent efficiency, peak field 63 MV/m

  2. Three-dimensional structures in the design of therapeutics targeting parasitic protozoa: reflections on the past, present and future.

    Science.gov (United States)

    Hol, Wim G J

    2015-05-01

    Parasitic protozoa cause a range of diseases which threaten billions of human beings. They are responsible for tremendous mortality and morbidity in the least-developed areas of the world. Presented here is an overview of the evolution over the last three to four decades of structure-guided design of inhibitors, leads and drug candidates aiming at targets from parasitic protozoa. Target selection is a crucial and multi-faceted aspect of structure-guided drug design. The major impact of advances in molecular biology, genome sequencing and high-throughput screening is touched upon. The most advanced crystallographic techniques, including XFEL, have already been applied to structure determinations of drug targets from parasitic protozoa. Even cryo-electron microscopy is contributing to our understanding of the mode of binding of inhibitors to parasite ribosomes. A number of projects have been selected to illustrate how structural information has assisted in arriving at promising compounds that are currently being evaluated by pharmacological, pharmacodynamic and safety tests to assess their suitability as pharmaceutical agents. Structure-guided approaches are also applied to incorporate properties into compounds such that they are less likely to become the victim of resistance mechanisms. A great increase in the number of novel antiparasitic compounds will be needed in the future. These should then be combined into various multi-compound therapeutics to circumvent the diverse resistance mechanisms that render single-compound, or even multi-compound, drugs ineffective. The future should also see (i) an increase in the number of projects with a tight integration of structural biology, medicinal chemistry, parasitology and pharmaceutical sciences; (ii) the education of more `medicinal structural biologists' who are familiar with the properties that compounds need to have for a high probability of success in the later steps of the drug-development process; and (iii) the

  3. Distill: a suite of web servers for the prediction of one-, two- and three-dimensional structural features of proteins

    Directory of Open Access Journals (Sweden)

    Walsh Ian

    2006-09-01

    Full Text Available Abstract Background We describe Distill, a suite of servers for the prediction of protein structural features: secondary structure; relative solvent accessibility; contact density; backbone structural motifs; residue contact maps at 6, 8 and 12 Angstrom; coarse protein topology. The servers are based on large-scale ensembles of recursive neural networks and trained on large, up-to-date, non-redundant subsets of the Protein Data Bank. Together with structural feature predictions, Distill includes a server for prediction of Cα traces for short proteins (up to 200 amino acids. Results The servers are state-of-the-art, with secondary structure predicted correctly for nearly 80% of residues (currently the top performance on EVA, 2-class solvent accessibility nearly 80% correct, and contact maps exceeding 50% precision on the top non-diagonal contacts. A preliminary implementation of the predictor of protein Cα traces featured among the top 20 Novel Fold predictors at the last CASP6 experiment as group Distill (ID 0348. The majority of the servers, including the Cα trace predictor, now take into account homology information from the PDB, when available, resulting in greatly improved reliability. Conclusion All predictions are freely available through a simple joint web interface and the results are returned by email. In a single submission the user can send protein sequences for a total of up to 32k residues to all or a selection of the servers. Distill is accessible at the address: http://distill.ucd.ie/distill/.

  4. Optimization of LOPA-based direct laser writing technique for fabrication of submicrometric polymer two- and three-dimensional structures

    Science.gov (United States)

    Do, Mai Trang; Li, Qinggele; Ledoux-Rak, Isabelle; Lai, Ngoc D.

    2013-05-01

    We demonstrate a novel and very simple method allowing very easy flexible fabrication of 2D and 3D submicrometric structures. By using a photosensitive polymer (SU8) possessing an ultralow one-photon absorption (LOPA) coefficient at the excition laser wavelength (532 nm) and a high numerical aperture (NA = 1.3, oil immersion) objective lens, various submicrometric structures with feature size as small as 150 nm have been successfully fabricated. We have further investigated the energy accumulation effect in LOPA direct laser writing when the structure lattice constant approaches the diffraction limit. In this case, a proximity correction, i.e., a compensation of the doses between different voxels, was applied, allowing to create uniform and submicrometric structures with a lattice constant as small as 400 nm. As compared to commonly used two-photon absorption microscopy, the LOPA method allows to simplify the experimental setup and also to minimize the photo-damaging or bleaching effect. The idea of using LOPA also opens a new and inexpensive way to optically address 3D structures, namely 3D fluorescence imaging and 3D data storage.

  5. Combined particle-image velocimetry and force analysis of the three-dimensional fluid-structure interaction of a natural owl wing.

    Science.gov (United States)

    Winzen, A; Roidl, B; Schröder, W

    2016-04-01

    Low-speed aerodynamics has gained increasing interest due to its relevance for the design process of small flying air vehicles. These small aircraft operate at similar aerodynamic conditions as, e.g. birds which therefore can serve as role models of how to overcome the well-known problems of low Reynolds number flight. The flight of the barn owl is characterized by a very low flight velocity in conjunction with a low noise emission and a high level of maneuverability at stable flight conditions. To investigate the complex three-dimensional flow field and the corresponding local structural deformation in combination with their influence on the resulting aerodynamic forces, time-resolved stereoscopic particle-image velocimetry and force and moment measurements are performed on a prepared natural barn owl wing. Several spanwise positions are measured via PIV in a range of angles of attack [Formula: see text] 6° and Reynolds numbers 40 000 [Formula: see text] 120 000 based on the chord length. Additionally, the resulting forces and moments are recorded for -10° ≤ α ≤ 15° at the same Reynolds numbers. Depending on the spanwise position, the angle of attack, and the Reynolds number, the flow field on the wing's pressure side is characterized by either a region of flow separation, causing large-scale vortical structures which lead to a time-dependent deflection of the flexible wing structure or wing regions showing no instantaneous deflection but a reduction of the time-averaged mean wing curvature. Based on the force measurements the three-dimensional fluid-structure interaction is assumed to considerably impact the aerodynamic forces acting on the wing leading to a strong mechanical loading of the interface between the wing and body. These time-depending loads which result from the flexibility of the wing should be taken into consideration for the design of future small flying air vehicles using flexible wing structures.

  6. Turbulent structure of three-dimensional flow behind a model car: 1. Exposed to uniform approach flow

    Science.gov (United States)

    Kozaka, Orçun E.; Özkan, Gökhan; Özdemir, Bedii I.

    2004-01-01

    Turbulent structure of flow behind a model car is investigated with local velocity measurements with emphasis on large structures and their relevance to aerodynamic forces. Results show that two counter-rotating helical vortices, which are formed within the inner wake region, play a key role in determining the flux of kinetic energy. The turbulence is generated within the outermost shear layers due to the instabilities, which also seem to be the basic drive for these relatively organized structures. The measured terms of the turbulent kinetic energy production, which are only part of the full expression, indicate that vortex centres act similar to the manifolds draining the energy in the streamwise direction. As the approach velocity increases, the streamwise convection becomes the dominant means of turbulent transport and, thus, the acquisition of turbulence by relatively non-turbulent flow around the wake region is suppressed.

  7. UV-A photocatalytic treatment of Legionella pneumophila bacteria contaminated airflows through three-dimensional solid foam structured photocatalytic reactors

    Energy Technology Data Exchange (ETDEWEB)

    Josset, Sebastien; Hajiesmaili, Shabnam; Begin, Dominique; Edouard, David; Pham-Huu, Cuong [Laboratoire des Materiaux, Surfaces et Procedes pour la Catalyse (LMSPC), European Laboratory for Catalysis and Surface Sciences (ELCASS), CNRS, Strasbourg University, 25 rue Becquerel 67087 Strasbourg (France); Lett, Marie-Claire [Laboratoire de Genetique Moleculaire, Genomique, Microbiologie, CNRS, Strasbourg University, 28, rue Goethe 67083 Strasbourg Cedex (France); Keller, Nicolas, E-mail: nkeller@chimie.u-strasbg.fr [Laboratoire des Materiaux, Surfaces et Procedes pour la Catalyse (LMSPC), European Laboratory for Catalysis and Surface Sciences (ELCASS), CNRS, Strasbourg University, 25 rue Becquerel 67087 Strasbourg (France); Keller, Valerie [Laboratoire des Materiaux, Surfaces et Procedes pour la Catalyse (LMSPC), European Laboratory for Catalysis and Surface Sciences (ELCASS), CNRS, Strasbourg University, 25 rue Becquerel 67087 Strasbourg (France)

    2010-03-15

    A 3D-structured photocatalytic media was designed for allowing a tubular reactor to work in a traversing-flow mode at low pressure drops with a strong increase in the surface area-to-volume ratio inside the reactor. A protective polysiloxane coating was performed for protecting a structured polyurethane foam and anchoring the active TiO{sub 2} particles. Filled with the 3D-structured solid foam supporting TiO{sub 2} photocatalyst, the reactor could thus take advantages from the static mixer effect and from the low pressure drop resulting from the reticulated foam support. Very efficient decontamination levels towards airborne Legionella pneumophila bacteria were reached in a single-pass test mode.

  8. Three-dimensional geometry of the structural front between Berland River and Smoky River, central Alberta Foothills

    Energy Technology Data Exchange (ETDEWEB)

    Liu, S.; Lawton, D. C.; Spratt, D. A. [Calgary Univ., AB (Canada). Dept. of Geology and Geophysics

    1996-06-01

    Geometry of the triangle zone and its variations in the region lying between the Berland River and the Smoky River in the central Alberta Foothills was described by drawing closely spaced balanced structural cross-sections, constrained by seismic data interpretation and well-log analysis. The stratigraphic sequence (Devonian to Tertiary in the northwest, or Mississipian to Tertiary in the southeast) was found to have been divided into three structural packages by three detachments. In the northwest, the lower detachment lies in the Lower Devonian Woodbend Group, the middle detachment in the Shaftesbury Formation, and the upper detachment in the upper Kaskapau Formation. Each of these detachment combined with the foreland-verging thrust sheet beneath them to form the triangle zone structure. Based on the peculiarities of the geology, it is suspected that the higher triangle zone was formed before the lower triangle zone. 31 refs., 10 figs.

  9. Fabrication of three-dimensional poly(ε-caprolactone) scaffolds with hierarchical pore structures for tissue engineering

    Energy Technology Data Exchange (ETDEWEB)

    Zhang, Qingchun [Key Laboratory for Ultrafine Materials of Ministry of Education, School of Materials Science and Engineering, East China University of Science and Technology, Shanghai 200237 (China); Luo, Houyong [State Key Laboratory of Bioreactor Engineering, School of Bioengineering, East China University of Science and Technology, Shanghai 200237 (China); Zhang, Yan [Key Laboratory for Ultrafine Materials of Ministry of Education, School of Materials Science and Engineering, East China University of Science and Technology, Shanghai 200237 (China); Zhou, Yan [State Key Laboratory of Bioreactor Engineering, School of Bioengineering, East China University of Science and Technology, Shanghai 200237 (China); Ye, Zhaoyang, E-mail: zhaoyangye@ecust.edu.cn [State Key Laboratory of Bioreactor Engineering, School of Bioengineering, East China University of Science and Technology, Shanghai 200237 (China); Tan, Wensong [State Key Laboratory of Bioreactor Engineering, School of Bioengineering, East China University of Science and Technology, Shanghai 200237 (China); Lang, Meidong, E-mail: mdlang@ecust.edu.cn [Key Laboratory for Ultrafine Materials of Ministry of Education, School of Materials Science and Engineering, East China University of Science and Technology, Shanghai 200237 (China)

    2013-05-01

    The physical properties of tissue engineering scaffolds such as microstructures play important roles in controlling cellular behaviors and neotissue formation. Among them, the pore size stands out as a key determinant factor. In the present study, we aimed to fabricate porous scaffolds with pre-defined hierarchical pore sizes, followed by examining cell growth in these scaffolds. This hierarchical porous microstructure was implemented via integrating different pore-generating methodologies, including salt leaching and thermal induced phase separation (TIPS). Specifically, large (L, 200–300 μm), medium (M, 40–50 μm) and small (S, < 10 μm) pores were able to be generated. As such, three kinds of porous scaffolds with a similar porosity of ∼ 90% creating pores of either two (LS or MS) or three (LMS) different sizes were successfully prepared. The number fractions of different pores in these scaffolds were determined to confirm the hierarchical organization of pores. It was found that the interconnectivity varied due to the different pore structures. Besides, these scaffolds demonstrated similar compressive moduli under dry and hydrated states. The adhesion, proliferation, and spatial distribution of human fibroblasts within the scaffolds during a 14-day culture were evaluated with MTT assay and fluorescence microscopy. While all three scaffolds well supported the cell attachment and proliferation, the best cell spatial distribution inside scaffolds was achieved with LMS, implicating that such a controlled hierarchical microstructure would be advantageous in tissue engineering applications. Highlights: ► The scaffolds with dual-pore and triple-pore structures were fabricated. ► Triple-pore structure had better interconnectivity than dual-pore structures. ► Better cell migration and distribution were found on the triple-pore structures. ► The medium pore size (45–50 μm) was appropriate for cell migration. ► Scaffolds with triple-pore structure

  10. Three-dimensional thoracic aorta principal strain analysis from routine ECG-gated computerized tomography: feasibility in patients undergoing transcatheter aortic valve replacement.

    Science.gov (United States)

    Satriano, Alessandro; Guenther, Zachary; White, James A; Merchant, Naeem; Di Martino, Elena S; Al-Qoofi, Faisal; Lydell, Carmen P; Fine, Nowell M

    2018-05-02

    Functional impairment of the aorta is a recognized complication of aortic and aortic valve disease. Aortic strain measurement provides effective quantification of mechanical aortic function, and 3-dimenional (3D) approaches may be desirable for serial evaluation. Computerized tomographic angiography (CTA) is routinely performed for various clinical indications, and offers the unique potential to study 3D aortic deformation. We sought to investigate the feasibility of performing 3D aortic strain analysis in a candidate population of patients undergoing transcatheter aortic valve replacement (TAVR). Twenty-one patients with severe aortic valve stenosis (AS) referred for TAVR underwent ECG-gated CTA and echocardiography. CTA images were analyzed using a 3D feature-tracking based technique to construct a dynamic aortic mesh model to perform peak principal strain amplitude (PPSA) analysis. Segmental strain values were correlated against clinical, hemodynamic and echocardiographic variables. Reproducibility analysis was performed. The mean patient age was 81±6 years. Mean left ventricular ejection fraction was 52±14%, aortic valve area (AVA) 0.6±0.3 cm 2 and mean AS pressure gradient (MG) 44±11 mmHg. CTA-based 3D PPSA analysis was feasible in all subjects. Mean PPSA values for the global thoracic aorta, ascending aorta, aortic arch and descending aorta segments were 6.5±3.0, 10.2±6.0, 6.1±2.9 and 3.3±1.7%, respectively. 3D PSSA values demonstrated significantly more impairment with measures of worsening AS severity, including AVA and MG for the global thoracic aorta and ascending segment (panalysis is clinically feasible from routine ECG-gated CTA. Appropriate reductions in PSSA were identified with increasing AS hemodynamic severity. Expanded study of 3D aortic PSSA for patients with various forms of aortic disease is warranted.

  11. Three-dimensional printing and deformation behavior of low-density target structures by two-photon polymerization

    Science.gov (United States)

    Liu, Ying; Stein, Ori; Campbell, John H.; Jiang, Lijia; Petta, Nicole; Lu, Yongfeng

    2017-08-01

    Two-photon polymerization (2PP), a 3D nano to microscale additive manufacturing process, is being used for the first time to fabricate small custom experimental packages ("targets") to support laser-driven high-energy-density (HED) physics research. Of particular interest is the use of 2PP to deterministically print low-density, low atomic-number (CHO) polymer matrices ("foams") at millimeter scale with sub-micrometer resolution. Deformation during development and drying of the foam structures remains a challenge when using certain commercial photo-resins; here we compare use of acrylic resins IP-S and IP-Dip. The mechanical strength of polymeric beam and foam structures is examined particularly the degree of deformation that occurs during the development and drying processes. The magnitude of the shrinkage in the two resins in quantified by printing sample structures and by use of FEA to simulate the deformation. Capillary drying forces are shown to be small and likely below the elastic limit of the core foam structure. In contrast the substantial shrinkage in IP-Dip ( 5-10%) cause large shear stresses and associated plastic deformation particularly near constrained boundaries such as the substrate and locations with sharp density variation. The inherent weakness of stitching boundaries is also evident and in certain cases can lead to delamination. Use of IP-S shows marked reduction in deformation with a minor loss of print resolution

  12. Three-dimensional Geological and Geo-mechanical Modelling of Repositories for Nuclear Waste Disposal in Deep Geological Structures

    International Nuclear Information System (INIS)

    Fahland, Sandra; Hofmann, Michael; Bornemann, Otto; Heusermann, Stefan

    2008-01-01

    To prove the suitability and safety of underground structures for the disposal of radioactive waste extensive geo-scientific research and development has been carried out by BGR over the last decades. Basic steps of the safety analysis are the geological modelling of the entire structure including the host rock, the overburden and the repository geometry as well as the geo-mechanical modelling taking into account the 3-D modelling of the underground structure. The geological models are generated using the special-construction openGEO TM code to improve the visualisation an d interpretation of the geological data basis, e.g. borehole, mine, and geophysical data. For the geo-mechanical analysis the new JIFE finite-element code has been used to consider large 3-D structures with complex inelastic material behaviour. To establish the finite-element models needed for stability and integrity calculations, the geological models are simplified with respect to homogenous rock layers with uniform material behaviour. The modelling results are basic values for the evaluation of the stability of the repository mine and the long-term integrity of the geological barrier. As an example of application, the results of geological and geo-mechanical investigations of the Morsleben repository based on 3-D modelling are presented. (authors)

  13. Three-dimensional structure of porcine pancreatic carboxypeptidase B with an acetate ion and two zinc atoms in the active site

    Energy Technology Data Exchange (ETDEWEB)

    Akparov, V. Kh., E-mail: valery@akparov.ru [State Research Institute for Genetics and Selection of Industrial Microorganisms (Russian Federation); Timofeev, V. I., E-mail: tostars@mail.ru [Russian Academy of Sciences, Shubnikov Institute of Crystallography of Federal Scientific Research Centre “Crystallography and Photonics” (Russian Federation); Maghsoudi, N. N., E-mail: maghsudi@yahoo.com [Shahid Beheshti University of Medical Sciences, Neuroscience Research Center (Iran, Islamic Republic of); Kuranova, I. P. [Russian Academy of Sciences, Shubnikov Institute of Crystallography of Federal Scientific Research Centre “Crystallography and Photonics” (Russian Federation)

    2017-03-15

    Crystals of porcine pancreatic carboxypeptidase B (CPB) were grown by the capillary counter-diffusion method in the presence of polyethylene glycol and zinc acetate. The three-dimensional structure of CPB was determined at 1.40 Å resolution using the X-ray diffraction data set collected from the crystals of the enzyme at the SPring 8 synchrotron facility and was refined to R{sub fact} = 17.19%, R{sub free} = 19.78%. The structure contains five zinc atoms, two of which are present in the active site of the enzyme, and an acetate ion. The arrangement of an additional zinc atom in the active site and the acetate ion is different from that reported by Yoshimoto et al.

  14. Three-dimensional reconstructions for asymptomatic and cerebral palsy children's lower limbs using a biplanar X-ray system: A feasibility study

    International Nuclear Information System (INIS)

    Assi, Ayman; Chaibi, Yasmina; Presedo, Ana; Dubousset, Jean; Ghanem, Ismat; Skalli, Wafa

    2013-01-01

    The aim of this study is to explore the feasibility of 3D subject-specific skeletal reconstructions of lower limb in children using stereoradiography, and to assess uncertainty of clinical and anatomical parameters for children with cerebral palsy and for healthy children. The stereoradiography technique, using the EOS ® system (Eos-imaging ® ), is based on the acquisition of two simultaneous digital anteroposterior and lateral X-rays, from head to feet in standing position and at low radiation dose. This technique allows subject-specific skeletal 3D reconstructions. Five children with cerebral palsy (CP) and 5 typically developing children (TD) were included in the study. Two operators performed the lower limb reconstructions twice. Tridimensional reconstructions were feasible for children over the age of 5 years. The study of reproducibility of anatomical parameters defining skeletal alignment showed uncertainties under 3° for the neck shaft angle, the femoral mechanical angle, and for the femoral and tibial torsions. The maximum degree of uncertainty was obtained for the femoral tibial rotation (4° for healthy children and 3.5° for children with CP)

  15. Three-dimensional reconstructions for asymptomatic and cerebral palsy children's lower limbs using a biplanar X-ray system: A feasibility study

    Energy Technology Data Exchange (ETDEWEB)

    Assi, Ayman, E-mail: ayman.assi@gmail.com [Laboratoire de Biomécanique, Arts et Métiers ParisTech, Paris (France); Laboratory of Biomechanics, Faculty of Medicine, University of Saint-Joseph, Beirut (Lebanon); Gait and Motion Analysis Lab, SESOBEL, Beirut (Lebanon); Chaibi, Yasmina, E-mail: yasmina.chaibi@gmail.com [Laboratoire de Biomécanique, Arts et Métiers ParisTech, Paris (France); Presedo, Ana, E-mail: a.presedo@gmail.com [Laboratoire de Biomécanique, Arts et Métiers ParisTech, Paris (France); Hôpital Robert Debré, Paris (France); Dubousset, Jean, E-mail: jean.dubousset@wanadoo.fr [Laboratoire de Biomécanique, Arts et Métiers ParisTech, Paris (France); Ghanem, Ismat, E-mail: ghanem.i@dm.net.lb [Laboratory of Biomechanics, Faculty of Medicine, University of Saint-Joseph, Beirut (Lebanon); Gait and Motion Analysis Lab, SESOBEL, Beirut (Lebanon); Hôpital Hôtel Dieu de France, Beirut (Lebanon); Skalli, Wafa, E-mail: wafa.skalli@ensam.eu [Laboratoire de Biomécanique, Arts et Métiers ParisTech, Paris (France)

    2013-12-01

    The aim of this study is to explore the feasibility of 3D subject-specific skeletal reconstructions of lower limb in children using stereoradiography, and to assess uncertainty of clinical and anatomical parameters for children with cerebral palsy and for healthy children. The stereoradiography technique, using the EOS{sup ®} system (Eos-imaging{sup ®}), is based on the acquisition of two simultaneous digital anteroposterior and lateral X-rays, from head to feet in standing position and at low radiation dose. This technique allows subject-specific skeletal 3D reconstructions. Five children with cerebral palsy (CP) and 5 typically developing children (TD) were included in the study. Two operators performed the lower limb reconstructions twice. Tridimensional reconstructions were feasible for children over the age of 5 years. The study of reproducibility of anatomical parameters defining skeletal alignment showed uncertainties under 3° for the neck shaft angle, the femoral mechanical angle, and for the femoral and tibial torsions. The maximum degree of uncertainty was obtained for the femoral tibial rotation (4° for healthy children and 3.5° for children with CP)

  16. Resolving Point Defects in the Hydration Structure of Calcite (10.4) with Three-Dimensional Atomic Force Microscopy

    Science.gov (United States)

    Söngen, Hagen; Reischl, Bernhard; Miyata, Kazuki; Bechstein, Ralf; Raiteri, Paolo; Rohl, Andrew L.; Gale, Julian D.; Fukuma, Takeshi; Kühnle, Angelika

    2018-03-01

    It seems natural to assume that defects at mineral surfaces critically influence interfacial processes such as the dissolution and growth of minerals in water. The experimental verification of this claim, however, is challenging and requires real-space methods with utmost spatial resolution, such as atomic force microscopy (AFM). While defects at mineral-water interfaces have been resolved in 2D AFM images before, the perturbation of the surrounding hydration structure has not yet been analyzed experimentally. In this Letter, we demonstrate that point defects on the most stable and naturally abundant calcite (10.4) surface can be resolved using high-resolution 3D AFM—even within the fifth hydration layer. Our analysis of the hydration structure surrounding the point defect shows a perturbation of the hydration with a lateral extent of approximately one unit cell. These experimental results are corroborated by molecular dynamics simulations.

  17. Finite-element formulations for the thermal stress analysis of two- and three-dimensional thin reactor structures

    International Nuclear Information System (INIS)

    Kulak, R.F.; Kennedy, J.M.; Belytschko, T.B.; Schoeberle, D.F.

    1977-01-01

    This paper describes finite-element formulations for the thermal stress analysis of LMFBR structures. The first formulation is applicable to large displacement rotation problems in which the strains are small. For this formulation, a general temperature-dependent constituent relationship is derived from a Gibbs potential and a temperature dependent surface. A second formulation is presented for problems characterized by both large displacement-rotations and large strains. Here a set of large strain hypoelastic-plastic relationships are developed to linearly relate the rate of stress to the rate of deformation. These developments were incorporated into two ANL developed finite-element computer codes: the implicit version of STRAW and the 3D Implicit Structural Analaysis code. A set of problems is presented to validate both the 3D and 2D programs and to illustrate their applicability to a variety of problems. (Auth.)

  18. Three-dimensional assembly structure of anatase TiO2 hollow microspheres with enhanced photocatalytic performance

    Science.gov (United States)

    Tang, Yihao; Zhan, Shuai; Wang, Li; Zhang, Bin; Ding, Minghui

    The pure anatase TiO2 hollow microspheres are synthesized by a one-step template-free hydrothermal route. By defining temperature and time limits, we produce TiO2 hollow microspheres with a fluoride-mediated self-transformation. The surface morphology of TiO2 hollow microspheres was studied by SEM. The hollow microspheres have diameters of about 800 nm and are remarkably uniform. The UV-light photocatalytic activity and the stability/multifunction of TiO2 hollow microspheres structure were evaluated by photocatalytic degradation of methylene blue and photocatalytic hydrogen evolution. The excellent photocatalytic activity is attributed to large specific surface area, more active sites, unique hollow structures, and improved light scattering.

  19. Spin-dependent exciton-exciton interaction potential in two- and three-dimensional structure semiconductors under excitation

    International Nuclear Information System (INIS)

    Nguyen Ba An; Hoang Ngoc Cam; Nguyen Trung Dan

    1990-08-01

    Analytical expressions of the exciton-exciton interaction potentials have been approximately derived in both 2D and 3D structure materials exhibiting explicit dependences on exciton momentum difference, momentum transfer, electron-hole effective mass ratio and two-exciton state spin symmetry. Numerical calculations show that the character of the exciton-exciton interaction is determined by all of the above-mentioned dependences. (author). 32 refs, 7 figs

  20. Characterization of iron ferromagnetism by the local atomic volume: from three-dimensional structures to isolated atoms

    Czech Academy of Sciences Publication Activity Database

    Zhang, L.; Šob, Mojmír; Wu, Z.; Zhang, Y.; Lu, G-H.

    2014-01-01

    Roč. 26, č. 8 (2014), 086002-1-086002-17 ISSN 0953-8984 R&D Projects: GA MŠk(CZ) ED1.1.00/02.0068; GA ČR(CZ) GAP108/12/0311; GA AV ČR IAA100100920 Institutional support: RVO:68081723 Keywords : electronic structure * magnetism * iron * ab initio calculations Subject RIV: BM - Solid Matter Physics ; Magnetism Impact factor: 2.346, year: 2014

  1. Three-dimensional magnetotelluric inversion in practice—the electrical conductivity structure of the San Andreas Fault in Central California

    Science.gov (United States)

    Tietze, Kristina; Ritter, Oliver

    2013-10-01

    3-D inversion techniques have become a widely used tool in magnetotelluric (MT) data interpretation. However, with real data sets, many of the controlling factors for the outcome of 3-D inversion are little explored, such as alignment of the coordinate system, handling and influence of data errors and model regularization. Here we present 3-D inversion results of 169 MT sites from the central San Andreas Fault in California. Previous extensive 2-D inversion and 3-D forward modelling of the data set revealed significant along-strike variation of the electrical conductivity structure. 3-D inversion can recover these features but only if the inversion parameters are tuned in accordance with the particularities of the data set. Based on synthetic 3-D data we explore the model space and test the impacts of a wide range of inversion settings. The tests showed that the recovery of a pronounced regional 2-D structure in inversion of the complete impedance tensor depends on the coordinate system. As interdependencies between data components are not considered in standard 3-D MT inversion codes, 2-D subsurface structures can vanish if data are not aligned with the regional strike direction. A priori models and data weighting, that is, how strongly individual components of the impedance tensor and/or vertical magnetic field transfer functions dominate the solution, are crucial controls for the outcome of 3-D inversion. If deviations from a prior model are heavily penalized, regularization is prone to result in erroneous and misleading 3-D inversion models, particularly in the presence of strong conductivity contrasts. A `good' overall rms misfit is often meaningless or misleading as a huge range of 3-D inversion results exist, all with similarly `acceptable' misfits but producing significantly differing images of the conductivity structures. Reliable and meaningful 3-D inversion models can only be recovered if data misfit is assessed systematically in the frequency

  2. Efficient computations of three-dimensional fluid-structure interactions during blowdown of a pressurized water reactor - FLUX

    International Nuclear Information System (INIS)

    Schumann, U.

    1979-01-01

    A numerical method (computer program FLUX) for investigation of the loads on pressure vessel internal structures during a loss-of-coolant accident of a PWR is described. In particular, the deformation of the core barrel are determined. Under operating conditions the core barrel controls the flow path in the vessel and consists mainly out of a relatively thin cylindrical shell. (orig./HP) [de

  3. Electromagnetic and thermal properties of three-dimensional printed multilayered nano-carbon/poly(lactic) acid structures

    Energy Technology Data Exchange (ETDEWEB)

    Paddubskaya, A. [Research Institute for Nuclear Problems, Belarusian State University, Bobruiskaya Str. 11, 220030 Minsk (Belarus); Center for Physical Sciences and Technology, A. Goštauto 11, LT-01108 Vilnius (Lithuania); Valynets, N.; Batrakov, K. [Research Institute for Nuclear Problems, Belarusian State University, Bobruiskaya Str. 11, 220030 Minsk (Belarus); Kuzhir, P., E-mail: polina.kuzhir@gmail.com; Maksimenko, S. [Research Institute for Nuclear Problems, Belarusian State University, Bobruiskaya Str. 11, 220030 Minsk (Belarus); Tomsk State University, Tomsk 634050 (Russian Federation); Kotsilkova, R.; Velichkova, H.; Petrova, I. [Open Laboratory on Experimental Micro and Nano Mechanics, Institute of Mechanics, Bulgarian Academy of Sciences, Acad. G. Bonchev Str., Block 4, Sofia (Bulgaria); Biró, I. [3D Wishes, Bíró u. 44/a/2, Érd (Hungary); Kertész, K.; Márk, G. I.; Horváth, Z. E.; Biró, L. P. [Institute of Technical Physics and Materials Science, Centre for Energy Research, PO Box 49, 1525 Budapest (Hungary)

    2016-04-07

    A new type of light-weight material produced by 3D printing consisting of nano-carbon doped polymer layer followed by a dielectric polymer layer is proposed. We performed temperature dependent characterization and measured the electromagnetic (EM) response of the samples in the GHz and THz range. The temperature dependent structural characteristics, crystallization, and melting were observed to be strongly affected by the presence and the number of nano-carbon doped layers in the sandwich structure. The electromagnetic measurements show a great potential of such a type of periodic material for electromagnetic compatibility applications in microwave frequency range. Sandwich structures containing only two nano-carbon layers already become not transparent to the microwaves, giving an electromagnetic interference shielding efficiency at the level of 8–15 dB. A sandwich consisting of one nano-carbon doped and one polymer layer is opaque for THz radiation, because of 80% of absorption. These studies serve as a basis for design and realization of specific optimal geometries of meta-surface type with the 3D printing technique, in order to reach a high level of electromagnetic interference shielding performance for real world EM cloaking and EM ecology applications.

  4. Electromagnetic and thermal properties of three-dimensional printed multilayered nano-carbon/poly(lactic) acid structures

    International Nuclear Information System (INIS)

    Paddubskaya, A.; Valynets, N.; Batrakov, K.; Kuzhir, P.; Maksimenko, S.; Kotsilkova, R.; Velichkova, H.; Petrova, I.; Biró, I.; Kertész, K.; Márk, G. I.; Horváth, Z. E.; Biró, L. P.

    2016-01-01

    A new type of light-weight material produced by 3D printing consisting of nano-carbon doped polymer layer followed by a dielectric polymer layer is proposed. We performed temperature dependent characterization and measured the electromagnetic (EM) response of the samples in the GHz and THz range. The temperature dependent structural characteristics, crystallization, and melting were observed to be strongly affected by the presence and the number of nano-carbon doped layers in the sandwich structure. The electromagnetic measurements show a great potential of such a type of periodic material for electromagnetic compatibility applications in microwave frequency range. Sandwich structures containing only two nano-carbon layers already become not transparent to the microwaves, giving an electromagnetic interference shielding efficiency at the level of 8–15 dB. A sandwich consisting of one nano-carbon doped and one polymer layer is opaque for THz radiation, because of 80% of absorption. These studies serve as a basis for design and realization of specific optimal geometries of meta-surface type with the 3D printing technique, in order to reach a high level of electromagnetic interference shielding performance for real world EM cloaking and EM ecology applications.

  5. A discriminative structural similarity measure and its application to video-volume registration for endoscope three-dimensional motion tracking.

    Science.gov (United States)

    Luo, Xiongbiao; Mori, Kensaku

    2014-06-01

    Endoscope 3-D motion tracking, which seeks to synchronize pre- and intra-operative images in endoscopic interventions, is usually performed as video-volume registration that optimizes the similarity between endoscopic video and pre-operative images. The tracking performance, in turn, depends significantly on whether a similarity measure can successfully characterize the difference between video sequences and volume rendering images driven by pre-operative images. The paper proposes a discriminative structural similarity measure, which uses the degradation of structural information and takes image correlation or structure, luminance, and contrast into consideration, to boost video-volume registration. By applying the proposed similarity measure to endoscope tracking, it was demonstrated to be more accurate and robust than several available similarity measures, e.g., local normalized cross correlation, normalized mutual information, modified mean square error, or normalized sum squared difference. Based on clinical data evaluation, the tracking error was reduced significantly from at least 14.6 mm to 4.5 mm. The processing time was accelerated more than 30 frames per second using graphics processing unit.

  6. [Modeling of a three-dimensional structure of cytochrome P-450 1A2 and search for its new ligands].

    Science.gov (United States)

    Belkina, N V; Skvortsov, V S; Ivanov, A S; Archakov, A I

    1998-01-01

    The substances inhibiting cytochrome P450 1A2 (CYP1A2) represent a perspective class of new drugs, which application in clinical practice can become the important part in preventive maintenance in oncology. The present work is devoted to computer modelling of 3-D structure of CYP1A2 and searching of new inhibitors by database mining. The modelling of CYP1A2 was done based on homology with 4 bacterial cytochromes P450 with known 3-D structure. For optimization of CYP1A2 active site structure the models of its complexes with characteristic substrates (caffeine and 7-ethoxyresorufin) were designed. These complexes were optimized by molecular dynamics simulation in water. The models of 24 complexes of CYP1A2 with known ligands with known Kd were designed by means of DockSearch and LeapFrog programs. 3D-QSAR model with good predictive force was created based on these complexes. On a final stage the search of knew CYP1A2 ligands in testing database (more than 23.000 substances from database Maybridge and 112 known CYP1A2 ligands from database Metabolite, MDL) was executed. 680 potential ligands of CYP1A2 with Kd values, comparable with known ones were obtained. This number has included 73 compounds from 112 known ligands, introduced in tested database as the internal control.

  7. Investigating the Local Three-dimensional Velocity Structure of the 2008 Taoyuan Earthquake Sequence of Kaohsiung, Taiwan

    Science.gov (United States)

    Shih, M. H.; Huang, B. S.

    2016-12-01

    March 4, 2008, a moderate earthquake (ML 5.2) occurred in Taoyuan district of Kaohsiung County in the southern Taiwan. It was followed by numerous aftershocks in the following 48 hours, including three events with magnitude larger than 4. The Taoyuan earthquake sequence occurred during the TAIGER (Taiwan Integrated Geodynamic Research) project which is to image lithospheric structure of Taiwan orogeny. The high-resolution waveform data of this sequence were well-recorded by a large number of recording stations belong to several different permanent and TAIGER networks all around Taiwan. We had collected the waveform data and archived to a mega database. Then, we had identified 2,340 events from database in the preliminary locating process by using 1-D velocity model. In this study, we applied the double-difference tomography to investigate not only the fault geometry of the main shock but also the detailed 3-D velocity structure in this area. A total of 3,034 events were selected from preliminary locating result and CWBSN catalog in the vicinity. The resulting aftershocks are extended along the NE-SW direction and located on a 45° SE-dipping plane which agrees to one of the nodal planes of Global CMT solution (strike = 45°, dip = 40° and rake = 119°). We can identify a clear low-velocity area which is enclosed by events next to the main shock in the final 3D velocity model. We also recognized a 45°-dipping zone which is extended to the ground surface with low-velocity; meanwhile, velocity structure variation in study area correspond with major geologic units in Taiwan.

  8. THE THREE-DIMENSIONAL STRUCTURE OF THE M31 SATELLITE SYSTEM; STRONG EVIDENCE FOR AN INHOMOGENEOUS DISTRIBUTION OF SATELLITES

    International Nuclear Information System (INIS)

    Conn, A. R.; Parker, Q. A.; Zucker, D. B.; Lewis, G. F.; Ibata, R. A.; Martin, N. F.; McConnachie, A. W.; Valls-Gabaud, D.; Tanvir, N.; Irwin, M. J.; Ferguson, A. M. N.; Chapman, S. C.

    2013-01-01

    We undertake an investigation into the spatial structure of the M31 satellite system utilizing the distance distributions presented in a previous publication. These distances make use of the unique combination of depth and spatial coverage of the Pan-Andromeda Archaeological Survey to provide a large, homogeneous sample consisting of 27 of M31's satellites, as well as M31 itself. We find that the satellite distribution, when viewed as a whole, is no more planar than one would expect from a random distribution of equal size. A disk consisting of 15 of the satellites is however found to be highly significant, and strikingly thin, with an rms thickness of just 12.34 +0.75 -0.43 kpc. This disk is oriented approximately edge-on with respect to the Milky Way and almost perpendicular to the Milky Way disk. It is also roughly orthogonal to the disk-like structure regularly reported for the Milky Way satellite system and in close alignment with M31's Giant Stellar Stream. A similar analysis of the asymmetry of the M31 satellite distribution finds that it is also significantly larger than one would expect from a random distribution. In particular, it is remarkable that 20 of the 27 satellites most likely lie on the Milky Way side of the galaxy, with the asymmetry being most pronounced within the satellite subset forming the aforementioned disk. This lopsidedness is all the more intriguing in light of the apparent orthogonality observed between the satellite disk structures of the Milky Way and M31.

  9. Effect of the three-dimensional structure of laser emission on the dynamics of low-threshold optical breakdown plasmas

    Science.gov (United States)

    Anisimov, V. N.; Arutiunian, R. V.; Bol'Shov, L. A.; Derkach, O. N.; Kanevskii, M. F.

    1989-03-01

    The effect of the transverse structure of pulsed CO2 laser emission on the dynamics of laser-induced detonation waves propagating from a metal surface and on plasma transparency recovery is investigated theoretically and experimentally. Particular attention is given to breakdown initiation near the surface. It is suggested that the inclusion of refraction in the plasma into a self-consistent numerical mode is essential for the adequate quantitative description of experimental data on the interaction of laser emission with low-threshold optical breakdown plasmas.

  10. Synthesis, three-dimensional structure, conformation and correct chemical shift assignment determination of pharmaceutical molecules by NMR and molecular modeling

    Energy Technology Data Exchange (ETDEWEB)

    Azeredo, Sirlene O.F. de; Sales, Edijane M.; Figueroa-Villar, José D., E-mail: jdfv2009@gmail.com [Instituto Militar de Engenharia (IME), Rio de Janeiro, RJ (Brazil). Grupo de Ressonância Magnética Nuclear e Química Medicinal

    2017-07-01

    This work includes the synthesis of phenanthrenequinone guanylhydrazone and phenanthro[9,10-e][1,2,4]triazin-3-amine to be tested as intercalate with DNA for treatment of cancer. The other synthesized product, 2-[(4-chlorophenylamino)methylene]malononitrile, was designed for future determination of its activity against leishmaniasis. A common problem about some articles on the literature is that some previously published compounds display error of their molecular structures. In this article it is shown the application of several procedures of nuclear magnetic resonance (NMR) to determine the complete molecular structure and the non questionable chemical shift assignment of the synthesized compounds, and also their analysis by molecular modeling to confirm the NMR results. To determine the capacity of pharmacological compounds to interact with biological targets is determined by docking. This work is to motivate the application of NMR and molecular modeling on organic synthesis, being a process that is very important for the study of the prepared compounds as interactions with biological targets by NMR. (author)

  11. Synthesis, three-dimensional structure, conformation and correct chemical shift assignment determination of pharmaceutical molecules by NMR and molecular modeling

    International Nuclear Information System (INIS)

    Azeredo, Sirlene O.F. de; Sales, Edijane M.; Figueroa-Villar, José D.

    2017-01-01

    This work includes the synthesis of phenanthrenequinone guanylhydrazone and phenanthro[9,10-e][1,2,4]triazin-3-amine to be tested as intercalate with DNA for treatment of cancer. The other synthesized product, 2-[(4-chlorophenylamino)methylene]malononitrile, was designed for future determination of its activity against leishmaniasis. A common problem about some articles on the literature is that some previously published compounds display error of their molecular structures. In this article it is shown the application of several procedures of nuclear magnetic resonance (NMR) to determine the complete molecular structure and the non questionable chemical shift assignment of the synthesized compounds, and also their analysis by molecular modeling to confirm the NMR results. To determine the capacity of pharmacological compounds to interact with biological targets is determined by docking. This work is to motivate the application of NMR and molecular modeling on organic synthesis, being a process that is very important for the study of the prepared compounds as interactions with biological targets by NMR. (author)

  12. Postnatal width changes in the internal structures of the human mandible: a longitudinal three-dimensional cephalometric study using implants.

    Science.gov (United States)

    Baumrind, S; Korn, E L

    1992-12-01

    This paper presents case-specific quantitative evidence of the systematic lateral displacement of metallic implants in the mandibles of treated and untreated human subjects between the ages of 8.5 and 15.5 years. This evidence appears to be consistent with the inference of small, but systematic increases in distance between the internal structures of the two sides of the osseous mandible during growth. Such a conclusion, however, is inconsistent with traditional beliefs that the internal structures of the mandibular symphysis fuse at the midline during the first post-natal year and remain dimensionally constant thereafter. We recently published evidence of statistically significant transverse displacement of metallic implants in the mandibular body region for 12 of 28 subjects for whom longitudinal data were available. Of the twelve subjects for whom statistically significant changes were observed, widening occurred in eleven cases and narrowing in one. Matching data are now available on concurrent ramus changes for 22 of the same 28 subjects, including 11 of the 12 for whom statistically significant width changes had previously been noted in the body region. In eight of these 11 subjects, statistically significant widening in the ramus region was also observed. No subject had statistically significant widening in the ramus region without also having statistically significant widening in the body region. No subject had statistically significant trans-ramus narrowing.

  13. SNP2Structure: A Public and Versatile Resource for Mapping and Three-Dimensional Modeling of Missense SNPs on Human Protein Structures

    Directory of Open Access Journals (Sweden)

    Difei Wang

    2015-01-01

    Full Text Available One of the long-standing challenges in biology is to understand how non-synonymous single nucleotide polymorphisms (nsSNPs change protein structure and further affect their function. While it is impractical to solve all the mutated protein structures experimentally, it is quite feasible to model the mutated structures in silico. Toward this goal, we built a publicly available structure database resource (SNP2Structure, https://apps.icbi.georgetown.edu/snp2structure focusing on missense mutations, msSNP. Compared with web portals with similar aims, SNP2Structure has the following major advantages. First, our portal offers direct comparison of two related 3D structures. Second, the protein models include all interacting molecules in the original PDB structures, so users are able to determine regions of potential interaction changes when a protein mutation occurs. Third, the mutated structures are available to download locally for further structural and functional analysis. Fourth, we used Jsmol package to display the protein structure that has no system compatibility issue. SNP2Structure provides reliable, high quality mapping of nsSNPs to 3D protein structures enabling researchers to explore the likely functional impact of human disease-causing mutations.

  14. Three-Dimensional Rheological Structure of North China Craton Determined by Integration of Multiple observations: Controlling Role for Lithospheric Rifting

    Science.gov (United States)

    Xiong, X.; Shan, B.; Li, Y.

    2017-12-01

    The North China Craton (NCC) has undergone significant lithospheric rejuvenation in late Mesozoic and Cenozoic, one feature of which is the widespread extension and rifting. The extension is distinct between the two parts of NCC: widespread rifting in the eastern NCC and localized narrow rifting in the west. The mechanism being responsible for this difference is uncertain and highly debated. Since lithospheric deformation can be regarded as the response of lithosphere to various dynamic actions, the rheological properties of lithosphere must have a fundamental influence on its tectonics and deformation behavior. In this study, we investigated the 3D thermal and rheological structure of NCC by developing a model integrating several geophysical observables (such as surface heatflow, regional elevation, gravity and geoid anomalies, and seismic tomography models). The results exhibit obvious lateral variation in rheological structure between the eastern and western NCC. The overall lithospheric strength is higher in the western NCC than in the east. Despite of such difference in rheology, both parts of NCC are characterized by mantle dominated strength regime, which facilitates the development of narrow rifting. Using ancient heatflow derived from mantle xenoliths studies, and taking the subduction-related dehydration reactions during Mesozoic into account, we constructed the thermal and rheological structure of NCC in Ordovician, early Cretaceous and early Cenozoic. Combining the evidence from numerical simulations, we proposed an evolution path of the rifting in NCC. The lithosphere of NCC in Ordovician was characterized by a normal craton features: low geotherm, high strength and mantle dominated regime. During Jurassic and Cretaceous, the mantle lithosphere in the eastern NCC was hydrated by fluid released by the suduction of the Pacific plate, resulting in weakening of the lithosphere and a transition from mantle dominated to crust dominated regime, which

  15. Using Second Harmonic Generation Microscopy to Study the Three-Dimensional Structure of Collagen and its Degradation Mechanism

    Science.gov (United States)

    Mega, Yair

    Collagen is one of the most abundant proteins found in the human body. Its crystalline structure possesses no centrosymmetry, allowing it to emit second-harmonic waves. Second harmonic generation (SHG) microscopy utilizes the latter quality to produce high-resolution images of collagen rich tissues and therefore become a key research tool in the biomedical field. We developed a new model, intended to be used together with second harmonic generation (SHG) microscopy, to thoroughly investigate collagen-based tissues. We use our SHG model to reveal information in real time from enzymatic biochemical processes. We also present a novel method used to measure quantitatively the direction of the fibers within the tissue, from SHG images. Using this method, we were able to reconstruct an angular map of the orientation of collagen fibers from multiple sections across the entire area of a human cornea. The structure we obtained demonstrates the criss-crossing structure of the human cornea, previously suggested in the literature. In addition, we also report work on a unique step-wise three-photon fluorescence excitation discovered in melanin. This unique fluorescence mechanism was exploited to discriminate melanin on a small-size, low-cost and low laser power setup which was used as a prototype for a handheld device. The latter study is a part of a larger on-going effort in our group to explore new diagnosis methods to be used for early skin cancer screening. Finally, this work demonstrates a spectroscopy-based method to correct for blood vessel thickness effect. The method analyzes spectral shift from a molecular imaging agent and correlate the shifts to the length of the optical path in blood. The correction method described in this work is intended to be implemented on a guided catheter near infrared fluorescence (NIRF) intra-vascular imaging system. In this imaging system, this study's results will used to correct for the radial distance between the imaging tip of the

  16. Determination of Three-Dimensional Morphology and Inner Structure of Second-Phase Inclusions in Metals by Non-Aqueous Solution Electrolytic and Room Temperature Organic Methods

    Directory of Open Access Journals (Sweden)

    Jing Guo

    2018-01-01

    Full Text Available The secondary-phase particles in metals, particularly those composed of non-metallic materials, are often detrimental to the mechanical properties of metals; thus, it is crucial to control inclusion formation and growth. One of the challenges is determining the three-dimensional morphology and inner structures of such inclusions. In this study, a non-aqueous solution electrolytic method and a room-temperature organic technique were developed based on the principle of electrochemistry to determine the three-dimensional morphologies and inner structures of non-metallic inclusions in Al-killed steel, Si-killed steel, and ductile cast iron. The inclusions were first extracted without any damage to the inclusions, and then the collected inclusions were wrapped and cut through Cu ion deposition. The results revealed that the inclusions in Al-killed steel had an irregular morphology, that those in the Si-killed steel were mainly spherical, and that almost all the spheroidal graphite in the ductile cast iron featured a uniform globular morphology. In addition, nucleation was not observed in the inner structures of the inclusions in the Al-killed steel, while some dendritic or rod-like MnS phase precipitates appeared on the silicate inclusion surfaces, and some silicate-rich phases were detected in their inner matrix. For spheroidal graphite, rare-earth oxides (one particle or more were observed as nuclei in the center of almost every graphite particle. The formation and evolution of inclusions in these types of metals can be better understood by means of the two developed methods.

  17. Experimental validation of a newly designed 6 degrees of freedom scanning laser head: Application to three-dimensional beam structure

    International Nuclear Information System (INIS)

    Di Maio, D.; Copertaro, E.

    2013-01-01

    A new scanning laser head is designed to use single Laser Doppler Vibrometer (LDV) for performing measurements up to 6 degrees of freedom (DOF) at a target. The scanning head is supported by a rotating hollow shaft, which allows the laser beam to travel up to the scanning head from an opposite direction where an LDV is set up. The scanning head is made of a set of two mirrors, which deflects the laser beam with an angle so that the rotation of the scanning head produces a conical scan. When measurements are performed at the focal point of the conical scan then three translational vibration components can be measured, otherwise the very small circle scan, before and after the focal point, can measure up to 6 degrees of freedom, including three translations and three rotations. This paper presents the 6DOF scanning head and the measurements of 3D operational deflection shapes of a test structure

  18. Crustal Structure of the Andean Foreland in Northern Argentina: Results From Data-Integrative Three-Dimensional Density Modeling

    Science.gov (United States)

    Meeßen, C.; Sippel, J.; Scheck-Wenderoth, M.; Heine, C.; Strecker, M. R.

    2018-02-01

    Previous thermomechanical modeling studies indicated that variations in the temperature and strength of the crystalline crust might be responsible for the juxtaposition of domains with thin-skinned and thick-skinned crustal deformation along strike the foreland of the central Andes. However, there is no evidence supporting this hypothesis from data-integrative models. We aim to derive the density structure of the lithosphere by means of integrated 3-D density modeling, in order to provide a new basis for discussions of compositional variations within the crust and for future thermal and rheological modeling studies. Therefore, we utilize available geological and geophysical data to obtain a structural and density model of the uppermost 200 km of the Earth. The derived model is consistent with the observed Bouguer gravity field. Our results indicate that the crystalline crust in northern Argentina can be represented by a lighter upper crust (2,800 kg/m3) and a denser lower crust (3,100 kg/m3). We find new evidence for high bulk crustal densities >3,000 kg/m3 in the northern Pampia terrane. These could originate from subducted Puncoviscana wackes or pelites that ponded to the base of the crystalline crust in the late Proterozoic or indicate increasing bulk content of mafic material. The precise composition of the northern foreland crust, whether mafic or felsic, has significant implications for further thermomechanical models and the rheological behavior of the lithosphere. A detailed sensitivity analysis of the input parameters indicates that the model results are robust with respect to the given uncertainties of the input data.

  19. Finite-element formulations for the thermal stress analysis of two- and three-dimensional thin ractor structures

    International Nuclear Information System (INIS)

    Kulak, R.F.; Kennedy, J.M.; Belytschko, T.B.; Schoeberle, D.F.

    1977-01-01

    This paper describes finite-element formulations for the thermal stress analysis of LMFBR structures. The first formulation is applicable to large displacement rotation problems in which the strains are small. For this formulation, a general temperature-dependent constituent relationship is derived from a Gibbs potential function and a temperature dependent yield surface. The temperature dependency of the yield surface is based upon a temperature-dependent, material-hardening model. The model uses a temperature-equivalent stress-plastic strain diagram which is generated from isothermal uniaxial stress-strain data. A second formulation is presented for problems characterized by both large displacement-rotations and large strains. Here a set of large strain hypoelastic-plastic relationships are developed to linearly relate the rate of stress to the rate of deformation. The temperature field is described through time-dependent values at mesh node points; the temperature fields in each element are then obtained by interpolation formulas. Hence, problems with both spatial and temporal dependent temperature fields can easily be treated. The above developments were incorporated into two ANL developed finite-element computer codes: the implicit version of STRAW and the 3D Implicit Structural Analysis Code. STRAW is a two-dimensional code with a plane stress/plane strain beam element. The 3D Implicit code has a triangular flat plate element which is capable of sustaining both membrane and bending loads. To insure numerical stability both codes are based on an iterative-incremental solution procedure with equilibrium checks based on an error in energy

  20. Three-dimensional imaging for precise structural control of Si quantum dot networks for all-Si solar cells

    Science.gov (United States)

    Kourkoutis, Lena F.; Hao, Xiaojing; Huang, Shujuan; Puthen-Veettil, Binesh; Conibeer, Gavin; Green, Martin A.; Perez-Wurfl, Ivan

    2013-07-01

    All-Si tandem solar cells based on Si quantum dots (QDs) are a promising approach to future high-performance, thin film solar cells using abundant, stable and non-toxic materials. An important prerequisite to achieve a high conversion efficiency in such cells is the ability to control the geometry of the Si QD network. This includes the ability to control both, the size and arrangement of Si QDs embedded in a higher bandgap matrix. Using plasmon tomography we show the size, shape and density of Si QDs, that form in Si rich oxide (SRO)/SiO2 multilayers upon annealing, can be controlled by varying the SRO stoichiometry. Smaller, more spherical QDs of higher densities are obtained at lower Si concentrations. In richer SRO layers ellipsoidal QDs tend to form. Using electronic structure calculations within the effective mass approximation we show that ellipsoidal QDs give rise to reduced inter-QD coupling in the layer. Efficient carrier transport via mini-bands is in this case more likely across the multilayers provided the SiO2 spacer layer is thin enough to allow coupling in the vertical direction.All-Si tandem solar cells based on Si quantum dots (QDs) are a promising approach to future high-performance, thin film solar cells using abundant, stable and non-toxic materials. An important prerequisite to achieve a high conversion efficiency in such cells is the ability to control the geometry of the Si QD network. This includes the ability to control both, the size and arrangement of Si QDs embedded in a higher bandgap matrix. Using plasmon tomography we show the size, shape and density of Si QDs, that form in Si rich oxide (SRO)/SiO2 multilayers upon annealing, can be controlled by varying the SRO stoichiometry. Smaller, more spherical QDs of higher densities are obtained at lower Si concentrations. In richer SRO layers ellipsoidal QDs tend to form. Using electronic structure calculations within the effective mass approximation we show that ellipsoidal QDs give rise to

  1. Tree crown structural characterization: A study using terrestrial laser scanning and three-dimensional radiative transfer modeling

    Science.gov (United States)

    Moorthy, Inian

    Spectroscopic observational data for vegetated environments, have been coupled with 3D physically-based radiative transfer models for retrievals of biochemical and biophysical indicators of vegetation health and condition. With the recent introduction of Terrestrial Laser Scanning (TLS) units, there now exists a means of rapidly measuring intricate structural details of vegetation canopies, which can also serve as input into 3D radiative transfer models. In this investigation, Intelligent Laser Ranging and Imaging System (ILRIS-3D) data was acquired of individual tree crowns in laboratory, and field-based experiments. The ILRIS-3D uses the Time-Of-Flight (TOF) principle to measure the distances of objects based on the time interval between laser pulse exitance and return, upon reflection from an object. At the laboratory-level, this exploratory study demonstrated and validated innovative approaches for retrieving crown-level estimates of Leaf Area Index (LAI) (r2 = 0.98, rmse = 0.26m2/m2), a critical biophysical parameter for vegetation monitoring and modeling. These methods were implemented and expanded in field experiments conducted in olive (Olea europaea L.) orchards in Cordoba, Spain, where ILRIS-3D observations for 24 structurally-variable trees were made. Robust methodologies were developed to characterize diagnostic architectural parameters, such as tree height (r2 = 0.97, rmse = 0.21m), crown width (r 2 = 0.98, rmse = 0.12m), crown height (r2 = 0.81, rmse = 0.11m), crown volume (r2 = 0.99, rmse = 2.6m3), and LAI (r2 = 0.76, rmse = 0.27m2/ m2). These parameters were subsequently used as direct inputs into the Forest LIGHT (FLIGHT) 3D ray tracing model for characterization of the spectral behavior of the olive crowns. Comparisons between FLIGHT-simulated spectra and measured data showed small differences in the visible (measurements were significantly correlated to TLS-derived tree crown complexity metrics. The specific implications of internal crown

  2. Three Dimensional Seismic Tomography of the Shallow Subsurface Structure Under the Meihua Lake in Ilan, Northeastern Taiwan

    Science.gov (United States)

    Shih, R.

    2008-12-01

    The island of Taiwan is located at an ongoing collision boundary between two plates. The Philippine Sea plate and the Eurasian plate collided at the Longitudinal Valley of eastern Taiwan, and the Philippine Sea plate subducted northward beneath the Eurasian plate along the Ryukyu trench in eastern Taiwan at the Hualien area. Further northward in the island, the opening Okinawa trough ended at the Ilan area in northeastern Taiwan. The Ilan area is over populated and potentially able to produce large earthquake; however, since that are is densely covered with forests, due to lack of geologic and geomorphologic evidences, known active faults are still unclear. Recently, a series of topographic offsets of several meters distributed in a zone were found by using the LiDAR DTM data, indicating active normal faulting was activated in the past. Besides, several small sag ponds were mapped to support the active normal faulting activities. Later on, core borings in one of the small ponds (the Meihua Lake, diameter of about 700m) were conducted and the records showed obvious difference of depths in the adjacent boreholes at a very short distance. In order to realize the variation of the distribution of sediments under the Meihua Lake, we conducted a 3d seismic tomography survey at the lake, hopefully to help to verify the faults. In this paper, we will show results of using a 120-channel shallow seismic recording system for mapping the shallow subsurface structure of sediments under the Meihua Lake. During the experiment, we deployed the geophone groups of three geophones at every 6m along the bank of the lake and fired the shots at every 80m around the lake. An impactor of energy 2200 joule per shot was used as a seismic source. We stacked the energy at each shot point around 60 times for receiving clear signals. Since the total extension of recording system is 720m, about one third of the perimeter around the lake, 2,200m, we moved the geophone deployments 3 times to

  3. The Three-Dimensional Solution Structure of the Src Homology Domain-2 of the Growth Factor Receptor-Bound Protein-2

    International Nuclear Information System (INIS)

    Senior, Mary M.; Frederick, Anne F.; Black, Stuart; Murgolo, Nicholas J.; Perkins, Louise M.; Wilson, Oswald; Snow, Mark E.; Wang Yusen

    1998-01-01

    A set of high-resolution three-dimensional solution structures of the Src homology region-2 (SH2) domain of the growth factor receptor-bound protein-2 was determined using heteronuclear NMR spectroscopy. The NMR data used in this study were collected on a stable monomeric protein solution that was free of protein aggregates and proteolysis. The solution structure was determined based upon a total of 1439 constraints, which included 1326 nuclear Overhauser effect distance constraints, 70 hydrogen bond constraints, and 43 dihedral angle constraints. Distance geometry-simulated annealing calculations followed by energy minimization yielded a family of 18 structures that converged to a root-mean-square deviation of 1.09 A for all backbone atoms and 0.40 A for the backbone atoms of the central β-sheet. The core structure of the SH2 domain contains an antiparallel β-sheet flanked by two parallel α-helices displaying an overall architecture that is similar to other known SH2 domain structures. This family of NMR structures is compared to the X-ray structure and to another family of NMR solution structures determined under different solution conditions

  4. Numerical estimation of structure constants in the three-dimensional Ising conformal field theory through Markov chain uv sampler

    Science.gov (United States)

    Herdeiro, Victor

    2017-09-01

    Herdeiro and Doyon [Phys. Rev. E 94, 043322 (2016), 10.1103/PhysRevE.94.043322] introduced a numerical recipe, dubbed uv sampler, offering precise estimations of the conformal field theory (CFT) data of the planar two-dimensional (2D) critical Ising model. It made use of scale invariance emerging at the critical point in order to sample finite sublattice marginals of the infinite plane Gibbs measure of the model by producing holographic boundary distributions. The main ingredient of the Markov chain Monte Carlo sampler is the invariance under dilation. This paper presents a generalization to higher dimensions with the critical 3D Ising model. This leads to numerical estimations of a subset of the CFT data—scaling weights and structure constants—through fitting of measured correlation functions. The results are shown to agree with the recent most precise estimations from numerical bootstrap methods [Kos, Poland, Simmons-Duffin, and Vichi, J. High Energy Phys. 08 (2016) 036, 10.1007/JHEP08(2016)036].

  5. Three-dimensional imaging for precise structural control of Si quantum dot networks for all-Si solar cells.

    Science.gov (United States)

    Kourkoutis, Lena F; Hao, Xiaojing; Huang, Shujuan; Puthen-Veettil, Binesh; Conibeer, Gavin; Green, Martin A; Perez-Wurfl, Ivan

    2013-08-21

    All-Si tandem solar cells based on Si quantum dots (QDs) are a promising approach to future high-performance, thin film solar cells using abundant, stable and non-toxic materials. An important prerequisite to achieve a high conversion efficiency in such cells is the ability to control the geometry of the Si QD network. This includes the ability to control both, the size and arrangement of Si QDs embedded in a higher bandgap matrix. Using plasmon tomography we show the size, shape and density of Si QDs, that form in Si rich oxide (SRO)/SiO2 multilayers upon annealing, can be controlled by varying the SRO stoichiometry. Smaller, more spherical QDs of higher densities are obtained at lower Si concentrations. In richer SRO layers ellipsoidal QDs tend to form. Using electronic structure calculations within the effective mass approximation we show that ellipsoidal QDs give rise to reduced inter-QD coupling in the layer. Efficient carrier transport via mini-bands is in this case more likely across the multilayers provided the SiO2 spacer layer is thin enough to allow coupling in the vertical direction.

  6. Engineering three-dimensionally electrodeposited Si-on-Ni inverse opal structure for high volumetric capacity Li-ion microbattery anode.

    Science.gov (United States)

    Liu, Hao; Cho, Hyung-Man; Meng, Ying Shirley; Li, Quan

    2014-06-25

    Aiming at improving the volumetric capacity of nanostructured Li-ion battery anode, an electrodeposited Si-on-Ni inverse opal structure has been proposed in the present work. This type of electrode provides three-dimensional bi-continuous pathways for ion/electron transport and high surface area-to-volume ratios, and thus exhibits lower interfacial resistance, but higher effective Li ions diffusion coefficients, when compared to the Si-on-Ni nanocable array electrode of the same active material mass. As a result, improved volumetric capacities and rate capabilities have been demonstrated in the Si-on-Ni inverse opal anode. We also show that optimization of the volumetric capacities and the rate performance of the inverse opal electrode can be realized by manipulating the pore size of the Ni scaffold and the thickness of the Si deposit.

  7. Investigation of electronic band structure and charge transfer mechanism of oxidized three-dimensional graphene as metal-free anodes material for dye sensitized solar cell application

    Science.gov (United States)

    Loeblein, Manuela; Bruno, Annalisa; Loh, G. C.; Bolker, Asaf; Saguy, Cecile; Antila, Liisa; Tsang, Siu Hon; Teo, Edwin Hang Tong

    2017-10-01

    Dye-sensitized solar cells (DSSCs) offer an optimal trade-off between conversion-efficiency and low-cost fabrication. However, since all its electrodes need to fulfill stringent work-function requirements, its materials have remained unchanged since DSSC's first report early-90s. Here we describe a new material, oxidized-three-dimensional-graphene (o-3D-C), with a band gap of 0.2 eV and suitable electronic band-structure as alternative metal-free material for DSSCs-anodes. o-3D-C/dye-complex has a strong chemical bonding via carboxylic-group chemisorption with full saturation after 12 sec at capacity of ∼450 mg/g (600x faster and 7x higher than optimized metal surfaces). Furthermore, fluorescence quenching of life-time by 28-35% was measured demonstrating charge-transfer from dye to o-3D-C.

  8. Coastwide Reference Monitoring System (CRMS) Vegetation Volume Index: An assessment tool for marsh habitat focused on the three-dimensional structure at CRMS vegetation monitoring stations

    Science.gov (United States)

    Wood, William B.; Visser, Jenneke M.; Piazza, Sarai C.; Sharp, Leigh A.; Hundy, Laura C.; McGinnis, Tommy E.

    2015-12-04

    A Vegetation Volume (VV) variable and Vegetation Volume Index (VVI) have been developed for the Coastwide Reference Monitoring System (CRMS). The VV is a measure of the amount of three-dimensional vegetative structure present at each CRMS site and is based on vegetation data collected annually. The VV uses 10 stations per CRMS site to quantify four vegetation layers: carpet, herbaceous, shrub, and tree. For each layer an overall live vegetation percent cover and height are collected to create a layer volume; the individual layer volumes are then summed to generate a site vegetation volume profile. The VV uses the two-dimensional area of live vegetative cover (in square meters) multiplied by the height (in meters) of each layer to produce a volume (in cubic meters) for each layer present in a 2-meter by 2-meter station. These layers are additive, yielding a total volume for each of the 10 herbaceous vegetation stations and an overall CRMS marsh site average.

  9. A three-dimensional nitrogen-doped graphene structure: a highly efficient carrier of enzymes for biosensors

    Science.gov (United States)

    Guo, Jingxing; Zhang, Tao; Hu, Chengguo; Fu, Lei

    2015-01-01

    In recent years, graphene-based enzyme biosensors have received considerable attention due to their excellent performance. Enormous efforts have been made to utilize graphene oxide and its derivatives as carriers of enzymes for biosensing. However, the performance of these sensors is limited by the drawbacks of graphene oxide such as slow electron transfer rate, low catalytic area and poor conductivity. Here, we report a new graphene-based enzyme carrier, i.e. a highly conductive 3D nitrogen-doped graphene structure (3D-NG) grown by chemical vapour deposition, for highly effective enzyme-based biosensors. Owing to the high conductivity, large porosity and tunable nitrogen-doping ratio, this kind of graphene framework shows outstanding electrical properties and a large surface area for enzyme loading and biocatalytic reactions. Using glucose oxidase (GOx) as a model enzyme and chitosan (CS) as an efficient molecular binder of the enzyme, our 3D-NG based biosensors show extremely high sensitivity for the sensing of glucose (226.24 μA mM-1 m-2), which is almost an order of magnitude higher than those reported in most of the previous studies. The stable adsorption and outstanding direct electrochemical behaviour of the enzyme on the nanocomposite indicate the promising application of this 3D enzyme carrier in high-performance electrochemical biosensors or biofuel cells.In recent years, graphene-based enzyme biosensors have received considerable attention due to their excellent performance. Enormous efforts have been made to utilize graphene oxide and its derivatives as carriers of enzymes for biosensing. However, the performance of these sensors is limited by the drawbacks of graphene oxide such as slow electron transfer rate, low catalytic area and poor conductivity. Here, we report a new graphene-based enzyme carrier, i.e. a highly conductive 3D nitrogen-doped graphene structure (3D-NG) grown by chemical vapour deposition, for highly effective enzyme

  10. Three-dimensional structures of Plasmodium falciparum spermidine synthase with bound inhibitors suggest new strategies for drug design

    International Nuclear Information System (INIS)

    Sprenger, Janina; Svensson, Bo; Hålander, Jenny; Carey, Jannette; Persson, Lo; Al-Karadaghi, Salam

    2015-01-01

    In this work, X-ray crystallography was used to examine ligand complexes of spermidine synthase from the malaria parasite Plasmodium falciparum (PfSpdS). The enzymes of the polyamine-biosynthesis pathway have been proposed to be promising drug targets in the treatment of malaria. Spermidine synthase (SpdS; putrescine aminopropyltransferase) catalyzes the transfer of the aminopropyl moiety from decarboxylated S-adenosylmethionine to putrescine, leading to the formation of spermidine and 5′-methylthioadenosine (MTA). In this work, X-ray crystallography was used to examine ligand complexes of SpdS from the malaria parasite Plasmodium falciparum (PfSpdS). Five crystal structures were determined of PfSpdS in complex with MTA and the substrate putrescine, with MTA and spermidine, which was obtained as a result of the enzymatic reaction taking place within the crystals, with dcAdoMet and the inhibitor 4-methylaniline, with MTA and 4-aminomethylaniline, and with a compound predicted in earlier in silico screening to bind to the active site of the enzyme, benzimidazol-(2-yl)pentan-1-amine (BIPA). In contrast to the other inhibitors tested, the complex with BIPA was obtained without any ligand bound to the dcAdoMet-binding site of the enzyme. The complexes with the aniline compounds and BIPA revealed a new mode of ligand binding to PfSpdS. The observed binding mode of the ligands, and the interplay between the two substrate-binding sites and the flexible gatekeeper loop, can be used in the design of new approaches in the search for new inhibitors of SpdS

  11. Three-dimensional structures of Plasmodium falciparum spermidine synthase with bound inhibitors suggest new strategies for drug design

    Energy Technology Data Exchange (ETDEWEB)

    Sprenger, Janina [Lund University, SE-221 00 Lund (Sweden); Lund University, SE-221 84 Lund (Sweden); Svensson, Bo [Lund University, SE-221 00 Lund (Sweden); SARomics Biostructures AB, Box 724, SE-220 07 Lund (Sweden); Hålander, Jenny [Lund University, SE-221 00 Lund (Sweden); Carey, Jannette [Princeton University, Princeton, New Jersey (United States); Persson, Lo [Lund University, SE-221 84 Lund (Sweden); Al-Karadaghi, Salam, E-mail: salam.al-karadaghi@biochemistry.lu.se [Lund University, SE-221 00 Lund (Sweden)

    2015-03-01

    In this work, X-ray crystallography was used to examine ligand complexes of spermidine synthase from the malaria parasite Plasmodium falciparum (PfSpdS). The enzymes of the polyamine-biosynthesis pathway have been proposed to be promising drug targets in the treatment of malaria. Spermidine synthase (SpdS; putrescine aminopropyltransferase) catalyzes the transfer of the aminopropyl moiety from decarboxylated S-adenosylmethionine to putrescine, leading to the formation of spermidine and 5′-methylthioadenosine (MTA). In this work, X-ray crystallography was used to examine ligand complexes of SpdS from the malaria parasite Plasmodium falciparum (PfSpdS). Five crystal structures were determined of PfSpdS in complex with MTA and the substrate putrescine, with MTA and spermidine, which was obtained as a result of the enzymatic reaction taking place within the crystals, with dcAdoMet and the inhibitor 4-methylaniline, with MTA and 4-aminomethylaniline, and with a compound predicted in earlier in silico screening to bind to the active site of the enzyme, benzimidazol-(2-yl)pentan-1-amine (BIPA). In contrast to the other inhibitors tested, the complex with BIPA was obtained without any ligand bound to the dcAdoMet-binding site of the enzyme. The complexes with the aniline compounds and BIPA revealed a new mode of ligand binding to PfSpdS. The observed binding mode of the ligands, and the interplay between the two substrate-binding sites and the flexible gatekeeper loop, can be used in the design of new approaches in the search for new inhibitors of SpdS.

  12. Synthesis, growth, structural and optical studies of a new organic three dimensional framework: 4-(aminocarbonyl)pyridine 4-(aminocarbonyl)pyridinium hydrogen L-malate

    Energy Technology Data Exchange (ETDEWEB)

    Vijayalakshmi, A. [Department of Chemistry, RMK. Engineering College, Kavaraipettai 601206 (India); Vidyavathy, B., E-mail: vidyavathybalraj@gmail.com [Department of Chemistry,Velammal Engineering College, Chennai 600066 (India); Peramaiyan, G. [Institute of Physics, Academia Sinica, Taipei 11529, Taiwan (China); Vinitha, G. [Department of Physics, VIT University, Chennai 600127 (India)

    2017-02-15

    4-(aminocarbonyl)pyridine 4-(aminocarbonyl)pyridinium hydrogen L-malate [(4ACP)(4ACP).(LM)] a new organic nonlinear optical (NLO) crystal was grown by the slow evaporation method. Single crystal X-ray diffraction analysis revealed that the [(4ACP)(4ACP).(LM)] crystal belongs to monoclinic crystal system, space group P2{sub 1}/n, with a three dimensional network. Thermogravimetry (TG) and differential thermal (DT) analyses showed that [(4ACP)(4ACP).(LM)] is thermally stable up to 165 °C. The optical transmittance window and the lower cut-off wavelength of [(4ACP)(4ACP).(LM)] were found out by UV–vis–NIR spectral study. The molecular structure of [(4ACP)(4ACP).(LM)] was further confirmed by FTIR spectral studies. The relative dielectric permittivity and dielectric loss were determined as function of frequency and temperature. The third order nonlinear optical property of [(4ACP)(4ACP).(LM)] was studied by the Z-scan technique using a 532 nm diode pumped CW Nd:YAG laser. Nonlinear refractive index, nonlinear absorption coefficient and third order nonlinear susceptibility of the grown crystal were found to be 7.38×10{sup −8} cm{sup 2}/W, 0.08×10{sup −4} cm/W and 5.36×10{sup −6} esu, respectively. The laser damage threshold value is found to be 1.75 GW/cm{sup 2} - Graphical abstract: In the crystal structure of the title complex, the asymmetric unit contains one hydrogen L-malate anion, 4-(aminocarbonyl)pyridinium cation and a neutral isonicotinamide molecule. It is stabilized by intermolecular N-H…O, C-H…O and O-H…O hydrogen bonds which generate a three dimensional network.

  13. Low-Frequency Oscillations and Transport Processes Induced by Multiscale Transverse Structures in the Polar Wind Outflow: A Three-Dimensional Simulation

    Science.gov (United States)

    Ganguli, Supriya B.; Gavrishchaka, Valeriy V.

    1999-01-01

    Multiscale transverse structures in the magnetic-field-aligned flows have been frequently observed in the auroral region by FAST and Freja satellites. A number of multiscale processes, such as broadband low-frequency oscillations and various cross-field transport effects are well correlated with these structures. To study these effects, we have used our three-dimensional multifluid model with multiscale transverse inhomogeneities in the initial velocity profile. Self-consistent-frequency mode driven by local transverse gradients in the generation of the low field-aligned ion flow and associated transport processes were simulated. Effects of particle interaction with the self-consistent time-dependent three-dimensional wave potential have been modeled using a distribution of test particles. For typical polar wind conditions it has been found that even large-scale (approximately 50 - 100 km) transverse inhomogeneities in the flow can generate low-frequency oscillations that lead to significant flow modifications, cross-field particle diffusion, and other transport effects. It has also been shown that even small-amplitude (approximately 10 - 20%) short-scale (approximately 10 km) modulations of the original large-scale flow profile significantly increases low-frequency mode generation and associated cross-field transport, not only at the local spatial scales imposed by the modulations but also on global scales. Note that this wave-induced cross-field transport is not included in any of the global numerical models of the ionosphere, ionosphere-thermosphere, or ionosphere-polar wind. The simulation results indicate that the wave-induced cross-field transport not only affects the ion outflow rates but also leads to a significant broadening of particle phase-space distribution and transverse particle diffusion.

  14. Three-dimensional model of plate geometry and velocity model for Nankai Trough seismogenic zone based on results from structural studies

    Science.gov (United States)

    Nakanishi, A.; Shimomura, N.; Kodaira, S.; Obana, K.; Takahashi, T.; Yamamoto, Y.; Yamashita, M.; Takahashi, N.; Kaneda, Y.

    2012-12-01

    In the Nankai Trough subduction seismogenic zone, the Nankai and Tonankai earthquakes had often occurred simultaneously, and caused a great event. In order to reduce a great deal of damage to coastal area from both strong ground motion and tsunami generation, it is necessary to understand rupture synchronization and segmentation of the Nankai megathrust earthquake. For a precise estimate of the rupture zone of the Nankai megathrust event based on the knowledge of realistic earthquake cycle and variation of magnitude, it is important to know the geometry and property of the plate boundary of the subduction seismogenic zone. To improve a physical model of the Nankai Trough seismogenic zone, the large-scale high-resolution wide-angle and reflection (MCS) seismic study, and long-term observation has been conducted since 2008. Marine active source seismic data have been acquired along grid two-dimensional profiles having the total length of ~800km every year. A three-dimensional seismic tomography using active and passive seismic data observed both land and ocean bottom stations have been also performed. From those data, we found that several strong lateral variations of the subducting Philippine Sea plate and overriding plate corresponding to margins of coseismic rupture zone of historical large event occurred along the Nankai Trough. Particularly a possible prominent reflector for the forearc Moho is recently imaged in the offshore side in the Kii channel at the depth of ~18km which is shallower than those of other area along the Nankai Trough. Such a drastic variation of the overriding plate might be related to the existence of the segmentation of the Nankai megathrust earthquake. Based on our results derived from seismic studies, we have tried to make a geometrical model of the Philippine Sea plate and a three-dimensional velocity structure model of the Nankai Trough seismogenic zone. In this presentation, we will summarize major results of out seismic studies, and

  15. Three-Dimensional Packing Structure and Electronic Properties of Biaxially Oriented Poly(2,5-bis(3-alkylthiophene-2-yl)thieno[3,2- b ]thiophene) Films

    KAUST Repository

    Cho, Eunkyung

    2012-04-11

    We use a systematic approach that combines experimental X-ray diffraction (XRD) and computational modeling based on molecular mechanics and two-dimensional XRD simulations to develop a detailed model of the molecular-scale packing structure of poly(2,5-bis (3-tetradecylthiophene-2-yl) thieno[3,2-b]thiophene) (PBTTT-C 14) films. Both uniaxially and biaxially aligned films are used in this comparison and lead to an improved understanding of the molecular-scale orientation and crystal structure. We then examine how individual polymer components (i.e., conjugated backbone and alkyl side chains) contribute to the complete diffraction pattern, and how modest changes to a particular component orientation (e.g., backbone or side-chain tilt) influence the diffraction pattern. The effects on the polymer crystal structure of varying the alkyl side-chain length from C 12 to C 14 and C 16 are also studied. The accurate determination of the three-dimensional polymer structure allows us to examine the PBTTT electronic band structure and intermolecular electronic couplings (transfer integrals) as a function of alkyl side-chain length. This combination of theoretical and experimental techniques proves to be an important tool to help establish the relationship between the structural and electronic properties of polymer thin films. © 2012 American Chemical Society.

  16. Comparative analysis of three-dimensional structures of homodimers of uridine phosphorylase from Salmonella typhimurium in the unligated state and in a complex with potassium ion

    International Nuclear Information System (INIS)

    Lashkov, A. A.; Zhukhlistova, N. E.; Gabdulkhakov, A. G.; Mikhailov, A. M.

    2009-01-01

    The spatial organization of the homodimer of unligated uridine phosphorylase from Salmonella typhimurium (St UPh) was determined with high accuracy. The structure was refined at 1.80 A resolution to R work = 16.1% and R free = 20.0%. The rms deviations for the bond lengths, bond angles, and chiral angles are 0.006 A, 1.042 o , and 0.071 o , respectively. The coordinate error estimated by the Luzzati plot is 0.166 A. The coordinate error based on the maximum likelihood is 0.199 A. A comparative analysis of the spatial organization of the homodimer in two independently refined structures and the structure of the homodimer St UPh in the complex with a K + ion was performed. The substrate-binding sites in the homodimers StUPhs in the unligated state were found to act asynchronously. In the presence of a potassium ion, the three-dimensional structures of the subunits in the homodimer are virtually identical, which is apparently of importance for the synchronous action of both substrate-binding sites. The atomic coordinates of the refined structure of the homodimer and structure factors have been deposited in the Protein Data Bank (PDB ID code 3DPS).

  17. Comparative analysis of three-dimensional structures of homodimers of uridine phosphorylase from Salmonella typhimurium in the unligated state and in a complex with potassium ion

    Energy Technology Data Exchange (ETDEWEB)

    Lashkov, A. A.; Zhukhlistova, N. E.; Gabdulkhakov, A. G.; Mikhailov, A. M., E-mail: amm@ns.crys.ras.ru [Russian Academy of Sciences, Shubnikov Institute of Crystallography (Russian Federation)

    2009-03-15

    The spatial organization of the homodimer of unligated uridine phosphorylase from Salmonella typhimurium (St UPh) was determined with high accuracy. The structure was refined at 1.80 A resolution to R{sub work} = 16.1% and R{sub free} = 20.0%. The rms deviations for the bond lengths, bond angles, and chiral angles are 0.006 A, 1.042{sup o}, and 0.071{sup o}, respectively. The coordinate error estimated by the Luzzati plot is 0.166 A. The coordinate error based on the maximum likelihood is 0.199 A. A comparative analysis of the spatial organization of the homodimer in two independently refined structures and the structure of the homodimer St UPh in the complex with a K{sup +} ion was performed. The substrate-binding sites in the homodimers StUPhs in the unligated state were found to act asynchronously. In the presence of a potassium ion, the three-dimensional structures of the subunits in the homodimer are virtually identical, which is apparently of importance for the synchronous action of both substrate-binding sites. The atomic coordinates of the refined structure of the homodimer and structure factors have been deposited in the Protein Data Bank (PDB ID code 3DPS).

  18. Three-dimensional skeleton networks of graphene wrapped polyaniline nanofibers: an excellent structure for high-performance flexible solid-state supercapacitors

    Science.gov (United States)

    Hu, Nantao; Zhang, Liling; Yang, Chao; Zhao, Jian; Yang, Zhi; Wei, Hao; Liao, Hanbin; Feng, Zhenxing; Fisher, Adrian; Zhang, Yafei; Xu, Zhichuan J.

    2016-01-01

    Thin, robust, lightweight, and flexible supercapacitors (SCs) have aroused growing attentions nowadays due to the rapid development of flexible electronics. Graphene-polyaniline (PANI) hybrids are attractive candidates for high performance SCs. In order to utilize them in real devices, it is necessary to improve the capacitance and the structure stability of PANI. Here we report a hierarchical three-dimensional structure, in which all of PANI nanofibers (NFs) are tightly wrapped inside reduced graphene oxide (rGO) nanosheet skeletons, for high-performance flexible SCs. The as-fabricated film electrodes with this unique structure showed a highest gravimetric specific capacitance of 921 F/g and volumetric capacitance of 391 F/cm3. The assembled solid-state SCs gave a high specific capacitance of 211 F/g (1 A/g), a high area capacitance of 0.9 F/cm2, and a competitive volumetric capacitance of 25.6 F/cm3. The SCs also exhibited outstanding rate capability (~75% retention at 20 A/g) as well as excellent cycling stability (100% retention at 10 A/g for 2000 cycles). Additionally, no structural failure and loss of performance were observed under the bending state. This structure design paves a new avenue for engineering rGO/PANI or other similar hybrids for high performance flexible energy storage devices. PMID:26795067

  19. Synthesis of three-dimensional rare-earth ions doped CNTs-GO-Fe{sub 3}O{sub 4} hybrid structures using one-pot hydrothermal method

    Energy Technology Data Exchange (ETDEWEB)

    Gao, Guo, E-mail: guogao@sjtu.edu.cn [Institute of Nano Biomedicine and Engineering, Department of Instrument Science and Technology, Key Laboratory for Thin Film and Microfabrication Technology of Ministry of Education, School of Electronic Information and Electrical Engineering, Shanghai Jiao Tong University, Shanghai 200240 (China); Zhang, Qiang; Cheng, Xin-Bing [Beijing Key Laboratory of Green Chemical Reaction Engineering and Technology, Department of Chemical Engineering, Tsinghua University, Beijing 100084 (China); Sun, Rongjin [Institute of Nano Biomedicine and Engineering, Department of Instrument Science and Technology, Key Laboratory for Thin Film and Microfabrication Technology of Ministry of Education, School of Electronic Information and Electrical Engineering, Shanghai Jiao Tong University, Shanghai 200240 (China); Shapter, Joseph G., E-mail: joe.shapter@flinders.edu.au [School of Chemical and Physical Sciences, Flinders University, Bedford Park, Adelaide 5042 (Australia); Yin, Ting [Institute of Nano Biomedicine and Engineering, Department of Instrument Science and Technology, Key Laboratory for Thin Film and Microfabrication Technology of Ministry of Education, School of Electronic Information and Electrical Engineering, Shanghai Jiao Tong University, Shanghai 200240 (China); Cui, Daxiang, E-mail: dxcui@sjtu.edu.cn [Institute of Nano Biomedicine and Engineering, Department of Instrument Science and Technology, Key Laboratory for Thin Film and Microfabrication Technology of Ministry of Education, School of Electronic Information and Electrical Engineering, Shanghai Jiao Tong University, Shanghai 200240 (China)

    2015-11-15

    Rechargeable lithium ion batteries (LIBs) are currently the dominant power source for all sorts of electronic devices due to their low cost and high energy density. The cycling stability of LIBs is significantly compromised due to the broad satellite peak for many anode materials. Herein, we develop a facile hydrothermal process for preparing rare-earth (Er, Tm) ions doped three-dimensional (3D) transition metal oxides/carbon hybrid nanocomposites, namely CNTs-GO-Fe{sub 3}O{sub 4}, CNTs-GO-Fe{sub 3}O{sub 4}-Er and CNTs-GO-Fe{sub 3}O{sub 4}-Tm. The GO sheets and CNTs are interlinked by ultrafine Fe{sub 3}O{sub 4} nanoparticles forming three-dimensional (3D) architectures. When evaluated as anode materials for LIBs, the CNTs-GO-Fe{sub 3}O{sub 4} hybrid composites have a bigger broad satellite peak. As for the CNTs-GO-Fe{sub 3}O{sub 4}-Er and CNTs-GO-Fe{sub 3}O{sub 4}-Tm hybrid composites, the broad satellite peak can be completely eliminated. When the current density changes from 5 C back to 0.1 C, the capacity of CNTs-GO-Fe{sub 3}O{sub 4}-Tm hybrid composites can recover to 1023.9 mAhg{sup −1}, indicating an acceptable rate capability. EIS tests show that the charge transfer resistance does not change significantly after 500 cycles, demonstrating that the cycling stability of CNTs-GO-Fe{sub 3}O{sub 4}-Tm hybrid composites are superior to CNTs-GO-Fe{sub 3}O{sub 4} and CNTs-GO-Fe{sub 3}O{sub 4}-Er hybrid structures. - Graphical abstract: One-pot hydrothermal method for synthesis of rare-earth ions doped CNTs-GO-Fe{sub 3}O{sub 4} hybrid structures as anode materials of LIBs have been reported. - Highlights: • We report the synthesis of rare-earth ions doped CNTs-GO-Fe{sub 3}O{sub 4} hybrid structures. • The hybrid structures can improve the cycling stability of lithium storage. • As for anode materials, the broad satellite peak can be completely eliminated. • When the rate return back to 0.1 C, the capacity can recover to 1023.9 mAhg{sup −1}. • After 500

  20. Synthesis of three-dimensional rare-earth ions doped CNTs-GO-Fe3O4 hybrid structures using one-pot hydrothermal method

    International Nuclear Information System (INIS)

    Gao, Guo; Zhang, Qiang; Cheng, Xin-Bing; Sun, Rongjin; Shapter, Joseph G.; Yin, Ting; Cui, Daxiang

    2015-01-01

    Rechargeable lithium ion batteries (LIBs) are currently the dominant power source for all sorts of electronic devices due to their low cost and high energy density. The cycling stability of LIBs is significantly compromised due to the broad satellite peak for many anode materials. Herein, we develop a facile hydrothermal process for preparing rare-earth (Er, Tm) ions doped three-dimensional (3D) transition metal oxides/carbon hybrid nanocomposites, namely CNTs-GO-Fe 3 O 4 , CNTs-GO-Fe 3 O 4 -Er and CNTs-GO-Fe 3 O 4 -Tm. The GO sheets and CNTs are interlinked by ultrafine Fe 3 O 4 nanoparticles forming three-dimensional (3D) architectures. When evaluated as anode materials for LIBs, the CNTs-GO-Fe 3 O 4 hybrid composites have a bigger broad satellite peak. As for the CNTs-GO-Fe 3 O 4 -Er and CNTs-GO-Fe 3 O 4 -Tm hybrid composites, the broad satellite peak can be completely eliminated. When the current density changes from 5 C back to 0.1 C, the capacity of CNTs-GO-Fe 3 O 4 -Tm hybrid composites can recover to 1023.9 mAhg −1 , indicating an acceptable rate capability. EIS tests show that the charge transfer resistance does not change significantly after 500 cycles, demonstrating that the cycling stability of CNTs-GO-Fe 3 O 4 -Tm hybrid composites are superior to CNTs-GO-Fe 3 O 4 and CNTs-GO-Fe 3 O 4 -Er hybrid structures. - Graphical abstract: One-pot hydrothermal method for synthesis of rare-earth ions doped CNTs-GO-Fe 3 O 4 hybrid structures as anode materials of LIBs have been reported. - Highlights: • We report the synthesis of rare-earth ions doped CNTs-GO-Fe 3 O 4 hybrid structures. • The hybrid structures can improve the cycling stability of lithium storage. • As for anode materials, the broad satellite peak can be completely eliminated. • When the rate return back to 0.1 C, the capacity can recover to 1023.9 mAhg −1 . • After 500 cycles, the hybrid structures still exhibited excellent cycling stability

  1. Three-dimensional structure of potato carboxypeptidase inhibitor in solution. A study using nuclear magnetic resonance, distance geometry, and restrained molecular dynamics

    International Nuclear Information System (INIS)

    Clore, G.M.; Gronenborn, A.M.; Nilges, M.; Ryan, C.A.

    1987-01-01

    The solution conformation of potato carboxypeptidase inhibitor (CPI) has been investigated by 1 H NMR spectroscopy. The spectrum is assigned in a sequential manner by using two-dimensional NMR techniques to identify through-bond and through-space (<5 A) connectivities. A set of 309 approximate interproton distance restraints is derived from the two-dimensional nuclear Overhauser enhancement spectra and used as the basis of a three-dimensional structure determination by a combination of metric matrix distance geometry and restrained molecular dynamics calculations. A total of 11 converged distance geometry structures were computed and refined by using restrained molecular dynamics. The average atomic root mean square (rms) difference between the final 11 structures and the mean structure obtained by averaging their coordinates is 1.4 +/- 0.3 A for residues 2-39 and 0.9 +/- 0.2 A for residues 5-37. The corresponding values for all atoms are 1.9 +/- 0.3 and 1.4 +/- 0.2 A, respectively. The computed structures are very close to the X-ray structure of CPI in its complex with carboxypeptidase, and the backbone atomic rms difference between the mean of the computed structures and the X-ray structure is only 1.2 A. Nevertheless, there are some real differences present which are evidenced by significant deviations between the experimental upper interproton distance limits and the corresponding interproton distances derived from the X-ray structure. These principally occur in two regions, residues 18-20 and residues 28-30, the latter comprising part of the region of secondary contact between CPI and carboxypeptidase in the X-ray structure

  2. Understanding and control of nucleation, growth, habit, dissolution and structure of two- and three-dimensional crystals using 'Tailor-made' auxiliaries

    International Nuclear Information System (INIS)

    Weissbuch, I.; Popovitz-Biro, R.; Lahav, M.; Leiserowitz, L.

    1995-01-01

    Tailor-made auxiliaries for the control of nucleation and growth of molecular crystals may be classified into two broad categories: inhibitors and promoters. Tailor-made inhibitors of crystal growth can be used for a variety of purposes, which include morphological engineering and etching, reduction of crystal symmetry, assignment of absolute structure of chiral molecules and polar crystals, elucidation of the effect of solvent on crystal growth, and crystallization of a desired polymorph. As for crystal growth promoters, monolayers of amphiphilic molecules on water have been used to induce the growth of a variety of three-dimensional crystals at the monolayer-solution interface by means of structural match, molecular complementarity or electrostatic interaction. A particular focus is made on the induced nucleation of ice by monolayers of water-insoluble aliphatic alcohols. The two-dimensional crystalline structures of such monolayers have been studied by grazing incidence X-ray diffraction. It has become possible to monitor, by this method, the growth, dissolution and structure of self-aggregated crystalline monolayers, and indeed multilayers, affected by the interaction of solvent molecules in the aqueous subphase with the amphiphilic headgroups, and by the use of tailor-made amphiphilic additives. (orig.)

  3. Study on three dimensional seismic isolation system

    International Nuclear Information System (INIS)

    Morishita, Masaki; Kitamura, Seiji

    2003-01-01

    Japan Nuclear Cycle Development Institute (JNC) and Japan Atomic Power Company (JAPC) launched joint research programs on structural design and three-dimensional seismic isolation technologies, as part of the supporting R and D activities for the feasibility studies on commercialized fast breeder reactor cycle systems. A research project by JAPC under the auspices of the Ministry of Economy, Trade, and Industry (METI) with technical support by JNC is included in this joint study. This report contains the results of the research on the three-dimensional seismic isolation technologies, and the results of this year's study are summarized in the following five aspects. (1) Study on Earthquake Condition for Developing 3-dimensional Base Isolation System. The case study S2 is one of the maximum ground motions, of which the records were investigated up to this time. But a few observed near the fault exceed the case study S2 in the long period domain, depending on the fault length and conditions. Generally it is appropriate that the response spectra ratio (vertical/horizontal) is 0.6. (2) Performance Requirement for 3-dimensional Base Isolation System and Devices. Although the integrity map of main equipment/piping dominate the design criteria for the 3-dimensional base isolation system, the combined integrity map is the same as those of FY 2000, which are under fv=1Hz and over hv=20%. (3) Developing Targets and Schedule for 3-dimensional Isolation Technology. The target items for 3-dimensional base isolation system were rearranged into a table, and developing items to be examined concerning the device were also adjusted. A development plan until FY 2009 was made from the viewpoint of realization and establishment of a design guideline on 3-dimensional base isolation system. (4) Study on 3-dimensional Entire Building Base Isolation System. Three ideas among six ideas that had been proposed in FY2001, i.e., '3-dimensional base isolation system incorporating hydraulic

  4. Interplay between cellular activity and three-dimensional scaffold-cell constructs with different foam structure processed by electron beam melting.

    Science.gov (United States)

    Nune, Krishna C; Misra, R Devesh K; Gaytan, Sara M; Murr, Lawrence E

    2015-05-01

    The cellular activity, biological response, and consequent integration of scaffold-cell construct in the physiological system are governed by the ability of cells to adhere, proliferate, and biomineralize. In this regard, we combine cellular biology and materials science and engineering to fundamentally elucidate the interplay between cellular activity and interconnected three-dimensional foamed architecture obtained by a novel process of electron beam melting and computational tools. Furthermore, the organization of key proteins, notably, actin, vinclulin, and fibronectin, involved in cellular activity and biological functions and relationship with the structure was explored. The interconnected foamed structure with ligaments was favorable to cellular activity that includes cell attachment, proliferation, and differentiation. The primary rationale for favorable modulation of cellular functions is that the foamed structure provided a channel for migration and communication between cells leading to highly mineralized extracellular matrix (ECM) by the differentiating osteoblasts. The filopodial interaction amongst cells on the ligaments was a governing factor in the secretion of ECM, with consequent influence on maturation and mineralization. © 2014 Wiley Periodicals, Inc.

  5. Three-dimensional structure of the coronal magnetic field and the solar wind speed distribution projected on the photosphere in 1974

    International Nuclear Information System (INIS)

    Hakamada, K.

    1987-01-01

    Since the solar wind and coronal holes were relatively steady in 1974, the average distribution of the solar wind speed on the source surface and that of the line-of-sight component of the photospheric magnetic fields (B 1 ) can be constructed, with fair accuracy, by the superposed epoch analysis. The three-dimensional structure of the coronal magnetic fields is then computed from this average map of B 1 based on the potential model. The average distribution of the solar wind speed on the source surface, obtained from interplanetary scintillation observations, is then projected onto the photosphere along the open field lines in the corona. The high-speed regions thus projected are compared with the He I (1083 nm) coronal holes and are found to have a similar geometry. The results are also suggestive that the solar wind does not blow out uniformly from the vicinity of a coronal hole and that the speed is higher at the east side in that region than at the west side. The slower speed regions on the source surface have a sinusoidal structure in heliographic latitude-longitude coordinates and are similar to the brightness distribution of the K corona and the structure of closed field line regions projected onto the photosphere. copyrightAmerican Geophysical Union 1987

  6. A High Precision Approach to Calibrate a Structured Light Vision Sensor in a Robot-Based Three-Dimensional Measurement System

    Directory of Open Access Journals (Sweden)

    Defeng Wu

    2016-08-01

    Full Text Available A robot-based three-dimensional (3D measurement system is presented. In the presented system, a structured light vision sensor is mounted on the arm of an industrial robot. Measurement accuracy is one of the most important aspects of any 3D measurement system. To improve the measuring accuracy of the structured light vision sensor, a novel sensor calibration approach is proposed to improve the calibration accuracy. The approach is based on a number of fixed concentric circles manufactured in a calibration target. The concentric circle is employed to determine the real projected centres of the circles. Then, a calibration point generation procedure is used with the help of the calibrated robot. When enough calibration points are ready, the radial alignment constraint (RAC method is adopted to calibrate the camera model. A multilayer perceptron neural network (MLPNN is then employed to identify the calibration residuals after the application of the RAC method. Therefore, the hybrid pinhole model and the MLPNN are used to represent the real camera model. Using a standard ball to validate the effectiveness of the presented technique, the experimental results demonstrate that the proposed novel calibration approach can achieve a highly accurate model of the structured light vision sensor.

  7. The Three-Dimensional Culture System with Matrigel and Neurotrophic Factors Preserves the Structure and Function of Spiral Ganglion Neuron In Vitro.

    Science.gov (United States)

    Sun, Gaoying; Liu, Wenwen; Fan, Zhaomin; Zhang, Daogong; Han, Yuechen; Xu, Lei; Qi, Jieyu; Zhang, Shasha; Gao, Bradley T; Bai, Xiaohui; Li, Jianfeng; Chai, Renjie; Wang, Haibo

    2016-01-01

    Whole organ culture of the spiral ganglion region is a resourceful model system facilitating manipulation and analysis of live sprial ganglion neurons (SGNs). Three-dimensional (3D) cultures have been demonstrated to have many biomedical applications, but the effect of 3D culture in maintaining the SGNs structure and function in explant culture remains uninvestigated. In this study, we used the matrigel to encapsulate the spiral ganglion region isolated from neonatal mice. First, we optimized the matrigel concentration for the 3D culture system and found the 3D culture system protected the SGNs against apoptosis, preserved the structure of spiral ganglion region, and promoted the sprouting and outgrowth of SGNs neurites. Next, we found the 3D culture system promoted growth cone growth as evidenced by a higher average number and a longer average length of filopodia and a larger growth cone area. 3D culture system also significantly elevated the synapse density of SGNs. Last, we found that the 3D culture system combined with neurotrophic factors had accumulated effects in promoting the neurites outgrowth compared with 3D culture or NFs treatment only groups. Together, we conclude that the 3D culture system preserves the structure and function of SGN in explant culture.

  8. Conservation of Three-Dimensional Helix-Loop-Helix Structure through the Vertebrate Lineage Reopens the Cold Case of Gonadotropin-Releasing Hormone-Associated Peptide.

    Science.gov (United States)

    Pérez Sirkin, Daniela I; Lafont, Anne-Gaëlle; Kamech, Nédia; Somoza, Gustavo M; Vissio, Paula G; Dufour, Sylvie

    2017-01-01

    GnRH-associated peptide (GAP) is the C-terminal portion of the gonadotropin-releasing hormone (GnRH) preprohormone. Although it was reported in mammals that GAP may act as a prolactin-inhibiting factor and can be co-secreted with GnRH into the hypophyseal portal blood, GAP has been practically out of the research circuit for about 20 years. Comparative studies highlighted the low conservation of GAP primary amino acid sequences among vertebrates, contributing to consider that this peptide only participates in the folding or carrying process of GnRH. Considering that the three-dimensional (3D) structure of a protein may define its function, the aim of this study was to evaluate if GAP sequences and 3D structures are conserved in the vertebrate lineage. GAP sequences from various vertebrates were retrieved from databases. Analysis of primary amino acid sequence identity and similarity, molecular phylogeny, and prediction of 3D structures were performed. Amino acid sequence comparison and phylogeny analyses confirmed the large variation of GAP sequences throughout vertebrate radiation. In contrast, prediction of the 3D structure revealed a striking conservation of the 3D structure of GAP1 (GAP associated with the hypophysiotropic type 1 GnRH), despite low amino acid sequence conservation. This GAP1 peptide presented a typical helix-loop-helix (HLH) structure in all the vertebrate species analyzed. This HLH structure could also be predicted for GAP2 in some but not all vertebrate species and in none of the GAP3 analyzed. These results allowed us to infer that selective pressures have maintained GAP1 HLH structure throughout the vertebrate lineage. The conservation of the HLH motif, known to confer biological activity to various proteins, suggests that GAP1 peptides may exert some hypophysiotropic biological functions across vertebrate radiation.

  9. Conservation of Three-Dimensional Helix-Loop-Helix Structure through the Vertebrate Lineage Reopens the Cold Case of Gonadotropin-Releasing Hormone-Associated Peptide

    Directory of Open Access Journals (Sweden)

    Daniela I. Pérez Sirkin

    2017-08-01

    Full Text Available GnRH-associated peptide (GAP is the C-terminal portion of the gonadotropin-releasing hormone (GnRH preprohormone. Although it was reported in mammals that GAP may act as a prolactin-inhibiting factor and can be co-secreted with GnRH into the hypophyseal portal blood, GAP has been practically out of the research circuit for about 20 years. Comparative studies highlighted the low conservation of GAP primary amino acid sequences among vertebrates, contributing to consider that this peptide only participates in the folding or carrying process of GnRH. Considering that the three-dimensional (3D structure of a protein may define its function, the aim of this study was to evaluate if GAP sequences and 3D structures are conserved in the vertebrate lineage. GAP sequences from various vertebrates were retrieved from databases. Analysis of primary amino acid sequence identity and similarity, molecular phylogeny, and prediction of 3D structures were performed. Amino acid sequence comparison and phylogeny analyses confirmed the large variation of GAP sequences throughout vertebrate radiation. In contrast, prediction of the 3D structure revealed a striking conservation of the 3D structure of GAP1 (GAP associated with the hypophysiotropic type 1 GnRH, despite low amino acid sequence conservation. This GAP1 peptide presented a typical helix-loop-helix (HLH structure in all the vertebrate species analyzed. This HLH structure could also be predicted for GAP2 in some but not all vertebrate species and in none of the GAP3 analyzed. These results allowed us to infer that selective pressures have maintained GAP1 HLH structure throughout the vertebrate lineage. The conservation of the HLH motif, known to confer biological activity to various proteins, suggests that GAP1 peptides may exert some hypophysiotropic biological functions across vertebrate radiation.

  10. Three-dimensional microbubble streaming flows

    Science.gov (United States)

    Rallabandi, Bhargav; Marin, Alvaro; Rossi, Massimiliano; Kaehler, Christian; Hilgenfeldt, Sascha

    2014-11-01

    Streaming due to acoustically excited bubbles has been used successfully for applications such as size-sorting, trapping and focusing of particles, as well as fluid mixing. Many of these applications involve the precise control of particle trajectories, typically achieved using cylindrical bubbles, which establish planar flows. Using astigmatic particle tracking velocimetry (APTV), we show that, while this two-dimensional picture is a useful description of the flow over short times, a systematic three-dimensional flow structure is evident over long time scales. We demonstrate that this long-time three-dimensional fluid motion can be understood through asymptotic theory, superimposing secondary axial flows (induced by boundary conditions at the device walls) onto the two-dimensional description. This leads to a general framework that describes three-dimensional flows in confined microstreaming systems, guiding the design of applications that profit from minimizing or maximizing these effects.

  11. Towards three-dimensional optical metamaterials

    Science.gov (United States)

    Tanaka, Takuo; Ishikawa, Atsushi

    2017-12-01

    Metamaterials have opened up the possibility of unprecedented and fascinating concepts and applications in optics and photonics. Examples include negative refraction, perfect lenses, cloaking, perfect absorbers, and so on. Since these metamaterials are man-made materials composed of sub-wavelength structures, their development strongly depends on the advancement of micro- and nano-fabrication technologies. In particular, the realization of three-dimensional metamaterials is one of the big challenges in this research field. In this review, we describe recent progress in the fabrication technologies for three-dimensional metamaterials, as well as proposed applications.

  12. Three-dimensional sandwich-structured NiMn2O4@reduced graphene oxide nanocomposites for highly reversible Li-ion battery anodes

    Science.gov (United States)

    Huang, Jiarui; Wang, Wei; Lin, Xirong; Gu, Cuiping; Liu, Jinyun

    2018-02-01

    A sandwich-structured NiMn2O4@reduced graphene oxide (NiMn2O4@rGO) nanocomposite consisting of ultrathin NiMn2O4 sheets uniformly anchored on both sides of a three-dimensional (3D) porous rGO is presented. The NiMn2O4@rGO nanocomposites prepared through a dipping process combining with a hydrothermal method show a good electrochemical performance including a high reversible capability of 1384 mAh g-1 at 1000 mA g-1 over 1620 cycles, and an superior rate performance. Thus, a full cell consisting of a commercial LiCoO2 cathode and the NiMn2O4@rGO anode delivers a stable capacity of about 1046 mAh g-1 (anode basis) after cycling at 50 mA g-1 for 60 times. It is demonstrated that the 3D porous composite structure accommodates the volume change during the Li+ insertion/extraction process and facilitates the rapid transport of ions and electrons. The high performance would enable the presented NiMn2O4@rGO nanocomposite a promising anode candidate for practical applications in Li-ion batteries.

  13. Three-dimensional structures of unligated uridine phosphorylase from Yersinia pseudotuberculosis at 1.4 Å resolution and its complex with an antibacterial drug

    Science.gov (United States)

    Balaev, V. V.; Lashkov, A. A.; Gabdulkhakov, A. G.; Dontsova, M. V.; Mironov, A. S.; Betzel, C.; Mikhailov, A. M.

    2015-07-01

    Uridine phosphorylases play an essential role in the cellular metabolism of some antibacterial agents. Acute infectious diseases (bubonic plague, yersiniosis, pseudotuberculosis, etc., caused by bacteria of the genus Yersinia) are treated using both sulfanilamide medicines and antibiotics, including trimethoprim. The action of an antibiotic on a bacterial cell is determined primarily by the character of its interactions with cellular components, including those which are not targets (for example, with pyrimidine phosphorylases). This type of interaction should be taken into account in designing drugs. The three-dimensional structure of uridine phosphorylase from the bacterium Yersinia pseudotuberculosis ( YptUPh) with the free active site was determined for the first time by X-ray crystallography and refined at 1.40 Å resolution (DPI = 0.062 Å; ID PDB: 4OF4). The structure of the complex of YptUPh with the bacteriostatic drug trimethoprim was studied by molecular docking and molecular dynamics methods. The trimethoprim molecule was shown to be buffered by the enzyme YptUPh, resulting in a decrease in the efficiency of the treatment of infectious diseases caused by bacteria of the genus Yersinia with trimethoprim.

  14. Development of a Three-Dimensional (3D) Printed Biodegradable Cage to Convert Morselized Corticocancellous Bone Chips into a Structured Cortical Bone Graft

    Science.gov (United States)

    Chou, Ying-Chao; Lee, Demei; Chang, Tzu-Min; Hsu, Yung-Heng; Yu, Yi-Hsun; Liu, Shih-Jung; Ueng, Steve Wen-Neng

    2016-01-01

    This study aimed to develop a new biodegradable polymeric cage to convert corticocancellous bone chips into a structured strut graft for treating segmental bone defects. A total of 24 adult New Zealand white rabbits underwent a left femoral segmental bone defect creation. Twelve rabbits in group A underwent three-dimensional (3D) printed cage insertion, corticocancellous chips implantation, and Kirschner-wire (K-wire) fixation, while the other 12 rabbits in group B received bone chips implantation and K-wire fixation only. All rabbits received a one-week activity assessment and the initial image study at postoperative 1 week. The final image study was repeated at postoperative 12 or 24 weeks before the rabbit scarification procedure on schedule. After the animals were sacrificed, both femurs of all the rabbits were prepared for leg length ratios and 3-point bending tests. The rabbits in group A showed an increase of activities during the first week postoperatively and decreased anterior cortical disruptions in the postoperative image assessments. Additionally, higher leg length ratios and 3-point bending strengths demonstrated improved final bony ingrowths within the bone defects for rabbits in group A. In conclusion, through this bone graft converting technique, orthopedic surgeons can treat segmental bone defects by using bone chips but with imitate characters of structured cortical bone graft. PMID:27104525

  15. Development of a Three-Dimensional (3D Printed Biodegradable Cage to Convert Morselized Corticocancellous Bone Chips into a Structured Cortical Bone Graft

    Directory of Open Access Journals (Sweden)

    Ying-Chao Chou

    2016-04-01

    Full Text Available This study aimed to develop a new biodegradable polymeric cage to convert corticocancellous bone chips into a structured strut graft for treating segmental bone defects. A total of 24 adult New Zealand white rabbits underwent a left femoral segmental bone defect creation. Twelve rabbits in group A underwent three-dimensional (3D printed cage insertion, corticocancellous chips implantation, and Kirschner-wire (K-wire fixation, while the other 12 rabbits in group B received bone chips implantation and K-wire fixation only. All rabbits received a one-week activity assessment and the initial image study at postoperative 1 week. The final image study was repeated at postoperative 12 or 24 weeks before the rabbit scarification procedure on schedule. After the animals were sacrificed, both femurs of all the rabbits were prepared for leg length ratios and 3-point bending tests. The rabbits in group A showed an increase of activities during the first week postoperatively and decreased anterior cortical disruptions in the postoperative image assessments. Additionally, higher leg length ratios and 3-point bending strengths demonstrated improved final bony ingrowths within the bone defects for rabbits in group A. In conclusion, through this bone graft converting technique, orthopedic surgeons can treat segmental bone defects by using bone chips but with imitate characters of structured cortical bone graft.

  16. Finite difference time domain calculation of three-dimensional phononic band structures using a postprocessing method based on the filter diagonalization

    International Nuclear Information System (INIS)

    Su Xiaoxing; Ma Tianxue; Wang Yuesheng

    2011-01-01

    If the band structure of a three-dimensional (3D) phononic crystal (PNC) is calculated by using the finite difference time domain (FDTD) method combined with the fast Fourier transform (FFT)-based postprocessing method, good results can only be ensured by a sufficiently large number of FDTD iterations. On a common computer platform, the total computation time will be very long. To overcome this difficulty, an excellent harmonic inversion algorithm called the filter diagonalization method (FDM) can be used in the postprocessing to reduce the number of FDTD iterations. However, the low efficiency of the FDM, which occurs when a relatively long time series is given, does not necessarily ensure an effective reduction of the total computation time. In this paper, a postprocessing method based on the FDM is proposed. The main procedure of the method is designed considering the aim to make the time spent on the method itself far less than the corresponding time spent on the FDTD iterations. To this end, the FDTD time series is preprocessed to be shortened significantly before the FDM frequency extraction. The preprocessing procedure is performed with the filter and decimation operations, which are widely used in narrow-band signal processing. Numerical results for a typical 3D solid PNC system show that the proposed postprocessing method can be used to effectively reduce the total computation time of the FDTD calculation of 3D phononic band structures.

  17. Deconstructing three-dimensional (3D) structure of absorptive glass mat (AGM) separator to tailor pore dimensions and amplify electrolyte uptake

    Science.gov (United States)

    Rawal, Amit; Rao, P. V. Kameswara; Kumar, Vijay

    2018-04-01

    Absorptive glass mat (AGM) separator is a vital technical component in valve regulated lead acid (VRLA) batteries that can be tailored for a desired application. To selectively design and tailor the AGM separator, the intricate three-dimensional (3D) structure needs to be unraveled. Herein, a toolkit of 3D analytical models of pore size distribution and electrolyte uptake expressed via wicking characteristics of AGM separators under unconfined and confined states is presented. 3D data of fiber orientation distributions obtained previously through X-ray micro-computed tomography (microCT) analysis are used as key set of input parameters. The predictive ability of pore size distribution model is assessed through the commonly used experimental set-up that usually apply high level of compressive stresses. Further, the existing analytical model of wicking characteristics of AGM separators has been extended to account for 3D characteristics, and subsequently, compared with the experimental results. A good agreement between the theory and experiments pave the way to simulate the realistic charge-discharge modes of the battery by applying cyclic loading condition. A threshold criterion describing the invariant behavior of pore size and wicking characteristics in terms of maximum permissible limit of key structural parameters during charge-discharge mode of the battery has also been proposed.

  18. Determination of three-dimensional interfacial strain - A novel method of probing interface structure with X-ray Bragg-surface diffraction

    International Nuclear Information System (INIS)

    Sun, W.-C.; Chu, C.-H.; Chang, H.-C.; Wu, B.-K.; Chen, Y.-R.; Cheng, C.-W.; Chiu, M.-S.; Shen, Y.-C.; Wu, H.-H.; Hung, Y.-S.; Chang, S.-L.; Hong, M.-H.; Tang, M.-T.; Stetsko, Yu.P.

    2007-01-01

    A new X-ray diffraction technique is developed to probe structural variations at the interfaces between epitaxy thin films and single-crystal substrates. The technique utilizes three-wave Bragg-surface diffraction, where a symmetric Bragg reflection and an asymmetric surface reflection are involved. The propagation of the latter along the interfaces conveys structural information about the interfacial region between the substrate and epi-layers. The sample systems of Au/GaAs(001) are subject to the three-wave diffraction investigation using synchrotron radiation. The GaAs three-wave Bragg-surface diffractions (006)/(11-bar3) and (006)/(1-bar1-bar3), are employed. The images of the surface diffracted waves are recorded with an image plate. The obtained images show relative positions of diffraction spots near the image of the interfacial boundary, which give the variation of lattice constant along the surface normal and in-plane directions. With the aid of grazing-incidence diffraction, three-dimensional mapping of strain field at the interfaces is possible. Details about this diffraction technique and the analysis procedures are discussed

  19. Finite difference time domain calculation of three-dimensional phononic band structures using a postprocessing method based on the filter diagonalization

    Energy Technology Data Exchange (ETDEWEB)

    Su Xiaoxing [School of Electronic and Information Engineering, Beijing Jiaotong University, Beijing 100044 (China); Ma Tianxue; Wang Yuesheng, E-mail: xxsu@bjtu.edu.cn [Institute of Engineering Mechanics, Beijing Jiaotong University, Beijing 100044 (China)

    2011-10-15

    If the band structure of a three-dimensional (3D) phononic crystal (PNC) is calculated by using the finite difference time domain (FDTD) method combined with the fast Fourier transform (FFT)-based postprocessing method, good results can only be ensured by a sufficiently large number of FDTD iterations. On a common computer platform, the total computation time will be very long. To overcome this difficulty, an excellent harmonic inversion algorithm called the filter diagonalization method (FDM) can be used in the postprocessing to reduce the number of FDTD iterations. However, the low efficiency of the FDM, which occurs when a relatively long time series is given, does not necessarily ensure an effective reduction of the total computation time. In this paper, a postprocessing method based on the FDM is proposed. The main procedure of the method is designed considering the aim to make the time spent on the method itself far less than the corresponding time spent on the FDTD iterations. To this end, the FDTD time series is preprocessed to be shortened significantly before the FDM frequency extraction. The preprocessing procedure is performed with the filter and decimation operations, which are widely used in narrow-band signal processing. Numerical results for a typical 3D solid PNC system show that the proposed postprocessing method can be used to effectively reduce the total computation time of the FDTD calculation of 3D phononic band structures.

  20. Three dimensional imaging of otoliths

    International Nuclear Information System (INIS)

    Barry, B.; Markwitz, A.; David, B.

    2008-01-01

    Otoliths are small structures in fish ears made of calcium carbonate which carry a record of the environment in which the fish live. Traditionally, in order to study their microchemistry by a scanning technique such as PIXE the otoliths have been either ground down by hand or thin sectioned to expose the otolith core. However this technique is subject to human error in judging the core position. In this study we have scanned successive layers of otoliths 50 and 100 μm apart by removing the otolith material in a lapping machine which can be set to a few μm precision. In one study by comparing data from otoliths from the two ears of a freshwater species we found that polishing by hand could miss the core and thus give misleading results as to the life cycle of the fish. In another example we showed detail in a marine species which could be used to build a three dimensional picture of the Sr distribution. (author)

  1. Three-Dimensional Rebar Graphene.

    Science.gov (United States)

    Sha, Junwei; Salvatierra, Rodrigo V; Dong, Pei; Li, Yilun; Lee, Seoung-Ki; Wang, Tuo; Zhang, Chenhao; Zhang, Jibo; Ji, Yongsung; Ajayan, Pulickel M; Lou, Jun; Zhao, Naiqin; Tour, James M

    2017-03-01

    Free-standing robust three-dimensional (3D) rebar graphene foams (GFs) were developed by a powder metallurgy template method with multiwalled carbon nanotubes (MWCNTs) as a reinforcing bar, sintered Ni skeletons as a template and catalyst, and sucrose as a solid carbon source. As a reinforcement and bridge between different graphene sheets and carbon shells, MWCNTs improved the thermostability, storage modulus (290.1 kPa) and conductivity (21.82 S cm -1 ) of 3D GF resulting in a high porosity and structurally stable 3D rebar GF. The 3D rebar GF can support >3150× the foam's weight with no irreversible height change, and shows only a ∼25% irreversible height change after loading >8500× the foam's weight. The 3D rebar GF also shows stable performance as a highly porous electrode in lithium ion capacitors (LICs) with an energy density of 32 Wh kg -1 . After 500 cycles of testing at a high current density of 6.50 mA cm -2 , the LIC shows 78% energy density retention. These properties indicate promising applications with 3D rebar GFs in devices requiring stable mechanical and electrochemical properties.

  2. Electron crystallography of three dimensional protein crystals

    NARCIS (Netherlands)

    Georgieva, Dilyana

    2008-01-01

    This thesis describes an investigation of the potential of electron diffraction for studying three dimensional sub-micro-crystals of proteins and pharmaceuticals. A prerequisite for using electron diffraction for structural studies is the predictable availability of tiny crystals. A method for

  3. Three dimensional electrochemical system for neurobiological studies

    DEFF Research Database (Denmark)

    Vazquez, Patricia; Dimaki, Maria; Svendsen, Winnie