Science.gov

Sample records for ion track structure

  1. On the structure of etched ion tracks in polymers

    NASA Astrophysics Data System (ADS)

    Hnatowicz, V.; Vacik, J.; Apel, P. Y.

    2016-04-01

    A simple model describing the radial structure of latent tracks produced by energetic ions in polymers is presented and used for examination of the process of preferential track etching and determination of the shape of the etched pores. The model is based on the assumption that the local composition of the latent track results from chemical reactions of transient degradation products created by ion passage, but it does not take into account details of the whole process. In accordance with the established idea the model calculations lead to the latent track structure with an easily etchable core surrounded by a relatively thin layer of cross-linked structures and a far reaching halo with a progressively decreasing concentration of the degradation products. The etching of the latent track with such a structure leads to funnel-type pores which have been observed in recent conductometric experiments.

  2. Track structure of carbon ions: measurements and simulations.

    PubMed

    Conte, V; Colautti, P; Moro, D; Grosswendt, B

    2014-10-01

    The likelihood of radiation to produce clustered damages in irradiated biological tissue and the reparability of such damages are closely related to the stochastics of localised ionising interactions within small volumes of nanometre sizes, determined by the particle track structure. Track structure investigations in nanometre-sized volumes have been subject of research for several decades, mainly by means of Monte Carlo simulations. Today, the 'track-nanodosimeter', installed at the TANDEM-ALPI accelerator complex of LNL, is a measuring device able to count the electrons produced in a 20-nm equivalent sensitive site (De Nardo et al. A detector for track-nanodosimetry. Nucl. Instrum. Methods. Phys. Res. A 484: , 312-326 (2002)). It allows studying track structure properties both in the near neighbourhood of a primary particle trajectory and separately in the penumbra region. An extended study for different ionising particles of medical interest has been recently performed with the track-nanodosimeter (Conte et al. Track structure of light ions: experiments and simulations. New J. Phys. 14: , 093010, (2012)). Here, new experimental data and results of Monte Carlo simulations for 240- and 96-MeV (12)C-ions are presented and discussed. PMID:24249779

  3. Observations on ion track structure in semiconductors : a phenomenological study

    NASA Technical Reports Server (NTRS)

    Selva, L. E.; Wallace, R. E.

    2001-01-01

    An ion track structure model at the nanometer scale is presented. The model is based on electrostatic principles and is supported by observed experimental results conducted on power MOSFETs. The model predicts the existence of a transient induced electric field following the passage of an energetic heavy ion. There are two segments to the field (a radial and an axial component). It is the interaction of this transient electric field with the local environment that can trigger a catastrophic failure.

  4. Low energy electrons and swift ion track structure in PADC

    NASA Astrophysics Data System (ADS)

    Fromm, Michel; Quinto, Michele A.; Weck, Philippe F.; Champion, Christophe

    2015-10-01

    The current work aims at providing an accurate description of the ion track-structure in poly-allyl dyglycol carbonate (PADC) by using an up-to-date Monte-Carlo code-called TILDA-V (a French acronym for Transport d'Ions Lourds Dans l'Aqua & Vivo). In this simulation the ion track-structure in PADC is mainly described in terms of ejected electrons with a particular attention done to the Low Energy Electrons (LEEs). After a brief reminder of the most important channels through which LEEs are prone to break a chemical bond, we will report on the simulated energetic distributions of LEEs along an ion track in PADC for particular incident energies located on both sides of the Bragg-peak position. Finally, based on the rare data dealing with LEEs interaction with polymers or organic molecules, we will emphasise the role played by the LEEs in the formation of a latent track in PADC, and more particularly the one played by the sub-ionization electrons.

  5. Low energy electrons and swift ion track structure in PADC

    SciTech Connect

    Fromm, Michel; Quinto, Michele A.; Weck, Philippe F.; Champion, Christophe

    2015-05-27

    The current work aims at providing an accurate description of the ion track-structure in poly-allyl dyglycol carbonate (PADC) by using an up-to-date Monte-Carlo code-called TILDA-V (a French acronym for Transport d’Ions Lourds Dans l’Aqua & Vivo). In this simulation the ion track-structure in PADC is mainly described in terms of ejected electrons with a particular attention done to the Low Energy Electrons (LEEs). After a brief reminder of the most important channels through which LEEs are prone to break a chemical bond, we will report on the simulated energetic distributions of LEEs along an ion track in PADC for particular incident energies located on both sides of the Bragg-peak position. Lastly, based on the rare data dealing with LEEs interaction with polymers or organic molecules, we will emphasise the role played by the LEEs in the formation of a latent track in PADC, and more particularly the one played by the sub-ionization electrons.

  6. Low energy electrons and swift ion track structure in PADC

    DOE PAGESBeta

    Fromm, Michel; Quinto, Michele A.; Weck, Philippe F.; Champion, Christophe

    2015-05-27

    The current work aims at providing an accurate description of the ion track-structure in poly-allyl dyglycol carbonate (PADC) by using an up-to-date Monte-Carlo code-called TILDA-V (a French acronym for Transport d’Ions Lourds Dans l’Aqua & Vivo). In this simulation the ion track-structure in PADC is mainly described in terms of ejected electrons with a particular attention done to the Low Energy Electrons (LEEs). After a brief reminder of the most important channels through which LEEs are prone to break a chemical bond, we will report on the simulated energetic distributions of LEEs along an ion track in PADC for particularmore » incident energies located on both sides of the Bragg-peak position. Lastly, based on the rare data dealing with LEEs interaction with polymers or organic molecules, we will emphasise the role played by the LEEs in the formation of a latent track in PADC, and more particularly the one played by the sub-ionization electrons.« less

  7. Cryogenic Ion Mobility-Mass Spectrometry: Tracking Ion Structure from Solution to the Gas Phase.

    PubMed

    Servage, Kelly A; Silveira, Joshua A; Fort, Kyle L; Russell, David H

    2016-07-19

    Electrospray ionization (ESI) combined with ion mobility-mass spectrometry (IM-MS) is adding new dimensions, that is, structure and dynamics, to the field of biological mass spectrometry. There is increasing evidence that gas-phase ions produced by ESI can closely resemble their solution-phase structures, but correlating these structures can be complicated owing to the number of competing effects contributing to structural preferences, including both inter- and intramolecular interactions. Ions encounter unique hydration environments during the transition from solution to the gas phase that will likely affect their structure(s), but many of these structural changes will go undetected because ESI-IM-MS analysis is typically performed on solvent-free ions. Cryogenic ion mobility-mass spectrometry (cryo-IM-MS) takes advantage of the freeze-drying capabilities of ESI and a cryogenically cooled IM drift cell (80 K) to preserve extensively solvated ions of the type [M + xH](x+)(H2O)n, where n can vary from zero to several hundred. This affords an experimental approach for tracking the structural evolution of hydrated biomolecules en route to forming solvent-free gas-phase ions. The studies highlighted in this Account illustrate the varying extent to which dehydration can alter ion structure and the overall impact of cryo-IM-MS on structural studies of hydrated biomolecules. Studies of small ions, including protonated water clusters and alkyl diammonium cations, reveal structural transitions associated with the development of the H-bond network of water molecules surrounding the charge carrier(s). For peptide ions, results show that water networks are highly dependent on the charge-carrying species within the cluster. Specifically, hydrated peptide ions containing lysine display specific hydration behavior around the ammonium ion, that is, magic number clusters with enhanced stability, whereas peptides containing arginine do not display specific hydration around the

  8. Track Structure in DNA Irradiated with Heavy Ions

    SciTech Connect

    Bowman, Michael K.; Becker, David; Sevilla, Michael D.; Zimbrick, John D.

    2005-04-01

    The spatial properties of trapped radicals produced in heavy ion-irradiated solid DNA at 77 K have been probed using pulsed Electron Paramagnetic Double Resonance (PELDOR or DEER) techniques. Salmon testes DNA hydrated to twelve water molecules per nucleotide was irradiated with 40Ar ions of energy 100 MeV/nucleon and LET ranging from 300 to 400 keV/?. Irradiated samples were maintained at cryogenic temperature at all times. PELDOR measurements were made using a refocused echo detection sequence that allows dipolar interaction between trapped radicals to be observed. The EPR spectrum is attributed to electron loss/gain DNA base radicals and neutral carbon-centered radicals that likely arise from sugar damage. We find a radical concentration of 13.5*1018 cm-3 in the tracks and a track radius of 6.79 nm. The cross section of these tracks is 144 nm2 yielding a lineal radical density of 2.6 radicals/nm. Based upon the yields previously determined for particles having calculated LET values of 300-400 keV/mm and our measured lineal density, we obtain an LET of 270 keV/mm, which is in good agreement with the calculated range of values. These measurements of radical density and spatial extent provide the first direct experimental determination of track characteristics in irradiated DNA.

  9. Fine Structure in Swift Heavy Ion Tracks in Amorphous SiO2

    NASA Astrophysics Data System (ADS)

    Kluth, P.; Schnohr, C. S.; Pakarinen, O. H.; Djurabekova, F.; Sprouster, D. J.; Giulian, R.; Ridgway, M. C.; Byrne, A. P.; Trautmann, C.; Cookson, D. J.; Nordlund, K.; Toulemonde, M.

    2008-10-01

    We report on the observation of a fine structure in ion tracks in amorphous SiO2 using small angle x-ray scattering measurements. Tracks were generated by high energy ion irradiation with Au and Xe between 27 MeV and 1.43 GeV. In agreement with molecular dynamics simulations, the tracks consist of a core characterized by a significant density deficit compared to unirradiated material, surrounded by a high density shell. The structure is consistent with a frozen-in pressure wave originating from the center of the ion track as a result of a thermal spike.

  10. Energy dependent track structure parametrisations for protons and carbon ions based on nanometric simulations

    NASA Astrophysics Data System (ADS)

    Alexander, Frauke; Villagrasa, Carmen; Rabus, Hans; Wilkens, Jan J.

    2015-09-01

    The BioQuaRT project within the European Metrology Research Programme aims at correlating ion track structure characteristics with the biological effects of radiation and develops measurement and simulation techniques for determining ion track structure on different length scales from about 2 nm to about 10 μm. Within this framework, we investigate methods to translate track-structure quantities derived on a nanometre scale to macroscopic dimensions. Input data sets were generated by simulations of ion tracks of protons and carbon ions in liquid water using the Geant 4 Monte Carlo toolkit with the Geant4-DNA processes. Based on the energy transfer points - recorded with nanometre resolution - we investigated parametrisations of overall properties of ion track structure. Three different track structure parametrisations have been developed using the distances to the 10 next neighbouring ionisations, the radial energy distribution and ionisation cluster size distributions. These parametrisations of nanometric track structure build a basis for deriving biologically relevant mean values which are essential in the clinical situation where each voxel is exposed to a mixed radiation field. Contribution to the Topical Issue "COST Action Nano-IBCT: Nano-scale Processes Behind Ion-Beam Cancer Therapy", edited by Andrey Solov'yov, Nigel Mason, Gustavo García, Eugene Surdutovich.

  11. Free ion yields in liquids: Molecular structure and track effects

    SciTech Connect

    Holroyd, R.

    1992-05-01

    The signal generated in a liquid-filled ionization chamber is proporational to the ions that escape, the free ion yield or, G{sub fi}. Recent results show how molecular structure, rate of energy loss (dE/dx) and pressure affect G{sub fi} and give further insight into the ionization process in liquids. As a consequence of the passage of high energy charged particles through a liquid, molecules are ionized and excited. The electrons have kinetic energy initially which allow them to travel some distance away from their geminate cations. The electrons may lose energy to vibrational modes but a significant fraction of the separation occurs while the electrons have subvibrational (near thermal) energy. When the electron finally thermalizes it is within the coulombic field of its parent cation and the two ions constitute a geminate pair. The free ion yield is determined by the fraction of geminate pairs which separate to form free ions as against those that recombine to form excited states.

  12. Free ion yields in liquids: Molecular structure and track effects

    SciTech Connect

    Holroyd, R.

    1992-01-01

    The signal generated in a liquid-filled ionization chamber is proporational to the ions that escape, the free ion yield or, G{sub fi}. Recent results show how molecular structure, rate of energy loss (dE/dx) and pressure affect G{sub fi} and give further insight into the ionization process in liquids. As a consequence of the passage of high energy charged particles through a liquid, molecules are ionized and excited. The electrons have kinetic energy initially which allow them to travel some distance away from their geminate cations. The electrons may lose energy to vibrational modes but a significant fraction of the separation occurs while the electrons have subvibrational (near thermal) energy. When the electron finally thermalizes it is within the coulombic field of its parent cation and the two ions constitute a geminate pair. The free ion yield is determined by the fraction of geminate pairs which separate to form free ions as against those that recombine to form excited states.

  13. Cross-section scaling for track structure simulations of low-energy ions in liquid water.

    PubMed

    Schmitt, E; Friedland, W; Kundrát, P; Dingfelder, M; Ottolenghi, A

    2015-09-01

    Radiation damage by low-energy ions significantly contributes to the high biological efficiency of ion beams in distal Bragg peak regions as well as to the energy-dependent efficiency of neutron irradiation. To enable assessing biological effects of ions at energies <1 MeV u(-1) with track-structure based models, a Barkas-like scaling procedure is developed that provides ion cross sections in liquid water based on those for hydrogen ions. The resulting stopping power and range for carbon ions agree with the ICRU 73 database and other low-energy stopping power data. The method represents the basis for extending PARTRAC simulations of light ion track structures and biological effects down to the keV u(-1) range. PMID:25969528

  14. Heavy-ion effects: from track structure to DNA and chromosome damage

    NASA Astrophysics Data System (ADS)

    Ballarini, F.; Alloni, D.; Facoetti, A.; Ottolenghi, A.

    2008-07-01

    The use of carbon ions for the treatment of certain tumour types, especially radioresistant tumours, is becoming more frequent due to the carbon-ion dose localization and high relative biological effectiveness (RBE) in the Bragg peak region. Human beings can also be exposed to heavy ions in space, since galactic cosmic rays are a mixed field consisting of not only high-energy protons and He ions, but also heavier ions including iron. Due to their high linear energy transfer (LET), heavy ions have peculiar track structures, characterized by a high level of energy deposition clustering. Furthermore, high-energy ions produce energetic secondary electrons ('delta rays') which can give rise to energy depositions several micrometres away from the core of the primary particle track. Also in view of hadron therapy and space radiation applications, it is therefore important to characterize heavy-ion tracks from a physical and biophysical point of view. In this framework, herein we will discuss the main physical features of heavy-ion track structure, as well as heavy-ion-induced DNA double-strand breaks, which are regarded as one of the most important initial radiobiological lesions and chromosome aberrations, which are correlated both with cell death and with cell conversion to malignancy.

  15. Calculation of Heavy Ion Inactivation and Mutation Rates in Radial Dose Model of Track Structure

    NASA Technical Reports Server (NTRS)

    Cucinotta, Francis A.; Wilson, John W.; Shavers, Mark R.; Katz, Robert

    1997-01-01

    In the track structure model, the inactivation cross section is found by summing an inactivation probability over all impact parameters from the ion to the sensitive sites within the cell nucleus. The inactivation probability is evaluated by using the dose response of the system to gamma rays and the radial dose of the ions and may be equal to unity at small impact parameters. We apply the track structure model to recent data with heavy ion beams irradiating biological samples of E. Coli, B. Subtilis spores, and Chinese hamster (V79) cells. Heavy ions have observed cross sections for inactivation that approach and sometimes exceed the geometric size of the cell nucleus. We show how the effects of inactivation may be taken into account in the evaluation of the mutation cross sections in the track structure model through correlation of sites for gene mutation and cell inactivation. The model is fit to available data for HPRT (hypoxanthine guanine phosphoribosyl transferase) mutations in V79 cells, and good agreement is found. Calculations show the high probability for mutation by relativistic ions due to the radial extension of ions track from delta rays. The effects of inactivation on mutation rates make it very unlikely that a single parameter such as LET (linear energy transfer) can be used to specify radiation quality for heavy ion bombardment.

  16. Experimental investigation of ionisation track structure of carbon ions at HIL Warsaw.

    PubMed

    Bantsar, A; Hilgers, G; Pszona, S; Rabus, H; Szeflinski, Z

    2015-09-01

    In view of the upcoming radiation therapy with carbon ions, the ionisation structure of the carbon ion track at the nanometre scale is of particular interest. Two different nanodosimeters capable of measuring track structure of ionising particles in a gas target equivalent to a nanometric site in condensed matter were involved in the presented experimental investigation, namely the NCBJ Jet Counter and the PTB Ion Counter. At the accelerator facility of the HIL in Warsaw, simulated nanometric volumes were irradiated with carbon ions of 45 and 76 MeV of kinetic energy, corresponding to a range in the tissue of ∼85 µm and ∼190 µm, respectively. The filling gas of both nanodosimeters' ionisation volume was molecular nitrogen N2, and the ionisation cluster size distributions, i.e. the statistical distribution of the number of ionizations produced by one single primary carbon ion in the filling gas, were measured for the two primary particle energies. PMID:25897141

  17. Impact of track structure calculations on biological treatment planning in ion radiotherapy

    NASA Astrophysics Data System (ADS)

    Elsässer, Thilo; Cunrath, Richard; Krämer, Michael; Scholz, Michael

    2008-07-01

    Treatment planning for ion therapy requires precise knowledge about the biological effectiveness of particle beams, which is strongly determined by the microscopic radial energy deposition around individual ion tracks. We analyse different amorphous track structure models based on simple analytical formulae as well as on radial dose distributions derived by means of Monte Carlo simulations. Moreover, these track structure representations are used as input for the local effect model (LEM) in order to determine their impact on the relative biological effectiveness (RBE) of cell inactivation. It demonstrates the relevance of the inner part of the ion track with a radius of the order of a few nanometres. We show that simple analytical formulae for the radial dose distributions give good results for the prediction of cell inactivation. However, they strongly depend on the assumptions about the local dose in the track core. Additionally, we discuss the interdependence of track structure calculations with other model constituents such as target size and the choice of the biological input data for conventional photon irradiation.

  18. Monte-Carlo Simulations of Heavy Ions Track Structures and Applications

    NASA Technical Reports Server (NTRS)

    Plante, Ianik; Cucinotta, Francia A.

    2013-01-01

    In space, astronauts are exposed to protons, high ]energy heavy (HZE) ions that have a high charge (Z) and energy (E), and secondary radiation, including neutrons and recoil nuclei produced by nuclear reactions in spacecraft walls or in tissue. The astronauts can only be partly shielded from these particles. Therefore, on travelling to Mars, it is estimated that every cell nucleus in an astronaut fs body would be hit by a proton or secondary electron (e.g., electrons of the target atoms ionized by the HZE ion) every few days and by an HZE ion about once a month. The risks related to these heavy ions are not well known and of concern for long duration space exploration missions. Medical ion therapy is another situation where human beings can be irradiated by heavy ions, usually to treat cancer. Heavy ions have a peculiar track structure characterized by high levels of energy ]deposition clustering, especially in near the track ends in the so ]called eBragg peak f region. In radiotherapy, these features of heavy ions can provide an improved dose conformation with respect to photons, also considering that the relative biological effectiveness (RBE) of therapeutic ions in the plateau region before the peak is sufficiently low. Therefore, several proton and carbon ion therapy facilities are under construction at this moment

  19. High-resolution heavy ion track structure imaging

    NASA Astrophysics Data System (ADS)

    Laczko, G.; Dangendorf, V.; Krämer, M.; Schardt, D.; Tittelmeier, K.

    2004-12-01

    Radiation action in matter depends on the details of the spatial distribution of energy transfer events on the nanometer scale. In this contribution, we present an instrument for experimental investigation of spatial ionisation patterns of ions in matter. The experimental system is based on a time projection chamber with a parallel drift field, parallel-plate charge and light amplification layers and optical readout with an image-intensified CCD camera (OPtical Avalanche Chamber (OPAC)). The chamber is operated with low pressure gas (4-40 hPa) to achieve a resolution of down to 50 nm in tissue density. Preliminary results of measurements and simulations are presented.

  20. Fast ion conductivity in strained defect-fluorite structure created by ion tracks in Gd2Ti2O7

    PubMed Central

    Aidhy, Dilpuneet S.; Sachan, Ritesh; Zarkadoula, Eva; Pakarinen, Olli; Chisholm, Matthew F.; Zhang, Yanwen; Weber, William J.

    2015-01-01

    The structure and ion-conducting properties of the defect-fluorite ring structure formed around amorphous ion-tracks by swift heavy ion irradiation of Gd2Ti2O7 pyrochlore are investigated. High angle annular dark field imaging complemented with ion-track molecular dynamics simulations show that the atoms in the ring structure are disordered, and have relatively larger cation-cation interspacing than in the bulk pyrochlore, illustrating the presence of tensile strain in the ring region. Density functional theory calculations show that the non-equilibrium defect-fluorite structure can be stabilized by tensile strain. The pyrochlore to defect-fluorite structure transformation in the ring region is predicted to be induced by recrystallization during a melt-quench process and stabilized by tensile strain. Static pair-potential calculations show that planar tensile strain lowers oxygen vacancy migration barriers in pyrochlores, in agreement with recent studies on fluorite and perovskite materials. In view of these results, it is suggested that strain engineering could be simultaneously used to stabilize the defect-fluorite structure and gain control over its high ion-conducting properties. PMID:26555848

  1. Fast ion conductivity in strained defect-fluorite structure created by ion tracks in Gd2Ti2O7

    DOE PAGESBeta

    Aidhy, Dilpuneet S.; Sachan, Ritesh; Zarkadoula, Eva; Pakarinen, Olli; Chisholm, Matthew F.; Zhang, Yanwen; Weber, William J.

    2015-11-10

    The structure and ion-conducting properties of the defect-fluorite ring structure formed around amorphous ion-tracks by swift heavy ion irradiation of Gd2Ti2O7 pyrochlore are investigated. High angle annular dark field imaging complemented with ion-track molecular dynamics simulations show that the atoms in the ring structure are disordered, and have relatively larger cation-cation interspacing than in the bulk pyrochlore, illustrating the presence of tensile strain in the ring region. Density functional theory calculations show that the non-equilibrium defect-fluorite structure can be stabilized by tensile strain. The pyrochlore to defect-fluorite structure transformation in the ring region is predicted to be induced by recrystallizationmore » during a melt-quench process and stabilized by tensile strain. Static pair-potential calculations show that planar tensile strain lowers oxygen vacancy migration barriers in pyrochlores, in agreement with recent studies on fluorite and perovskite materials. Lastly, in view of these results, it is suggested that strain engineering could be simultaneously used to stabilize the defect-fluorite structure and gain control over its high ion-conducting properties.« less

  2. Amorphous tracks induced by energetic ions in strongly anisotropic solids with layered structures

    NASA Astrophysics Data System (ADS)

    Szenes, G.

    2006-07-01

    Common features of ion-induced tracks in layered structures are analysed in YBaCuO, BiSrCaCuO and in semiconducting GeS and MoS2 . In all crystals, the conduction is poor along the normal layer. The anisotropic electron properties lead to the formation of an ion-induced broad and a narrow thermal spike in these solids. The contribution of the two spikes to the formation of tracks can be separated in GeS. When the gap energy is low or zero (YBaCuO, BiSrCaCuO, MoS2), only the narrow spike controls the track formation, and the localization of the energy deposition is the same as in insulators. However, the fraction of the deposited energy transferred to the narrow spike is only about one-third of that in insulators. The anisotropic features of tracks show the effect of the energy bands. Good quantitative agreement is found between the experimental data and the predictions of the authors thermal spike model.

  3. Heavy ion track-structure calculations for radial dose in arbitrary materials

    NASA Technical Reports Server (NTRS)

    Cucinotta, Francis A.; Katz, Robert; Wilson, John W.; Dubey, Rajendra R.

    1995-01-01

    The delta-ray theory of track structure is compared with experimental data for the radial dose from heavy ion irradiation. The effects of electron transmission and the angular dependence of secondary electron ejection are included in the calculations. Several empirical formulas for electron range and energy are compared in a wide variety of materials in order to extend the application of the track-structure theory. The model of Rudd for the secondary electron-spectrum in proton collisions, which is based on a modified classical kinematics binary encounter model at high energies and a molecular promotion model at low energies, is employed. For heavier projectiles, the secondary electron spectrum is found by scaling the effective charge. Radial dose calculations for carbon, water, silicon, and gold are discussed. The theoretical data agreed well with the experimental data.

  4. Controlled Structure of Electrochemically Deposited Pd Nanowires in Ion-Track Templates

    NASA Astrophysics Data System (ADS)

    Duan, Jinglai; Lyu, Shuangbao; Yao, Huijun; Mo, Dan; Chen, Yonghui; Sun, Youmei; Maaz, K.; Maqbool, M.; Liu, Jie

    2015-12-01

    Understanding and controlling structural properties of the materials are crucial in materials research. In this paper, we report that crystallinity and crystallographic orientation of Pd nanowires can be tailored by varying the fabrication conditions during electrochemical deposition in polycarbonate ion-track templates. By changing the deposition temperature during the fabrication process, the nanowires with both single- and poly-crystallinities were obtained. The wires with preferred crystallographic orientations along [111], [100], and [110] directions were achieved via adjusting the applied voltage and temperature during electrochemical deposition.

  5. Track structure based modelling of light ion radiation effects on nuclear and mitochondrial DNA

    NASA Astrophysics Data System (ADS)

    Schmitt, Elke; Ottolenghi, Andrea; Dingfelder, Michael; Friedland, Werner; Kundrat, Pavel; Baiocco, Giorgio

    2016-07-01

    Space radiation risk assessment is of great importance for manned spaceflights in order to estimate risks and to develop counter-measures to reduce them. Biophysical simulations with PARTRAC can help greatly to improve the understanding of initial biological response to ionizing radiation. Results from modelling radiation quality dependent DNA damage and repair mechanisms up to chromosomal aberrations (e.g. dicentrics) can be used to predict radiation effects depending on the kind of mixed radiation field exposure. Especially dicentric yields can serve as a biomarker for an increased risk due to radiation and hence as an indicator for the effectiveness of the used shielding. PARTRAC [1] is a multi-scale biophysical research MC code for track structure based initial DNA damage and damage response modelling. It integrates physics, radiochemistry, detailed nuclear DNA structure and molecular biology of DNA repair by NHEJ-pathway to assess radiation effects on cellular level [2]. Ongoing experiments with quasi-homogeneously distributed compared to sub-micrometre focused bunches of protons, lithium and carbon ions allow a separation of effects due to DNA damage complexity on nanometre scale from damage clustering on (sub-) micrometre scale [3, 4]. These data provide an unprecedented benchmark for the DNA damage response model in PARTRAC and help understand the mechanisms leading to cell killing and chromosomal aberrations (e.g. dicentrics) induction. A large part of space radiation is due to a mixed ion field of high energy protons and few heavier ions that can be only partly absorbed by the shielding. Radiation damage induced by low-energy ions significantly contributes to the high relative biological efficiency (RBE) of ion beams around Bragg peak regions. For slow light ions the physical cross section data basis in PARTRAC has been extended to investigate radiation quality effects in the Bragg peak region [5]. The resulting range and LET values agree with ICRU data

  6. Peculiarities of latent track etching in SiO2/Si structures irradiated with Ar, Kr and Xe ions

    NASA Astrophysics Data System (ADS)

    Al'zhanova, A.; Dauletbekova, A.; Komarov, F.; Vlasukova, L.; Yuvchenko, V.; Akilbekov, A.; Zdorovets, M.

    2016-05-01

    The process of latent track etching in SiO2/Si structures irradiated with 40Ar (38 MeV), 84Kr (59 MeV) and 132Xe (133 and 200 MeV) ions has been investigated. The experimental results of SiO2 etching in a hydrofluoric acid solution have been compared with the results of computer simulation based on the thermal spike model. It has been confirmed that the formation of a molten region along the swift ion trajectory with minimum radius of 3 nm can serve as a theoretical criterion for the reproducible latent track etching tracks in SiO2.

  7. Effects of track structure and cell inactivation on the calculation of heavy ion mutation rates in mammalian cells

    NASA Technical Reports Server (NTRS)

    Cucinotta, F. A.; Wilson, J. W.; Shavers, M. R.; Katz, R.

    1996-01-01

    It has long been suggested that inactivation severely effects the probability of mutation by heavy ions in mammalian cells. Heavy ions have observed cross sections of inactivation that approach and sometimes exceed the geometric size of the cell nucleus in mammalian cells. In the track structure model of Katz the inactivation cross section is found by summing an inactivation probability over all impact parameters from the ion to the sensitive sites within the cell nucleus. The inactivation probability is evaluated using the dose-response of the system to gamma-rays and the radial dose of the ions and may be equal to unity at small impact parameters for some ions. We show how the effects of inactivation may be taken into account in the evaluation of the mutation cross sections from heavy ions in the track structure model through correlation of sites for gene mutation and cell inactivation. The model is fit to available data for HPRT mutations in Chinese hamster cells and good agreement is found. The resulting calculations qualitatively show that mutation cross sections for heavy ions display minima at velocities where inactivation cross sections display maxima. Also, calculations show the high probability of mutation by relativistic heavy ions due to the radial extension of ions track from delta-rays in agreement with the microlesion concept. The effects of inactivation on mutations rates make it very unlikely that a single parameter such as LET or Z*2/beta(2) can be used to specify radiation quality for heavy ion bombardment.

  8. Track structure based modelling of light ion radiation effects on nuclear and mitochondrial DNA

    NASA Astrophysics Data System (ADS)

    Schmitt, Elke; Ottolenghi, Andrea; Dingfelder, Michael; Friedland, Werner; Kundrat, Pavel; Baiocco, Giorgio

    2016-07-01

    Space radiation risk assessment is of great importance for manned spaceflights in order to estimate risks and to develop counter-measures to reduce them. Biophysical simulations with PARTRAC can help greatly to improve the understanding of initial biological response to ionizing radiation. Results from modelling radiation quality dependent DNA damage and repair mechanisms up to chromosomal aberrations (e.g. dicentrics) can be used to predict radiation effects depending on the kind of mixed radiation field exposure. Especially dicentric yields can serve as a biomarker for an increased risk due to radiation and hence as an indicator for the effectiveness of the used shielding. PARTRAC [1] is a multi-scale biophysical research MC code for track structure based initial DNA damage and damage response modelling. It integrates physics, radiochemistry, detailed nuclear DNA structure and molecular biology of DNA repair by NHEJ-pathway to assess radiation effects on cellular level [2]. Ongoing experiments with quasi-homogeneously distributed compared to sub-micrometre focused bunches of protons, lithium and carbon ions allow a separation of effects due to DNA damage complexity on nanometre scale from damage clustering on (sub-) micrometre scale [3, 4]. These data provide an unprecedented benchmark for the DNA damage response model in PARTRAC and help understand the mechanisms leading to cell killing and chromosomal aberrations (e.g. dicentrics) induction. A large part of space radiation is due to a mixed ion field of high energy protons and few heavier ions that can be only partly absorbed by the shielding. Radiation damage induced by low-energy ions significantly contributes to the high relative biological efficiency (RBE) of ion beams around Bragg peak regions. For slow light ions the physical cross section data basis in PARTRAC has been extended to investigate radiation quality effects in the Bragg peak region [5]. The resulting range and LET values agree with ICRU data

  9. Latent ion tracks in amorphous silicon

    SciTech Connect

    Bierschenk, Thomas; Giulian, Raquel; Afra, Boshra; Rodriguez, Matias D; Schauries, D; Mudie, Stephen; Pakarinen, Olli H; Djurabekova, Flyura; Nordlund, Kai; Osmani, Orkhan; Medvedev, Nikita; Rethfield, Baerbel; Ridgway, Mark C; Kluth, Patrick

    2013-01-01

    We present experimental evidence for the formation of ion tracks in amorphous Si induced by swift heavy ion irradiation. An underlying core-shell structure consistent with remnants of a high density liquid structure was revealed by small-angle x-ray scattering and molecular dynamics simulations. Ion track dimensions dier for as-implanted and relaxed Si as attributed to dierent microstructures and melting temperatures. The identication and characterisation of ion tracks in amorphous Si yields new insight into mechanisms of damage formation due to swift heavy ion irradiation in amorphous semiconductors.

  10. An assessment of galactic cosmic radiation quality considering heavy ion track structures within the cellular environment.

    PubMed

    Craven, P A; Rycroft, M J

    1996-01-01

    Beyond the magnetic influence of the Earth, the flux of galactic cosmic radiation (GCR) represents a radiological concern for long-term manned space missions. Current concepts of radiation quality and equivalent dose are inadequate for accurately specifying the relative biological "efficiency" of low doses of such heavily ionising radiations, based as they are on the single parameter of Linear Energy Transfer (LET). Such methods take no account of the mechanisms, nor of the highly inhomogeneous spatial structure, of energy deposition in radiation tracks. DNA damage in the cell nucleus, which ultimately leads to the death or transformation of the cell, is usually initiated by electrons liberated from surrounding molecules by the incident projectile ion. The characteristics of these emitted "delta-rays", dependent primarily upon the charge and velocity of the ion, are considered in relation to an idealised representation of the cellular environment. Theoretically calculated delta-ray energy spectra are multiplied by a series of weighting algorithms designed to represent the potential for DNA insult in this environment, both in terms of the quantity and quality of damage. By evaluating the resulting curves, and taking into account the energy spectra of heavy ions in space, a relative measure of the biological relevance of the most abundant GCR species is obtained, behind several shielding configurations. It is hoped that this method of assessing the radiation quality of galactic cosmic rays will be of value when considering the safety of long-term manned space missions. PMID:11538985

  11. Formation of ion damage tracks

    NASA Astrophysics Data System (ADS)

    Tombrello, T. A.; Wie, C. R.; Itoh, N.; Nakayama, T.

    1984-01-01

    A new model is proposed to explain both localized damage regions and preferential etching of damage tracks caused by the passage of energetic ions in insulators. The formation of each region of extended defects is initiated by the Auger decay of a vacancy produced in an inner electronic shell of an atom of the insulator by an incident ion. This decay produces an intense source of ionization within a small volume around the decaying atom, which causes decomposition of the material in a manner similar to that observed in pulsed laser irradiation. The resulting chemical or crystalline modification of the material is the latent track, which can be preferentially etched due to its changed structure.

  12. Track structure in biological models.

    PubMed

    Curtis, S B

    1986-01-01

    High-energy heavy ions in the galactic cosmic radiation (HZE particles) may pose a special risk during long term manned space flights outside the sheltering confines of the earth's geomagnetic field. These particles are highly ionizing, and they and their nuclear secondaries can penetrate many centimeters of body tissue. The three dimensional patterns of ionizations they create as they lose energy are referred to as their track structure. Several models of biological action on mammalian cells attempt to treat track structure or related quantities in their formulation. The methods by which they do this are reviewed. The proximity function is introduced in connection with the theory of Dual Radiation Action (DRA). The ion-gamma kill (IGK) model introduces the radial energy-density distribution, which is a smooth function characterizing both the magnitude and extension of a charged particle track. The lethal, potentially lethal (LPL) model introduces lambda, the mean distance between relevant ion clusters or biochemical species along the track. Since very localized energy depositions (within approximately 10 nm) are emphasized, the proximity function as defined in the DRA model is not of utility in characterizing track structure in the LPL formulation. PMID:11537218

  13. SU-E-T-334: Track Structure Simulations of Charged Particles at Low and Intermediate Energies: Cross Sections Needs for Light and Heavy Ions

    SciTech Connect

    Dingfelder, M

    2014-06-01

    Purpose/Methods: Monte Carlo (MC) track structure simulations follow the primary as well as all produced secondary particles in an event-by-event manner, from starting or ejection energy down to total stopping. They provide useful information on physics and chemistry of the biological response to radiation. They depend on reliable interaction cross sections and transport models of the considered radiation quality with biologically relevant materials. Most transport models focus on sufficiently fast and bare (i.e., fully ionized) ions and cross sections calculated within the (relativistic) first Born or Bethe approximations. These theories consider the projectile as a point particle and rely on proton cross sections and simple charge-scaling methods; they neglect the atomic nature of the ion and break down at low and intermediate ion energies. Heavier ions are used in particle therapy and slow to intermediate and low energies in the biologically interesting Bragg peak. Lighter and slower fragment ions, including alpha particles, protons, and neutrons are also produced in nuclear and break up reactions of charged particles. Secondary neutrons also produce recoil protons and ions, mainly in the intermediate energy range. Results/Conclusion: This work reviews existing models for track structure simulations and cross section calculations for light and heavy ions focusing on the low and intermediate energy range. It also presents new and updated aspects on cross section calculations and simulation techniques for ions and discusses the need for new models, calculations, and experimental data.

  14. Nanoscale Phase Transitions under Extreme Conditions within an Ion Track

    SciTech Connect

    Zhang, Jiaming; Lang, Maik; Ewing, Rodney C.; Devanathan, R.; Weber, William; Toulemonde, M.

    2011-01-31

    The dynamics of track development due to the passage of relativistic heavy ions through solids is a long-standing issue relevant to nuclear materials, age dating of minerals, space exploration, and nanoscale fabrication of novel devices. We have integrated experimental and simulation approaches to investigate nanoscale phase transitions under the extreme conditions created within single tracks of relativistic ions in Gd{sub 2}O{sub 3}(TiO{sub 2}){sub x} and Gd{sub 2}Zr{sub 2–x} Ti{sub x} O{sub 7}. Track size and internal structure depend on energy density deposition, irradiation temperature, and material composition. Based on the inelastic thermal spike model, molecular dynamics simulations follow the time evolution of individual tracks and reveal the phase transition pathways to the concentric track structures observed experimentally. Individual ion tracks have nanoscale core-shell structures that provide a unique record of the phase transition pathways under extreme conditions.

  15. Nanoscale Phase Transitions under Extreme Conditions within an Ion Track

    SciTech Connect

    Zhang, Jiaming; Lang, Maik; Ewing, Rodney C.; Devanathan, Ramaswami; Weber, William J.; Toulemonde, Marcel

    2010-06-30

    The dynamics of track development due to the passage of relativistic heavy ions through solids is a long-standing issue relevant to nuclear materials, age-dating of minerals, space exploration, and nanoscale fabrication of novel devices. We have integrated experimental and simulation approaches to investigate nanoscale phase transitions under the extreme conditions created within single tracks of relativistic ions in Gd2O3(TiO2)x and Gd2Zr2-xTixO7. Track size and internal structure depend on energy-density deposition, irradiation temperature, and material composition. Molecular dynamics methods based on the thermal spike model have simulated, for the first time, the internal structure of individual tracks, consistent with experimental observations. Individual ion tracks have nanoscale core-shell structures that provide a unique record of the phase transition pathways under extreme conditions.

  16. Multiple lesion track structure model

    NASA Technical Reports Server (NTRS)

    Wilson, John W.; Cucinotta, Francis A.; Shinn, Judy L.

    1992-01-01

    A multilesion cell kinetic model is derived, and radiation kinetic coefficients are related to the Katz track structure model. The repair-related coefficients are determined from the delayed plating experiments of Yang et al. for the C3H10T1/2 cell system. The model agrees well with the x ray and heavy ion experiments of Yang et al. for the immediate plating, delaying plating, and fractionated exposure protocols employed by Yang. A study is made of the effects of target fragments in energetic proton exposures and of the repair-deficient target-fragment-induced lesions.

  17. Track Structure Model for Radial Distributions of Electron Spectra and Event Spectra from High-Energy Ions

    NASA Technical Reports Server (NTRS)

    Cucinotta, F. A.; Katz, R.; Wilson, J. W.

    1998-01-01

    An analytic method is described for evaluating the average radial electron spectrum and the radial and total frequency-event spectrum for high-energy ions. For high-energy ions, indirect events make important contributions to frequency-event spectra. The method used for evaluating indirect events is to fold the radial electron spectrum with measured frequency-event spectrum for photons or electrons. The contribution from direct events is treated using a spatially restricted linear energy transfer (LET). We find that high-energy heavy ions have a significantly reduced frequency-averaged final energy (yF) compared to LET, while relativistic protons have a significantly increased yF and dose-averaged lineal energy (yD) for typical site sizes used in tissue equivalent proportional counters. Such differences represent important factors in evaluating event spectra with laboratory beams, in space- flight, or in atmospheric radiation studies and in validation of radiation transport codes. The inadequacy of LET as descriptor because of deviations in values of physical quantities, such as track width, secondary electron spectrum, and yD for ions of identical LET is also discussed.

  18. Tomographic study of ion tracks by ion energy loss spectroscopy

    SciTech Connect

    Vacik, J.; Havranek, V.; Hnatowicz, V.; Lavrentiev, V.; Horak, P.; Fink, D.; Apel, P.

    2013-04-19

    Ion energy loss spectroscopy is suggested to determine the shape of the (latent, etched and filled) ion tracks in polymers using ion probes of various beam sizes. For a milli-probe, it can be considered as a one-dimensional tomography of many identical (rotationally symmetric) objects. For a micro-probe, the technique can be understood as a micro-tomography of the single ion track. In both cases, the ion energy loss spectroscopy requires monoenergetic ions with a low intensity (< 10{sup -3} s{sup -1}) and a well defined angular beam set-up. Here we present a study of the possible use of the ion milli-and micro-probes in a tomographic study of the ion track 3D geometry and its evolution during chemical etching.

  19. Online Simulation of Radiation Track Structure Project

    NASA Technical Reports Server (NTRS)

    Plante, Ianik

    2015-01-01

    Space radiation comprises protons, helium and high charged and energy (HZE) particles. High-energy particles are a concern for human space flight, because they are no known options for shielding astronauts from them. When these ions interact with matter, they damage molecules and create radiolytic species. The pattern of energy deposition and positions of the radiolytic species, called radiation track structure, is highly dependent on the charge and energy of the ion. The radiolytic species damage biological molecules, which may lead to several long-term health effects such as cancer. Because of the importance of heavy ions, the radiation community is very interested in the interaction of HZE particles with DNA, notably with regards to the track structure. A desktop program named RITRACKS was developed to simulate radiation track structure. The goal of this project is to create a web interface to allow registered internal users to use RITRACKS remotely.

  20. Ion-counting nanodosemeter with particle tracking capabilities.

    PubMed

    Bashkirov, V; Schulte, R; Breskin, A; Chechik, R; Schemelinin, S; Garty, G; Wroe, A; Sadrozinski, H; Grosswendt, B

    2006-01-01

    An ion-counting nanodosemeter (ND) yielding the distribution of radiation-induced ions in a low-pressure gas within a millimetric, wall-less sensitive volume (SV) was equipped with a silicon microstrip telescope that tracks the primary particles, allowing correlation of nanodosimetric data with particle position relative to the SV. The performance of this tracking ND was tested with a broad 250 MeV proton beam at Loma Linda University Medical Center. The high-resolution tracking capability made it possible to map the ion registration efficiency distribution within the SV, for which only calculated data were available before. It was shown that tracking information combined with nanodosimetric data can map the ionisation pattern of track segments within 150 nm-equivalent long SVs with a longitudinal resolution of approximately 5 tissue-equivalent nanometers. Data acquired in this work were compared with results of Monte Carlo track structure simulations. The good agreement between 'tracking nanodosimetry' data acquired with the new system and simulated data supports the application of ion-counting nanodosimetry in experimental track-structure studies. PMID:17283009

  1. Nanodosimetric track structure in homogeneous extended beams.

    PubMed

    Conte, V; Moro, D; Colautti, P; Grosswendt, B

    2015-09-01

    Physical aspects of particle track structure are important in determining the induction of clustered damage in relevant subcellular structures like the DNA and higher-order genomic structures. The direct measurement of track-structure properties of ionising radiation is feasible today by counting the number of ionisations produced inside a small gas volume. In particular, the so-called track-nanodosimeter, installed at the TANDEM-ALPI accelerator complex of LNL, measures ionisation cluster-size distributions in a simulated subcellular structure of dimensions 20 nm, corresponding approximately to the diameter of the chromatin fibre. The target volume is irradiated by pencil beams of primary particles passing at specified impact parameter. To directly relate these measured track-structure data to radiobiological measurements performed in broad homogeneous particle beams, these data can be integrated over the impact parameter. This procedure was successfully applied to 240 MeV carbon ions and compared with Monte Carlo simulations for extended fields. PMID:25848108

  2. Fast ion conductivity in strained defect-fluorite structure created by ion tracks in Gd2Ti2O7

    SciTech Connect

    Aidhy, Dilpuneet S.; Sachan, Ritesh; Zarkadoula, Eva; Pakarinen, Olli; Chisholm, Matthew F.; Zhang, Yanwen; Weber, William J.

    2015-11-10

    The structure and ion-conducting properties of the defect-fluorite ring structure formed around amorphous ion-tracks by swift heavy ion irradiation of Gd2Ti2O7 pyrochlore are investigated. High angle annular dark field imaging complemented with ion-track molecular dynamics simulations show that the atoms in the ring structure are disordered, and have relatively larger cation-cation interspacing than in the bulk pyrochlore, illustrating the presence of tensile strain in the ring region. Density functional theory calculations show that the non-equilibrium defect-fluorite structure can be stabilized by tensile strain. The pyrochlore to defect-fluorite structure transformation in the ring region is predicted to be induced by recrystallization during a melt-quench process and stabilized by tensile strain. Static pair-potential calculations show that planar tensile strain lowers oxygen vacancy migration barriers in pyrochlores, in agreement with recent studies on fluorite and perovskite materials. Lastly, in view of these results, it is suggested that strain engineering could be simultaneously used to stabilize the defect-fluorite structure and gain control over its high ion-conducting properties.

  3. LET, track structure and models. A review.

    PubMed

    Kraft, G; Krämer, M; Scholz, M

    1992-01-01

    Swift heavy ions when penetrating through matter strip off those electrons having a smaller orbital velocity than the ion velocity. The remaining electrons screen the nuclear charge yielding an effective charge. The effective charge of the ions interacts predominantly with the target electrons causing excitation and ionizations of the target atoms. Using the Bethe Bloch formula for the energy loss combined with the Barkas formula for effective charge, the energy loss values as well as unrestricted and restricted linear transfer can be calculated within a few percent of accuracy. From the primary energy loss only a small fraction of 10% or less is transformed into excitation. The major part of the energy loss is used for the ionization of the target atoms and the emission of the corresponding electrons with a high kinetic energy. These electrons form the track around the trajectory of the primary ion in which two thirds of the primary energy is deposited by collisions of primary, secondary and later generations of electrons with the target molecules. In the electron diffusion process the energy is transported from the center of the track into the halo. The radial dose decreases with the square of the radial distance from the center. The diameter of the track is determined by the maximum range of the emitted electrons, i.e. by the maximum energy electrons. All ions having the same velocity i.e. the same specific energy produce electrons of the same energy and therefore tracks of the same diameters independent of the effective charge. But the dose inside the track increases with the square of the effective charge. Track structure models using this continuous dose distributions produce a better agreement with the experiment than models based on microdosimetry. The critical volume as used in microdosimetry is too large compared to the size of the DNA as critical structure inside the biological objects. Track structure models yield better results because the gross-structure

  4. RITRACKS: A Software for Simulation of Stochastic Radiation Track Structure, Micro and Nanodosimetry, Radiation Chemistry and DNA Damage for Heavy Ions

    NASA Technical Reports Server (NTRS)

    Plante, I; Wu, H

    2014-01-01

    The code RITRACKS (Relativistic Ion Tracks) has been developed over the last few years at the NASA Johnson Space Center to simulate the effects of ionizing radiations at the microscopic scale, to understand the effects of space radiation at the biological level. The fundamental part of this code is the stochastic simulation of radiation track structure of heavy ions, an important component of space radiations. The code can calculate many relevant quantities such as the radial dose, voxel dose, and may also be used to calculate the dose in spherical and cylindrical targets of various sizes. Recently, we have incorporated DNA structure and damage simulations at the molecular scale in RITRACKS. The direct effect of radiations is simulated by introducing a slight modification of the existing particle transport algorithms, using the Binary-Encounter-Bethe model of ionization cross sections for each molecular orbitals of DNA. The simulation of radiation chemistry is done by a step-by-step diffusion-reaction program based on the Green's functions of the diffusion equation]. This approach is also used to simulate the indirect effect of ionizing radiation on DNA. The software can be installed independently on PC and tablets using the Windows operating system and does not require any coding from the user. It includes a Graphic User Interface (GUI) and a 3D OpenGL visualization interface. The calculations are executed simultaneously (in parallel) on multiple CPUs. The main features of the software will be presented.

  5. Characterisation of a track structure imaging detector.

    PubMed

    Casiraghi, M; Bashkirov, V A; Hurley, R F; Schulte, R W

    2015-09-01

    The spatial distribution of radiation-induced ionisations in sub-cellular structures plays an important role in the initial formation of radiation damage to biological tissues. Using the nanodosimetry approach, physical characteristics of the track structure can be measured and correlated to DNA damage. In this work, a novel nanodosimeter is presented, which detects positive ions produced by radiation interacting with a gas-sensitive volume in order to obtain a high resolution image of the radiation track structure. The characterisation of the detector prototype was performed and different configurations of the device were tested by varying the detector cathode material and the working gas. Preliminary results show that the ionisation cluster size distribution can be obtained with this approach. Further work is planned to improve the detector efficiency in order to register the complete three-dimensional track structure of ionising radiation. PMID:25877534

  6. Interaction of ion tracks in spatial and temporal proximity.

    PubMed

    Kreipl, Maximilian Stephan; Friedland, Werner; Paretzke, Herwig G

    2009-11-01

    In the present work, a systematic analysis of the impact of spatial and temporal proximity of ion tracks on the yield of higher-order radiolytic species as well as of DNA damage patterns is presented. This potential impact may be of concern when laser-driven particle accelerators are used for ion radiation therapy. The biophysical Monte Carlo track structure code PARTRAC was used and, to this end, extended in two aspects: first, the temporal information about track evolution has been included in the track structure module and, second, the simulation code has been modified to enable parallel multiple track processing during simulation of subsequent modelling stages. Depending on the spatial and temporal separation between ion-track pairs, the yield of chemical species has been calculated for incident protons with start energies of 20 MeV, for He(2+) ions with start energies of 1 and 20 MeV, and for 60 MeV C(6+) ions. Provided the overlap of the considered ion tracks is sufficient in all four dimensions (space and time), the yield of hydroxyl radicals was found to be reduced compared to that of single tracks, for all considered ion types. The biological endpoints investigated were base damages, single-strand breaks, double-strand breaks, and clustered lesions for incident pairs of protons and He(2+) ions, each with start energies of 20 MeV. The yield of clustered lesions produced by 20 MeV protons turned out to be influenced by the spatial separation of the proton pair; in contrast, no influence was found for different start times of the protons. The yield of single-strand breaks and base hits was found neither to depend on the spatial separation nor on the temporal separation between the incident protons. For incident 20 MeV He(2+) ions, however, a dependence on the spatial and temporal separation of the ion pair was found for all considered biological endpoints. Nevertheless, spatial proximity conditions where such intertrack effects were obtained are not met in

  7. Influence of electrodeposition parameters on the structure and morphology of ZnO nanowire arrays and networks synthesized in etched ion-track membranes

    NASA Astrophysics Data System (ADS)

    Movsesyan, Liana; Schubert, Ina; Yeranyan, Lilit; Trautmann, Christina; Toimil-Molares, Maria Eugenia

    2016-01-01

    This work presents the synthesis and characterization of two different zinc oxide (ZnO) nanowire assemblies: arrays of parallel-oriented cylindrical wires and three-dimensional (3D) networks of highly interconnected wires. Both are synthesized by electrochemical deposition in the pores of etched ion-track polycarbonate membranes. The crystallinity and crystallographic properties of the wires are influenced by the deposition parameters. In particular, we investigate how the diameter of the membrane nanopores and the deposition potential affect crystal orientation and morphology during nanowire growth. X-ray diffraction and energy dispersive x-ray analysis demonstrated that all wires are pure ZnO with a wurtzite hexagonal structure and free of impurities. The unique architecture of the synthesized 3D networks of nanowires with a high aspect ratio and enhanced mechanical stability is discussed.

  8. Industrial applications of ion track technology

    NASA Astrophysics Data System (ADS)

    Hanot, H.; Ferain, E.

    2009-03-01

    It4ip sa is a spin out from the Université Catholique de Louvain (Belgium) dedicated to the development and production of unique templates and membranes based on the combination of ion track technology of polymers. It supplies customers with hi-tech products, state-of-the-art research and product development services with template capability to make high value added membranes. Notably based on results coming from several collaborative R&D projects supported by European and Regional funding, recent improvements of ion track technology open new doors for fast growing applications in niche markets. This paper reviews some of these Hi-Tec applications in different fields such as in healthcare (oncology, drug control release combined to implant and artificial organs etc.), energy (fuel cells and batteries etc.), water de-contamination and electronics (OLED etc.).

  9. Field Emitter Arrays and Displays Produced by Ion Tracking Lithography

    SciTech Connect

    Felter, T E; Musket, R G; Bernhardt, A F

    2004-12-28

    When ions of sufficient electronic energy loss traverse a dielectric film or foil, they alter the chemical bonding along their nominally straight path within the material. A suitable etchant can quickly dissolve these so-called latent tracks leaving holes of small diameter ({approx}10nm) but long length - several microns. Continuing the etching process gradually increases the diameter reproducibly and uniformly. The trackable medium can be applied as a uniform film onto large substrates. The small, monodisperse holes produced by this track etching can be used in conjunction with additional thin film processing to create functional structures attached to the substrate. For example, Lawrence Livermore National Laboratory and Candescent Technologies Corporation (CTC) co-developed a process to make arrays of gated field emitters ({approx}100nm diameter electron guns) for CTC's ThinCRT{trademark} displays, which have been fabricated to diagonal dimensions > 13. Additional technological applications of ion tracking lithography will be briefly covered.

  10. Atomistic simulation of track formation by energetic ions in zircon

    SciTech Connect

    Moreira, Pedro A.F.P.; Devanathan, Ram; Weber, William J

    2010-01-01

    We have performed classical molecular dynamics simulations of fission track formation in zircon. We simulated the passage of a swift heavy ion through crystalline zircon using cylindrical thermal spikes with energy deposition (dE/dx) of 2.5-12.8 keV nm{sup -1} and a radius of 3 nm. At a low dE/dx of 2.55 keV nm{sup -1}, the structural damage recovered almost completely and a damage track was not produced. At higher values of dE/dx, tracks were observed and the radius of the track increased with increasing dE/dx. Our structural analysis shows amorphization in the core of the track and phase separation into Si-rich regions near the center of the track and Zr-rich regions near the periphery. These simulations establish a threshold dE/dx for fission track formation in zircon that is relevant to thermochronology and nuclear waste immobilization.

  11. High-energy ion tracks in thin films.

    SciTech Connect

    Doyle, Barney Lee; Follstaedt, David Martin; McDaniel, Floyd Del; Rossi, Paolo; Norman, Adam K.; Bringa, Eduardo M

    2004-08-01

    High-energy ion tracks (374 MeV Au{sup 26+}) in thin films were examined with transmission electron microscopy to investigate nanopore formation. Tracks in quartz and mica showed diffraction contrast. Tracks in sapphire and mica showed craters formed at the positions of ion incidence and exit, with a lower-density track connecting them. Direct nanopore formation by ions (without chemical etching) would appear to require film thicknesses less than 10 nm.

  12. Atomistic two-temperature modelling of ion track formation in silicon dioxide

    NASA Astrophysics Data System (ADS)

    Leino, A. A.; Daraszewicz, S. L.; Pakarinen, O. H.; Nordlund, K.; Djurabekova, F.

    2015-04-01

    We study swift-heavy-ion track formation in α-quartz using the two-temperature molecular dynamics (2T-MD) model realised as a concurrent multiscale scheme. We compare the simulated track radii to the existing experimental ones obtained from small-angle X-ray scattering and Rutherford backscattering experiments. The 2T-MD model provides an explanation of the origin of the track radii saturation at high electronic stopping power. Furthermore, we study the track structure and show that defects formed outside the region of density fluctuations after a swift-heavy-ion impact may explain the conflicting track radii produced by the two experimental techniques.

  13. Effect of track structure and radioprotectors on the induction of oncogenic transformation in murine fibroblasts by heavy ions

    NASA Technical Reports Server (NTRS)

    Miller, R. C.; Martin, S. G.; Hanson, W. R.; Marino, S. A.; Hall, E. J.; Wachholz, B. W. (Principal Investigator)

    1998-01-01

    The oncogenic potential of high-energy 56Fe particles (1 GeV/nucleon) accelerated with the Alternating Gradient Synchrotron at the Brookhaven National Laboratory was examined utilizing the mouse C3H 10T1/2 cell model. The dose-averaged LET for high-energy 56Fe is estimated to be 143 keV/micrometer with the exposure conditions used in this study. For 56Fe ions, the maximum relative biological effectiveness (RBEmax) values for cell survival and oncogenic transformation were 7.71 and 16.5 respectively. Compared to 150 keV/micrometer 4He nuclei, high-energy 56Fe nuclei were significantly less effective in cell killing and oncogenic induction. The prostaglandin E1 analog misoprostol, an effective oncoprotector of C3H 10T1/2 cells exposed to X rays, was evaluated for its potential as a radioprotector of oncogenic transformation with high-energy 56Fe. Exposure of cells to misoprostol did not alter 56Fe cytotoxicity or the rate of 56Fe-induced oncogenic transformation.

  14. Insights on dramatic radial fluctuations in track formation by energetic ions

    DOE PAGESBeta

    Sachan, Ritesh; Lang, Maik; Trautmann, Christina; Zhang, Yanwen; Chisholm, Matthew F.; Weber, William J.; Zarkadoula, Eva

    2016-06-02

    We discuss the insights on the unexpected dramatic radial variations in the ion tracks formed by energetic ion (2.3 GeV 208Pb) irradiation at a constant electronic energy-loss (~42 keV/nm) in pyrochlore structured Gd2TiZrO7. Though previous studies have shown track formation and average track diameter measurements, this work brings further clarity on why quantitative analysis of ion track formation in Gd2TixZr(1-x)O7 systems can be more complicated than the currently accepted behavior for ion tracks. The ion track profile is usually considered to be diametrically uniform at constant values of the electronic energy-loss. This study shows the diameter variations to be asmore » large as ~40% within an extremely short incremental track length of ~20 nm. Our molecular dynamics simulations show that these fluctuations in diameter of amorphous core and overall track diameter are attributed to (i) the stochastic nature of inelastic energy loss along the track and (ii) the random substitution of Ti atoms by Zr atoms on the B-site in the pyrochlore lattice. Furthermore, the partial substitution of Ti by Zr increases the favorability of the defect-fluorite structure formation over amorphous phase stochastically, by introducing localized inhomogeneity in atomic structure, density and strain.« less

  15. Insights on dramatic radial fluctuations in track formation by energetic ions

    SciTech Connect

    Sachan, Ritesh; Lang, Maik; Trautmann, Christina; Zhang, Yanwen; Chisholm, Matthew F; Weber, William J

    2016-01-01

    We discuss the insights on the unexpected dramatic radial variations in the ion tracks formed by energetic ion (2.3 GeV 208Pb) irradiation at a constant electronic energy-loss (~42 keV/nm) in pyrochlore structured Gd2TiZrO7. Though previous studies have shown track formation and average track diameter measurements, this work brings further clarity on why quantitative analysis of ion track formation in Gd2TixZr(1-x)O7 systems can be more complicated than the currently accepted behavior for ion tracks. The ion track profile is usually considered to be diametrically uniform at constant values of the electronic energy-loss. This study shows the diameter variations to be as large as ~40% within an extremely short incremental track length of ~20 nm. Our molecular dynamics simulations show that these fluctuations in diameter of amorphous core and overall track diameter are attributed to (i) the stochastic nature of inelastic energy loss along the track and (ii) the random substitution of Ti atoms by Zr atoms on the B-site in the pyrochlore lattice. The partial substitution of Ti by Zr increases the favorability of the defect-fluorite structure formation over amorphous phase stochastically, by introducing localized inhomogeneity in atomic structure, density and strain.

  16. Ionization cross section data of nitrogen, methane, and propane for light ions and electrons and their suitability for use in track structure simulations

    NASA Astrophysics Data System (ADS)

    Bug, Marion U.; Gargioni, Elisabetta; Nettelbeck, Heidi; Baek, Woon Yong; Hilgers, Gerhard; Rosenfeld, Anatoly B.; Rabus, Hans

    2013-10-01

    Track structure Monte Carlo simulations are frequently applied in micro- and nanodosimetry to calculate the radiation transport in detail. The use of a well-validated set of cross section data in such simulation codes ensures accurate calculations of transport parameters, such as ionization yields. These cross section data are, however, scarce and often discrepant when measured by different groups. This work surveys literature data on ionization and charge-transfer cross sections of nitrogen, methane, and propane for electrons, protons, and helium particles, focusing on the energy range between 100 keV and 20 MeV. Based on the evaluated data, different models for the parametrization of the cross section data are implemented in the code ptra, developed for simulating proton and alpha particle transport in an ion-counting nanodosimeter. The suitability of the cross section data is investigated by comparing the calculated mean ionization cluster size and energy loss with experimental results in either nitrogen or propane. For protons, generally good agreement between measured and simulated data is found when the Rudd model is used in ptra. For alpha particles, however, a considerable influence of different parametrizations of cross sections for ionization and charge transfer is observed. The ptra code using the charge-transfer data is, nevertheless, successfully benchmarked by the experimental data for the calculation of nanodosimetric quantities, but remaining discrepancies still have to be further investigated (up to 13% lower energy loss and 19% lower mean ionization cluster size than in the experiment). A continuation of this work should investigate data for the energy loss per interaction as well as differential cross section data of nitrogen and propane. Interpolation models for ionization and charge-transfer data are proposed. The Barkas model, frequently used for a determination of the effective charge in the ionization cross section, significantly

  17. Ionization cross section data of nitrogen, methane, and propane for light ions and electrons and their suitability for use in track structure simulations.

    PubMed

    Bug, Marion U; Gargioni, Elisabetta; Nettelbeck, Heidi; Baek, Woon Yong; Hilgers, Gerhard; Rosenfeld, Anatoly B; Rabus, Hans

    2013-10-01

    Track structure Monte Carlo simulations are frequently applied in micro- and nanodosimetry to calculate the radiation transport in detail. The use of a well-validated set of cross section data in such simulation codes ensures accurate calculations of transport parameters, such as ionization yields. These cross section data are, however, scarce and often discrepant when measured by different groups. This work surveys literature data on ionization and charge-transfer cross sections of nitrogen, methane, and propane for electrons, protons, and helium particles, focusing on the energy range between 100 keV and 20 MeV. Based on the evaluated data, different models for the parametrization of the cross section data are implemented in the code ptra, developed for simulating proton and alpha particle transport in an ion-counting nanodosimeter. The suitability of the cross section data is investigated by comparing the calculated mean ionization cluster size and energy loss with experimental results in either nitrogen or propane. For protons, generally good agreement between measured and simulated data is found when the Rudd model is used in ptra. For alpha particles, however, a considerable influence of different parametrizations of cross sections for ionization and charge transfer is observed. The ptra code using the charge-transfer data is, nevertheless, successfully benchmarked by the experimental data for the calculation of nanodosimetric quantities, but remaining discrepancies still have to be further investigated (up to 13% lower energy loss and 19% lower mean ionization cluster size than in the experiment). A continuation of this work should investigate data for the energy loss per interaction as well as differential cross section data of nitrogen and propane. Interpolation models for ionization and charge-transfer data are proposed. The Barkas model, frequently used for a determination of the effective charge in the ionization cross section, significantly

  18. Secondary ionisations in a wall-less ion-counting nanodosimeter: quantitative analysis and the effect on the comparison of measured and simulated track structure parameters in nanometric volumes

    NASA Astrophysics Data System (ADS)

    Hilgers, Gerhard; Bug, Marion U.; Gargioni, Elisabetta; Rabus, Hans

    2015-10-01

    The object of investigation in nanodosimetry is the physical characteristics of the microscopic structure of ionising particle tracks, i.e. the sequence of the interaction types and interaction sites of a primary particle and all its secondaries, which reflects the stochastic nature of the radiation interaction. In view of the upcoming radiation therapy with protons and carbon ions, the ionisation structure of the ion track is of particular interest. Owing to limitations in current detector technology, the only way to determine the ionisation cluster size distribution in a DNA segment is to simulate the particle track structure in condensed matter. This is done using dedicated computer programs based on Monte Carlo procedures simulating the interaction of the primary ions with the target. Hence, there is a need to benchmark these computer codes using suitable experimental data. Ionisation cluster size distributions produced in the nanodosimeter's sensitive volume by monoenergetic protons and alpha particles (with energies between 0.1 MeV and 20 MeV) were measured at the PTB ion accelerator facilities. C3H8 and N2 were alternately used as the working gas. The measured data were compared with the simulation results obtained with the PTB Monte-Carlo code PTra [B. Grosswendt, Radiat. Environ. Biophys. 41, 103 (2002); M.U. Bug, E. Gargioni, H. Nettelbeck, W.Y. Baek, G. Hilgers, A.B. Rosenfeld, H. Rabus, Phys. Rev. E 88, 043308 (2013)]. Measured and simulated characteristics of the particle track structure are generally in good agreement for protons over the entire energy range investigated. For alpha particles with energies higher than the Bragg peak energy, a good agreement can also be seen, whereas for energies lower than the Bragg peak energy differences of as much as 25% occur. Significant deviations are only observed for large ionisation cluster sizes. These deviations can be explained by a background consisting of secondary ions. These ions are produced in the

  19. Extending ion-track lithography to the low-energy ion regime

    SciTech Connect

    Musket, R.G.

    2006-06-01

    Ion tracking and ion-track lithography have been performed almost exclusively using ions with energies near or above the maximum in electronic stopping, which occurs at {approx}1 MeV/amu. In this paper, ion-track lithography using ions with energies well below this maximum is discussed. The results of etching ion tracks created in polycarbonate films by ions with energies just above the anticipated threshold for creating etchable latent tracks with cylindrical geometry have been examined. Low-energy neon and argon ions with 18-60 keV/amu and fluences of {approx}10{sup 8} cm{sup -2} were used to examine the limits for producing useful, etchable tracks in polycarbonate films. By concentrating on the early stages of etching (i.e., {approx}20 nmion was correlated with the creation of etchable tracks. The experimental results are discussed with regard to the energy losses of the ions in the polycarbonate films and to the formation of continuous latent tracks through the entire thickness of the films. The probability distributions for large-angle scattering events were calculated to assess their importance as a function of ion energy. All these results have significant implications with respect to the threshold for formation of etchable tracks and to the use of low-energy ions for lithographic applications of ion tracking.

  20. Extending ion-track lithography to the low-energy ion regime

    SciTech Connect

    Musket, R G

    2005-10-14

    Ion tracking and ion-track lithography have been performed almost exclusively using ions with energies near or above the maximum in electronic stopping, which occurs at {approx}1 MeV/amu. In this paper, ion-track lithography using ions with energies well below this maximum is discussed. The results of etching ion tracks created in polycarbonate films by ions with energies just above the anticipated threshold for creating etchable latent tracks with cylindrical geometry have been examined. Low-energy neon and argon ions with 18-60 keV/amu and fluences of {approx}10{sup 8}/cm{sup 2} were used to examine the limits for producing useful, etchable tracks in polycarbonate films. By concentrating on the early stages of etching (i.e., {approx}20 nm < SEM hole diameter < {approx}100 nm), the energy deposition calculated for the incident ion was correlated with the creation of etchable tracks. The experimental results are discussed with regard to the energy losses of the ions in the polycarbonate films and to the formation of continuous latent tracks through the entire thickness of the films. The probability distributions for large-angle scattering events were calculated to assess their importance as a function of ion energy. All these results have significant implications with respect to the threshold for formation of etchable tracks and to the use of low-energy ions for lithographic applications of ion tracking.

  1. Track structure model of cell damage in space flight

    NASA Technical Reports Server (NTRS)

    Katz, Robert; Cucinotta, Francis A.; Wilson, John W.; Shinn, Judy L.; Ngo, Duc M.

    1992-01-01

    The phenomenological track-structure model of cell damage is discussed. A description of the application of the track-structure model with the NASA Langley transport code for laboratory and space radiation is given. Comparisons to experimental results for cell survival during exposure to monoenergetic, heavy-ion beams are made. The model is also applied to predict cell damage rates and relative biological effectiveness for deep-space exposures.

  2. Composition dependent thermal annealing behaviour of ion tracks in apatite

    NASA Astrophysics Data System (ADS)

    Nadzri, A.; Schauries, D.; Mota-Santiago, P.; Muradoglu, S.; Trautmann, C.; Gleadow, A. J. W.; Hawley, A.; Kluth, P.

    2016-07-01

    Natural apatite samples with different F/Cl content from a variety of geological locations (Durango, Mexico; Mud Tank, Australia; and Snarum, Norway) were irradiated with swift heavy ions to simulate fission tracks. The annealing kinetics of the resulting ion tracks was investigated using synchrotron-based small-angle X-ray scattering (SAXS) combined with ex situ annealing. The activation energies for track recrystallization were extracted and consistent with previous studies using track-etching, tracks in the chlorine-rich Snarum apatite are more resistant to annealing than in the other compositions.

  3. Monte-Carlo Simulation of Heavy Ion Track Structure Calculation of Local Dose and 3D Time Evolution of Radiolytic Species

    NASA Technical Reports Server (NTRS)

    Plante, Ianik; Cucinotta, Francis A.

    2010-01-01

    Heavy ions have gained considerable importance in radiotherapy due to their advantageous dose distribution profile and high Relative Biological Effectiveness (RBE). Heavy ions are difficult to produce on Earth, but they are present in space and it is impossible at this moment to completely shield astronauts from them. The risk of these radiations is poorly understood, which is a concern for a 3-years Mars mission. The effects of radiation are mainly due to DNA damage such as DNA double-strand breaks (DSBs), although non-targeted effects are also very important. DNA can be damaged by the direct interaction of radiation and by reactions with chemical species produced by the radiolysis of water. The energy deposition is of crucial importance to understand biological effects of radiation. Therefore, much effort has been done recently to improve models of radiation tracks.

  4. HIBRA: A computer code for heavy ion binary reaction analysis employing ion track detectors

    NASA Astrophysics Data System (ADS)

    Jamil, Khalid; Ahmad, Siraj-ul-Islam; Manzoor, Shahid

    2016-01-01

    Collisions of heavy ions many times result in production of only two reaction products. Study of heavy ions using ion track detectors allows experimentalists to observe the track length in the plane of the detector, depth of the tracks in the volume of the detector and angles between the tracks on the detector surface, all known as track parameters. How to convert these into useful physics parameters such as masses, energies, momenta of the reaction products and the Q-values of the reaction? This paper describes the (a) model used to analyze binary reactions in terms of measured etched track parameters of the reaction products recorded in ion track detectors, and (b) the code developed for computing useful physics parameters for fast and accurate analysis of a large number of binary events. A computer code, HIBRA (Heavy Ion Binary Reaction Analysis) has been developed both in C++ and FORTRAN programming languages. It has been tested on the binary reactions from 12.5 MeV/u 84Kr ions incident upon U (natural) target deposited on mica ion track detector. The HIBRA code can be employed with any ion track detector for which range-velocity relation is available including the widely used CR-39 ion track detectors. This paper provides the source code of HIBRA in C++ language along with input and output data to test the program.

  5. Track formation and dislocation loop interaction in spinel irradiated with swift heavy ions

    NASA Astrophysics Data System (ADS)

    Zinkle, S. J.; Skuratov, V. A.

    1998-05-01

    The microstructure of polycrystalline stoichiometric magnesium aluminate spinel (MgAl 2O 4) has been examined by cross-section electron microscopy following 430 MeV Kr + or 614 MeV Xe + ion irradiation near room temperature up to a fluence of 1.1 × 10 16 ions/m 2. In addition, the microstructure was examined for two spinel specimens which had been preirradiated with either 2 MeV Al + ions or 3.6 MeV Fe + ions and subsequently irradiated with 430 MeV Kr + ions. The Al + and Fe + preirradiated specimens contained a high density (10 21-10 23 m -3) of interstitial dislocation loops with diameters between 5 and 30 nm prior to the swift heavy ion irradiation. Near-continuous latent ion tracks were observed in all of the specimens irradiated with swift heavy ions. The swift heavy ions also appeared to efficiently destroy pre-existing dislocation loops with diameters <5 nm, whereas larger loops remained intact following the swift heavy ion irradiation. The swift heavy ions caused structural disordering of the octahedral cautions, but did not appear to produce amorphous cores in the ion tracks. The disordered ion track diameters were ˜2.0 and ˜2.6 nm for the 430 MeV Kr and 614 MeV Xe ion irradiations, respectively.

  6. Insights on dramatic radial fluctuations in track formation by energetic ions.

    PubMed

    Sachan, Ritesh; Zarkadoula, Eva; Lang, Maik; Trautmann, Christina; Zhang, Yanwen; Chisholm, Matthew F; Weber, William J

    2016-01-01

    We report on unexpected dramatic radial variations in ion tracks formed by irradiation with energetic ions (2.3 GeV (208)Pb) at a constant electronic energy-loss (~42 keV/nm) in pyrochlore-structured Gd2TiZrO7. Though previous studies have shown track formation and average track diameter measurements in the Gd2TixZr(1-x)O7 system, the present work clearly reveals the importance of the recrystallization process in ion track formation in this system, which leads to more morphological complexities in tracks than currently accepted behavior. The ion track profile is usually considered to be diametrically uniform for a constant value of electronic energy-loss. This study reveals the diameter variations to be as large as ~40% within an extremely short incremental track length of ~20 nm. Our molecular dynamics simulations show that these fluctuations in diameter of amorphous core and overall track diameter are attributed to the partial substitution of Ti atoms by Zr atoms, which have a large difference in ionic radii, on the B-site in pyrochlore lattice. This random distribution of Ti and Zr atoms leads to a local competition between amorphous phase formation (favored by Ti atoms) and defect-fluorite phase formation (favored by Zr atoms) during the recrystallization process and finally introduces large radial variations in track morphology. PMID:27250764

  7. Insights on dramatic radial fluctuations in track formation by energetic ions

    NASA Astrophysics Data System (ADS)

    Sachan, Ritesh; Zarkadoula, Eva; Lang, Maik; Trautmann, Christina; Zhang, Yanwen; Chisholm, Matthew F.; Weber, William J.

    2016-06-01

    We report on unexpected dramatic radial variations in ion tracks formed by irradiation with energetic ions (2.3 GeV 208Pb) at a constant electronic energy-loss (~42 keV/nm) in pyrochlore-structured Gd2TiZrO7. Though previous studies have shown track formation and average track diameter measurements in the Gd2TixZr(1‑x)O7 system, the present work clearly reveals the importance of the recrystallization process in ion track formation in this system, which leads to more morphological complexities in tracks than currently accepted behavior. The ion track profile is usually considered to be diametrically uniform for a constant value of electronic energy-loss. This study reveals the diameter variations to be as large as ~40% within an extremely short incremental track length of ~20 nm. Our molecular dynamics simulations show that these fluctuations in diameter of amorphous core and overall track diameter are attributed to the partial substitution of Ti atoms by Zr atoms, which have a large difference in ionic radii, on the B-site in pyrochlore lattice. This random distribution of Ti and Zr atoms leads to a local competition between amorphous phase formation (favored by Ti atoms) and defect-fluorite phase formation (favored by Zr atoms) during the recrystallization process and finally introduces large radial variations in track morphology.

  8. Insights on dramatic radial fluctuations in track formation by energetic ions

    PubMed Central

    Sachan, Ritesh; Zarkadoula, Eva; Lang, Maik; Trautmann, Christina; Zhang, Yanwen; Chisholm, Matthew F.; Weber, William J.

    2016-01-01

    We report on unexpected dramatic radial variations in ion tracks formed by irradiation with energetic ions (2.3 GeV 208Pb) at a constant electronic energy-loss (~42 keV/nm) in pyrochlore-structured Gd2TiZrO7. Though previous studies have shown track formation and average track diameter measurements in the Gd2TixZr(1−x)O7 system, the present work clearly reveals the importance of the recrystallization process in ion track formation in this system, which leads to more morphological complexities in tracks than currently accepted behavior. The ion track profile is usually considered to be diametrically uniform for a constant value of electronic energy-loss. This study reveals the diameter variations to be as large as ~40% within an extremely short incremental track length of ~20 nm. Our molecular dynamics simulations show that these fluctuations in diameter of amorphous core and overall track diameter are attributed to the partial substitution of Ti atoms by Zr atoms, which have a large difference in ionic radii, on the B-site in pyrochlore lattice. This random distribution of Ti and Zr atoms leads to a local competition between amorphous phase formation (favored by Ti atoms) and defect-fluorite phase formation (favored by Zr atoms) during the recrystallization process and finally introduces large radial variations in track morphology. PMID:27250764

  9. A 3D feature point tracking method for ion radiation.

    PubMed

    Kouwenberg, Jasper J M; Ulrich, Leonie; Jäkel, Oliver; Greilich, Steffen

    2016-06-01

    A robust and computationally efficient algorithm for automated tracking of high densities of particles travelling in (semi-) straight lines is presented. It extends the implementation of (Sbalzarini and Koumoutsakos 2005) and is intended for use in the analysis of single ion track detectors. By including information of existing tracks in the exclusion criteria and a recursive cost minimization function, the algorithm is robust to variations on the measured particle tracks. A trajectory relinking algorithm was included to resolve the crossing of tracks in high particle density images. Validation of the algorithm was performed using fluorescent nuclear track detectors (FNTD) irradiated with high- and low (heavy) ion fluences and showed less than 1% faulty trajectories in the latter. PMID:27163162

  10. A 3D feature point tracking method for ion radiation

    NASA Astrophysics Data System (ADS)

    Kouwenberg, Jasper J. M.; Ulrich, Leonie; Jäkel, Oliver; Greilich, Steffen

    2016-06-01

    A robust and computationally efficient algorithm for automated tracking of high densities of particles travelling in (semi-) straight lines is presented. It extends the implementation of (Sbalzarini and Koumoutsakos 2005) and is intended for use in the analysis of single ion track detectors. By including information of existing tracks in the exclusion criteria and a recursive cost minimization function, the algorithm is robust to variations on the measured particle tracks. A trajectory relinking algorithm was included to resolve the crossing of tracks in high particle density images. Validation of the algorithm was performed using fluorescent nuclear track detectors (FNTD) irradiated with high- and low (heavy) ion fluences and showed less than 1% faulty trajectories in the latter.

  11. Effect Of Auger Recombination In An Ion Track

    NASA Technical Reports Server (NTRS)

    Edmonds, Larry D.

    1993-01-01

    Report presents theoretical calculations of contribution of Auger recombination to depletion of charge carriers from ionization track left by passage of energetic heavy ion through silicon-based electronic device.

  12. Advances in Understanding of Swift Heavy-Ion Tracks in Complex Ceramics

    SciTech Connect

    Lang, Maik; Devanathan, Ram; Toulemonde, Marcel; Trautmann, Christina

    2015-02-01

    Tracks produced by swift heavy ions in ceramics are of interest for fundamental science as well as for applications covering different fields such as nanotechnology or fission-track dating of minerals. In the case of pyrochlores with general formula A2B2O7, the track structure and radiation sensitivity shows a clear dependence on the composition. Ion irradiated Gd2Zr2O7, e.g., retains its crystallinity while amorphous tracks are produced in Gd2Ti2O7. Tracks in Ti-containing compositions have a complex morphology consisting of an amorphous core surrounded by a shell of a disordered, defect-fluorite phase. The size of the amorphous core decreases with decreasing energy loss and with increasing Zr content, while the shell thickness seems to be similar over a wide range of energy loss values. The large data set and the complex track structure has made pyrochlore an interesting model system for a general theoretical description of track formation including thermal spike calculations (providing the spatial and temporal evolution of temperature around the ion trajectory) and molecular dynamics (MD) simulations (describing the response of the atomic system).Recent MD advances consider the sudden temperature increase by inserting data from the thermal spike. The combination allows the reproduction of the core-shell track characteristic and sheds light on the early stages of track formation including recrystallization of the molten material produced by the thermal spike.

  13. Structure tracking aided design and synthesis of Li3V2(PO4)3 nanocrystals as high-power cathodes for lithium ion batteries

    DOE PAGESBeta

    Wang, Liping; Bai, Jianming; Gao, Peng; Wang, Xiaoya; Looney, J. Patrick; Wang, Feng

    2015-07-30

    In this study, preparing new electrode materials with synthetic control of phases and electrochemical properties is desirable for battery applications but hardly achievable without knowing how the synthesis reaction proceeds. Herein, we report on structure tracking-aided design and synthesis of single-crystalline Li3V2(PO4)3 (LVP) nanoparticles with extremely high rate capability. A comprehensive investigation was made to the local structural orderings of the involved phases and their evolution toward forming LVP phase using in situ/ex situ synchrotron X-ray and electron-beam diffraction, spectroscopy, and imaging techniques. The results shed light on the thermodynamics and kinetics of synthesis reactions and enabled the design ofmore » a cost-efficient synthesis protocol to make nanocrystalline LVP, wherein solvothermal treatment is a crucial step leading to an amorphous intermediate with local structural ordering resembling that of LVP, which, upon calcination at moderate temperatures, rapidly transforms into the desired LVP phase. The obtained LVP particles are about 50 nm, coated with a thin layer of amorphous carbon and featured with excellent cycling stability and rate capability – 95% capacity retention after 200 cycles and 66% theoretical capacity even at a current rate of 10 C. The structure tracking based method we developed in this work offers a new way of designing battery electrodes with synthetic control of material phases and properties.« less

  14. A simple and rapid method for high-resolution visualization of single-ion tracks

    SciTech Connect

    Omichi, Masaaki; Choi, Wookjin; Sakamaki, Daisuke; Seki, Shu; Tsukuda, Satoshi; Sugimoto, Masaki

    2014-11-15

    Prompt determination of spatial points of single-ion tracks plays a key role in high-energy particle induced-cancer therapy and gene/plant mutations. In this study, a simple method for the high-resolution visualization of single-ion tracks without etching was developed through the use of polyacrylic acid (PAA)-N, N’-methylene bisacrylamide (MBAAm) blend films. One of the steps of the proposed method includes exposure of the irradiated films to water vapor for several minutes. Water vapor was found to promote the cross-linking reaction of PAA and MBAAm to form a bulky cross-linked structure; the ion-track scars were detectable at a nanometer scale by atomic force microscopy. This study demonstrated that each scar is easily distinguishable, and the amount of generated radicals of the ion tracks can be estimated by measuring the height of the scars, even in highly dense ion tracks. This method is suitable for the visualization of the penumbra region in a single-ion track with a high spatial resolution of 50 nm, which is sufficiently small to confirm that a single ion hits a cell nucleus with a size ranging between 5 and 20 μm.

  15. Micro- and Nanoengineering with Ion Tracks

    NASA Astrophysics Data System (ADS)

    Trautmann, Christina

    In nature, particle tracks are formed over millions of years whenever radioactive elements decay by fission processes, producing energetic fragments of sufficiently large mass (˜ 100 u) and energy (˜ 100 u).

  16. Preserving Structure in Model-Free Tracking.

    PubMed

    Zhang, Lu; van der Maaten, Laurens J P

    2014-04-01

    Model-free trackers can track arbitrary objects based on a single (bounding-box) annotation of the object. Whilst the performance of model-free trackers has recently improved significantly, simultaneously tracking multiple objects with similar appearance remains very hard. In this paper, we propose a new multi-object model-free tracker (using a tracking-by-detection framework) that resolves this problem by incorporating spatial constraints between the objects. The spatial constraints are learned along with the object detectors using an online structured SVM algorithm. The experimental evaluation of our structure-preserving object tracker (SPOT) reveals substantial performance improvements in multi-object tracking. We also show that SPOT can improve the performance of single-object trackers by simultaneously tracking different parts of the object. Moreover, we show that SPOT can be used to adapt generic, model-based object detectors during tracking to tailor them towards a specific instance of that object. PMID:26353198

  17. Conducting ion tracks generated by charge-selected swift heavy ions

    NASA Astrophysics Data System (ADS)

    Gupta, Srashti; Gehrke, H. G.; Krauser, J.; Trautmann, C.; Severin, D.; Bender, M.; Rothard, H.; Hofsäss, H.

    2016-08-01

    Conducting ion tracks in tetrahedral amorphous carbon (ta-C) thin films were generated by irradiation with swift heavy ions of well-defined charge state. The conductivity of tracks and the surface topography of the films, showing characteristic hillocks at each track position, were investigated using conductive atomic force microscopy measurements. The dependence of track conductivity and hillock size on the charge state of the ions was studied using 4.6 MeV/u Pb ions of charge state 53+, 56+ and 60+ provided by GANIL, as well as 4.8 MeV/u Bi and Au ions of charge state from 50+ to 61+ and 4.2 MeV/u 238U ions in equilibrium charge state provided by UNILAC of GSI. For the charge state selection at GSI, an additional stripper-foil system was installed at the M-branch that now allows routine irradiations with ions of selected charge states. The conductivity of tracks in ta-C increases significantly when the charge state increases from 51+ to 60+. However, the conductivity of individual tracks on the same sample still shows large variations, indicating that tracks formed in ta-C are either inhomogeneous or the conductivity is limited by the interface between ion track and Si substrate.

  18. Formation of Well-defined Nanocolumns by Ion Tracking Lithography

    SciTech Connect

    Felter, T E; Musket, R G; Macaulay, J; Contolini, R J; Searson, P C

    2003-04-12

    Low dimensional systems on the nanometer scale afford a wealth of interesting possibilities including highly anisotropic behavior and quantum effects. Nanocolumns permit electrical and mechanical contact, yet benefit from two confined dimensions. This confinement leads to new optical, mechanical, electrical, chemical, and magnetic properties. We construct nanocolumn arrays with precise definition and independent control of diameter, length, orientation, areal density and composition so that geometry can be directly correlated to the quantum physical property of interest. The precision and control are products of the fabrication technique that we use. The process starts with an ion of sufficient energy to ''track'' a dielectric such as a film applied uniformly onto a substrate. The energy loss of the ion alters chemical bonding in the dielectric along the ion's straight trajectory. A suitable etchant quickly dissolves the latent tracks leaving high aspect ratio holes of small diameter ({approx}10nm) penetrating a film as thick as several microns. These small holes are interesting and useful in their own right and can be made to any desired size by continuing the etching process. Moreover, they serve as molds for electrochemical filling. After this electro-deposition, the mold material can be removed leaving the columns firmly attached to the substrate at the desired orientation. A variety of structures can be envisioned with these techniques. As examples, we have created arrays of Ni and of Pt nanocolumns ({approx}60 nm diameter and {approx}600 nm long) oriented perpendicular to the substrate. The high aspect ratio and small diameter of the columns enables easy observation of quantum behavior, namely efficient electron field emission and Fowler Nordheim behavior.

  19. Strategies towards advanced ion track-based biosensors

    NASA Astrophysics Data System (ADS)

    Alfonta, L.; Bukelman, O.; Chandra, A.; Fahrner, W. R.; Fink, D.; Fuks, D.; Golovanov, V.; Hnatowicz, V.; Hoppe, K.; Kiv, A.; Klinkovich, I.; Landau, M.; Morante, J. R.; Tkachenko, N. V.; Vacík, J.; Valden, M.

    Three approaches towards ion track-based biosensors appear to be feasible. The development of the first one began a decade ago [Siwy, Z.; Trofin, L.; Kohl, P.; Baker, L.A.; Martin, C.R.; Trautmann, C. J. Am. Chem. Soc. 2005, 127, 5000-5001; Siwy, Z.S.; Harrell, C.C.; Heins, E.; Martin, C.R.; Schiedt, B.; Trautmann, C.; Trofin, L.; Polman, A. Presented at the 6th International Conference on Swift Heavy Ions in Matter, Aschaffenburg, Germany, May 28-31, 2005] and makes use of the concept that the presence of certain biomolecules within liquids can block the passage through narrow pores if being captured there, thus switching off the pore's electrical conductivity. The second, having been successfully tested half a year ago [Fink, D.; Klinkovich, I.; Bukelman, O.; Marks, R.S.; Fahrner, W.; Kiv, A.; Fuks, D.; Alfonta, L. Biosens. Bioelectron. 2009, 24, 2702-2706], is based on the accumulation of enzymatic reaction products within the confined volume of narrow etched ion tracks which modifies the pore's electrical conductivity. The third and most elegant, at present under development, will exploit the charge transfer from enzymes to semiconductors embedded within etched tracks, enabling the enzymes undergoing specific reactions with the biomolecules to be detected. These strategies can be realized either within carrier-free nanoporous polymeric membranes embedded in the corresponding bioliquids, or within contacted nanoporous insulating layers on semiconducting substrates, the so-called TEMPOS structures [Fink, D.; Petrov, A.; Hoppe, H.; Fahrner, W.R.; Papaleo, R.M.; Berdinsky, A.; Chandra, A.; Biswas, A.; Chadderton, L.T. Nucl. Instrum. Methods B 2004, 218, 355-361]. The latter have the advantage of exhibiting a number of peculiar electronic properties, such as the ability for logic and/or combination of input signals, tunable polarity, negative differential resistances, tunability by external parameters such as light, magnetic fields, etc. and self-pulsations, which

  20. Dynamic kirigami structures for integrated solar tracking

    PubMed Central

    Lamoureux, Aaron; Lee, Kyusang; Shlian, Matthew; Forrest, Stephen R.; Shtein, Max

    2015-01-01

    Optical tracking is often combined with conventional flat panel solar cells to maximize electrical power generation over the course of a day. However, conventional trackers are complex and often require costly and cumbersome structural components to support system weight. Here we use kirigami (the art of paper cutting) to realize novel solar cells where tracking is integral to the structure at the substrate level. Specifically, an elegant cut pattern is made in thin-film gallium arsenide solar cells, which are then stretched to produce an array of tilted surface elements which can be controlled to within ±1°. We analyze the combined optical and mechanical properties of the tracking system, and demonstrate a mechanically robust system with optical tracking efficiencies matching conventional trackers. This design suggests a pathway towards enabling new applications for solar tracking, as well as inspiring a broader range of optoelectronic and mechanical devices. PMID:26348820

  1. Dynamic kirigami structures for integrated solar tracking

    NASA Astrophysics Data System (ADS)

    Lamoureux, Aaron; Lee, Kyusang; Shlian, Matthew; Forrest, Stephen R.; Shtein, Max

    2015-09-01

    Optical tracking is often combined with conventional flat panel solar cells to maximize electrical power generation over the course of a day. However, conventional trackers are complex and often require costly and cumbersome structural components to support system weight. Here we use kirigami (the art of paper cutting) to realize novel solar cells where tracking is integral to the structure at the substrate level. Specifically, an elegant cut pattern is made in thin-film gallium arsenide solar cells, which are then stretched to produce an array of tilted surface elements which can be controlled to within +/-1°. We analyze the combined optical and mechanical properties of the tracking system, and demonstrate a mechanically robust system with optical tracking efficiencies matching conventional trackers. This design suggests a pathway towards enabling new applications for solar tracking, as well as inspiring a broader range of optoelectronic and mechanical devices.

  2. Dynamic kirigami structures for integrated solar tracking.

    PubMed

    Lamoureux, Aaron; Lee, Kyusang; Shlian, Matthew; Forrest, Stephen R; Shtein, Max

    2015-01-01

    Optical tracking is often combined with conventional flat panel solar cells to maximize electrical power generation over the course of a day. However, conventional trackers are complex and often require costly and cumbersome structural components to support system weight. Here we use kirigami (the art of paper cutting) to realize novel solar cells where tracking is integral to the structure at the substrate level. Specifically, an elegant cut pattern is made in thin-film gallium arsenide solar cells, which are then stretched to produce an array of tilted surface elements which can be controlled to within ±1°. We analyze the combined optical and mechanical properties of the tracking system, and demonstrate a mechanically robust system with optical tracking efficiencies matching conventional trackers. This design suggests a pathway towards enabling new applications for solar tracking, as well as inspiring a broader range of optoelectronic and mechanical devices. PMID:26348820

  3. Engineering cell-fluorescent ion track hybrid detectors

    PubMed Central

    2013-01-01

    Background The lack of sensitive biocompatible particle track detectors has so far limited parallel detection of physical energy deposition and biological response. Fluorescent nuclear track detectors (FNTDs) based on Al2O3:C,Mg single crystals combined with confocal laser scanning microscopy (CLSM) provide 3D information on ion tracks with a resolution limited by light diffraction. Here we report the development of next generation cell-fluorescent ion track hybrid detectors (Cell-Fit-HD). Methods The biocompatibility of FNTDs was tested using six different cell lines, i.e. human non-small cell lung carcinoma (A549), glioblastoma (U87), androgen independent prostate cancer (PC3), epidermoid cancer (A431) and murine (VmDk) glioma SMA-560. To evaluate cell adherence, viability and conformal coverage of the crystals different seeding densities and alternative coating with extracellular matrix (fibronectin) was tested. Carbon irradiation was performed in Bragg peak (initial 270.55 MeV u−1). A series of cell compartment specific fluorescence stains including nuclear (HOECHST), membrane (Glut-1), cytoplasm (Calcein AM, CM-DiI) were tested on Cell-Fit-HDs and a single CLSM was employed to co-detect the physical (crystal) as well as the biological (cell layer) information. Results The FNTD provides a biocompatible surface. Among the cells tested, A549 cells formed the most uniform, viable, tightly packed epithelial like monolayer. The ion track information was not compromised in Cell-Fit-HD as compared to the FNTD alone. Neither cell coating and culturing, nor additional staining procedures affected the properties of the FNTD surface to detect ion tracks. Standard immunofluorescence and live staining procedures could be employed to co-register cell biology and ion track information. Conclusions The Cell-Fit-Hybrid Detector system is a promising platform for a multitude of studies linking biological response to energy deposition at high level of optical microscopy

  4. Ion track reconstruction in 3D using alumina-based fluorescent nuclear track detectors.

    PubMed

    Niklas, M; Bartz, J A; Akselrod, M S; Abollahi, A; Jäkel, O; Greilich, S

    2013-09-21

    Fluorescent nuclear track detectors (FNTDs) based on Al2O3: C, Mg single crystal combined with confocal microscopy provide 3D information on ion tracks with a resolution only limited by light diffraction. FNTDs are also ideal substrates to be coated with cells to engineer cell-fluorescent ion track hybrid detectors (Cell-Fit-HD). This radiobiological tool enables a novel platform linking cell responses to physical dose deposition on a sub-cellular level in proton and heavy ion therapies. To achieve spatial correlation between single ion hits in the cell coating and its biological response the ion traversals have to be reconstructed in 3D using the depth information gained by the FNTD read-out. FNTDs were coated with a confluent human lung adenocarcinoma epithelial (A549) cell layer. Carbon ion irradiation of the hybrid detector was performed perpendicular and angular to the detector surface. In situ imaging of the fluorescently labeled cell layer and the FNTD was performed in a sequential read-out. Making use of the trajectory information provided by the FNTD the accuracy of 3D track reconstruction of single particles traversing the hybrid detector was studied. The accuracy is strongly influenced by the irradiation angle and therefore by complexity of the FNTD signal. Perpendicular irradiation results in highest accuracy with error of smaller than 0.10°. The ability of FNTD technology to provide accurate 3D ion track reconstruction makes it a powerful tool for radiobiological investigations in clinical ion beams, either being used as a substrate to be coated with living tissue or being implanted in vivo. PMID:23965401

  5. Ion track reconstruction in 3D using alumina-based fluorescent nuclear track detectors

    NASA Astrophysics Data System (ADS)

    Niklas, M.; Bartz, J. A.; Akselrod, M. S.; Abollahi, A.; Jäkel, O.; Greilich, S.

    2013-09-01

    Fluorescent nuclear track detectors (FNTDs) based on Al2O3: C, Mg single crystal combined with confocal microscopy provide 3D information on ion tracks with a resolution only limited by light diffraction. FNTDs are also ideal substrates to be coated with cells to engineer cell-fluorescent ion track hybrid detectors (Cell-Fit-HD). This radiobiological tool enables a novel platform linking cell responses to physical dose deposition on a sub-cellular level in proton and heavy ion therapies. To achieve spatial correlation between single ion hits in the cell coating and its biological response the ion traversals have to be reconstructed in 3D using the depth information gained by the FNTD read-out. FNTDs were coated with a confluent human lung adenocarcinoma epithelial (A549) cell layer. Carbon ion irradiation of the hybrid detector was performed perpendicular and angular to the detector surface. In situ imaging of the fluorescently labeled cell layer and the FNTD was performed in a sequential read-out. Making use of the trajectory information provided by the FNTD the accuracy of 3D track reconstruction of single particles traversing the hybrid detector was studied. The accuracy is strongly influenced by the irradiation angle and therefore by complexity of the FNTD signal. Perpendicular irradiation results in highest accuracy with error of smaller than 0.10°. The ability of FNTD technology to provide accurate 3D ion track reconstruction makes it a powerful tool for radiobiological investigations in clinical ion beams, either being used as a substrate to be coated with living tissue or being implanted in vivo.

  6. Spread Of Charge From Ion Tracks In Integrated Circuits

    NASA Technical Reports Server (NTRS)

    Zoutendyk, John A.; Schwartz, Harvey R.; Watson, R. Kevin; Nevill, Leland R.

    1989-01-01

    Single-event upsets (SEU's) propagate to adjacent cells in integrated memory circuits. Findings of experiments in lateral transport of electrical-charge carriers from ion tracks in 256K dynamic randon-access memories (DRAM's). As dimensions of integrated circuits decrease, vulnerability to SEU's increases. Understanding gained enables design of less vulnerable circuits.

  7. Ion track enabled multiple wire microvia interconnects in printed circuit boards

    NASA Astrophysics Data System (ADS)

    Yousef, H.; Lindeberg, M.; Hjort, K.

    2008-04-01

    As the call for higher wiring density in packaging and vertical microvia interconnections (microvias) rapidly evolves, the need for smaller lateral dimensions in printed circuit boards (PCB) microvias must be met. The ion track lithography described in this paper allows for high throughput micromachining of small, deep, vertical microvias in flexible PCB and all-polymer laminates. Ion track lithography makes use of swift heavy ion irradiation to enhance the selectivity and directionality of chemical etching. Within the areas exposed to the ion irradiation, small sub-micron pores (capillaries) are created, one for every ion. If etching is prolonged, the pores become merged. Electrodeposition from a metallic seed layer is used to fill these structures with metal. The lithography masks define either the areas where the ion tracks are developed or where the tracks are metallized. The smallest achievable size of the microvias is only limited by the resolution of the mask; microvias below 10 μm in diameter can also be achieved also in thick polyimide foils. Since each impinging ion forms one track, the foil's porosity can be controlled by adjusting the irradiation dose, as well as by etching the pores to a suitable size. Depending on the porosity and material, the resultant metallized microvia consists of either individual or interlaced wires (like strands in a bundle wire), or is a solid. As an individual sub-micron wire may have an aspect ratio of several hundreds, this allows for the fabrication of truly vertical microvia structures, allowing ultra-high density microvia batch production. Demonstrator microstructures with highly vertical microvias have been fabricated in foils up to 125 μm thickness. Several components integrated in flexible PCB have been presented by us, e.g. magnetoresistive sensors, thermopile IR-sensors and microwave components like inductor elements.

  8. Investigation of the breakthrough point of ion track etching by capacitometry

    NASA Astrophysics Data System (ADS)

    Chen, J.; Fink, D.; Dhamodaran, S.

    2007-01-01

    Nanoscale size definition and flexible device structures are presently among the most ambitious development goals in the semiconductor field. One approach to attain these goals is based on the use of hybrid structures, combining the flexible etched ion track templates as substrates with the device functions of filled inorganic semiconductor. It is a critical issue to determine precisely the moment of breakthrough in order to use the etched ion track templates to fabricate vertical nano electronic device. This study tries to shed some light upon these processes by means of a novel approach, the so-called capacitometry measurement for investigating the breakthrough moment and etching processes. It is shown that the capacitometry is a simple but quite reliable technique to determine precisely the moment of track etching breakthrough.

  9. Monte Carlo track structure for radiation biology and space applications

    NASA Technical Reports Server (NTRS)

    Nikjoo, H.; Uehara, S.; Khvostunov, I. G.; Cucinotta, F. A.; Wilson, W. E.; Goodhead, D. T.

    2001-01-01

    Over the past two decades event by event Monte Carlo track structure codes have increasingly been used for biophysical modelling and radiotherapy. Advent of these codes has helped to shed light on many aspects of microdosimetry and mechanism of damage by ionising radiation in the cell. These codes have continuously been modified to include new improved cross sections and computational techniques. This paper provides a summary of input data for ionizations, excitations and elastic scattering cross sections for event by event Monte Carlo track structure simulations for electrons and ions in the form of parametric equations, which makes it easy to reproduce the data. Stopping power and radial distribution of dose are presented for ions and compared with experimental data. A model is described for simulation of full slowing down of proton tracks in water in the range 1 keV to 1 MeV. Modelling and calculations are presented for the response of a TEPC proportional counter irradiated with 5 MeV alpha-particles. Distributions are presented for the wall and wall-less counters. Data shows contribution of indirect effects to the lineal energy distribution for the wall counters responses even at such a low ion energy.

  10. Controlled fabrication of ion track nanowires and channels

    NASA Astrophysics Data System (ADS)

    Spohr, Reimar; Zet, Cristian; Eberhard Fischer, Bernd; Kiesewetter, Helge; Apel, Pavel; Gunko, Igor; Ohgai, Takeshi; Westerberg, Lars

    2010-03-01

    We describe a system for fabricating prescribed numbers of ion track nanochannels and nanowires from a few hundred down to one. It consists of two parts: first, a mobile tape transport system, which, in connection with an ion beam from a heavy-ion accelerator (nuclear charge Z above 18 and specific energy between 1 and 10 MeV/nucleon) tuned down to low flux density by means of defocusing and a set of sensitive fluorescence screens, can fabricate a series of equidistant irradiation spots on a tape, whereby each spot corresponds to a preset number of ion tracks. The tape transport system uses films of 36 mm width and thicknesses between 5 and 100 μm. The aiming precision of the system depends on the diameter of the installed beam-defining aperture, which is between 50 and 500 μm. The distance between neighboring irradiation spots on the tape is variable and typically set to 25 mm. After reaching the preset number of ion counts the irradiation is terminated, the tape is marked and moved to the next position. The irradiated frames are punched out to circular membranes with the irradiation spot in the center. The second part of the setup is a compact conductometric system with 10 picoampere resolution consisting of a computer controlled conductometric cell, sealing the membrane hermetically between two chemically inert half-chambers containing electrodes and filling/flushing openings, and is encased by an electrical shield and a thermal insulation. The ion tracks can be etched to a preset diameter and the system can be programmed to electroreplicate nanochannels in a prescribed sequence of magnetic/nonmagnetic metals, alloys or semiconductors. The goal of our article is to make the scientific community aware of the special features of single-ion fabrication and to demonstrate convincingly the significance of controlled etching and electro-replication.

  11. Cellular track model for study of heavy ion beams

    NASA Technical Reports Server (NTRS)

    Shinn, Judy L.; Katz, Robert; Cucinotta, Francis A.; Wilson, John W.; Ngo, Duc M.

    1993-01-01

    Track theory is combined with a realistic model of a heavy ion beam to study the effects of nuclear fragmentation on cell survival and biological effectiveness. The effects of secondary reaction products are studied as a function of depth in a water column. Good agreement is found with experimental results for the survival of human T-l cells exposed to monoenergetic carbon, neon, and argon beams under aerobic and hypoxia conditions. The present calculation, which includes the effect of target fragmentation, is a significant improvement over an earlier calculation because of the use of a vastly improved beam model with no change in the track theory or cellular response parameters.

  12. Ion tracking in an electrostatic potential distribution. Ph.D. Thesis; [photomultiplier tubes

    NASA Technical Reports Server (NTRS)

    Ross, D. P.

    1978-01-01

    An ion tracking system utilizing a single detector was designed to resolve two dimensional potential distributions in a vacuum. The ion detector consisted of a continuous dynode electron multiplier tube mounted behind a series of aperture plates. The detector was located on a track below a wedge shaped structure used to produce the desired potential distribution. A 150 volt electron beam aimed at selected regions, ionized the residual gas in the chamber. The ions were ejected from their source points by electrostatic forces causing them to drift downward toward the detector. Measurements of particle energy, detector position, and entry angle of the incoming particle flux were used to initialize a computer trajectory-tracing program. The program assumes a known theoretically calculated potential distribution near the wedge for computation of particle trajectories, providing a basis for evaluating the data. Special attention was given to characterization of the ion detector.

  13. Predictive modeling of synergistic effects in nanoscale ion track formation

    DOE PAGESBeta

    Zarkadoula, Eva; Pakarinen, Olli H.; Xue, Haizhou; Zhang, Yanwen; Weber, William J.

    2015-08-05

    Molecular dynamics techniques and the inelastic thermal spike model are used to study the coupled effects of inelastic energy loss due to 21 MeV Ni ion irradiation and pre-existing defects in SrTiO3. We determine the dependence on pre-existing defect concentration of nanoscale track formation occurring from the synergy between the inelastic energy loss and the pre-existing atomic defects. We show that the nanoscale ion tracks’ size can be controlled by the concentration of pre-existing disorder. This work identifies a major gap in fundamental understanding concerning the role played by defects in electronic energy dissipation and electron–lattice coupling.

  14. Calculation of heavy-ion tracks in liquid water

    SciTech Connect

    Hamm, R.N.; Turner, J.E.; Ritchie, R.H.; Wright, H.A.

    1985-01-01

    Detailed Monte Carlo calculations are presented of proton and alpha-particle tracks in liquid water. The computations treat the interactions of the primary particle and all secondary electrons on a statistical, event-by-event basis to simulate the initial physical changes that accompany the passage of an ion through water. Our methods for obtaining the cross sections needed for such calculations are described. Inelastic scattering probabilities (inverse mean free paths) are derived from a complex dielectric response function constructed for liquid water, based on experimental and theoretical data. Examples of partial cross sections for ionization and excitation by protons are shown. The computation of electron transport and energy loss includes exchange, elastic scattering, and a scheme for the delocalization of energy shared collectively by a large number of electrons in the condensed medium. Several examples of calculated proton and alpha-particle tracks are presented and discussed. The meaning and significance of the concept of a ''track core'' is briefly addressed in the light of this work. The present paper treats only the initial, physical changes produced by radiation in water (in approx. 10/sup -15/ sec in local regions of a track). The work described here is used in calculations that we have reported in other publications on the later chemical development of charged-particle tracks. 10 refs., 6 figs.

  15. Cosmic heavy ion tracks in mesoscopic biological test objects

    NASA Technical Reports Server (NTRS)

    Facius, R.

    1994-01-01

    Since more than 20 years ago, when the National Academy of Sciences and the National Research Council of the U.S.A. released their report on 'HZE particle effects in manned spaced flight', it has been emphasized how difficult - if not even impossible - it is to assess their radiobiological impact on man from conventional studies where biological test organisms are stochastically exposed to 'large' fluences of heavy ions. An alternative, competing approach had been realized in the BIOSTACK experiments, where the effects of single cosmic as well as accelerator - heavy ions on individual biological test organisms could be investigated. Although presented from the beginning as the preferable approach for terrestrial investigations with accelerator heavy ions too ('The BIOSTACK as an approach to high LET radiation research'), only recently this insight is gaining more widespread recognition. In space flight experiments, additional constraints imposed by the infrastructure of the vehicle or satellite further impede such investigations. Restrictions concern the physical detector systems needed for the registration of the cosmic heavy ions' trajectories as well as the biological systems eligible as test organisms. Such optimized procedures and techniques were developed for the investigations on chromosome aberrations induced by cosmic heavy ions in cells of the stem meristem of lettuce seeds (Lactuca sativa) and for the investigation of the radiobiological response of Wolffia arriza, which is the smallest flowering (water) plant. The biological effects were studied by the coworkers of the Russian Institute of Biomedical Problems (IBMP) which in cooperation with the European Space Agency ESA organized the exposure in the Biosatellites of the Cosmos series. Since biological investigations and physical measurements of particle tracks had to be performed in laboratories widely separated, the preferred fixed contact between biological test objects and the particle detectors

  16. Effect of valence holes kinetics on material excitation in tracks of swift heavy ions

    NASA Astrophysics Data System (ADS)

    Rymzhanov, R. A.; Medvedev, N. A.; Volkov, A. E.

    2015-12-01

    A considerable part of the excess energy of the electronic subsystem of a solid penetrated by a swift heavy ion (SHI) is accumulated in valence holes. Spatial redistribution of these holes can affect subsequent relaxation, resulting in ionizations of new electrons by hole impacts as well as energy transfer to the target lattice. A new version of the Monte Carlo code TREKIS is applied to study this effect in Al2O3 for SHI tracks. The complex dielectric function (CDF) formalism is used to calculate the cross sections of interaction of involved charged particles (an ion, electrons, holes) with the target giving us ability to take into account collective response of a target to excitations. We compare the radial distributions of the densities and energies of excited electrons and valence holes at different times to those obtained under the assumption of immobile holes used in earlier works. The comparison shows a significant difference between these distributions within the track core, where the majority of slow electrons and valence holes are located at femtosecond timescales after the ion impact. The study demonstrates that the energy deposited by valence holes into the lattice in nanometric tracks is comparable to the energy transferred by excited electrons. Radii of structure transformations in tracks produced by these energy exchange channels are in a good agreement with experiments.

  17. Top marine predators track Lagrangian coherent structures

    PubMed Central

    Tew Kai, Emilie; Rossi, Vincent; Sudre, Joel; Weimerskirch, Henri; Lopez, Cristobal; Hernandez-Garcia, Emilio; Marsac, Francis; Garçon, Veronique

    2009-01-01

    Meso- and submesoscales (fronts, eddies, filaments) in surface ocean flow have a crucial influence on marine ecosystems. Their dynamics partly control the foraging behavior and the displacement of marine top predators (tuna, birds, turtles, and cetaceans). In this work we focus on the role of submesoscale structures in the Mozambique Channel in the distribution of a marine predator, the Great Frigatebird. Using a newly developed dynamic concept, the finite-size Lyapunov exponent (FSLE), we identified Lagrangian coherent structures (LCSs) present in the surface flow in the channel over a 2-month observation period (August and September 2003). By comparing seabird satellite positions with LCS locations, we demonstrate that frigatebirds track precisely these structures in the Mozambique Channel, providing the first evidence that a top predator is able to track these FSLE ridges to locate food patches. After comparing bird positions during long and short trips and different parts of these trips, we propose several hypotheses to understand how frigatebirds can follow these LCSs. The birds might use visual and/or olfactory cues and/or atmospheric current changes over the structures to move along these biologic corridors. The birds being often associated with tuna schools around foraging areas, a thorough comprehension of their foraging behavior and movement during the breeding season is crucial not only to seabird ecology but also to an appropriate ecosystemic approach to fisheries in the channel. PMID:19416811

  18. Top marine predators track Lagrangian coherent structures.

    PubMed

    Tew Kai, Emilie; Rossi, Vincent; Sudre, Joel; Weimerskirch, Henri; Lopez, Cristobal; Hernandez-Garcia, Emilio; Marsac, Francis; Garçon, Veronique

    2009-05-19

    Meso- and submesoscales (fronts, eddies, filaments) in surface ocean flow have a crucial influence on marine ecosystems. Their dynamics partly control the foraging behavior and the displacement of marine top predators (tuna, birds, turtles, and cetaceans). In this work we focus on the role of submesoscale structures in the Mozambique Channel in the distribution of a marine predator, the Great Frigatebird. Using a newly developed dynamic concept, the finite-size Lyapunov exponent (FSLE), we identified Lagrangian coherent structures (LCSs) present in the surface flow in the channel over a 2-month observation period (August and September 2003). By comparing seabird satellite positions with LCS locations, we demonstrate that frigatebirds track precisely these structures in the Mozambique Channel, providing the first evidence that a top predator is able to track these FSLE ridges to locate food patches. After comparing bird positions during long and short trips and different parts of these trips, we propose several hypotheses to understand how frigatebirds can follow these LCSs. The birds might use visual and/or olfactory cues and/or atmospheric current changes over the structures to move along these biologic corridors. The birds being often associated with tuna schools around foraging areas, a thorough comprehension of their foraging behavior and movement during the breeding season is crucial not only to seabird ecology but also to an appropriate ecosystemic approach to fisheries in the channel. PMID:19416811

  19. Predictive modeling of synergistic effects in nanoscale ion track formation

    SciTech Connect

    Zarkadoula, Eva; Pakarinen, Olli H.; Xue, Haizhou; Zhang, Yanwen; Weber, William J.

    2015-08-05

    Molecular dynamics techniques and the inelastic thermal spike model are used to study the coupled effects of inelastic energy loss due to 21 MeV Ni ion irradiation and pre-existing defects in SrTiO3. We determine the dependence on pre-existing defect concentration of nanoscale track formation occurring from the synergy between the inelastic energy loss and the pre-existing atomic defects. We show that the nanoscale ion tracks’ size can be controlled by the concentration of pre-existing disorder. This work identifies a major gap in fundamental understanding concerning the role played by defects in electronic energy dissipation and electron–lattice coupling.

  20. Monitoring structure movement with laser tracking technology

    NASA Astrophysics Data System (ADS)

    Barazzetti, Luigi; Giussani, Alberto; Roncoroni, Fabio; Previtali, Mattia

    2013-04-01

    This paper presents the use of laser tracking technology for structure monitoring. In this field the use of this precise instrument is innovative and therefore new investigations are needed for civil structures, especially for applications carried out during unstable environmental conditions. On the other hand, as laser trackers are today very used in industrial applications aimed at collecting data at high speed with precisions superior to +/-0.05 mm, they seem quite promising for those civil engineering applications where numerous geodetic tools, often coupled with mechanical and electrical instruments, are usually used to inspect structure movements. This work illustrates three real civil engineering monitoring applications where laser tracking technology was used to detect object movements. The first one is a laboratory testing for the inspection of a beam (bending moment and shear). The second experiment is the stability inspection of a bridge. The last experiment is one of the first attempts where laser trackers tried to substitute traditional high precision geometric leveling for monitoring an important historical building: the Cathedral of Milan. The achieved results, pro and contra along with some practical issues are described.

  1. Secondary particle tracks generated by ion beam irradiation

    NASA Astrophysics Data System (ADS)

    García, Gustavo

    2015-05-01

    The Low Energy Particle Track Simulation (LEPTS) procedure is a powerful complementary tool to include the effect of low energy electrons and positrons in medical applications of radiation. In particular, for ion-beam cancer treatments provides a detailed description of the role of the secondary electrons abundantly generated around the Bragg peak as well as the possibility of using transmuted positron emitters (C11, O15) as a complement for ion-beam dosimetry. In this study we present interaction probability data derived from IAM-SCAR corrective factors for liquid environments. Using these data, single electron and positron tracks in liquid water and pyrimidine have been simulated providing information about energy deposition as well as the number and type of interactions taking place in any selected ``nanovolume'' of the irradiated area. In collaboration with Francisco Blanco, Universidad Complutense de Madrid; Antonio Mu noz, Centro de Investigaciones Energéticas Medioambientales y Tecnológicas and Diogo Almeida, Filipe Ferreira da Silva, Paulo Lim ao-Vieira, Universidade Nova de Lisboa. Supported by the Spanish and Portuguese governments.

  2. WE-D-BRF-01: FEATURED PRESENTATION - Investigating Particle Track Structures Using Fluorescent Nuclear Track Detectors and Monte Carlo Simulations

    SciTech Connect

    Dowdell, S; Paganetti, H; Schuemann, J; Greilich, S; Zimmerman, F; Evans, C

    2014-06-15

    Purpose: To report on the efforts funded by the AAPM seed funding grant to develop the basis for fluorescent nuclear track detector (FNTD) based radiobiological experiments in combination with dedicated Monte Carlo simulations (MCS) on the nanometer scale. Methods: Two confocal microscopes were utilized in this study. Two FNTD samples were used to find the optimal microscope settings, one FNTD irradiated with 11.1 MeV/u Gold ions and one irradiated with 428.77 MeV/u Carbon ions. The first sample provided a brightly luminescent central track while the latter is used to test the capabilities to observe secondary electrons. MCS were performed using TOPAS beta9 version, layered on top of Geant4.9.6p02. Two sets of simulations were performed, one with the Geant4-DNA physics list and approximating the FNTDs by water, a second set using the Penelope physics list in a water-approximated FNTD and a aluminum-oxide FNTD. Results: Within the first half of the funding period, we have successfully established readout capabilities of FNTDs at our institute. Due to technical limitations, our microscope setup is significantly different from the approach implemented at the DKFZ, Germany. However, we can clearly reconstruct Carbon tracks in 3D with electron track resolution of 200 nm. A second microscope with superior readout capabilities will be tested in the second half of the funding period, we expect an improvement in signal to background ratio with the same the resolution.We have successfully simulated tracks in FNTDs. The more accurate Geant4-DNA track simulations can be used to reconstruct the track energy from the size and brightness of the observed tracks. Conclusion: We have achieved the goals set in the seed funding proposal: the setup of FNTD readout and simulation capabilities. We will work on improving the readout resolution to validate our MCS track structures down to the nanometer scales.

  3. Ion track annealing in quartz investigated by small angle X-ray scattering

    NASA Astrophysics Data System (ADS)

    Schauries, D.; Afra, B.; Rodriguez, M. D.; Trautmann, C.; Hawley, A.; Kluth, P.

    2015-12-01

    We report on the reduction of cross-section and length of amorphous ion tracks embedded within crystalline quartz during thermal annealing. The ion tracks were created via Au ion irradiation with an energy of 2.2 GeV. The use of synchrotron-based small angle X-ray scattering (SAXS) allowed characterization of the latent tracks, without the need for chemical etching. Temperatures between 900 and 1000 °C were required to see a notable change in track size. The shrinkage in cross-section and length was found to be comparable for tracks aligned perpendicular and parallel to the c-axis.

  4. Size characterization of ion tracks in PET and PTFE using SAXS

    NASA Astrophysics Data System (ADS)

    Schauries, D.; Rodriguez, M. D.; Afra, B.; Bierschenk, T.; Trautmann, C.; Mudie, S.; Kluth, P.

    2015-12-01

    Ion tracks in polyethylene terephthalate (PET) and polytetrafluoroethylene (PTFE) were created by swift heavy ion irradiation and subsequently characterized using small angle X-ray scattering (SAXS). Due to their reduced density compared to the surrounding matrix, cylindrical geometry, and parallel orientation, ion tracks produce a characteristic scattering pattern which allows quantitative analysis of their radius with high precision. For ion tracks in PET thermal annealing led to a gradual fading with a decrease in density difference yet a simultaneous increase in ion track radius. Such an increase in radius is the direct opposite compared to temperature induced ion track shrinking in inorganic materials, and suggests a very different thermal response of the polymer.

  5. Lateral charge transport from heavy-ion tracks in integrated circuit chips

    NASA Technical Reports Server (NTRS)

    Zoutendyk, J. A.; Schwartz, H. R.; Nevill, L. R.

    1988-01-01

    A 256K DRAM has been used to study the lateral transport of charge (electron-hole pairs) induced by direct ionization from heavy-ion tracks in an IC. The qualitative charge transport has been simulated using a two-dimensional numerical code in cylindrical coordinates. The experimental bit-map data clearly show the manifestation of lateral charge transport in the creation of adjacent multiple-bit errors from a single heavy-ion track. The heavy-ion data further demonstrate the occurrence of multiple-bit errors from single ion tracks with sufficient stopping power. The qualitative numerical simulation results suggest that electric-field-funnel-aided (drift) collection accounts for single error generated by an ion passing through a charge-collecting junction, while multiple errors from a single ion track are due to lateral diffusion of ion-generated charge.

  6. Swift heavy ion tracks in Y2Ti2O7 nanoparticles in EP450 ODS steel

    NASA Astrophysics Data System (ADS)

    Skuratov, V. A.; Sohatsky, A. S.; O'Connell, J. H.; Kornieieva, K.; Nikitina, A. A.; Neethling, J. H.; Ageev, V. S.

    2015-01-01

    Structural changes induced by 1.2 MeV/amu xenon, krypton and argon ion irradiation in Y2Ti2O7 pyrochlore nanoparticles in EP450 ODS steel have been studied using high resolution transmission electron microscopy. It was found that diameters of amorphous latent tracks formed by Kr and Xe ions are in the range 3-7 nm when electronic stopping powers vary from 10 to 24 keV/nm. The threshold for track formation is estimated to be between 7.4 keV/nm and 9.7 keV/nm.

  7. Status and Perspectives of Ion Track Electronics for Advanced Biosensing

    NASA Astrophysics Data System (ADS)

    Fink, D.; Muñoz, H. Gerardo; Alfonta, L.; Mandabi, Y.; Dias, J. F.; de Souza, C. T.; Bacakova, L. E.; Vacík, J.; Hnatowicz, V.; Kiv, A. E.; Fuks, D.; Papaleo, R. M.

    New multifunctional ion irradiation-based three-dimensional electronic structures are developed for biotechnological applications, specifically for sensing of biomaterials, bacteria and mammalian cells. This is accomplished by combined micrometric surface and nanometric bulk microstructuring of insulators (specifically of polymer foils and SiO2/Si hybride structures) by adequate ion beams. Our main goal is the production of a cheap small universal generic working platform with multifunctional properties for biomedical analysis. Surface engineering of this platform enables cell bonding and its bulk engineering enables the extraction of cell secrets, for the sake of intercepting and analyzing the biomolecules used in cell communication. The exact knowledge of the spectrum of these cell-secreted signalling molecules should enable one to identify unambiguously the cell type. This knowledge will help developing strategies for preventive quorum sensing of bacteria, with the aim of fighting bacterial infections in an ecologically secure way.

  8. Impact of Track Structure Effects on Shielding and Dosimetry

    NASA Technical Reports Server (NTRS)

    Wilson, J. W.; Cucinotta, F. A.; Schimmerling, W.; Kim, M. Y.

    1999-01-01

    Galactic cosmic rays (GCR) consisting of nuclei of all the known elements with kinetic energies extending from tens to millions of MeV pose a significant health hazard to future deep space operations. Even half of the radiation exposures expected in ISS will result from GCR components. The biological actions of these radiations are known to depend on the details of the energy deposition (not just linear energy transfer, LET, but the lateral dispersion of energy deposition about the particle track). Energy deposits in tissues are dominated by the transfer of tens to hundreds of eV to the tissue's atomic electrons. In the case of low LET radiations, the collisions are separated by large dimensions compared to the size of important biomolecular structures. If such events are also separated in time, then the radiation adds little to the background of radicals occurring from ordinary metabolic processes and causes little or no biological injury. Hence, dose rate is a strong determinant of the action of low LET exposures. The GCR exposures are dominated by ions of high charge and energy (HZE) characterized by many collisions with atomic electrons over biomolecular dimensions, resulting in high radical- density events associated with a few isolated ion paths through the cell and minimal dose rate dependence at ordinary exposure levels. The HZE energy deposit declines quickly laterally and merges with the background radical density in the track periphery for which the exact lateral distribution of the energy deposit is the determinant of the biological injury. Although little data exists on human exposures from HZE radiations, limited studies in mice and mammalian cell cultures allow evaluation of the effects of track structure on shield attenuation properties and evaluation of implications for dosimetry. The most complete mammalian cell HZE exposure data sets have been modeled including the C3H10T1/2 survival and transformation data of Yang et al., the V79 survival and

  9. A novel approach to study radiation track structure with nanometer-equivalent resolution

    NASA Astrophysics Data System (ADS)

    Casiraghi, Margherita; Bashkirov, Vladimir; Hurley, Ford; Schulte, Reinhard

    2014-05-01

    Clustered DNA damages are considered the critical lesions in the pathways leading from the initial energy deposition by radiation to radiobiological damage. The spatial distribution of the initial DNA damage is mainly determined by radiation track-structure at the nanometer level. In this work, a novel experimental approach to image the three-dimensional structure of micrometric radiation track segments is presented. The approach utilizes the detection of single ions created in low-pressure gas. Ions produced by radiation drift towards a GEM-like 2D hole-pattern detector. When entering individual holes, ions can induce ion-impact ionization of the working-gas starting a confined electron avalanche that generates the output signal. By registering positive ions rather than electrons, diffusion is reduced and a spatial resolution of the track image of the order of water-equivalent nanometers can be achieved. Measurements and simulations to characterize the performance of a few detector designs were performed. Different cathode materials were tested and ionization cluster size distributions of 241Am alpha particles were measured. The electric field configuration in the detector was calculated to optimize the ion focusing into the detector holes. The preliminary results obtained show the directions for further development of the detector. Contribution to the Topical Issue "Nano-scale Insights into Ion-beam Cancer Therapy", edited by Andrey V. Solov'yov, Nigel Mason, Paulo Limão-Vieira and Malgorzata Smialek-Telega

  10. Fine-Tuning of Electronic Structure of Cobalt(II) Ion in Nonplanar Porphyrins and Tracking of a Cross-Hybrid Stage: Implications for the Distortion of Natural Tetrapyrrole Macrocycles.

    PubMed

    Liu, Qiuhua; Zhang, Xi; Zeng, Wennan; Wang, Jianxiu; Zhou, Zaichun

    2015-11-01

    The core size of the porphyrin macrocycles was closely related to their stability of the different electron structure in the central metal ion. Cobalt(II) ions can undergo a conversion in electron configurations upon N4 core contraction of 0.05 Å in nonplanar porphyrins, and these ions still maintain low spin forms after and before conversion. The structural fine-tuning can induce the appearance of a cross-hybrid stage [d(x(2)-y(2))sp(2) ↔ d(z(2))sp(2)] based on quadrilateral coordination of the planar core. The results indicate that the configuration conversion plays a key role in electron transfer in redox catalysis involving cobalt complexes. The electronic properties of six monostrapped cobalt(II) porphyrins were investigated by spectral, paramagnetic, and electrochemical methods. The macrocyclic deformations and size parameters of Co-containing model compounds were directly obtained from their crystal structures. PMID:26461496

  11. Structure tracking aided design and synthesis of Li3V2(PO4)3 nanocrystals as high-power cathodes for lithium ion batteries

    SciTech Connect

    Wang, Liping; Bai, Jianming; Gao, Peng; Wang, Xiaoya; Looney, J. Patrick; Wang, Feng

    2015-07-30

    In this study, preparing new electrode materials with synthetic control of phases and electrochemical properties is desirable for battery applications but hardly achievable without knowing how the synthesis reaction proceeds. Herein, we report on structure tracking-aided design and synthesis of single-crystalline Li3V2(PO4)3 (LVP) nanoparticles with extremely high rate capability. A comprehensive investigation was made to the local structural orderings of the involved phases and their evolution toward forming LVP phase using in situ/ex situ synchrotron X-ray and electron-beam diffraction, spectroscopy, and imaging techniques. The results shed light on the thermodynamics and kinetics of synthesis reactions and enabled the design of a cost-efficient synthesis protocol to make nanocrystalline LVP, wherein solvothermal treatment is a crucial step leading to an amorphous intermediate with local structural ordering resembling that of LVP, which, upon calcination at moderate temperatures, rapidly transforms into the desired LVP phase. The obtained LVP particles are about 50 nm, coated with a thin layer of amorphous carbon and featured with excellent cycling stability and rate capability – 95% capacity retention after 200 cycles and 66% theoretical capacity even at a current rate of 10 C. The structure tracking based method we developed in this work offers a new way of designing battery electrodes with synthetic control of material phases and properties.

  12. Ion-ion dynamic structure factor of warm dense mixtures.

    PubMed

    Gill, N M; Heinonen, R A; Starrett, C E; Saumon, D

    2015-06-01

    The ion-ion dynamic structure factor of warm dense matter is determined using the recently developed pseudoatom molecular dynamics method [Starrett et al., Phys. Rev. E 91, 013104 (2015)]. The method uses density functional theory to determine ion-ion pair interaction potentials that have no free parameters. These potentials are used in classical molecular dynamics simulations. This constitutes a computationally efficient and realistic model of dense plasmas. Comparison with recently published simulations of the ion-ion dynamic structure factor and sound speed of warm dense aluminum finds good to reasonable agreement. Using this method, we make predictions of the ion-ion dynamical structure factor and sound speed of a warm dense mixture-equimolar carbon-hydrogen. This material is commonly used as an ablator in inertial confinement fusion capsules, and our results are amenable to direct experimental measurement. PMID:26172810

  13. Ion-ion dynamic structure factor of warm dense mixtures

    SciTech Connect

    Gill, N. M.; Heinonen, R. A.; Starrett, C. E.; Saumon, D.

    2015-06-25

    In this study, the ion-ion dynamic structure factor of warm dense matter is determined using the recently developed pseudoatom molecular dynamics method [Starrett et al., Phys. Rev. E 91, 013104 (2015)]. The method uses density functional theory to determine ion-ion pair interaction potentials that have no free parameters. These potentials are used in classical molecular dynamics simulations. This constitutes a computationally efficient and realistic model of dense plasmas. Comparison with recently published simulations of the ion-ion dynamic structure factor and sound speed of warm dense aluminum finds good to reasonable agreement. Using this method, we make predictions of the ion-ion dynamical structure factor and sound speed of a warm dense mixture—equimolar carbon-hydrogen. This material is commonly used as an ablator in inertial confinement fusion capsules, and our results are amenable to direct experimental measurement.

  14. Irradiation of nuclear track emulsions with thermal neutrons, heavy ions, and muons

    SciTech Connect

    Artemenkov, D. A. Bradnova, V.; Zaitsev, A. A.; Zarubin, P. I.; Zarubina, I. G.; Kattabekov, R. R.; Mamatkulov, K. Z.; Rusakova, V. V.

    2015-07-15

    Exposures of test samples of nuclear track emulsion were analyzed. Angular and energy correlations of products originating from the thermal-neutron-induced reaction n{sub th} +{sup 10} B → {sup 7} Li + (γ)+ α were studied in nuclear track emulsions enriched in boron. Nuclear track emulsions were also irradiated with {sup 86}Kr{sup +17} and {sup 124}Xe{sup +26} ions of energy about 1.2 MeV per nucleon. Measurements of ranges of heavy ions in nuclear track emulsionsmade it possible to determine their energies on the basis of the SRIM model. The formation of high-multiplicity nuclear stars was observed upon irradiating nuclear track emulsions with ultrarelativistic muons. Kinematical features studied in this exposure of nuclear track emulsions for events of the muon-induced splitting of carbon nuclei to three alpha particles are indicative of the nucleardiffraction interaction mechanism.

  15. Irradiation of nuclear track emulsions with thermal neutrons, heavy ions, and muons

    NASA Astrophysics Data System (ADS)

    Artemenkov, D. A.; Bradnova, V.; Zaitsev, A. A.; Zarubin, P. I.; Zarubina, I. G.; Kattabekov, R. R.; Mamatkulov, K. Z.; Rusakova, V. V.

    2015-07-01

    Exposures of test samples of nuclear track emulsion were analyzed. Angular and energy correlations of products originating from the thermal-neutron-induced reaction n th +10 B → 7 Li + (γ)+ α were studied in nuclear track emulsions enriched in boron. Nuclear track emulsions were also irradiated with 86Kr+17 and 124Xe+26 ions of energy about 1.2 MeV per nucleon. Measurements of ranges of heavy ions in nuclear track emulsionsmade it possible to determine their energies on the basis of the SRIM model. The formation of high-multiplicity nuclear stars was observed upon irradiating nuclear track emulsions with ultrarelativistic muons. Kinematical features studied in this exposure of nuclear track emulsions for events of the muon-induced splitting of carbon nuclei to three alpha particles are indicative of the nucleardiffraction interaction mechanism.

  16. Characterization of multiple-bit errors from single-ion tracks in integrated circuits

    NASA Technical Reports Server (NTRS)

    Zoutendyk, J. A.; Edmonds, L. D.; Smith, L. S.

    1989-01-01

    The spread of charge induced by an ion track in an integrated circuit and its subsequent collection at sensitive nodal junctions can cause multiple-bit errors. The authors have experimentally and analytically investigated this phenomenon using a 256-kb dynamic random-access memory (DRAM). The effects of different charge-transport mechanisms are illustrated, and two classes of ion-track multiple-bit error clusters are identified. It is demonstrated that ion tracks that hit a junction can affect the lateral spread of charge, depending on the nature of the pull-up load on the junction being hit. Ion tracks that do not hit a junction allow the nearly uninhibited lateral spread of charge.

  17. Ion tracks developed in polyimide resist on Si wafers as template for nanowires

    NASA Astrophysics Data System (ADS)

    Skupinski, Marek; Toulemonde, Marcel; Lindeberg, Mikael; Hjort, Klas

    2005-11-01

    Ion track technology makes it possible to produce low-cost templates for nanowires. In this study we have studied ion tracks in a polyimide resist on silicon. Spin coated, 1.5 μm thick polyimide resist on 4 in. Si wafers was irradiated by 129Xe27+ ions at low fluence. The irradiated resist was etched in sodium hypochlorite (NaClO) solution, and Ni nanowires were electroplated in the pores. Using scanning electron microscopy observations the ion track etch properties were obtained. The linear track etch rate of 0.6-1.0 μm/min was calculated from the conical aspect ratio of the nanowire, and from the pore diameter at the surface at different etch times the bulk etch rate in the halo at a distance longer than 5 nm from the ion axis was found to be 0.3 nm/min, while at a long distance from the ion axis the track etching velocity of the virgin material was 0.01 nm/min. Taking into account the big difference in the track etch velocity between the latent track and the material outside, a latent track diameter of 11 nm could be estimated. Such a diameter value is in good agreement with a prediction obtained from an inelastic thermal spike model. Furthermore, fabrication of 1.5 μm long magnetoresistive nanowires electroplated in ion tracks in the IC compatible polyimide resist may be a way to develop low-cost CMOS integrated magnetoresistive sensors.

  18. Ultraheavy cosmic ray tracks in meteorites: A reappraisal, based on calibrations with relativistic ions

    NASA Technical Reports Server (NTRS)

    Perron, C.

    1985-01-01

    Experiments were carried out on tracks of high energy U ions in olivine, a common meteoritic mineral. The results offer an explanation for the lack of success of previous attempts to derive the Ultraheavy Cosmic Ray composition from the study of tracks in meteorites. They also suggest how such experiments should be performed. The methods tested are described and illustrated.

  19. Heavy ion tracks in polycarbonate. Comparison with a heavy ion irradiated model compound (diphenyl carbonate)

    NASA Astrophysics Data System (ADS)

    Ferain, E.; Legras, R.

    1993-09-01

    The chemical modifications induced by energetic heavy ion irradiation of polycarbonate (PC) film are determined by GPC, HPLC, ESR, TGA, IR and UV spectrophotometry. The main results of the irradiation are creation of radicals, chain scission, cross-linking and appearance of new chemical groups in the main polymer chain. As far as the creation of new groups is concerned, they are determined by means of a model compound of PC: the diphenyl carbonate (DPC). The following compounds are identified after energetic heavy ion irradiation of DPC: salicylic acid, phenol, 4,4'-biphenol, 2,4'-biphenol, 2,2'-biphenol, 4-phenoxyphenol, 2-phenoxyphenol, phenyl ether, phenyl benzoate, phenyl salicylate, 2-phenylphenol and 2-phenoxyphenyl benzoate. A similarity between the heavy ion irradiation and a heat treatment has also been established with DPC. On the basis of these results, we try to give an explanation of the preferential attack along the tracks of the irradiated film. Also, an explanation of the well-known beneficial effect of an UV exposition of the irradiated film on the selectivity of this preferential chemical attack is suggested.

  20. Distributions of deposited energy and ionization clusters around ion tracks studied with Geant4 toolkit

    NASA Astrophysics Data System (ADS)

    Burigo, Lucas; Pshenichnov, Igor; Mishustin, Igor; Hilgers, Gerhard; Bleicher, Marcus

    2016-05-01

    The Geant4-based Monte Carlo model for Heavy-Ion Therapy (MCHIT) was extended to study the patterns of energy deposition at sub-micrometer distance from individual ion tracks. Dose distributions for low-energy 1H, 4He, 12C and 16O ions measured in several experiments are well described by the model in a broad range of radial distances, from 0.5 to 3000 nm. Despite the fact that such distributions are characterized by long tails, a dominant fraction of deposited energy (∼80%) is confined within a radius of about 10 nm. The probability distributions of clustered ionization events in nanoscale volumes of water traversed by 1H, 2H, 4He, 6Li, 7Li, and 12C ions are also calculated. A good agreement of calculated ionization cluster-size distributions with the corresponding experimental data suggests that the extended MCHIT can be used to characterize stochastic processes of energy deposition to sensitive cellular structures.

  1. Ion-ion dynamic structure factor of warm dense mixtures

    DOE PAGESBeta

    Gill, N. M.; Heinonen, R. A.; Starrett, C. E.; Saumon, D.

    2015-06-25

    In this study, the ion-ion dynamic structure factor of warm dense matter is determined using the recently developed pseudoatom molecular dynamics method [Starrett et al., Phys. Rev. E 91, 013104 (2015)]. The method uses density functional theory to determine ion-ion pair interaction potentials that have no free parameters. These potentials are used in classical molecular dynamics simulations. This constitutes a computationally efficient and realistic model of dense plasmas. Comparison with recently published simulations of the ion-ion dynamic structure factor and sound speed of warm dense aluminum finds good to reasonable agreement. Using this method, we make predictions of the ion-ionmore » dynamical structure factor and sound speed of a warm dense mixture—equimolar carbon-hydrogen. This material is commonly used as an ablator in inertial confinement fusion capsules, and our results are amenable to direct experimental measurement.« less

  2. Theoretical prediction of the impact of Auger recombination on charge collection from an ion track

    NASA Technical Reports Server (NTRS)

    Edmonds, Larry D.

    1991-01-01

    The theoretical analysis presented indicates that Auger recombination can reduce charge collection from very dense ion tracks in silicon devices. It is of marginal importance for tracks produced by 270-MeV krypton, and therefore it is of major importance for ions exhibiting a significantly larger loss. The analysis shows that recombination loss is profoundly affected by track diffusion. As the track diffuses, the density and recombination rate decrease so fast that the linear density (number of electron-hole pairs per unit length) approaches a nonzero limiting value as t approaches infinity. Furthermore, the linear density is very nearly equal to this limiting value in a few picoseconds or less. When Auger recombination accompanies charge transport processes that have much longer time scales, it can be simulated by assigning a reduced linear energy transfer to the ion.

  3. Theoretical prediction of the impact of Auger recombination on charge collection from an ion track

    NASA Technical Reports Server (NTRS)

    Edmonds, Larry D.

    1991-01-01

    A recombination mechanism that significantly reduces charge collection from very dense ion tracks in silicon devices was postulated by Zoutendyk et al. The theoretical analysis presented here concludes that Auger recombination is such a mechanism and is of marginal importance for higher density tracks produced by 270-MeV krypton, but of major importance for higher density tracks. The analysis shows that recombination loss is profoundly affected by track diffusion. As the track diffuses, the density and recombination rate decrease so fast that the linear density (number of electron-hole pairs per unit length) approaches a non-zero limiting value as t yields infinity. Furthermore, the linear density is very nearly equal to this limiting value in a few picoseconds or less. When Auger recombination accompanies charge transport processes that have much longer time scales, it can be simulated by assigning a reduced linear energy transfer to the ion.

  4. Tracks and voids in amorphous Ge induced by swift heavy-ion irradiation.

    PubMed

    Ridgway, M C; Bierschenk, T; Giulian, R; Afra, B; Rodriguez, M D; Araujo, L L; Byrne, A P; Kirby, N; Pakarinen, O H; Djurabekova, F; Nordlund, K; Schleberger, M; Osmani, O; Medvedev, N; Rethfeld, B; Kluth, P

    2013-06-14

    Ion tracks formed in amorphous Ge by swift heavy-ion irradiation have been identified with experiment and modeling to yield unambiguous evidence of tracks in an amorphous semiconductor. Their underdense core and overdense shell result from quenched-in radially outward material flow. Following a solid-to-liquid phase transformation, the volume contraction necessary to accommodate the high-density molten phase produces voids, potentially the precursors to porosity, along the ion direction. Their bow-tie shape, reproduced by simulation, results from radially inward resolidification. PMID:25165936

  5. Latent tracks of swift heavy ions in Cr23C6 and Y-Ti-O nanoparticles in ODS alloys

    NASA Astrophysics Data System (ADS)

    Skuratov, V. A.; Sohatsky, A. S.; O'Connell, J. H.; Kornieieva, K.; Nikitina, A. A.; Uglov, V. V.; Neethling, J. H.; Ageev, V. S.

    2016-05-01

    The radiation stability of dielectric nanoparticles embedded into a metallic matrix is of considerable practical value due to the growing interest in oxide dispersion strengthened (ODS) steels as promising nuclear reactor materials. In this report the results of a TEM study of structural changes in Cr23C6 and Y-Ti-O nanoparticles in several ODS alloys irradiated with 1.2 MeV/amu Xe and 3.4 MeV/amu Bi ions is presented. It was found that swift heavy ion irradiation leads to the formation of amorphous latent tracks in both materials. The upper limit of the threshold electronic stopping power for track formation in carbides is estimated to be around 35 keV/nm. Multiple ion track overlapping leads to complete amorphization of carbide and Y-Ti oxide nanoparticles. Microstructural analysis have revealed a strong influence of the ferritic matrix on track morphology in Y2Ti2O7 nanoparticles in pre-thinned TEM targets after postradiation annealing and irradiation at elevated temperatures.

  6. Code System for Calculating Ion Track Condensed Collision Model.

    Energy Science and Technology Software Center (ESTSC)

    1997-05-21

    Version 00 ICOM calculates the transport characteristics of ion radiation for applicaton to radiation protection, dosimetry and microdosimetry, and radiation physics of solids. Ions in the range Z=1-92 are handled. The energy range for protons is 0.001-10,000 MeV. For other ions the energy range is 0.001-100MeV/nucleon. Computed quantities include stopping powers, ranges; spatial, angular and energy distributions of particle current and fluence; spatial distributions of the absorbed dose; and spatial distributions of thermalized ions.

  7. High-LET ion radiolysis of water: oxygen production in tracks.

    PubMed

    Meesungnoen, Jintana; Jay-Gerin, Jean-Paul

    2009-03-01

    It is known that molecular oxygen is a product of the radiolysis of water with high-linear energy transfer (LET) radiation, a result that is of particular significance in radiobiology and of practical relevance in radiotherapy. In fact, it has been suggested that the radiolytic formation of an oxygenated microenvironment around the tracks of high-LET heavy ions is an important factor in their enhanced biological efficiency in the sense that this may be due to an "oxygen effect" by O(2) produced by these ions in situ. Using Monte Carlo track simulations of pure, deaerated water radiolysis by 4.8 MeV (4)He(2+) (LET approximately 94 keV/microm) and 24 MeV (12)C(6+) (LET approximately 490 keV/microm) ions, including the mechanism of multiple ionization of water, we have calculated the yields and concentrations of O(2) in the tracks of these irradiating ions as a function of time between approximately 10(-12) and 10(-5) s at 25 and 37 degrees C. The track oxygen concentrations obtained compare very well with O(2) concentrations estimated from the "effective" amounts of oxygen that are needed to produce the observed reduction in oxygen enhancement ratio (OER) with LET (assuming this decrease is attributable to the sole radiolytic formation of O(2) in the tracks). For example, for 24 MeV (12)C(6+) ions, the initial track concentration of O(2) is estimated to be more than three orders of magnitude higher than the oxygen levels present in normally oxygenated and hypoxic tumor regions as well as in normal human cells. Such results, which largely plead in favor of the "oxygen in the heavy-ion track" hypothesis, could explain at least in part the greater efficiency of high-LET radiation for cell inactivation (at equal radiation dose). PMID:19267566

  8. Effect of Coulomb Explosion on Track Formation in Metals Irradiated by Heavy Ions

    SciTech Connect

    Ryazanov, A.I.; Pavlov, S.A.; Metelkin, E.V.; Zhemerev, A.V.

    2005-07-01

    The existing descriptions of the process of track formation in metals bombarded with high-energy heavy ions are usually based on the T-spike model. However, this model fails to explain high temperatures developed in some target materials (e.g., in copper). We present a comparative analysis of track formation in metals under the action of heavy ion bombardment, as described using the Coulomb explosion model and the T-spike model in various modifications. Both models are used to calculate changes in the temperatures of the electron and ion subsystems in the track region in amorphous alloy Fe{sub 85}B{sub 15}) and copper targets bombarded with identical high-energy (E > 1 MeV/nucleon) heavy ions. The results show that the Coulomb explosion model predicts stronger heating of the ion subsystem in the track region (with the possible formation of a melt-through zone) as compared to the T-spike model. The formation of point defects in copper as a result of the ionization losses has been also described using the two models and compared to the available experimental data. The Coulomb explosion model provides for a more adequate description of track formation as compared to the T-spike model.

  9. Production and distribution of aberrations in resting or cycling human lymphocytes following Fe-ion or Cr-ion irradiation: Emphasis on single track effects

    NASA Astrophysics Data System (ADS)

    Deperas-Standylo, Joanna; Lee, Ryonfa; Nasonova, Elena; Ritter, Sylvia; Gudowska-Nowak, Ewa

    2012-09-01

    In the present study we examined the cytogenetic effects of 177 MeV/u Fe-ions (LET = 335 keV/μm) and 4.1 MeV/u Cr-ions (LET = 3160 keV/μm) in human lymphocytes under exposure conditions that result on average in one particle hit per cell nucleus. In non-cycling (G0-phase) lymphocytes the induction and the repair of excess fragments was measured by means of the premature chromosome condensation (PCC) technique and the distribution of breaks among cells was analysed. The PCC-data were further compared with those reported recently for stimulated lymphocytes at the first post-irradiation mitosis. Our experiments show that a single nuclear traversal by a Fe-ion produced more initial chromatin breakage than one Cr-ion, but after 24 h of repair the number of excess fragments/cell was similar for both ion species. All distributions of aberrations were overdispersed. For low energy Cr-ions, where the track radius is smaller than the radius of the cell nucleus, the data could be well described by a Neyman type A distribution. In contrast, the data obtained for high energy Fe-ions were fitted with a convoluted Poisson-Neyman distribution to account for the fact that the dose is deposited not only in the cell actually traversed but also in neighbouring cells. By applying metaphase analysis a different picture emerged with respect to the aberration yield, i.e. more aberrations were detected in cells exposed to Fe-ions than in those irradiated with Cr-ions. Yet, as observed for non-cycling lymphocytes all aberration distributions generated for metaphase cells were overdispersed. The obtained results are discussed with respect to differences in particle track structure. Additionally, the impact of confounding factors such as apoptosis that affect the number of aberrations expressed in a cell population is addressed.

  10. Track Structure and the Biological Effectiveness of Accelerated Particles for the Induction of Chromosome Damage

    NASA Technical Reports Server (NTRS)

    George, K.; Hada, M.; Chappell, L.; Cucinotta, F. A.

    2011-01-01

    Track structure models predict that at a fixed value of LET, particles with lower charge number, Z will have a higher biological effectiveness compared to particles with a higher Z. In this report we investigated how track structure effects induction of chromosomal aberration in human cells. Human lymphocytes were irradiated in vitro with various energies of accelerated iron, silicon, neon, or titanium ions and chromosome damage was assessed in using three color FISH chromosome painting in chemically induced PCC samples collected a first cell division post irradiation. The LET values for these ions ranged from 30 to195 keV/micron. Of the particles studied, Neon ions have the highest biological effectiveness for induction of total chromosome damage, which is consistent with track structure model predictions. For complex-type exchanges 64 MeV/ u Neon and 450 MeV/u Iron were equally effective and induced the most complex damage. In addition we present data on chromosomes exchanges induced by six different energies of protons (5 MeV/u to 2.5 GeV/u). The linear dose response term was similar for all energies of protons suggesting that the effect of the higher LET at low proton energies is balanced by the production of nuclear secondaries from the high energy protons.

  11. Fluence-based dosimetry of proton and heavier ion beams using single track detectors

    NASA Astrophysics Data System (ADS)

    Klimpki, G.; Mescher, H.; Akselrod, M. S.; Jäkel, O.; Greilich, S.

    2016-02-01

    Due to their superior spatial resolution, small and biocompatible fluorescent nuclear track detectors (FNTDs) open up the possibility of characterizing swift heavy charged particle fields on a single track level. Permanently stored spectroscopic information such as energy deposition and particle field composition is of particular importance in heavy ion radiotherapy, since radiation quality is one of the decisive predictors for clinical outcome. Findings presented within this paper aim towards single track reconstruction and fluence-based dosimetry of proton and heavier ion fields. Three-dimensional information on individual ion trajectories through the detector volume is obtained using fully automated image processing software. Angular distributions of multidirectional fields can be measured accurately within  ±2° uncertainty. This translates into less than 5% overall fluence deviation from the chosen irradiation reference. The combination of single ion tracking with an improved energy loss calibration curve based on 90 FNTD irradiations with protons as well as helium, carbon and oxygen ions enables spectroscopic analysis of a detector irradiated in Bragg peak proximity of a 270 MeV u-1 carbon ion field. Fluence-based dosimetry results agree with treatment planning software reference.

  12. Fluence-based dosimetry of proton and heavier ion beams using single track detectors.

    PubMed

    Klimpki, G; Mescher, H; Akselrod, M S; Jäkel, O; Greilich, S

    2016-02-01

    Due to their superior spatial resolution, small and biocompatible fluorescent nuclear track detectors (FNTDs) open up the possibility of characterizing swift heavy charged particle fields on a single track level. Permanently stored spectroscopic information such as energy deposition and particle field composition is of particular importance in heavy ion radiotherapy, since radiation quality is one of the decisive predictors for clinical outcome. Findings presented within this paper aim towards single track reconstruction and fluence-based dosimetry of proton and heavier ion fields. Three-dimensional information on individual ion trajectories through the detector volume is obtained using fully automated image processing software. Angular distributions of multidirectional fields can be measured accurately within  ±2° uncertainty. This translates into less than 5% overall fluence deviation from the chosen irradiation reference. The combination of single ion tracking with an improved energy loss calibration curve based on 90 FNTD irradiations with protons as well as helium, carbon and oxygen ions enables spectroscopic analysis of a detector irradiated in Bragg peak proximity of a 270 MeV u(-1) carbon ion field. Fluence-based dosimetry results agree with treatment planning software reference. PMID:26757791

  13. Swift heavy ion irradiation of CaF2 - from grooves to hillocks in a single ion track.

    PubMed

    Gruber, Elisabeth; Salou, Pierre; Bergen, Lorenz; El Kharrazi, Mourad; Lattouf, Elie; Grygiel, Clara; Wang, Yuyu; Benyagoub, Abdenacer; Levavasseur, Delphine; Rangama, Jimmy; Lebius, Henning; Ban-d'Etat, Brigitte; Schleberger, Marika; Aumayr, Friedrich

    2016-10-12

    A novel form of ion-tracks, namely nanogrooves and hillocks, are observed on CaF2 after irradiation with xenon and lead ions of about 100 MeV kinetic energy. The irradiation is performed under grazing incidence (0.3°-3°) which forces the track to a region in close vicinity to the surface. Atomic force microscopy imaging of the impact sites with high spatial resolution reveals that the surface track consists in fact of three distinct parts: each swift heavy ion impacting on the CaF2 surface first opens a several 100 nm long groove bordered by a series of nanohillocks on both sides. The end of the groove is marked by a huge single hillock and the further penetration of the swift projectile into deeper layers of the target is accompanied by a single protrusion of several 100 nm in length slowly fading until the track vanishes. By comparing experimental data for various impact angles with results of a simulation, based on a three-dimensional version of the two-temperature-model (TTM), we are able to link the crater and hillock formation to sublimation and melting processes of CaF2 due to the local energy deposition by swift heavy ions. PMID:27518588

  14. Tracking Coherent Structures in a Mach 4 Turbulent Boundary Layer

    NASA Astrophysics Data System (ADS)

    Subbareddy, Pramod; Moss, Alin; Marusic, Ivan; Candler, Graham

    2000-11-01

    We describe a study of different criteria for the detection and tracking of coherent vortical structures in a turbulent compressible boundary layer. Several vortex identification methods are presented, with special attention to methods based on the eigenvalues of the velocity gradient tensor. We find that for the Mach 4 compressible flow, the discriminant of the characteristic polynomial of the tensor is most suitable in the sense that the near wall coherent features are better defined. The vortex connection/reconnection process that we observe is tracked in time and studied. The visualizations are done using a classical ray-casting volume renderer which makes it possible to color-fill specific structures and follow their motion through the flow field. A qualitative comparison with an incompressible wall turbulence is also made. The long term goal of this study is to develop feature extraction tools which can track the evolution of structures in large data sets efficiently.

  15. Relative Displacement Method for Track-Structure Interaction

    PubMed Central

    Ramos, Óscar Ramón; Pantaleón, Marcos J.

    2014-01-01

    The track-structure interaction effects are usually analysed with conventional FEM programs, where it is difficult to implement the complex track-structure connection behaviour, which is nonlinear, elastic-plastic and depends on the vertical load. The authors developed an alternative analysis method, which they call the relative displacement method. It is based on the calculation of deformation states in single DOF element models that satisfy the boundary conditions. For its solution, an iterative optimisation algorithm is used. This method can be implemented in any programming language or analysis software. A comparison with ABAQUS calculations shows a very good result correlation and compliance with the standard's specifications. PMID:24634610

  16. Tracking Non-rigid Structures in Computer Simulations

    SciTech Connect

    Gezahegne, A; Kamath, C

    2008-01-10

    A key challenge in tracking moving objects is the correspondence problem, that is, the correct propagation of object labels from one time step to another. This is especially true when the objects are non-rigid structures, changing shape, and merging and splitting over time. In this work, we describe a general approach to tracking thousands of non-rigid structures in an image sequence. We show how we can minimize memory requirements and generate accurate results while working with only two frames of the sequence at a time. We demonstrate our results using data from computer simulations of a fluimix problem.

  17. Relative displacement method for track-structure interaction.

    PubMed

    Schanack, Frank; Ramos, Óscar Ramón; Reyes, Juan Patricio; Pantaleón, Marcos J

    2014-01-01

    The track-structure interaction effects are usually analysed with conventional FEM programs, where it is difficult to implement the complex track-structure connection behaviour, which is nonlinear, elastic-plastic and depends on the vertical load. The authors developed an alternative analysis method, which they call the relative displacement method. It is based on the calculation of deformation states in single DOF element models that satisfy the boundary conditions. For its solution, an iterative optimisation algorithm is used. This method can be implemented in any programming language or analysis software. A comparison with ABAQUS calculations shows a very good result correlation and compliance with the standard's specifications. PMID:24634610

  18. Large solid angle tracking of Monte Carlo events of heavy ion collisions in TPC magnetic spectrometers

    SciTech Connect

    Lindenbaum, S.J.; Etkin, A.; Foley, K.J.; Hackenburg, R.W.; Longacre, R.S.; Love, W.A.; Morris, T.W.; Platner, E.D.; Saulys, A.C.; Asoka-Kumar, P.P.V.

    1986-01-01

    The collision of 15 GeV/nucleon sulfur and carbon or oxygen ions with various fixed targets such as carbon, sulfur, and gold is to be observed in the MPS magnetic spectrometer with a time projection chamber (TPC) module. This TPC will be placed just downstream of the target and be able to track approximately 50% of all charged particles. The design and construction of the TPC is proceeding, and prototypes of the TPC readout system have been tested and production devices are to be delivered. A TPC track reconstruction program has been developed. Monte Carlo events have been generated and tracked. The track reconstruction program consists of three parts: a local pattern recognition which associates contiguous readouts on adjacent readout wires to form a single hit; a subroutine which positions the hits into slices in the vertical plane; and the track reconstruction section. (LEW)

  19. Zn nanoparticles irradiated with swift heavy ions at low fluences: Optically-detected shape elongation induced by nonoverlapping ion tracks

    SciTech Connect

    Amekura, H.; Mitsuishi, K.; Nakayama, Y.; Kishimoto, N.; Ishikawa, N.; Okubo, N.; Ridgway, M. C.; Giulian, R.; Buchal, Ch.; Mantl, S.

    2011-05-15

    Elongation of metal nanoparticles (NPs) embedded in silica (SiO{sub 2}) induced by swift heavy-ion (SHI) irradiation, from spheres to spheroids, has been evaluated mainly by transmission electron microscopy (TEM) at high fluences, where tens to thousands of ion tracks were overlapped each other. It is important to clarify whether the high fluences, i.e., track overlaps, are essential for the elongation. In this study the elongation of metal NPs was evaluated at low fluences by linearly polarized optical absorption spectroscopy. Zn NPs embedded in silica were irradiated with 200-MeV Xe{sup 14+} ions with an incident angle of 45 deg. The fluence ranged from 1.0x10{sup 11} to 5.0x10{sup 13} Xe/cm{sup 2}, which corresponds to the track coverage ratio (CR) of 0.050 to 25 by ion tracks. A small but certain dichroism was observed down to 5.0x10{sup 11} Xe/cm{sup 2} (CR = 0.25). The comparison with numerical simulation suggested that the elongation of Zn NPs was induced by nonoverlapping ion tracks. After further irradiation each NP experienced multiple SHI impacts, which resulted in further elongation. TEM observation showed the elongated NPs whose aspect ratio (AR) ranged from 1.2 to 1.7 at 5.0x10{sup 13} Xe/cm{sup 2}. Under almost the same irradiation conditions, Co NPs with the same initial mean radius showed more prominent elongation with AR of {approx}4 at the same fluence, while the melting point (m.p.) of Co is much higher than that of Zn. Less efficient elongation of Zn NPs while lower m.p. is discussed.

  20. Cortical Tracking of Hierarchical Linguistic Structures in Connected Speech

    PubMed Central

    Ding, Nai; Melloni, Lucia; Zhang, Hang; Tian, Xing; Poeppel, David

    2016-01-01

    The most critical attribute of human language is its unbounded combinatorial nature: smaller elements can be combined into larger structures based on a grammatical system, resulting in a hierarchy of linguistic units, e.g., words, phrases, and sentences. Mentally parsing and representing such structures, however, poses challenges for speech comprehension. In speech, hierarchical linguistic structures do not have boundaries clearly defined by acoustic cues and must therefore be internally and incrementally constructed during comprehension. Here we demonstrate that during listening to connected speech, cortical activity of different time scales concurrently tracks the time course of abstract linguistic structures at different hierarchical levels, e.g. words, phrases, and sentences. Critically, the neural tracking of hierarchical linguistic structures is dissociated from the encoding of acoustic cues as well as from the predictability of incoming words. The results demonstrate that a hierarchy of neural processing timescales underlies grammar-based internal construction of hierarchical linguistic structure. PMID:26642090

  1. Characterization of Ion Dynamics in Structures for Lossless Ion Manipulations

    SciTech Connect

    Tolmachev, Aleksey V.; Webb, Ian K.; Ibrahim, Yehia M.; Garimella, Venkata BS; Zhang, Xinyu; Anderson, Gordon A.; Smith, Richard D.

    2014-08-23

    Structures for Lossless Ion Manipulation (SLIM) represent a novel class of ion optical devices based upon electrodes patterned on planar surfaces, and relying on a combined action of radio frequency and DC electric fields and specific buffer gas density conditions. Initial experimental studies have demonstrated the feasibility of the SLIM concept. This report offers an in-depth consideration of key ion dynamics properties in such devices based upon ion optics theory and computational modeling. The SLIM devices investigated are formed by two surfaces, each having an array of radio frequency (RF) "rung" electrodes, bordered by DC "guard" electrodes. Ion motion is confined by the RF effective potential in the direction orthogonal to the boards, and limited or controlled in the transversal direction by the guard DC potentials. Ions can be efficiently trapped and stored in SLIM devices where the confinement of ions can be ‘soft’ in regard to the extent of collisional activation, similarly to RF-only multipole ion guides and traps. The segmentation of the RF rung electrodes and guards along the axis makes it possible to apply electric field profiles to stimulate ion transfer within a SLIM. In the case of a linear DC gradient applied to RF rungs and guards, a virtually uniform electric field can be created along the axis of the device, enabling ion mobility separations.

  2. Characterization of Ion Dynamics in Structures for Lossless Ion Manipulations

    PubMed Central

    2015-01-01

    Structures for Lossless Ion Manipulation (SLIM) represent a novel class of ion optical devices based upon electrodes patterned on planar surfaces, and relying on a combined action of radiofrequency and DC electric fields and specific buffer gas density conditions. Initial experimental studies have demonstrated the feasibility of the SLIM concept. This report offers an in-depth consideration of key ion dynamics properties in such devices based upon ion optics theory and computational modeling. The SLIM devices investigated are formed by two surfaces, each having an array of radiofrequency (RF) “rung” electrodes, bordered by DC “guard” electrodes. Ion motion is confined by the RF effective potential in the direction orthogonal to the boards and limited or controlled in the transversal direction by the guard DC potentials. Ions can be efficiently trapped and stored in SLIM devices where the confinement of ions can be “soft” in regard to the extent of collisional activation, similarly to RF-only multipole ion guides and traps. The segmentation of the RF rung electrodes and guards along the axis makes it possible to apply static or transient electric field profiles to stimulate ion transfer within a SLIM. In the case of a linear DC gradient applied to RF rungs and guards, a virtually uniform electric field can be created along the axis of the device, enabling high quality ion mobility separations. PMID:25152178

  3. Monte-Carlo Simulation of Radiation Track Structure and Calculation of Dose Deposition in Nanovolumes

    NASA Technical Reports Server (NTRS)

    Plante, I.; Cucinotta, F. A.

    2010-01-01

    INTRODUCTION: The radiation track structure is of crucial importance to understand radiation damage to molecules and subsequent biological effects. Of a particular importance in radiobiology is the induction of double-strand breaks (DSBs) by ionizing radiation, which are caused by clusters of lesions in DNA, and oxidative damage to cellular constituents leading to aberrant signaling cascades. DSB can be visualized within cell nuclei with gamma-H2AX experiments. MATERIAL AND METHODS: In DSB induction models, the DSB probability is usually calculated by the local dose obtained from a radial dose profile of HZE tracks. In this work, the local dose imparted by HZE ions is calculated directly from the 3D Monte-Carlo simulation code RITRACKS. A cubic volume of 5 micron edge (Figure 1) is irradiated by a (Fe26+)-56 ion of 1 GeV/amu (LET approx.150 keV/micron) and by a fluence of 450 H+ ions, 300 MeV/amu (LET approx. 0.3 keV/micron). In both cases, the dose deposited in the volume is approx.1 Gy. The dose is then calculated into each 3D pixels (voxels) of 20 nm edge and visualized in 3D. RESULTS AND DISCUSSION: The dose is deposited uniformly in the volume by the H+ ions. The voxels which receive a high dose (orange) corresponds to electron track ends. The dose is deposited differently by the 56Fe26+ ion. Very high dose (red) is deposited in voxels with direct ion traversal. Voxels with electron track ends (orange) are also found distributed around the path of the track. In both cases, the appearance of the dose distribution looks very similar to DSBs seen in gammaH2AX experiments, particularly when the visualization threshold is applied. CONCLUSION: The refinement of the dose calculation to the nanometer scale has revealed important differences in the energy deposition between high- and low-LET ions. Voxels of very high dose are only found in the path of high-LET ions. Interestingly, experiments have shown that DSB induced by high-LET radiation are more difficult to

  4. Cosmic heavy ion tracks in mesoscopic biological test objects

    SciTech Connect

    Facius, R.

    1994-12-31

    Since more than 20 years ago, when the National Academy of Sciences and the National Research Council of the U.S.A. released their report on `HZE particle effects in manned spaced flight`, it has been emphasized how difficult - if not even impossible - it is to assess their radiobiological impact on man from conventional studies where biological test organisms are stochastically exposed to `large` fluences of heavy ions. An alternative, competing approach had been realized in the BIOSTACK experiments, where the effects of single cosmic as well as accelerator - heavy ions on individual biological test organisms could be investigated. Although presented from the beginning as the preferable approach for terrestrial investigations with accelerator heavy ions too (`The BIOSTACK as an approach to high LET radiation research`), only recently this insight is gaining more widespread recognition. In space flight experiments, additional constraints imposed by the infrastructure of the vehicle or satellite further impede such investigations. Restrictions concern the physical detector systems needed for the registration of the cosmic heavy ions` trajectories as well as the biological systems eligible as test organisms. Such optimized procedures and techniques were developed for the investigations on chromosome aberrations induced by cosmic heavy ions in cells of the stem meristem of lettuce seeds (Lactuca sativa) and for the investigation of the radiobiological response of Wolffia arriza, which is the smallest flowering (water) plant. The biological effects were studied by the coworkers of the Russian Institute of Biomedical Problems (IBMP) which in cooperation with the European Space Agency ESA organized the exposure in the Biosatellites of the Cosmos series.

  5. Synergy of elastic and inelastic energy loss on ion track formation in SrTiO₃.

    PubMed

    Weber, William J; Zarkadoula, Eva; Pakarinen, Olli H; Sachan, Ritesh; Chisholm, Matthew F; Liu, Peng; Xue, Haizhou; Jin, Ke; Zhang, Yanwen

    2015-01-01

    While the interaction of energetic ions with solids is well known to result in inelastic energy loss to electrons and elastic energy loss to atomic nuclei in the solid, the coupled effects of these energy losses on defect production, nanostructure evolution and phase transformations in ionic and covalently bonded materials are complex and not well understood due to dependencies on electron-electron scattering processes, electron-phonon coupling, localized electronic excitations, diffusivity of charged defects, and solid-state radiolysis. Here we show that a colossal synergy occurs between inelastic energy loss and pre-existing atomic defects created by elastic energy loss in single crystal strontium titanate (SrTiO₃), resulting in the formation of nanometer-sized amorphous tracks, but only in the narrow region with pre-existing defects. These defects locally decrease the electronic and atomic thermal conductivities and increase electron-phonon coupling, which locally increase the intensity of the thermal spike for each ion. This work identifies a major gap in understanding on the role of defects in electronic energy dissipation and electron-phonon coupling; it also provides insights for creating novel interfaces and nanostructures to functionalize thin film structures, including tunable electronic, ionic, magnetic and optical properties. PMID:25578009

  6. Swift-heavy ion irradiation-induced latent tracks in few- and mono-layer MoS2

    NASA Astrophysics Data System (ADS)

    Guo, Hang; Sun, Youmei; Zhai, Pengfei; Yao, Huijun; Zeng, Jian; Zhang, Shengxia; Duan, Jinglai; Hou, Mingdong; Khan, Maaz; Liu, Jie

    2016-04-01

    The latent tracks in mono- and few-layer molybdenum disulfide (MoS2) induced by 209Bi ions with energies of 0.45-1.23 GeV were characterized by atomic force microscopy (AFM). The hillock-like latent tracks were observed on the surface of irradiated monolayer MoS2. The diameter of the hillock after deconvolution procedure is 15.8 ± 1.7 nm and the height is 1.0 ± 0.3 nm. Hillock-like tracks are induced by energy transfer from energetic 209Bi ions to electron system of MoS2, resulting in the ionization and excitation and then the displacement of target atoms. Since Raman spectroscopy is sensitive to damages induced by swift-heavy ion irradiation, the in-plane E 2 g 1 mode (~385 cm-1) and the out-of-plane A 1 g mode (~408 cm-1) of MoS2 were investigated. With increasing ion fluence, the A 1 g peak shifts to higher frequencies, and the intensity ratio between A 1 g and E 2 g 1 peak increases. Besides, the A 1 g peak narrows. The evolution of the structural and vibrational properties of MoS2 with fluence is discussed. It can be concluded that the blue shift and narrowing of A 1 g peak in irradiated MoS2 is due to the adsorption of oxygen molecules at latent tracks. With decreasing thickness of MoS2, the irradiation resistance decreases.

  7. 1. EXISTING TRASH RAKE STRUCTURE AND STEEL IBEAM TRACK, LOOKING ...

    Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

    1. EXISTING TRASH RAKE STRUCTURE AND STEEL I-BEAM TRACK, LOOKING EAST/NORTHEAST. - Washington Water Power Spokane River Upper Falls Hydroelectric Development, Gates & Gate-Lifting Mechanisms, Spokane River, approximately 0.5 mile northeast of intersection of Spokane Falls Boulevard & Post Street, Spokane, Spokane County, WA

  8. Tracking Coherent Structures and Source Localization in Geophysical Flows

    NASA Astrophysics Data System (ADS)

    Forgoston, Eric; Hsieh, Ani; Schwartz, Ira; Yecko, Philip

    There has been a steady increase in the deployment of autonomous underwater and surface vehicles for applications such as ocean monitoring, tracking of marine processes, and forecasting contaminant transport. The underwater environment poses unique challenges since robots must operate in a communication and localization-limited environment where their dynamics are tightly coupled with the environmental dynamics. This work presents current efforts in understanding the impact of geophysical fluid dynamics on underwater vehicle control and autonomy. The focus of the talk is on the use of collaborative vehicles to track Lagrangian coherent structures and to localize contaminant spills. Research supported by the National Science Foundation and the Office of Naval Research.

  9. Track damage and erosion of insulators by ion-induced electronic processes

    NASA Technical Reports Server (NTRS)

    Tombrello, T. A.

    1984-01-01

    Track damage and the associated ejection of atoms and molecules from insulators, which occur as a result of ion-induced electronic excitation, are of interest both in their own right and because of the mechanisms through which the energy in the excited electrons is transformed into atomic motion. In this paper an overview is given of the phenomena that are observed. We show that there is a remarkable similarity between the damage profile along the ion's track in the solid and the yield of ejected atoms at the energy that corresponds to each point on the track. It is also seen that the density of extended defects (or, correspondingly, the ejected particle yield) appears to have a 'universal' form that is weakly dependent on the type of material. In the model presented this is a consequence of the inner-shell ionization of light elements in the solid by the incident ion; the resulting Auger decay produces an intense ionization spike that locally triggers the track formation/erosion process. This model allows the estimation of erosion yields/damage profiles for different ions and materials.

  10. Damage around the ion path in cellulose triacetate. II. A track model

    NASA Astrophysics Data System (ADS)

    Decossas, J. L.; Vareille, J. C.; Moliton, J. P.; Teyssier, J. L.

    1984-07-01

    In this paper, a model of an ion track is proposed. It is justified by experimental results obtained by electron microscopy. These results show that a track is composed of two parts: (i) a core in which the material is totally destroyed, and (ii) a ``halo'' in which the damage decreases when the distance from the ion path increases. The overall results given in paper I and the calculation of deposited energy density of Fain [J. Fain, M. Monnin, and M. Montret, Proceedings of the 8th International Conference on Nuclear Photo., S.S.N.T.D., Bucarest (1972), p. 34, and J. Fain, M. Monnin, and M. Montret, Radiat. Res. 57, 379 (1974)] led us to the volume density of free radicals at every point inside the latent track. The core radius is established for ions of Z≤18 and E≤10 MeV/amu. A great density of damage close to the ion path is shown, and the influence of this phenomenon on track etching is studied.

  11. Direct determination of track etch rate and response of CR-39 to normal incidence high-energy heavy ions.

    PubMed

    Awad, E M

    2001-12-01

    Response of CR-39 to high-energy heavy ions was investigated by using optical microphotographs of track profiles for Ar (480 MeV/n) and Ni (300 MeV/n). The depth dependence of track etch rate (VT) was determined experimentally by track length measurement. The results indicate that VT for the low REL Ar tracks is depth independent but for the high REL Ni tracks VT is gradually decreasing with depth. The region beyond 30 m depth inside the detector shows a stable region regarding the detector response for both ions. PMID:11688501

  12. Measurement of energy deposition near high energy, heavy ion tracks. Progress report, December 1982-April 1985

    SciTech Connect

    Metting, N.F.; Braby, L.A.; Rossi, H.H.; Kliauga, P.J.; Howard, J.; Schimmerling, W.; Wong, M.; Rapkin, M.

    1986-08-01

    The microscopic spatial distribution of energy deposition in irradiated tissue plays a significant role in the final biological effect produced. Therefore, it is important to have accurate microdosimetric spectra of radiation fields used for radiobiology and radiotherapy. The experiments desribed here were designed to measure the distributions of energy deposition around high energy heavy ion tracks generated at Lawrence Berkeley Laboratory's Bevalac Biomedical Facility. A small proportional counter mounted in a large (0.6 by 2.5 m) vacuum chamber was used to measure energy deposition distributions as a function of the distance between detector and primary ion track. The microdosimetric distributions for a homogeneous radiation field were then calculated by integrating over radial distance. This thesis discusses the rationale of the experimental design and the analysis of measurements on 600 MeV/amu iron tracks. 53 refs., 19 figs.

  13. Latent tracks and associated strain in Al2O3 irradiated with swift heavy ions

    NASA Astrophysics Data System (ADS)

    O'Connell, J. H.; Rymzhanov, R. A.; Skuratov, V. A.; Volkov, A. E.; Kirilkin, N. S.

    2016-05-01

    The morphology of latent ion tracks induced by high energy heavy ions in Al2O3 was investigated using a combination of high resolution transmission electron microscopy (HRTEM), exit wave reconstruction, geometric phase analysis and numerical simulations. Single crystal α-Al2O3 crystals were irradiated with 167 MeV Xe ions along the c-axis to fluences between 1 × 1010 and 1 × 1013 cm-2. Planar TEM lamella were prepared by focused ion beam (FIB) and geometrical phase analysis was performed on the phase image of the reconstructed complex electron wave at the specimen exit surface in order to estimate the latent strain around individual track cores. In addition to the experimental data, the material excitation in a SHI track was numerically simulated by combining Monte-Carlo code, describing the excitation of the electronic subsystem, with classical molecular dynamics of the lattice atoms. Experimental and simulation data both showed that the relaxation of the excess lattice energy results in the formation of a cylinder-like disordered region of about 4 nm in diameter consisting of an underdense core surrounded by an overdense shell. Modeling of the passage of a second ion in the vicinity of this disordered region revealed that this damaged area can be restored to a near damage free state. The estimation of a maximal effective distance of recrystallization between the ion trajectories yields values of about 6-6.5 nm which are of the same order of magnitude as those estimated from the saturation density of latent ion tracks detected by TEM.

  14. Charge collected by diffusion from an ion track under mixed boundary conditions

    NASA Technical Reports Server (NTRS)

    Edmonds, Larry D.

    1991-01-01

    Charge-carrier diffusion from an ion track in a silicon substrate at least a few hundred microns thick is analyzed. The substrate upper surface is treated as reflective except for a small section, intended to represent a reverse-biased junction, which is treated as a sink. Total charge collected by the sink is calculated by assuming transport to be governed by an ambipolar diffusion equation with temporally constant and spatially uniform carrier lifetime and diffusion coefficient. Present results apply to a normally incident track but could easily be generalized to arbitrary track direction. The collected charge is found to depend on track length and on the electrostatic capacitance, rather than the area, of the sink. Theoretical predictions are compared to the results of a numerical simulation called the Poisson and Continuity Equation Solver (PISCES) for three cases and are found to agree within a factor of two in the worst case.

  15. Manufacturing cost analysis for photovoltaic concentrator tracking structures

    NASA Astrophysics Data System (ADS)

    Heller, B.; Pass, N.; Blackwell, R.

    1983-11-01

    Detailed manufacturing, transportation and installation costs are developed for the current design of three different photovoltaic concentrator tracking structures at a production rate of 10 to the 5th power/sq m per year. These costs are combined with array field performance estimates to obtain cost per watt and levelized energy costs for 500 kW fields. Installed structure costs for the three arrays (including G and A and profit but not module FOB costs) range from $166 to $208/sqm, or $1.04 to $1.28/W sub ap in 1982 dollars. The pedestal tracking structure has a lower cost than the post/frame or pylon/torque tube arrays.

  16. Non-invasive monitoring of therapeutic carbon ion beams in a homogeneous phantom by tracking of secondary ions.

    PubMed

    Gwosch, K; Hartmann, B; Jakubek, J; Granja, C; Soukup, P; Jäkel, O; Martišíková, M

    2013-06-01

    Radiotherapy with narrow scanned carbon ion beams enables a highly accurate treatment of tumours while sparing the surrounding healthy tissue. Changes in the patient's geometry can alter the actual ion range in tissue and result in unfavourable changes in the dose distribution. Consequently, it is desired to verify the actual beam delivery within the patient. Real-time and non-invasive measurement methods are preferable. Currently, the only technically feasible method to monitor the delivered dose distribution within the patient is based on tissue activation measurements by means of positron emission tomography (PET). An alternative monitoring method based on tracking of prompt secondary ions leaving a patient irradiated with carbon ion beams has been previously suggested. It is expected to help in overcoming the limitations of the PET-based technique like physiological washout of the beam induced activity, low signal and to allow for real-time measurements. In this paper, measurements of secondary charged particle tracks around a head-sized homogeneous PMMA phantom irradiated with pencil-like carbon ion beams are presented. The investigated energies and beam widths are within the therapeutically used range. The aim of the study is to deduce properties of the primary beam from the distribution of the secondary charged particles. Experiments were performed at the Heidelberg Ion Beam Therapy Center, Germany. The directions of secondary charged particles emerging from the PMMA phantom were measured using an arrangement of two parallel pixelated silicon detectors (Timepix). The distribution of the registered particle tracks was analysed to deduce its dependence on clinically important beam parameters: beam range, width and position. Distinct dependencies of the secondary particle tracks on the properties of the primary carbon ion beam were observed. In the particular experimental set-up used, beam range differences of 1.3 mm were detectable. In addition, variations in

  17. Strain fields around high-energy ion tracks in {alpha}-quartz

    SciTech Connect

    Follstaedt, D. M.; Norman, A. K.; Doyle, B. L.; McDaniel, F. D.

    2006-09-15

    Transmission electron microscopy has been used to image the tracks of high-energy {sup 197}Au{sup +26} (374 MeV) and {sup 127}I{sup +18} (241 MeV) ions incident in a nonchanneling direction through a prethinned specimen of hexagonal {alpha}-quartz (SiO{sub 2}). These ions have high electronic stopping powers in quartz, 24 and 19 keV/nm, respectively, which are sufficient to produce a disordered latent track. When the tracks are imaged with diffraction contrast using several different reciprocal lattice vectors, they exhibit a radial strain extending outward from their disordered centerline approximately 16 nm into the crystalline surroundings. The images are consistent with a radial strain field with cylindrical symmetry around the amorphous track, like that found in models developed to account for the lateral expansion of amorphous SiO{sub 2} films produced by irradiation with high-energy ions. These findings provide an experimental basis for increased confidence in such modeling.

  18. ION MANIPULATIONS IN STRUCTURES FOR LOSSLESS ION MANIPULATIONS (SLIM): COMPUTATIONAL EVALUATION OF A 90° TURN AND A SWITCH

    PubMed Central

    Garimella, Sandilya V.B.; Ibrahim, Yehia. M; Webb, Ian K.; Ipsen, Andreas B.; Chen, Tsung-Chi; Tolmachev, Aleksey V.; Baker, Erin S.; Anderson, Gordon A.; Smith, Richard D.

    2015-01-01

    The process of redirecting ions through 90° turns and ‘tee’ switches utilizing Structures for Lossless Ion Manipulations (SLIM) was evaluated at 4 Torr pressure using SIMION simulations and theoretical methods. The nature of pseudo-potential in SLIM-tee structures has also been explored. Simulations show that 100% transmission efficiency in SLIM devices can be achieved with guard electrode voltages lower than ~10 V. The ion plume width in these conditions is ~1.6 mm while at lower guard voltages lead to greater plume widths. Theoretical calculations show marginal loss of ion mobility resolving power (<5%) during ion turn due to the finite plume widths (i.e. race track effect). More robust SLIM designs that reduce the race track effect while maximizing ion transmission are also reported. In addition to static turns, the dynamic switching of ions into orthogonal channels was also evaluated both using SIMION ion trajectory simulations and experimentally. Simulations and theoretical calculations were in close agreement with experimental results and were used to develop more refined SLIM designs. PMID:26289106

  19. A thermalized ion explosion model for high energy sputtering and track registration

    NASA Technical Reports Server (NTRS)

    Seiberling, L. E.; Griffith, J. E.; Tombrello, T. A.

    1980-01-01

    A velocity spectrum of neutral sputtered particles as well as a low resolution mass spectrum of sputtered molecular ions was measured for 4.74 MeV F-19(+2) incident of UF4. The velocity spectrum is dramatically different from spectra taken with low energy (keV) bombarding ions, and is shown to be consistent with a hot plasma of atoms in thermal equilibrium inside the target. A thermalized ion explosion model is proposed for high energy sputtering which is expected to describe track formation in dielectric materials. The model is shown to be consistent with the observed total sputtering yield and the dependence of the yield on the primary ionization rate of the incident ion.

  20. Toward an Automated Analysis of Slow Ions in Nuclear Track Emulsion

    NASA Astrophysics Data System (ADS)

    Mamatkulov, K. Z.; Kattabekov, R. R.; Ambrozova, I.; Artemenkov, D. A.; Bradnova, V.; Kamanin, D. V.; Majling, L.; Marey, A.; Ploc, O.; Rusakova, V. V.; Stanoeva, R.; Turek, K.; Zaitsev, A. A.; Zarubin, P. I.; Zarubina, I. G.

    Application of the nuclear track emulsion technique (NTE) in radioactivity and nuclear fission studies is discussed. It is suggested to use a HSP-1000 automated microscope for searching for a collinear cluster tri-partition of heavy nuclei implanted in NTE. Calibrations of α-particles and ion ranges in a novel NTE are carried out. Surface exposures of NTE samples to a 252Cf source started. Planar events containing fragments and long-range α-particles as well as fragment triples only are studied. NTE samples are calibrated by ions Kr and Xe of energy of 1.2 and 3 A MeV.

  1. Preparation of ion-track membranes of poly( p-phenylene terephthalamide): Control of pore shape by irradiation with different ion beams

    NASA Astrophysics Data System (ADS)

    Suzuki, Yasuyuki; Yamaki, Tetsuya; Koshikawa, Hiroshi; Asano, Masaharu; Voss, Kay-Obbe; Neumann, Reinhard; Yoshida, Masaru

    2007-07-01

    The preparation of ion-track membranes of thermally stable poly( p-phenylene terephthalamide) (PPTA) was performed by ion beam irradiation followed by chemical etching with a sodium hypochlorite solution. Cylindrical pores were observed in the membrane irradiated with 197Au and 238U ions at an energy of 11.1 MeV/n. In contrast, funnel shape pores appeared in the membrane irradiated with 84Kr, 102Ru and 129Xe ion at energies of 6.2, 3.6 and 3.5 MeV/n, respectively. The 197Au and 238U ion irradiation was found to exhibit more than four times larger sensitivity to the track etching under the same etching conditions. Consequently, the pore shape can be controlled by the masses and energies of the irradiated ions, in close relation to the etching sensitivity of the track.

  2. The Influence of Spatial Variations of Diffusion Length on Charge Collected by Diffusion from Ion Tracks

    NASA Technical Reports Server (NTRS)

    Edmonds, L. D.

    1996-01-01

    Charge collected by diffusion from ion tracks in a semiconductor substrate may be influenced by the substrate diffusion length, which is related to recombination losses. A theoretical analysis shows that, excluding some extreme cases, charge collection is insensitive to spatial variations in the diffusion length funciton, so it is possible to define an effective diffusion length having the property that collected charge can be approximated by assuming a uniform diffusion length equal to this effective value.

  3. Exploring structural phase transitions of ion crystals

    PubMed Central

    Yan, L. L.; Wan, W.; Chen, L.; Zhou, F.; Gong, S. J.; Tong, X.; Feng, M.

    2016-01-01

    Phase transitions have been a research focus in many-body physics over past decades. Cold ions, under strong Coulomb repulsion, provide a repealing paradigm of exploring phase transitions in stable confinement by electromagnetic field. We demonstrate various conformations of up to sixteen laser-cooled 40Ca+ ion crystals in a home-built surface-electrode trap, where besides the usually mentioned structural phase transition from the linear to the zigzag, two additional phase transitions to more complicated two-dimensional configurations are identified. The experimental observation agrees well with the numerical simulation. Heating due to micromotion of the ions is analysed by comparison of the numerical simulation with the experimental observation. Our investigation implies very rich and complicated many-body behaviour in the trapped-ion systems and provides effective mechanism for further exploring quantum phase transitions and quantum information processing with ultracold trapped ions. PMID:26865229

  4. Estimation of spatially restricted LET using track structure models

    NASA Technical Reports Server (NTRS)

    Kiefer, J.

    1994-01-01

    The spatial distribution of energy deposition is an important determinant in the formation of biologically significant lesions. It has been widely realized that Linear Energy Transfer (LET) being an average quantity is not sufficient to describe the situation at a submicroscopic scale. To remedy this to some extent 'energy-cut-off' values are sometimes used but since they are related to secondary electron energy and only indirectly to their range they are also not adequate although they may be easily calculated. 'Range-restricted LET' appears to be better but its determination is usually quite involved. Xapsos (1992) suggested a semi-empirical approximation based on a modified Bethe-formula which contains a number of assumption which are difficult to verify. A simpler and easier way is to use existing beam-models which describe energy deposition around an ion's path. They all agree that the energy density (i. e., energy deposited per unit mass) decreases with the inverse square of the distance from the track center. This simple dependence can be used to determine the fraction of total LET which is deposited in a cylinder of a given radius. As an example our own beam model. Energy density depends on distance x (measured in m) from the track center according to the presented formula.

  5. Fine structure of track-plated Au-Cu alloy

    SciTech Connect

    Johnson, K.A.; Staudhammer, K.P.

    1982-01-01

    The burnishing process, i.e., mechanical rubbing of the deposit during electrodeposition, produces continuous nucleation of new grains during deposition which effectively prevents large columnar grains and macroporosity. In addition, track plating produces a uniform subgrain and substructure. By the use of STEM and TEM we were able to define a number of structural features of this material. Evident from the micrographs is the non-uniform polishing of the layers resulting from the chemical variation in the plating process. Microstructural features of the Au rich regions are shown. The unit size of this structure is about 22 nm. The fine-grained structure does not have well defined boundaries but does contain a slight amount of preferred alignment. Each equivalent unit has periodic fine structure measurable to approx. 2 nm.

  6. Scanning-force-microscopy study of MeV-atomic-ion-induced surface tracks in organic crystals

    SciTech Connect

    Kopniczky, J.; Reimann, C.T.; Hallen, A.; Sundqvist, B.U.R. ); Tengvall, P.; Erlandsson, R. )

    1994-01-01

    We present scanning force microscope images of craterlike defects induced by individual 78.2-MeV [sup 127]I ions incident on organic single-crystal [ital L]-valine surfaces. For grazing incidence ions, the craters are elongated along the ion azimuth of incidence and display a raised tail in the surface above the ion track. This permanent plastic deformation of the surface indicates that a hydrodynamic pressure-pulse phenomenon occurs in response to the electronically deposited energy.

  7. Phosphorylation of DNA damage-recognizing proteins at heavy-ion track

    NASA Astrophysics Data System (ADS)

    Ohnishi, T.; Takahashi, A.; Nojima, K.; Furusawa, Y.; Ohnishi, K.

    To identify the repair dynamics for high LET-radiation-induced DNA damage we analyzed the focus formation after exposure to iron-ion beams 500 MeV u 200 KeV um using immunocytochemical methods Since the focus formation of phospho-H2AX gamma-H2AX which is well understood to be activated at radiation-induced double strand breaks DSBs we performed the visualization of the tracks spatial distribution of lesions from an aspect of dose dependency The number of this track induced by iron-ion beams was well corresponded with the value of a calculation well In addition we demonstrate that DNA damage-recognizing proteins such as phospho-serine 1981 of ATM phospho-threonine 2609 of DNA-PKcs phospho-serine 343 of NBS1 and phospho-threonine 68 of Chk2 co-localized with gamma-H2AX at high LET-radiation-induced portion These findings suggest that iron-ion beams were quite effective for detection of DNA damages of DSBs recognized with DNA repair enzymes used here after phosphorylation of them because iron-ion beams can be used to generate extremely localized at DNA damages within restricted regions of the nuclei

  8. Tunable nanoporous silicon oxide templates by swift heavy ion tracks technology.

    PubMed

    Kaniukov, E Yu; Ustarroz, J; Yakimchuk, D V; Petrova, M; Terryn, H; Sivakov, V; Petrov, A V

    2016-03-18

    Nanoporous silicon oxide templates formed by swift heavy ion tracks technology have been investigated. The influence of the heavy ion characteristics, such as type of ion, energy, stopping power and irradiation fluence on the pore properties of the silicon oxide templates, has been studied. Furthermore, the process of pore formation by chemical etching with hydrofluoric acid has been thoroughly investigated by assessing the effect of etchant concentration and etching time. The outcome of this investigation enables us to have precise control over the resulting geometry of nanopores arrays. As a result, guidelines for the creation of a-SiO2/Si templates with tunable parameters and general recommendations for their further application are presented. PMID:26878691

  9. Tunable nanoporous silicon oxide templates by swift heavy ion tracks technology

    NASA Astrophysics Data System (ADS)

    Kaniukov, E. Yu; Ustarroz, J.; Yakimchuk, D. V.; Petrova, M.; Terryn, H.; Sivakov, V.; Petrov, A. V.

    2016-03-01

    Nanoporous silicon oxide templates formed by swift heavy ion tracks technology have been investigated. The influence of the heavy ion characteristics, such as type of ion, energy, stopping power and irradiation fluence on the pore properties of the silicon oxide templates, has been studied. Furthermore, the process of pore formation by chemical etching with hydrofluoric acid has been thoroughly investigated by assessing the effect of etchant concentration and etching time. The outcome of this investigation enables us to have precise control over the resulting geometry of nanopores arrays. As a result, guidelines for the creation of a-SiO2/Si templates with tunable parameters and general recommendations for their further application are presented.

  10. Separation of ions using polyelectrolyte-modified nanoporous track-etched membranes.

    PubMed

    Armstrong, Jason A; Bernal, Edxon Eduardo Licón; Yaroshchuk, Andriy; Bruening, Merlin L

    2013-08-13

    Selective ion exclusion from charged nanopores in track-etched membranes allows separation of ions with different charges or mobilities. This study examines pressure-driven transport of dissolved ions through track-etched membranes modified by adsorption of poly(styrene sulfonate) (PSS)/protonated poly(allylamine) (PAH) films. For nominal 30 nm pores modified with a single layer of PSS, Br(-)/SO4(2-) selectivities are ∼3.4 with SO4(2-) rejections around 85% due to selective electrostatic exclusion of the divalent anion from the negatively charged pore. Corresponding membranes containing an adsorbed PSS/PAH bilayer are positively charged and exhibit average K(+)/Mg(2+) selectivities >10 at 8 mM ionic strength, and Mg(2+) rejections are >97.5% at ionic strengths <5 mM. The high rejection of Mg(2+) compared to SO4(2-) likely results from both a smaller pore size after deposition of the PAH layer and higher surface charge because of Mg(2+) adsorption. Simultaneous modeling of K(+) and Mg(2+) rejections using the nonlinearized Poisson-Boltzmann equation gives an average modified pore diameter of 8.4 ± 2.1 nm, which does not vary significantly with ionic strength. This diameter is smaller than that calculated from hydraulic permeabilities and estimated pore densities, suggesting that narrow regions near the pore entrance control ion transport. In addition to simple electrostatic exclusion, streaming potentials lead to differing rejections of Br(-) and acetate in PSS/PAH-modified pores, and of Li(+) and Cs(+) in PSS-modified pores. For these cases, electrical migration of ions toward the feed solution results in higher rejection of the more mobile ion. PMID:23902372

  11. Microdosimetry for a carbon ion beam using track-etched detectors.

    PubMed

    Ambrožová, I; Vondráček, V; Šefl, M; Štěpán, V; Pachnerová Brabcová, K; Ploc, O; Incerti, S; Davídková, M

    2015-09-01

    Track-etched detectors (TED) have been used as linear energy transfer (LET) spectrometers in heavy ion beams for many years. LET spectra and depth-dose distribution of a carbon ion beam were measured behind polymethylmethacrylate degraders at Heavy Ion Medical Accelerator in Chiba, Japan. The measurements were performed along monoenergetic beam with energy 290 MeV u(-1) in different positions: (1) at beam extraction area, (2) at beginning, (3) maximum and (4) behind the Bragg peak region (0, 117, 147 and 151 mm of water-equivalent depth, respectively). The LET spectra inside and outside of the primary ion beam have been evaluated. TED record only heavy charged particles with LET above 8-10 keV µm(-1), while electrons and ions with lower LET are not detected. The Geant4 simulation toolkit version 4.9.6.P01 has been used to estimate the contribution of non-detected particles to absorbed dose. Presented results demonstrate the applicability of TED for microdosimetry measurements in therapeutic carbon ion beams. PMID:25862534

  12. Atom ejection from a fast-ion track: A molecular-dynamics study

    SciTech Connect

    Urbassek, H.M. ); Kafemann, H. ); Johnson, R.E. )

    1994-01-01

    As a model for atom ejection from fast-ion tracks, molecular-dynamics simulations of a cylindrical track of energized particles are performed. An idealized situation is studied where every atom in a cylindrical track of radius [ital R][sub 0] is energized with energy [ital E][sub 0]. The emission yield [ital Y]([ital E][sub 0],[ital R][sub 0]) shows the existence of two ejection regimes. If the particle energy [ital E][sub 0] is below the sublimation energy [ital U] of the material, a threshold regime is seen in which [ital Y] rises roughly like the third power of [ital E][sub 0]; for high-energy densities [ital E][sub 0][approx gt][ital U], the yield rises much more slowly, roughly linearly. In both cases, ejected particles mostly originate from the track, rather than from its surroundings, and from the first or the first few monolayers. The behavior found is interpreted here in terms of emission due to a pressure-driven jet (linear regime) or due to a pressure pulse (threshold regime). These both behave differently from the often-used thermal-spike sputtering model.

  13. Rectangular Ion Funnel: A New Ion Funnel Interface for Structures for Lossless Ion Manipulations

    SciTech Connect

    Chen, Tsung-Chi; Webb, Ian K.; Prost, Spencer A.; Harrer, Marques B.; Norheim, Randolph V.; Tang, Keqi; Ibrahim, Yehia M.; Smith, Richard D.

    2015-01-06

    A recent achievement in Structures for Lossless Ion Manipulations (SLIM) is the ability for near lossless ion focusing, transfer, and trapping in sub-atmospheric pressure regions. While lossless ion manipulations are advantageously applied to the applications of ion mobility separations and gas phase reactions, ion introduction through ring electrode ion funnels or more conventional ion optics to SLIM can involve discontinuities in electric fields or other perturbations that result in ion losses. In this work, we investigated a new funnel design that aims to seamlessly couple to SLIM at the funnel exit. This rectangular ion funnel (RIF) was initially evaluated by ion simulations, fabricated utilizing printed circuit board technology and tested experimentally. The RIF was integrated to a SLIM-TOFMS system, and the operating parameters, including RF, DC bias of the RIF electrodes, and electric fields for effectively interfacing with a SLIM were characterized. The RIF provided a 2-fold sensitivity increase without significant discrimination over a wide m/z range along with greatly improved SLIM operational stability.

  14. Rectangular Ion Funnel: A New Ion Funnel Interface for Structures for Lossless Ion Manipulations

    PubMed Central

    2015-01-01

    Structures for lossless ion manipulations (SLIM) have recently demonstrated the ability for near lossless ion focusing, transfer, and trapping in subatmospheric pressure regions. While lossless ion manipulations are advantageously applied to the applications of ion mobility separations and gas phase reactions, ion introduction through ring electrode ion funnels or more conventional ion optics to SLIM can involve discontinuities in electric fields or other perturbations that result in ion losses. In this work, we developed and investigated a new funnel design that aims to seamlessly couple to SLIM at the funnel exit. This rectangular ion funnel (RIF) was initially evaluated by ion simulations, fabricated utilizing printed circuit board technology, and tested experimentally. The RIF was integrated to a SLIM-time of flight (TOF) MS system, and the operating parameters, including RF, DC bias of the RIF electrodes, and electric fields for effectively interfacing with a SLIM, were characterized. The RIF provided a 2-fold sensitivity increase without significant discrimination over a wide m/z range and well matched to that of SLIM, along with greatly improved SLIM operational stability. PMID:25409343

  15. Resonant structures in heavy-ion reactions

    SciTech Connect

    Sanders, S.J.; Henning, W.; Ernst, H.; Geesaman, D.F.; Jachcinski, C.; Kovar, D.G.; Paul, M.; Schiffer, J.P.

    1980-01-01

    An investigation of heavy-ion resonance structures using the /sup 24/Mg(/sup 16/O, /sup 12/C)/sup 28/Si reaction is presented. The data are analyzed in the context of Breit-Wigner resonances added to a direct-reaction background.

  16. Structural foundations of optogenetics: Determinants of channelrhodopsin ion selectivity.

    PubMed

    Berndt, Andre; Lee, Soo Yeun; Wietek, Jonas; Ramakrishnan, Charu; Steinberg, Elizabeth E; Rashid, Asim J; Kim, Hoseok; Park, Sungmo; Santoro, Adam; Frankland, Paul W; Iyer, Shrivats M; Pak, Sally; Ährlund-Richter, Sofie; Delp, Scott L; Malenka, Robert C; Josselyn, Sheena A; Carlén, Marie; Hegemann, Peter; Deisseroth, Karl

    2016-01-26

    The structure-guided design of chloride-conducting channelrhodopsins has illuminated mechanisms underlying ion selectivity of this remarkable family of light-activated ion channels. The first generation of chloride-conducting channelrhodopsins, guided in part by development of a structure-informed electrostatic model for pore selectivity, included both the introduction of amino acids with positively charged side chains into the ion conduction pathway and the removal of residues hypothesized to support negatively charged binding sites for cations. Engineered channels indeed became chloride selective, reversing near -65 mV and enabling a new kind of optogenetic inhibition; however, these first-generation chloride-conducting channels displayed small photocurrents and were not tested for optogenetic inhibition of behavior. Here we report the validation and further development of the channelrhodopsin pore model via crystal structure-guided engineering of next-generation light-activated chloride channels (iC++) and a bistable variant (SwiChR++) with net photocurrents increased more than 15-fold under physiological conditions, reversal potential further decreased by another ∼ 15 mV, inhibition of spiking faithfully tracking chloride gradients and intrinsic cell properties, strong expression in vivo, and the initial microbial opsin channel-inhibitor-based control of freely moving behavior. We further show that inhibition by light-gated chloride channels is mediated mainly by shunting effects, which exert optogenetic control much more efficiently than the hyperpolarization induced by light-activated chloride pumps. The design and functional features of these next-generation chloride-conducting channelrhodopsins provide both chronic and acute timescale tools for reversible optogenetic inhibition, confirm fundamental predictions of the ion selectivity model, and further elucidate electrostatic and steric structure-function relationships of the light-gated pore. PMID

  17. Ion-track based single-channel templates for single-nanowire contacting

    NASA Astrophysics Data System (ADS)

    Chtanko, N.; Toimil-Molares, M. E.; Cornelius, T. W.; Dobrev, D.; Neumann, R.

    2005-07-01

    This work reports a procedure for the fabrication of membranes containing only one single channel with diameter down to 20 nm and with well-defined geometry. Foils of different types of polymer (polyethylene terephthalate (PET) and polycarbonate (PC)) were tested with respect to their suitability as ion-track template for single-nanowire growth. Membranes with one pore were created by the track-etching technique. The pore size was characterized by electrical conductivity measurements in 1 M KCl. Furthermore, we developed also a method for the preparation and electrical contacting of single metallic nanowires. Cylindrical single pores were filled with Bi by electrochemical deposition. The resulting wires, remaining embedded in the polymer foil, are very suitable for measurements of electrical resistance as a function of parameters such as wire diameter and temperature.

  18. Analyzing and Tracking Burning Structures in Lean Premixed Hydrogen Flames

    SciTech Connect

    Bremer, Peer-Timo; Weber, Gunther; Pascucci, Valerio; Day, Marc; Bell, John

    2009-06-01

    This paper presents topology-based methods to robustly extract, analyze, and track features defined as subsets of isosurfaces. First, we demonstrate how features identified by thresholding isosurfaces can be defined in terms of the Morse complex. Second, we present a specialized hierarchy that encodes the feature segmentation independent of the threshold while still providing a flexible multi-resolution representation. Third, for a given parameter selection we create detailed tracking graphs representing the complete evolution of all features in a combustion simulation over several hundred time steps. Finally, we discuss a user interface that correlates the tracking information with interactive rendering of the segmented isosurfaces enabling an in-depth analysis of the temporal behavior. We demonstrate our approach by analyzing three numerical simulations of lean hydrogen flames subject to different levels of turbulence. Due to their unstable nature, lean flames burn in cells separated by locally extinguished regions. The number, area, and evolution over time of these cells provide important insights into the impact of turbulence on the combustion process. Utilizing the hierarchy we can perform an extensive parameter study without re-processing the data for each set of parameters. The resulting statistics enable scientist to select appropriate parameters and provide insight into the sensitivity of the results wrt. to the choice of parameters. Our method allows for the first time to quantitatively correlate the turbulence of the burning process with the distribution of burning regions, properly segmented and selected. In particular, our analysis shows that counter-intuitively stronger turbulence leads to larger cell structures, which burn more intensely than expected. This behavior suggests that flames could be stabilized under much leaner conditions than previously anticipated.

  19. Robustness of target dose coverage to motion uncertainties for scanned carbon ion beam tracking therapy of moving tumors

    NASA Astrophysics Data System (ADS)

    Eley, John Gordon; Newhauser, Wayne David; Richter, Daniel; Lüchtenborg, Robert; Saito, Nami; Bert, Christoph

    2015-02-01

    Beam tracking with scanned carbon ion radiotherapy achieves highly conformal target dose by steering carbon pencil beams to follow moving tumors using real-time magnetic deflection and range modulation. The purpose of this study was to evaluate the robustness of target dose coverage from beam tracking in light of positional uncertainties of moving targets and beams. To accomplish this, we simulated beam tracking for moving targets in both water phantoms and a sample of lung cancer patients using a research treatment planning system. We modeled various deviations from perfect tracking that could arise due to uncertainty in organ motion and limited precision of a scanned ion beam tracking system. We also investigated the effects of interfractional changes in organ motion on target dose coverage by simulating a complete course of treatment using serial (weekly) 4DCTs from six lung cancer patients. For perfect tracking of moving targets, we found that target dose coverage was high ({{\\overline{V}}95} was 94.8% for phantoms and 94.3% for lung cancer patients, respectively) but sensitive to changes in the phase of respiration at the start of treatment and to the respiratory period. Phase delays in tracking the moving targets led to large degradation of target dose coverage (up to 22% drop for a 15° delay). Sensitivity to technical uncertainties in beam tracking delivery was minimal for a lung cancer case. However, interfractional changes in anatomy and organ motion led to large decreases in target dose coverage (target coverage dropped approximately 8% due to anatomy and motion changes after 1 week). Our findings provide a better understand of the importance of each of these uncertainties for beam tracking with scanned carbon ion therapy and can be used to inform the design of future scanned ion beam tracking systems.

  20. Robustness of target dose coverage to motion uncertainties for scanned carbon ion beam tracking therapy of moving tumors.

    PubMed

    Eley, John Gordon; Newhauser, Wayne David; Richter, Daniel; Lüchtenborg, Robert; Saito, Nami; Bert, Christoph

    2015-02-21

    Beam tracking with scanned carbon ion radiotherapy achieves highly conformal target dose by steering carbon pencil beams to follow moving tumors using real-time magnetic deflection and range modulation. The purpose of this study was to evaluate the robustness of target dose coverage from beam tracking in light of positional uncertainties of moving targets and beams. To accomplish this, we simulated beam tracking for moving targets in both water phantoms and a sample of lung cancer patients using a research treatment planning system. We modeled various deviations from perfect tracking that could arise due to uncertainty in organ motion and limited precision of a scanned ion beam tracking system. We also investigated the effects of interfractional changes in organ motion on target dose coverage by simulating a complete course of treatment using serial (weekly) 4DCTs from six lung cancer patients. For perfect tracking of moving targets, we found that target dose coverage was high ([Formula: see text] was 94.8% for phantoms and 94.3% for lung cancer patients, respectively) but sensitive to changes in the phase of respiration at the start of treatment and to the respiratory period. Phase delays in tracking the moving targets led to large degradation of target dose coverage (up to 22% drop for a 15° delay). Sensitivity to technical uncertainties in beam tracking delivery was minimal for a lung cancer case. However, interfractional changes in anatomy and organ motion led to large decreases in target dose coverage (target coverage dropped approximately 8% due to anatomy and motion changes after 1 week). Our findings provide a better understand of the importance of each of these uncertainties for beam tracking with scanned carbon ion therapy and can be used to inform the design of future scanned ion beam tracking systems. PMID:25650520

  1. Robustness of Target Dose Coverage to Motion Uncertainties for Scanned Carbon Ion Beam Tracking Therapy of Moving Tumors

    PubMed Central

    Eley, John Gordon; Newhauser, Wayne David; Richter, Daniel; Lüchtenborg, Robert; Saito, Nami; Bert, Christoph

    2015-01-01

    Beam tracking with scanned carbon ion radiotherapy achieves highly conformal target dose by steering carbon pencil beams to follow moving tumors using real-time magnetic deflection and range modulation. The purpose of this study was to evaluate the robustness of target dose coverage from beam tracking in light of positional uncertainties of moving targets and beams. To accomplish this, we simulated beam tracking for moving targets in both water phantoms and a sample of lung cancer patients using a research treatment planning system. We modeled various deviations from perfect tracking that could arise due to uncertainty in organ motion and limited precision of a scanned ion beam tracking system. We also investigated the effects of interfractional changes in organ motion on target dose coverage by simulating a complete course of treatment using serial (weekly) 4DCTs from 6 lung cancer patients. For perfect tracking of moving targets, we found that target dose coverage was high (V̄95 was 94.8% for phantoms and 94.3% for lung cancer patients, respectively) but sensitive to changes in the phase of respiration at the start of treatment and to the respiratory period. Phase delays in tracking the moving targets led to large degradation of target dose coverage (up to 22% drop for a 15 degree delay). Sensitivity to technical uncertainties in beam tracking delivery was minimal for a lung cancer case. However, interfractional changes in anatomy and organ motion led to large decreases in target dose coverage (target coverage dropped approximately 8% due to anatomy and motion changes after 1 week). Our findings provide a better understand of the importance of each of these uncertainties for beam tracking with scanned carbon ion therapy and can be used to inform the design of future scanned ion beam tracking systems. PMID:25650520

  2. Structural foundations of optogenetics: Determinants of channelrhodopsin ion selectivity

    PubMed Central

    Berndt, Andre; Lee, Soo Yeun; Wietek, Jonas; Ramakrishnan, Charu; Steinberg, Elizabeth E.; Rashid, Asim J.; Kim, Hoseok; Park, Sungmo; Santoro, Adam; Frankland, Paul W.; Iyer, Shrivats M.; Pak, Sally; Ährlund-Richter, Sofie; Delp, Scott L.; Malenka, Robert C.; Josselyn, Sheena A.; Carlén, Marie; Hegemann, Peter; Deisseroth, Karl

    2016-01-01

    The structure-guided design of chloride-conducting channelrhodopsins has illuminated mechanisms underlying ion selectivity of this remarkable family of light-activated ion channels. The first generation of chloride-conducting channelrhodopsins, guided in part by development of a structure-informed electrostatic model for pore selectivity, included both the introduction of amino acids with positively charged side chains into the ion conduction pathway and the removal of residues hypothesized to support negatively charged binding sites for cations. Engineered channels indeed became chloride selective, reversing near −65 mV and enabling a new kind of optogenetic inhibition; however, these first-generation chloride-conducting channels displayed small photocurrents and were not tested for optogenetic inhibition of behavior. Here we report the validation and further development of the channelrhodopsin pore model via crystal structure-guided engineering of next-generation light-activated chloride channels (iC++) and a bistable variant (SwiChR++) with net photocurrents increased more than 15-fold under physiological conditions, reversal potential further decreased by another ∼15 mV, inhibition of spiking faithfully tracking chloride gradients and intrinsic cell properties, strong expression in vivo, and the initial microbial opsin channel-inhibitor–based control of freely moving behavior. We further show that inhibition by light-gated chloride channels is mediated mainly by shunting effects, which exert optogenetic control much more efficiently than the hyperpolarization induced by light-activated chloride pumps. The design and functional features of these next-generation chloride-conducting channelrhodopsins provide both chronic and acute timescale tools for reversible optogenetic inhibition, confirm fundamental predictions of the ion selectivity model, and further elucidate electrostatic and steric structure–function relationships of the light-gated pore. PMID

  3. Ion track symmetric and asymmetric nanopores in polyethylene terephthalate foils for versatile applications

    NASA Astrophysics Data System (ADS)

    Apel, P. Yu.; Blonskaya, I. V.; Dmitriev, S. N.; Orelovich, O. L.; Sartowska, B. A.

    2015-12-01

    In this report we present several fabrication methods which allow production of ion track nanopore membranes with different pore configurations. Polymer foils, typically polyethylene terephthalate with a thickness of 5-23 μm, are irradiated with accelerated heavy ions (energy of 1-10 MeV/u) and then subjected to different physico-chemical treatments. Depending on the procedure, symmetric or asymmetric pores with nanoscale-sized narrowing are obtained. The asymmetric configurations include conical, funnel-like and bullet-like shapes. In electrolyte solutions the asymmetric nanopores exhibit diode-like properties which strongly depend on the pore shape. The peculiar features of such pores provide a basis for various applications.

  4. Efficient parallel algorithm for statistical ion track simulations in crystalline materials

    NASA Astrophysics Data System (ADS)

    Jeon, Byoungseon; Grønbech-Jensen, Niels

    2009-02-01

    We present an efficient parallel algorithm for statistical Molecular Dynamics simulations of ion tracks in solids. The method is based on the Rare Event Enhanced Domain following Molecular Dynamics (REED-MD) algorithm, which has been successfully applied to studies of, e.g., ion implantation into crystalline semiconductor wafers. We discuss the strategies for parallelizing the method, and we settle on a host-client type polling scheme in which a multiple of asynchronous processors are continuously fed to the host, which, in turn, distributes the resulting feed-back information to the clients. This real-time feed-back consists of, e.g., cumulative damage information or statistics updates necessary for the cloning in the rare event algorithm. We finally demonstrate the algorithm for radiation effects in a nuclear oxide fuel, and we show the balanced parallel approach with high parallel efficiency in multiple processor configurations.

  5. Optimal Variable-Structure Control Tracking of Spacecraft Maneuvers

    NASA Technical Reports Server (NTRS)

    Crassidis, John L.; Vadali, Srinivas R.; Markley, F. Landis

    1999-01-01

    An optimal control approach using variable-structure (sliding-mode) tracking for large angle spacecraft maneuvers is presented. The approach expands upon a previously derived regulation result using a quaternion parameterization for the kinematic equations of motion. This parameterization is used since it is free of singularities. The main contribution of this paper is the utilization of a simple term in the control law that produces a maneuver to the reference attitude trajectory in the shortest distance. Also, a multiplicative error quaternion between the desired and actual attitude is used to derive the control law. Sliding-mode switching surfaces are derived using an optimal-control analysis. Control laws are given using either external torque commands or reaction wheel commands. Global asymptotic stability is shown for both cases using a Lyapunov analysis. Simulation results are shown which use the new control strategy to stabilize the motion of the Microwave Anisotropy Probe spacecraft.

  6. Fabrication of hard-coated optical absorbers with microstructured surfaces using etched ion tracks: Toward broadband ultra-low reflectance

    NASA Astrophysics Data System (ADS)

    Amemiya, Kuniaki; Koshikawa, Hiroshi; Yamaki, Tetsuya; Maekawa, Yasunari; Shitomi, Hiroshi; Numata, Takayuki; Kinoshita, Kenichi; Tanabe, Minoru; Fukuda, Daiji

    2015-08-01

    Broadband low reflectance materials have various applications in the field of optical energy management; however, materials with ultra-low reflectance (below 0.1%) have been considered as mechanically delicate. We have developed a novel hard-surface optical absorber with microstructured, diamond-like carbon coated ion tracks on CR-39 plastic substrate. The spectral reflectance of the first prototype was below 2% for wavelengths ranging from 400 nm to 1400 nm; moreover, the optical absorber had mechanically hard surface and exhibited temporal durability. Choosing the appropriate design of the surface structure and coating layer is likely to reduce the reflectance to the order of 0.1%. This technique yields easy-to-handle broadband ultra-low reflectance absorbers.

  7. 3D Visualization of Monte-Carlo Simulation's of HZE Track Structure and Initial Chemical Species

    NASA Technical Reports Server (NTRS)

    Plante, Ianik; Cucinotta, Francis A.

    2009-01-01

    Heavy ions biophysics is important for space radiation risk assessment [1] and hadron-therapy [2]. The characteristic of heavy ions tracks include a very high energy deposition region close to the track (<20 nm) denoted as the track core, and an outer penumbra region consisting of individual secondary electrons (6-rays). A still open question is the radiobiological effects of 6- rays relative to the track core. Of importance is the induction of double-strand breaks (DSB) [3] and oxidative damage to the biomolecules and the tissue matrix, considered the most important lesions for acute and long term effects of radiation. In this work, we have simulated a 56Fe26+ ion track of 1 GeV/amu with our Monte-Carlo code RITRACKS [4]. The simulation results have been used to calculate the energy depiction and initial chemical species in a "voxelized" space, which is then visualized in 3D. Several voxels with dose >1000 Gy are found in the penumbra, some located 0.1 mm from the track core. In computational models, the DSB induction probability is calculated with radial dose [6], which may not take into account the higher RBE of electron track ends for DSB induction. Therefore, these simulations should help improve models of DSB induction and our understanding of heavy ions biophysics.

  8. Early stage of the electron kinetics in swift heavy ion tracks in dielectrics

    SciTech Connect

    Medvedev, N. A.; Rethfeld, B.; Volkov, A. E.; Shcheblanov, N. S.

    2010-09-15

    A Monte Carlo approach was applied for simulations of the early stage (first tens of femtosecond) of kinetics of the electronic subsystem of silica (SiO{sub 2}) in tracks of swift heavy ions (SHIs) decelerated in the electronic stopping regime. At the first step multiple ionizations of target atoms by a projectile (Ca{sup +19}, E=11.4 MeV/amu) were described that gave the initial spatial distributions of free electrons having different momenta as well as distributions of holes in different atomic shells. Spatial propagation of fast electrons results in secondary ionizations of target atoms as well as in energy transfer to the lattice at times much shorter than the times of atomic oscillations (phonons). The well detected front of excitation in the electronic and ionic subsystems is formed due to this propagation which cannot be described by models based on diffusion mechanisms (e.g., parabolic equations of heat diffusion). At times {approx}10 fs after the projectile passage, about {approx}0.1% of the energy is already transferred to the lattice. About 63% of the energy deposited by the ion is accumulated in holes at these times. Calculated distributions of these holes through the atomic shells are in excellent agreement with the spectroscopy experiments. Comparison with these experiments demonstrated also that relaxation of the electronic subsystem in SHI tracks in solids cannot be described adequately without taking into account intra-atomic and interatomic Auger (Knotek-Feibelman) processes.

  9. Data Analysis of Tracks of Heavy Ion Particles in Timepix Detector

    NASA Astrophysics Data System (ADS)

    Hoang, S.; Vilalta, R.; Pinsky, L.; Kroupa, M.; Stoffle, N.; Idarraga, J.

    2014-06-01

    In this paper, we describe some of the computational challenges that need to be addressed when developing active Space Radiation Monitors and Dosimeters using the Timepix detectors developed by the Medipix2 Collaboration at CERN. Measurement of the Linear Energy Transfer (LET), the source and velocity of incident ionizing radiation, are of initial interest when developing such operational devices because they provide the capability to calculate the Dose-equivalent, and to characterize the radiation field for the design of radiation protective devices. In order to facilitate the LET measurement, we first propose a new method for calculating azimuth direction and polar angle of individual tracks of penetrating charged particles based on the pixel clusters they produce. We then describe an energy compensation method for heavy ion tracks suffering from saturation and plasma effects. Finally, we identify interactions within the detector that need to be excluded from the total effective Dose-Equivalent assessment. We make use of data taken at the HIMAC (Heavy Ion Medical Accelerator Center) facility in Chiba, Japan and NSRL (NASA Space Radiation Laboratory) at the Brookhaven National Laboratory in New York, USA for evaluation purposes.

  10. Making porous membranes by chemical etching of heavy-ion tracks in β-PVDF films

    NASA Astrophysics Data System (ADS)

    Grasselli, M.; Betz, N.

    2005-07-01

    Production of porous membranes using heavy ion bombardment and subsequent chemical etching of poly(vinylidene difluoride) (PVDF) films has been reported several years ago. However, porous membranes with pore diameter in the nanometer scale requires a better understanding of the chemical etching mechanism. In this work PVDF foils irradiated with Sn ions (2.85 MeV per nucleon) were exposed to several etching conditions which involved permanganate oxidation in different alkaline environments. The solution of KOH 9 mol L-1 and saturated in KMnO4 was the best etching reactant for PVDF. Functional groups created in the alkaline and oxidative attack by permanganate were studied by FT-IR and UV-vis spectroscopy. The spectroscopic data reveals that the formation of pores occurs by a two-step mechanism: (i) double bonds as a result of dehydrofluorination induced by alkaline media and (ii) oxidation of these double bonds in permanganate solution. The etching temperature and time can be attuned to prepare track-etched membrane with a desired pore diameter in the range of few hundred nanometers. Temperatures ranged between 55 °C and 65 °C were optimal to produce cylindrical pores. Temperatures higher than 85 °C induce conical-shaped track-etched pores while temperatures lower than 50 °C slow down the chemical attack. The addition of a phase-transfer agent enhances the chemical attack and allows the decrease of the etching temperature and/or time.

  11. The effect of track structure on the induction of chromosomal aberrations in murine cells

    NASA Technical Reports Server (NTRS)

    Durante, M.; Cella, L.; Furusawa, Y.; George, K.; Gialanella, G.; Grossi, G.; Pugliese, M.; Saito, M.; Yang, T. C.

    1998-01-01

    PURPOSE: To measure chromosome aberrations in C3H 10T1/2 mouse fibroblasts using FISH painting at the first mitosis following exposure to 30 keV/microm hydrogen or neon ions. MATERIALS AND METHODS: Cells in plateau-phase were irradiated with 0.86 MeV protons at the TTT-3 Tandem accelerator in Naples (Italy), or with 400 MeV/n Ne ions at the HIMAC accelerator in Chiba (Japan). Colcemid-blocked cells were harvested at the first mitosis following exposure, and chromosome spreads were hybridized in situ with a fluorescein-labelled composite mouse DNA probe specific for chromosomes 2 and 8. RESULTS: Protons were more efficient than neon ions at the same LET in the induction of chromosome interchanges and breaks. Yields of complex exchanges were similar for both particles at the same dose, but protons produced mostly insertions, while with Ne exposure non-reciprocal exchanges were the most frequent complex-type exchange. CONCLUSIONS: Charged particles with the same LET produce different yields of chromosome aberrations, and some observed differences can be explained based on the available track-structure models.

  12. The structure of the dithionite ion

    NASA Astrophysics Data System (ADS)

    Peter, L.; Meyer, B.

    The Raman spectra of aqueous and solid sodium dithionite have been recorded. Differences in the location, intensity, and number of observed bands are attributed to conformational changes in the dithionite ion. The structure of the aqueous ion is non-planar with a C2h symmetry with an SS bond distance estimated to be 0.220-0.226 nm, as opposed to the dithionite structure in the Na2S2O4·2H2O salt which is known to have C2ν structure with a bond distance of 0.2389 nm. The Raman spectra of aqueous dithionite are assigned to Ag (SO) = 997 cm-1; Bg (SO) at 912 cm-1, Bg SO2 twist at 324 cm-1. The remaining bands are a strong Ag, the SO2 wag, the SO2 scissor, and the SS stretch at 584, 461, and 232 cm-1, respectively, but due to coupling all three motions are expected to exhibit substantial SS character. The variation of the spectra of the solid and aqueous sodium dithionite indicate strong environmental effect on the structure of the anion.

  13. The structure of the dithionite ion

    NASA Astrophysics Data System (ADS)

    Peter, L.; Meyer, B.

    1982-11-01

    The Raman spectra of aqueous and solid sodium dithionite have been recorded. Differences in the location, intensity, and number of observed bands are attributed to conformational changes in the dithionite ion. The structure of the aqueous ion is non-planar with a C2h symmetry with an SS bond distance estimated to be 0.220-0.226 nm, as opposed to the dithionite structure in the Na 2S 2O 4·2H 2O salt which is known to have C2 ν structure with a bond distance of 0.2389 nm. The Raman spectra of aqueous dithionite are assigned to Ag (SO) = 997 cm -1; Bg (SO) at 912 cm -1, Bg SO 2 twist at 324 cm -1. The remaining bands are a strong Ag, the SO 2 wag, the SO 2 scissor, and the SS stretch at 584, 461, and 232 cm -1, respectively, but due to coupling all three motions are expected to exhibit substantial SS character. The variation of the spectra of the solid and aqueous sodium dithionite indicate strong environmental effect on the structure of the anion.

  14. Jet Structure in Heavy Ion Collisions

    NASA Astrophysics Data System (ADS)

    Blaizot, J.-P.; Mehtar-Tani, Y.

    We review recent theoretical developments in the study of the structure of jets that are produced in ultra relativistic heavy ion collisions. The core of the review focusses on the dynamics of the parton cascade that is induced by the interactions of a fast parton crossing a quark-gluon plasma. We recall the basic mechanisms responsible for medium induced radiation, underline the rapid disappearance of coherence effects, and the ensuing probabilistic nature of the medium induced cascade. We discuss how large radiative corrections modify the classical picture of the gluon cascade, and how these can be absorbed in a renormalization of the jet quenching parameter hat q. Then, we analyze the (wave)-turbulent transport of energy along the medium induced cascade, and point out the main characteristics of the angular structure of such a cascade. Finally, color decoherence of the incone jet structure is discussed. Modest contact with phenomenology is presented towards the end of the review.

  15. Tracks to therapy

    NASA Technical Reports Server (NTRS)

    Katz, R.; Cucinotta, F. A.

    1999-01-01

    Studies of the structure of particle tracks have led to models of track effects based on radial dose and radiobiological target theory that have been very successful in describing and predicting track effects in physical, chemical, and biological systems. For describing mammalian cellular inactivation two inactivation modes are required, called gamma-kill and ion-kill, the first due to synergistic effects of delta rays from adjacent ion paths thus resembling the effects from gamma rays, and the second to the effects of single ion transits through a cell nucleus. The ion-kill effect is more severe, where the fraction of cells experiencing ion kill is responsible for a decrease in the oxygen enhancement ratio, and an increase in relative biological effectiveness, but these are accompanied by loss of repair, hence to a reduction in the efficiency of fractionation in high LET therapy, as shown by our calculations for radiobiological effects in the "spread out Bragg Peak".

  16. Differential thermal voltammetry for tracking of degradation in lithium-ion batteries

    NASA Astrophysics Data System (ADS)

    Wu, Billy; Yufit, Vladimir; Merla, Yu; Martinez-Botas, Ricardo F.; Brandon, Nigel P.; Offer, Gregory J.

    2015-01-01

    Monitoring of lithium-ion batteries is of critical importance in electric vehicle applications in order to manage the operational condition of the cells. Measurements on a vehicle often involve current, voltage and temperature which enable in-situ diagnostic techniques. This paper presents a novel diagnostic technique, termed differential thermal voltammetry, which is capable of monitoring the state of the battery using voltage and temperature measurements in galvanostatic operating modes. This tracks battery degradation through phase transitions, and the resulting entropic heat, occurring in the electrodes. Experiments to monitor battery degradation using the new technique are compared with a pseudo-2D cell model. Results show that the differential thermal voltammetry technique provides information comparable to that of slow rate cyclic voltammetry at shorter timescale and with load conditions easier to replicate in a vehicle.

  17. Sodium hypochlorite as a developer for heavy ion tracks in polyimide

    NASA Astrophysics Data System (ADS)

    Klintberg, Lena; Lindeberg, Mikael; Thornell, Greger

    2001-12-01

    The developing and etching of heavy ion tracks in polyimide with sodium hypochlorite have been studied to gain control over the parameters that affect the etch result. The shape of the resulting pores is a function of both alkalinity and hypochlorite content of the solution. Sodium hypochlorite decomposes during etching, and the rate constant has been determined as a function of the alkalinity at 62 °C. Polished cross-sections have been examined to determine the pore shape, and this method has shown to be a straightforward way to characterise the pores. Decreasing the alkalinity gives more cylindrical pores, but increases the decomposition rate of the hypochlorite solution and decreases the etch rate.

  18. Growth and morphological analysis of segmented AuAg alloy nanowires created by pulsed electrodeposition in ion-track etched membranes

    PubMed Central

    Burr, Loic; Trautmann, Christina; Toimil-Molares, Maria Eugenia

    2015-01-01

    Summary Background: Multicomponent heterostructure nanowires and nanogaps are of great interest for applications in sensorics. Pulsed electrodeposition in ion-track etched polymer templates is a suitable method to synthesise segmented nanowires with segments consisting of two different types of materials. For a well-controlled synthesis process, detailed analysis of the deposition parameters and the size-distribution of the segmented wires is crucial. Results: The fabrication of electrodeposited AuAg alloy nanowires and segmented Au-rich/Ag-rich/Au-rich nanowires with controlled composition and segment length in ion-track etched polymer templates was developed. Detailed analysis by cyclic voltammetry in ion-track membranes, energy-dispersive X-ray spectroscopy and scanning electron microscopy was performed to determine the dependency between the chosen potential and the segment composition. Additionally, we have dissolved the middle Ag-rich segments in order to create small nanogaps with controlled gap sizes. Annealing of the created structures allows us to influence their morphology. Conclusion: AuAg alloy nanowires, segmented wires and nanogaps with controlled composition and size can be synthesised by electrodeposition in membranes, and are ideal model systems for investigation of surface plasmons. PMID:26199830

  19. A Phase-tracking Snow Micro-structure Model

    NASA Astrophysics Data System (ADS)

    Slaughter, A. E.; Zabaras, N.

    2012-12-01

    Utilizing a methodology derived from models for phase transitions in alloy solidification [1], a 3D finite element (FE) model for snow metamorphism was developed. Avalanches are known to occur due to the existence of a weak-layer of faceted crystals, which form due to temperature gradients within the snow through a process known as kinetic metamorphism [2]. In general, snow models are limited in their ability to model these microstructural changes, especially in three dimensions, and rely on effective properties. To enhance the tools available to avalanche researchers a finite element model was developed capable of tracking vapor deposition within the snow. This is accomplished using a fixed-domain, stabilized finite element solution for the energy, mass, momentum, and transport equations. Using a level-set parameter the domain is separated into either solid or fluid components and along the phase-change boundary a "mushy-zone" is establish [1, 3]. This zone is modeled as porous media that includes the effects of shrinkage and density changes [1]. The basis of the model is the open-source C++ libMesh FE library, as such the model includes adaptive mesh coarsening and refinement and relies on domain decomposition for optimum parallel performance. This work is the initial phase of an ongoing research project that aims to demonstrate the ability to model snow at the micro-structural level and move away from the common coarse, effective property modeling techniques. It will serve as the deterministic basis for a multi-scale, stochastic model of snow that will account for uncertainties such as poorly understood growth properties and measurement variability. Future applications may include the inclusion of liquid melt and include external forces, yielding a comprehensive thermo-mechanical model that could evolve and fracture. [1] D. Samanta, N. Zabaras (2005), Modelling convection in solidification processes using stabilized finite element techniques, J. Numer. Meth. Eng

  20. Synergy of elastic and inelastic energy loss on ion track formation in SrTiO3

    SciTech Connect

    Weber, William J.; Zarkadoula, Eva; Pakarinen, Olli H.; Sachan, Ritesh; Chisholm, Matthew F.; Liu, Peng; Xue, Haizhou; Jin, Ke; Zhang, Yanwen

    2015-01-12

    While the interaction of energetic ions with solids is well known to result in inelastic energy loss to electrons and elastic energy loss to atomic nuclei in the solid, the coupled effects of these energy losses on defect production, nanostructure evolution and phase transformations in ionic and covalently bonded materials are complex and not well understood due to dependencies on electron-electron scattering processes, electron-phonon coupling, localized electronic excitations, diffusivity of charged defects, and solid-state radiolysis. Here we show that a colossal synergy occurs between inelastic energy loss and pre-existing atomic defects created by elastic energy loss in single crystal strontium titanate (SrTiO3), resulting in the formation of nanometer-sized amorphous tracks, but only in the narrow region with pre-existing defects. These defects locally decrease the electronic and atomic thermal conductivities and increase electron-phonon coupling, which locally increase the intensity of the thermal spike for each ion. This work identifies a major gap in understanding on the role of defects in electronic energy dissipation and electron-phonon coupling; it also provides insights for creating novel interfaces and nanostructures to functionalize thin film structures, including tunable electronic, ionic, magnetic and optical properties.

  1. Synergy of elastic and inelastic energy loss on ion track formation in SrTiO3

    DOE PAGESBeta

    Weber, William J.; Zarkadoula, Eva; Pakarinen, Olli H.; Sachan, Ritesh; Chisholm, Matthew F.; Liu, Peng; Xue, Haizhou; Jin, Ke; Zhang, Yanwen

    2015-01-12

    While the interaction of energetic ions with solids is well known to result in inelastic energy loss to electrons and elastic energy loss to atomic nuclei in the solid, the coupled effects of these energy losses on defect production, nanostructure evolution and phase transformations in ionic and covalently bonded materials are complex and not well understood due to dependencies on electron-electron scattering processes, electron-phonon coupling, localized electronic excitations, diffusivity of charged defects, and solid-state radiolysis. Here we show that a colossal synergy occurs between inelastic energy loss and pre-existing atomic defects created by elastic energy loss in single crystal strontiummore » titanate (SrTiO3), resulting in the formation of nanometer-sized amorphous tracks, but only in the narrow region with pre-existing defects. These defects locally decrease the electronic and atomic thermal conductivities and increase electron-phonon coupling, which locally increase the intensity of the thermal spike for each ion. This work identifies a major gap in understanding on the role of defects in electronic energy dissipation and electron-phonon coupling; it also provides insights for creating novel interfaces and nanostructures to functionalize thin film structures, including tunable electronic, ionic, magnetic and optical properties.« less

  2. Tumor tracking based on correlation models in scanned ion beam therapy: an experimental study.

    PubMed

    Seregni, M; Kaderka, R; Fattori, G; Riboldi, M; Pella, A; Constantinescu, A; Saito, N; Durante, M; Cerveri, P; Bert, C; Baroni, G

    2013-07-01

    Accurate dose delivery to extra-cranial lesions requires tumor motion compensation. An effective compensation can be achieved by real-time tracking of the target position, either measured in fluoroscopy or estimated through correlation models as a function of external surrogate motion. In this work, we integrated two internal/external correlation models (a state space model and an artificial neural network-based model) into a custom infra-red optical tracking system (OTS). Dedicated experiments were designed and conducted at GSI (Helmholtzzentrum für Schwerionenforschung). A robotic breathing phantom was used to reproduce regular and irregular internal target motion as well as external thorax motion. The position of a set of markers placed on the phantom thorax was measured with the OTS and used by the correlation models to infer the internal target position in real-time. Finally, the estimated target position was provided as input for the dynamic steering of a carbon ion beam. Geometric results showed that the correlation models transversal (2D) targeting error was always lower than 1.3 mm (root mean square). A significant decrease of the dosimetric error with respect to the uncompensated irradiation was achieved in four out of six experiments, demonstrating that phase shifts are the most critical irregularity for external/internal correlation models. PMID:23774669

  3. Tumor tracking based on correlation models in scanned ion beam therapy: an experimental study

    NASA Astrophysics Data System (ADS)

    Seregni, M.; Kaderka, R.; Fattori, G.; Riboldi, M.; Pella, A.; Constantinescu, A.; Saito, N.; Durante, M.; Cerveri, P.; Bert, C.; Baroni, G.

    2013-07-01

    Accurate dose delivery to extra-cranial lesions requires tumor motion compensation. An effective compensation can be achieved by real-time tracking of the target position, either measured in fluoroscopy or estimated through correlation models as a function of external surrogate motion. In this work, we integrated two internal/external correlation models (a state space model and an artificial neural network-based model) into a custom infra-red optical tracking system (OTS). Dedicated experiments were designed and conducted at GSI (Helmholtzzentrum für Schwerionenforschung). A robotic breathing phantom was used to reproduce regular and irregular internal target motion as well as external thorax motion. The position of a set of markers placed on the phantom thorax was measured with the OTS and used by the correlation models to infer the internal target position in real-time. Finally, the estimated target position was provided as input for the dynamic steering of a carbon ion beam. Geometric results showed that the correlation models transversal (2D) targeting error was always lower than 1.3 mm (root mean square). A significant decrease of the dosimetric error with respect to the uncompensated irradiation was achieved in four out of six experiments, demonstrating that phase shifts are the most critical irregularity for external/internal correlation models.

  4. Co-visualization of DNA damage and ion traversals in live mammalian cells using a fluorescent nuclear track detector.

    PubMed

    Kodaira, Satoshi; Konishi, Teruaki; Kobayashi, Alisa; Maeda, Takeshi; Ahmad, Tengku Ahbrizal Farizal Tengku; Yang, Gen; Akselrod, Mark S; Furusawa, Yoshiya; Uchihori, Yukio

    2015-03-01

    The geometric locations of ion traversals in mammalian cells constitute important information in the study of heavy ion-induced biological effect. Single ion traversal through a cellular nucleus produces complex and massive DNA damage at a nanometer level, leading to cell inactivation, mutations and transformation. We present a novel approach that uses a fluorescent nuclear track detector (FNTD) for the simultaneous detection of the geometrical images of ion traversals and DNA damage in single cells using confocal microscopy. HT1080 or HT1080-53BP1-GFP cells were cultured on the surface of a FNTD and exposed to 5.1-MeV/n neon ions. The positions of the ion traversals were obtained as fluorescent images of a FNTD. Localized DNA damage in cells was identified as fluorescent spots of γ-H2AX or 53BP1-GFP. These track images and images of damaged DNA were obtained in a short time using a confocal laser scanning microscope. The geometrical distribution of DNA damage indicated by fluorescent γ-H2AX spots in fixed cells or fluorescent 53BP1-GFP spots in living cells was found to correlate well with the distribution of the ion traversals. This method will be useful for evaluating the number of ion hits on individual cells, not only for micro-beam but also for random-beam experiments. PMID:25324538

  5. Structure and selectivity in bestrophin ion channels

    DOE PAGESBeta

    Yang, Tingting; Liu, Qun; Kloss, Brian; Bruni, Renato; Kalathur, Ravi C.; Guo, Youzhong; Kloppmann, Edda; Rost, Burkhard; Colecraft, Henry M.; Hendrickson, Wayne A.

    2014-09-25

    Human bestrophin 1 (hBest1) is a calcium-activated chloride channel from the retinal pigment epithelium, where it can suffer mutations associated with vitelliform macular degeneration, or Best disease. We describe the structure of a bacterial homolog (KpBest) of hBest1 and functional characterizations of both channels. KpBest is a pentamer that forms a five-helix transmembrane pore, closed by three rings of conserved hydrophobic residues, and has a cytoplasmic cavern with a restricted exit. From electrophysiological analysis of structure-inspired mutations in KpBest and hBest1, we find a subtle control of ion selectivity in the bestrophins, including reversal of anion/cation selectivity, and dramatic activationmore » by mutations at the exit restriction. Lastly, a homology model of hBest1 shows the locations of disease-causing mutations and suggests possible roles in regulation.« less

  6. Structure and selectivity in bestrophin ion channels

    SciTech Connect

    Yang, Tingting; Liu, Qun; Kloss, Brian; Bruni, Renato; Kalathur, Ravi C.; Guo, Youzhong; Kloppmann, Edda; Rost, Burkhard; Colecraft, Henry M.; Hendrickson, Wayne A.

    2014-09-25

    Human bestrophin 1 (hBest1) is a calcium-activated chloride channel from the retinal pigment epithelium, where it can suffer mutations associated with vitelliform macular degeneration, or Best disease. We describe the structure of a bacterial homolog (KpBest) of hBest1 and functional characterizations of both channels. KpBest is a pentamer that forms a five-helix transmembrane pore, closed by three rings of conserved hydrophobic residues, and has a cytoplasmic cavern with a restricted exit. From electrophysiological analysis of structure-inspired mutations in KpBest and hBest1, we find a subtle control of ion selectivity in the bestrophins, including reversal of anion/cation selectivity, and dramatic activation by mutations at the exit restriction. Lastly, a homology model of hBest1 shows the locations of disease-causing mutations and suggests possible roles in regulation.

  7. Defining the Biological Effectiveness of Components of High-LET Track Structure.

    PubMed

    Sridharan, Deepa M; Chappell, Lori J; Whalen, Mary K; Cucinotta, Francis A; Pluth, Janice M

    2015-07-01

    During space travel, astronauts are exposed to a wide array of high-linear energy transfer (LET) particles, with differing energies and resulting biological effects. Risk assessment of these exposures carries a large uncertainty predominantly due to the unique track structure of the particle's energy deposition. The complex damage elicited by high charge and energy (HZE) particles results from both lesions along the track core and from energetic electrons, δ rays, generated as a consequence of particle traversal. To better define how cells respond to this complex radiation exposure, a normal hTERT immortalized skin fibroblast cell line was exposed to a defined panel of particles carefully chosen to tease out track structure effects. Phosphorylation kinetics for several key double-strand break (DSB) response proteins (γ-H2AX, pATF2 and pSMC1) were defined after exposure to ten different high-LET radiation qualities and one low-LET radiation (X ray), at two doses (0.5-2 Gy) and time points (2 and 24 h). The results reveal that the lower energy particles (Fe 300, Si 93 and Ti 300 MeV/u), with a narrower track width and higher number and intensity of δ rays, cause the highest degree of persistent damage response. The persistent γ-H2AX signal at lower energies suggests that damage from these exposures are more difficult to resolve, likely due to the greater complexity of the associated DNA lesions. However, different kinetics were observed for the solely ATM-mediated phosphorylations (pATF2 and pSMC1), revealing a shallow induction at early times and a higher level of residual phosphorylation compared to γ-H2AX. The differing phospho-protein profiles exhibited, compared to γ-H2AX, suggests additional functions for these proteins within the cell. The strong correspondence between the predicted curves for energy deposition per nucleosome for each ion/energy combination and the persistent levels of γ-H2AX indicates that the nature of energy distribution defines

  8. Electrical conduction of ion tracks in tetrahedral amorphous carbon: temperature, field and doping dependence and comparison with matrix data

    NASA Astrophysics Data System (ADS)

    Krauser, J.; Gehrke, H.-G.; Hofsäss, H.; Amani, J.; Trautmann, C.; Weidinger, A.

    2015-12-01

    This paper gives an extended overview of the electrical properties of ion tracks in hydrogen-free tetrahedral amorphous carbon (ta-C) with a sp3 bond fraction of about 80%. The films were grown by mass selected ion beam deposition of 100 eV 12C+ ions. The ion tracks are generated by irradiation of ta-C films with uranium ions of 1 GeV kinetic energy. Along the ion path a conversion from diamond-like (sp3) carbon to graphite-like (sp2) carbon takes place. Topography and current measurements of individual ion tracks were performed by atomic force microscopy at ambient temperature. The temperature dependence of the electric conductivity was studied between 15 and 390 K by means of 0.28 mm2 large contact pads averaging over about 107 tracks. For each sample and at each temperature the conductivity as a function of the applied electrical field (non-ohmic behaviour) was measured separately and the data were extrapolated to field zero. In this way, the zero-field conductivity was determined independent from the field dependence. In spite of large differences in the absolute values, the temperature dependence of the zero-field conductivities is found to be very similar in shape for all samples. The conductivities follow a {T}-{1/4} law up to temperatures slightly below room temperature. At higher temperatures a transport mechanism based on over-barrier hopping dominates with an activation energy of about 220 meV for tracks and 260 meV for the ta-C matrix. The field dependence measurements show that the deviation of the I-V characteristics from ohmic behaviour decreases with increasing zero-field conductivity. We also tested Cu-doped ta-C samples and found that they conduct significantly better than pure ta-C. However, the doping also increases the zero-field conductivity resulting in a weaker contrast between the track and matrix. The data are interpreted within the so-called ‘barrier model’ where the electrons are assumed to move fairly freely in well-conducting sp2

  9. Ion spectral structures observed by the Van Allen Probes

    NASA Astrophysics Data System (ADS)

    Ferradas, C.; Zhang, J.; Spence, H. E.; Kistler, L. M.; Larsen, B.; Reeves, G. D.; Skoug, R. M.; Funsten, H. O.

    2015-12-01

    During the last decades several missions have recorded the presence of dynamic spectral features of energetic ions in the inner magnetosphere. Previous studies have reported single "nose-like" structures occurring alone and simultaneous nose-like structures (up to three). These ion structures are named after the characteristic shapes of energy bands or gaps in the energy-time spectrograms of in situ measured ion fluxes. They constitute the observational signatures of ion acceleration, transport, and loss in the global magnetosphere. The HOPE mass spectrometer onboard the Van Allen Probes measures energetic hydrogen, helium, and oxygen ions near the inner edge of the plasma sheet, where these ion structures are observed. We present a statistical study of nose-like structures, using 2-years measurements from the HOPE instrument. The results provide important details about the spatial distribution (dependence on geocentric distance), spectral features of the structures (differences among species), and geomagnetic conditions under which these structures occur.

  10. Response of a metal-oxide-semiconductor field-effect transistor to a cosmic-ray ion track

    NASA Technical Reports Server (NTRS)

    Benumof, Reuben; Zoutendyk, John

    1987-01-01

    A cosmic-ray ion track passing perpendicularly through the oxide layer of an enhancement-mode metal-oxide-semiconductor field-effect transistor (MOSFET) forms a conducting path, the resistance of which is proportional to the stopping power of the cosmic ion and independent of the cross-sectional area of the ion track. The voltage across the oxide capacitance may drop below the threshold voltage if the gate bias is sufficiently low or if the external resistance in the gate-source circuit is sufficiently high. The first of a pair of MOSFETs forming a flip-flop circuit may thus be turned off, and the second transitor may turn on, providing it has a sufficiently short delay time, thereby completing a single-event upset.

  11. Analysis and design of on-grade reinforced concrete track support structures

    NASA Technical Reports Server (NTRS)

    Mclean, F. G.; Williams, R. D.; Greening, L. R.

    1972-01-01

    For the improvement of rail service, the Department of Transportation, Federal Rail Administration, is sponsoring a test track on the Atchison, Topeka, and Santa Fe Railway. The test track will contain nine separate rail support structures, including one conventional section for control and three reinforced concrete structures on grade, one slab and two beam sections. The analysis and design of these latter structures was accomplished by means of the finite element method, NASTRAN, and is presented.

  12. Electronic Structure Calculations of Highly Charged Ions

    NASA Astrophysics Data System (ADS)

    Bromley, Steve; Ziolkowski, Marcin; Marler, Joan

    2016-05-01

    Exotic systems like Highly Charged Ions (HCIs) are attracting more attention based on their properties and possible interactions. Abundance of HCIs in the solar wind and their interaction with the upper atmosphere puts them in the attention of astro- and atmospheric physicists. Also, their unique properties originating in the high charge make them an excellent candidate for precision measurements and the next generation of atomic clocks. For a better understanding of the dynamics of processes involving HCIs a combined theoretical and experimental effort is needed to study their basic properties and interactions. Both theory and experiment need to be combined due to the extreme nature of these systems. We present preliminary insight into electronic structure of light HCIs, their interactions with neutral atoms and dynamics of charge transfer processes.

  13. Development and tests of an anode readout TPC with high track separability for large solid angle relativistic ion experiments

    SciTech Connect

    Lindenbaum, S.J.; Foley, K.J.; Eiseman, S.E.; Etkin, A.; Hackenburg, R.W.; Longacre, R.S.; Love, W.A.; Morris, T.W.; Platner, E.D.; Saulys, A.C.; Chan, C.; Kramer, M.A.; Hallman, T.J.; Madansky, L.; Bonner, B.E.; Buchanan, J.A.; Clement, J.M.; Corcoran, M.D.; Kruk, J.W.; Miettinen, H.E.; Mutchler, G.S.; Nessi-Tedaldi, F.; Nessi, M.; Phillips, G.C.; Roberts, J.B.

    1988-07-18

    We have developed, constructed and tested an anode readout TPC with high track separability which is suitable for large solid angle relativistic ion experiments. The readout via rows of short anode wires parallel to the beam has been found in tests to allow two-track separability of approx.2-3 mm. The efficiency of track reconstruction for events from a target, detected inside the MPS 5 KG magnet, is estimated to be >90% for events made by incident protons and pions. 15 GeV/c x A Si ion beams at a rate of approx.25 K per AGS pulse were permitted to course through the chamber and did not lead to any problems. When the gain was reduced to simulate the total output of a minimum ionizing particle, many Si ion tracks were also detected simultaneously with high efficiency. The resolution along the drift direction (parallel to the MPS magnetic field and perpendicular to the beam direction) was <1 mm and the resolution along the other direction /perpendicular/ to the beam direction was <1 mm also. 3 refs., 5 figs.

  14. Robust feature tracking for endoscopic pose estimation and structure recovery

    NASA Astrophysics Data System (ADS)

    Speidel, S.; Krappe, S.; Röhl, S.; Bodenstedt, S.; Müller-Stich, B.; Dillmann, R.

    2013-03-01

    Minimally invasive surgery is a highly complex medical discipline with several difficulties for the surgeon. To alleviate these difficulties, augmented reality can be used for intraoperative assistance. For visualization, the endoscope pose must be known which can be acquired with a SLAM (Simultaneous Localization and Mapping) approach using the endoscopic images. In this paper we focus on feature tracking for SLAM in minimally invasive surgery. Robust feature tracking and minimization of false correspondences is crucial for localizing the endoscope. As sensory input we use a stereo endoscope and evaluate different feature types in a developed SLAM framework. The accuracy of the endoscope pose estimation is validated with synthetic and ex vivo data. Furthermore we test the approach with in vivo image sequences from da Vinci interventions.

  15. Load tracking and structural health monitoring of unmanned aerial vehicles using optical fiber sensors

    NASA Astrophysics Data System (ADS)

    Handelman, A.; Botsev, Y.; Balter, J.; Gud's, P.; Kressel, I.; Tur, M.; Gali, S.; Pillai, A. C. R.; Hari Prasad, M.; Yadav, A. Kumar; Gupta, Nitesh; Sathya, Sakthi; Sundaram, Ramesh

    2011-08-01

    An airborne, high resolution, load tracking and structural health monitoring system for unmanned aerial vehicles is presented. The system is based on embedded optical fiber Bragg sensors interrogated in real time during flight at 2.5 kHz. By analyzing the recorded vibration signature it is now possible to identify and trace the dynamic response of an airborne structure and track its loads.

  16. Load tracking and structural health monitoring of unmanned aerial vehicles using optical fiber sensors

    NASA Astrophysics Data System (ADS)

    Handelman, A.; Botsev, Y.; Balter, J.; Gud'S, P.; Kressel, I.; Tur, M.; Gali, S.; Pillai, A. C. R.; Hari Prasad, M.; Yadav, A. Kumar; Gupta, Nitesh; Sathya, Sakthi; Sundaram, Ramesh

    2010-12-01

    An airborne, high resolution, load tracking and structural health monitoring system for unmanned aerial vehicles is presented. The system is based on embedded optical fiber Bragg sensors interrogated in real time during flight at 2.5 kHz. By analyzing the recorded vibration signature it is now possible to identify and trace the dynamic response of an airborne structure and track its loads.

  17. Simulations of DSB Yields and Radiation-induced Chromosomal Aberrations in Human Cells Based on the Stochastic Track Structure Induced by HZE Particles

    NASA Technical Reports Server (NTRS)

    Ponomarev, Artem; Plante, Ianik; George, Kerry; Wu, Honglu

    2014-01-01

    The formation of double-strand breaks (DSBs) and chromosomal aberrations (CAs) is of great importance in radiation research and, specifically, in space applications. We are presenting a new particle track and DNA damage model, in which the particle stochastic track structure is combined with the random walk (RW) structure of chromosomes in a cell nucleus. The motivation for this effort stems from the fact that the model with the RW chromosomes, NASARTI (NASA radiation track image) previously relied on amorphous track structure, while the stochastic track structure model RITRACKS (Relativistic Ion Tracks) was focused on more microscopic targets than the entire genome. We have combined chromosomes simulated by RWs with stochastic track structure, which uses nanoscopic dose calculations performed with the Monte-Carlo simulation by RITRACKS in a voxelized space. The new simulations produce the number of DSBs as function of dose and particle fluence for high-energy particles, including iron, carbon and protons, using voxels of 20 nm dimension. The combined model also calculates yields of radiation-induced CAs and unrejoined chromosome breaks in normal and repair deficient cells. The joined computational model is calibrated using the relative frequencies and distributions of chromosomal aberrations reported in the literature. The model considers fractionated deposition of energy to approximate dose rates of the space flight environment. The joined model also predicts of the yields and sizes of translocations, dicentrics, rings, and more complex-type aberrations formed in the G0/G1 cell cycle phase during the first cell division after irradiation. We found that the main advantage of the joined model is our ability to simulate small doses: 0.05-0.5 Gy. At such low doses, the stochastic track structure proved to be indispensable, as the action of individual delta-rays becomes more important.

  18. Simulations of DSB Yields and Radiation-induced Chromosomal Aberrations in Human Cells Based on the Stochastic Track Structure iIduced by HZE Particles

    NASA Technical Reports Server (NTRS)

    Ponomarev, Artem; Plante, Ianik; George, Kerry; Wu, Honglu

    2014-01-01

    The formation of double-strand breaks (DSBs) and chromosomal aberrations (CAs) is of great importance in radiation research and, specifically, in space applications. We are presenting a new particle track and DNA damage model, in which the particle stochastic track structure is combined with the random walk (RW) structure of chromosomes in a cell nucleus. The motivation for this effort stems from the fact that the model with the RW chromosomes, NASARTI (NASA radiation track image) previously relied on amorphous track structure, while the stochastic track structure model RITRACKS (Relativistic Ion Tracks) was focused on more microscopic targets than the entire genome. We have combined chromosomes simulated by RWs with stochastic track structure, which uses nanoscopic dose calculations performed with the Monte-Carlo simulation by RITRACKS in a voxelized space. The new simulations produce the number of DSBs as function of dose and particle fluence for high-energy particles, including iron, carbon and protons, using voxels of 20 nm dimension. The combined model also calculates yields of radiation-induced CAs and unrejoined chromosome breaks in normal and repair deficient cells. The joined computational model is calibrated using the relative frequencies and distributions of chromosomal aberrations reported in the literature. The model considers fractionated deposition of energy to approximate dose rates of the space flight environment. The joined model also predicts of the yields and sizes of translocations, dicentrics, rings, and more complex-type aberrations formed in the G0/G1 cell cycle phase during the first cell division after irradiation. We found that the main advantage of the joined model is our ability to simulate small doses: 0.05-0.5 Gy. At such low doses, the stochastic track structure proved to be indispensable, as the action of individual delta-rays becomes more important.

  19. Experimental impact features in Stardust aerogel: How track morphology reflects particle structure, composition, and density

    NASA Astrophysics Data System (ADS)

    Kearsley, Anton T.; Burchell, Mark J.; Price, Mark C.; Cole, Michael J.; Wozniakiewicz, Penelope J.; Ishii, Hope A.; Bradley, John P.; Fries, Marc; Foster, Nicholas J.

    2012-04-01

    The Stardust collector shows diverse aerogel track shapes created by impacts of cometary dust. Tracks have been classified into three broad types (A, B, and C), based on relative dimensions of the elongate "stylus" (in Type A "carrots") and broad "bulb" regions (Types B and C), with occurrence of smaller "styli" in Type B. From our experiments, using a diverse suite of projectile particles shot under Stardust cometary encounter conditions onto similar aerogel targets, we describe differences in impactor behavior and aerogel response resulting in the observed range of Stardust track shapes. We compare tracks made by mineral grains, natural and artificial aggregates of differing subgrain sizes, and diverse organic materials. Impacts of glasses and robust mineral grains generate elongate, narrow Type A tracks (as expected), but with differing levels of abrasion and lateral branch creation. Aggregate particles, both natural and artificial, of a wide range of compositions and volatile contents produce diverse Type B or C shapes. Creation of bulbous tracks is dependent upon impactor internal structure, grain size distribution, and strength, rather than overall grain density or content of volatile components. Nevertheless, pure organic particles do create Type C, or squat Type A* tracks, with length to width ratios dependent upon both specific organic composition and impactor grain size. From comparison with the published shape data for Stardust aerogel tracks, we conclude that the abundant larger Type B tracks on the Stardust collector represent impacts by particles similar to our carbonaceous chondrite meteorite powders.

  20. Track structure simulations at relativistic energies: new cross sections for HZE particles

    NASA Astrophysics Data System (ADS)

    Dingfelder, Michael

    Monte Carlo (MC) simulations of charged particle tracks provide detailed information on highly inhomogeneous spatial distributions of energy depositions, interaction types, and radical species produced. This information is used in Radiation Biology to explore and estimate the effects of radiation quality on biological response. Heavy charged and highly relativistic (HZE) particles are of special interest to men's vision of deep space travel. HZE particles are a component of the Galactic Cosmic Rays (GCR) present in Deep Space but shielded by the Earth's magnetic field. Little is known on their action on biological matter. Monte Carlo track structure simulations follow the primary, as well as all (produced) secondary particles, event-by-event, from starting of ejection energy to total stopping. This requires reliable cross sections for elastic and inelastic scattering events of the incident charged particles with the atoms and molecules of the material under consideration. Liquid water is of special interest since it serves as a substitute for soft tissue. Ionization and excitation cross sections for charged particles are normally calculated within the framework of the (relativistic) plane wave Born approximation (PWBA) or the (relativistic) Bethe approximation. In the PWBA the energyand momentum transfer doubly differential cross section can be written as kinematic factors times the generalized oscillator strength (GOS) for single atoms or the dielectric response function (DF) of the material in the condensed phase. The GOS and the DF are a function of the energy transfer and momentum transfer, are independent of the incoming radiation and fully characterize the target. The GOS can be calculated from first principles while the DF is normally modeled using available experimental information and theoretical constraints. In this talk we will review and present new cross section calculations for electrons, protons and relativistic heavy ions with liquid water and other

  1. Online Deformable Object Tracking Based on Structure-Aware Hyper-Graph.

    PubMed

    Du, Dawei; Qi, Honggang; Li, Wenbo; Wen, Longyin; Huang, Qingming; Lyu, Siwei

    2016-08-01

    Recent advances in online visual tracking focus on designing part-based model to handle the deformation and occlusion challenges. However, previous methods usually consider only the pairwise structural dependences of target parts in two consecutive frames rather than the higher order constraints in multiple frames, making them less effective in handling large deformation and occlusion challenges. This paper describes a new and efficient method for online deformable object tracking. Different from most existing methods, this paper exploits higher order structural dependences of different parts of the tracking target in multiple consecutive frames. We construct a structure-aware hyper-graph to capture such higher order dependences, and solve the tracking problem by searching dense subgraphs on it. Furthermore, we also describe a new evaluating data set for online deformable object tracking (the Deform-SOT data set), which includes 50 challenging sequences with full annotations that represent realistic tracking challenges, such as large deformations and severe occlusions. The experimental result of the proposed method shows considerable improvement in performance over the state-of-the-art tracking methods. PMID:27214901

  2. Visualisation of γH2AX Foci Caused by Heavy Ion Particle Traversal; Distinction between Core Track versus Non-Track Damage

    PubMed Central

    Nakajima, Nakako Izumi; Brunton, Holly; Watanabe, Ritsuko; Shrikhande, Amruta; Hirayama, Ryoichi; Matsufuji, Naruhiro; Fujimori, Akira; Murakami, Takeshi; Okayasu, Ryuichi; Jeggo, Penny; Shibata, Atsushi

    2013-01-01

    Heavy particle irradiation produces complex DNA double strand breaks (DSBs) which can arise from primary ionisation events within the particle trajectory. Additionally, secondary electrons, termed delta-electrons, which have a range of distributions can create low linear energy transfer (LET) damage within but also distant from the track. DNA damage by delta-electrons distant from the track has not previously been carefully characterised. Using imaging with deconvolution, we show that at 8 hours after exposure to Fe (∼200 keV/µm) ions, γH2AX foci forming at DSBs within the particle track are large and encompass multiple smaller and closely localised foci, which we designate as clustered γH2AX foci. These foci are repaired with slow kinetics by DNA non-homologous end-joining (NHEJ) in G1 phase with the magnitude of complexity diminishing with time. These clustered foci (containing 10 or more individual foci) represent a signature of DSBs caused by high LET heavy particle radiation. We also identified simple γH2AX foci distant from the track, which resemble those arising after X-ray exposure, which we attribute to low LET delta-electron induced DSBs. They are rapidly repaired by NHEJ. Clustered γH2AX foci induced by heavy particle radiation cause prolonged checkpoint arrest compared to simple γH2AX foci following X-irradiation. However, mitotic entry was observed when ∼10 clustered foci remain. Thus, cells can progress into mitosis with multiple clusters of DSBs following the traversal of a heavy particle. PMID:23967070

  3. Vortex Dust Structures in the Track Plasma of a Proton Beam

    SciTech Connect

    Fortov, V.E.; Filinov, V.S.; Vladimirov, V.I.; Deputatova, L.V.; Petrov, O.F.; Molotkov, V.I.; Rykov, V.A.; Budnik, A.P.; D'yachenko, P.P.; Rykov, K.V.; Khudyakov, A.V.

    2005-07-15

    Results are presented from experimental and theoretical investigations of the behavior of dust grains in a track plasma produced by a beam of accelerated protons. The dynamic ordered dust structures in a proton-beam-produced plasma are obtained for the first time. The processes leading to the formation of such structures are simulated numerically. The experimentally obtained dynamic vortex dust structures in a track plasma of a proton beam are explained theoretically, and the theoretical model developed to describe such a plasma is verified experimentally. Numerical investigations carried out by the method of Brownian dynamics made it possible to qualitatively explain the characteristic features of the formation of vortex dust structures.

  4. Fission track-secondary ion mass spectrometry as a tool for detecting the isotopic signature of individual uranium containing particles.

    PubMed

    Esaka, Fumitaka; Lee, Chi-Gyu; Magara, Masaaki; Kimura, Takaumi

    2012-04-01

    A fission track technique was used as a sample preparation method for subsequent isotope abundance ratio analysis of individual uranium containing particles with secondary ion mass spectrometry (SIMS) to measure the particles with higher enriched uranium efficiently. A polycarbonate film containing particles was irradiated with thermal neutrons and etched with 6M NaOH solution. Each uranium containing particle was then identified by observing fission tracks created and a portion of the film having a uranium containing particle was cut out and put onto a glassy carbon planchet. The polycarbonate film, which gave the increases of background signals on the uranium mass region in SIMS analysis, was removed by plasma ashing with 200 W for 20 min. In the analysis of swipe samples having particles containing natural (NBL CRM 950a) or low enriched uranium (NBL CRM U100) with the fission track-SIMS method, uranium isotope abundance ratios were successfully determined. This method was then applied to the analysis of a real inspection swipe sample taken at a nuclear facility. As a consequence, the range of (235)U/(238)U isotope abundance ratio between 0.0276 and 0.0438 was obtained, which was higher than that measured by SIMS without using a fission track technique (0.0225 and 0.0341). This indicates that the fission track-SIMS method is a powerful tool to identify the particle with higher enriched uranium in environmental samples efficiently. PMID:22405310

  5. Whole cell structural imaging at 20 nanometre resolutions using MeV ions

    NASA Astrophysics Data System (ADS)

    Watt, F.; Chen, X.; Chen, C.-B.; Udalagama, CNB; van Kan, J. A.; Bettiol, A. A.

    2013-07-01

    MeV proton and alpha (helium ion) particle beams can now be focused to 20 nm spot sizes, and ion/matter simulations using the DEEP computer code show that these resolutions are maintained through the top micrometre or so of organic material. In addition, the energy deposition profiles of the transmitted ions are laterally constrained to a few nanometers from the initial ion path. This paves the way for high resolution structural imaging of relatively thick biological material, e.g. biological cells. Examples are shown of high resolution structural imaging of whole biological cells (MRC5) using on-axis scanning transmission ion microscopy (STIM). Nanoparticles have the ability to cross the cell membrane, and may therefore prove useful as drug delivery probes. We show that the combination of on-axis STIM for imaging the cell interior, and off-axis STIM for imaging gold nanoparticles with enhanced contrast within the cell, represents a powerful set of ion beam techniques for tracking gold nanoparticles in biological cells. Whole cell imaging at high spatial resolutions represents a new area for nuclear microprobes.

  6. Ion Trapping, Storage, and Ejection in Structures for Lossless Ion Manipulations.

    PubMed

    Zhang, Xinyu; Garimella, Sandilya V B; Prost, Spencer A; Webb, Ian K; Chen, Tsung-Chi; Tang, Keqi; Tolmachev, Aleksey V; Norheim, Randolph V; Baker, Erin S; Anderson, Gordon A; Ibrahim, Yehia M; Smith, Richard D

    2015-06-16

    A new Structures for Lossless Ion Manipulations (SLIM) module, having electrode arrays patterned on a pair of parallel printed circuit boards (PCB), was constructed and utilized to investigate capabilities for ion trapping at a pressure of 4 Torr. Positive ions were confined by application of RF voltages to a series of inner rung electrodes with alternating phase on adjacent electrodes, in conjunction with positive DC potentials on surrounding guard electrodes on each PCB. An axial DC field was also introduced by stepwise varying the DC potentials applied to the inner rung electrodes to control the ion transport and accumulation inside the ion trapping region. We show that ions can be trapped and accumulated with up to 100% efficiency, stored for at least 5 h with no significant losses, and then could be rapidly ejected from the SLIM trap. The present results provide a foundation for the development of much more complex SLIM devices that facilitate extended ion manipulations. PMID:25971536

  7. The structure of the stable negative ion of calcium

    SciTech Connect

    Pegg, D.J.; Thompson, J.S.; Compton, R.N.; Alton, G.D.

    1988-01-01

    The structure of the Ca/sup /minus// ion has been determined using a crossed laser-ion beams apparatus. The photoelectron detachment spectrum shows that, contrary to earlier expectations, the Ca/sup /minus// ion is stably bound in the (4s/sup 2/4p)/sup 2/p state. The electron affinity of Ca was measured to be 0.043 /sup + -/ 0.007 eV.

  8. High-Resolution Tracking Asymmetric Lithium Insertion and Extraction and Local Structure Ordering in SnS2.

    PubMed

    Gao, Peng; Wang, Liping; Zhang, Yu-Yang; Huang, Yuan; Liao, Lei; Sutter, Peter; Liu, Kaihui; Yu, Dapeng; Wang, En-Ge

    2016-09-14

    In the rechargeable lithium ion batteries, the rate capability and energy efficiency are largely governed by the lithium ion transport dynamics and phase transition pathways in electrodes. Real-time and atomic-scale tracking of fully reversible lithium insertion and extraction processes in electrodes, which would ultimately lead to mechanistic understanding of how the electrodes function and why they fail, is highly desirable but very challenging. Here, we track lithium insertion and extraction in the van der Waals interactions dominated SnS2 by in situ high-resolution TEM method. We find that the lithium insertion occurs via a fast two-phase reaction to form expanded and defective LiSnS2, while the lithium extraction initially involves heterogeneous nucleation of intermediate superstructure Li0.5SnS2 domains with a 1-4 nm size. Density functional theory calculations indicate that the Li0.5SnS2 is kinetically favored and structurally stable. The asymmetric reaction pathways may supply enlightening insights into the mechanistic understanding of the underlying electrochemistry in the layered electrode materials and also suggest possible alternatives to the accepted explanation of the origins of voltage hysteresis in the intercalation electrode materials. PMID:27504584

  9. The Biological Effectiveness of Accelerated Particles for the Induction of Chromosome Damage: Track Structure Effects and Cytogenetic Signatures of High-LET Exposure

    NASA Technical Reports Server (NTRS)

    George, K.; Hada, M.; Chappell, L.; Cucinotta, F. A.

    2012-01-01

    Track structure models predict that at a fixed value of LET, particles with lower charge number, Z will have a higher biological effectiveness compared to particles with a higher Z. In this report we investigated how track structure effects induction of chromosomal aberration in human cells. Human lymphocytes were irradiated in vitro with various energies of accelerated iron, silicon, neon, or titanium ions and chromosome damage was assessed in using three color FISH chromosome painting in chemically induced PCC samples collected a first cell division post irradiation. The LET values for these ions ranged from 30 to 195 keV/micrometers. Of the particles studied, Neon ions have the highest biological effectiveness for induction of total chromosome damage, which is consistent with track structure model predictions. For complex-type exchanges 64 MeV/ u Neon and 450 MeV/u Iron were equally effective and induced the most complex damage. In addition we present data on chromosomes exchanges induced by six different energies of protons (5 MeV/u to 2.5 GeV/u). The linear dose response term was similar for all energies of protons suggesting that the effect of the higher LET at low proton energies is balanced by the production of nuclear secondaries from the high energy protons. All energies of protons have a much higher percentage of complex-type chromosome exchanges than gamma rays, signifying a cytogenetic signature for proton exposures.

  10. Secondary ion mass spectrometry combined with alpha track detection for isotope abundance ratio analysis of individual uranium-bearing particles.

    PubMed

    Esaka, Fumitaka; Magara, Masaaki

    2014-03-01

    Secondary ion mass spectrometry (SIMS) was used in combination with alpha track detection for the efficient analysis of uranium-bearing particles with higher (235)U abundances in environmental samples. A polycarbonate film containing particles was prepared and placed in contact with a CR-39 plastic detector. After exposure for 28 days, the detector was etched in a NaOH solution and each uranium-bearing particle was identified through observation of the alpha tracks recorded in the detector. A portion of the film containing each uranium-bearing particle was cut out and put onto a glassy carbon planchet. The films on the planchet were decomposed through plasma ashing for subsequent uranium abundance ratio analysis with SIMS. The alpha track-SIMS analysis of 10 uranium-bearing particles in a sample taken from a nuclear facility enabled n((235)U)/n((238)U) abundance ratios in the range 0.0072-0.25 to be detected, which were significantly higher than those obtained by SIMS without alpha track detection. The duration of the whole analytical process for analysis of 10 particles was about 32 days. The detection efficiency was calculated to be 27.1±6.5%, based on the analysis of the particles in uranium reference materials. The detection limits, defined as the diameter of the particle which produces alpha tracks more than one for a 28-days exposure, were estimated to be 0.8, 0.9, 1.1, 2.1 and 3.0 μm for the particles having the same uranium abundance ratios with NBL CRM U850, U500, U350, U050 and U010 reference materials, respectively. The use of alpha track detection for subsequent SIMS analysis is an inexpensive and an efficient way to measure uranium-bearing particles with higher (235)U abundances. PMID:24468381

  11. Modeling the multi-ion structure of the solar corona

    NASA Astrophysics Data System (ADS)

    Ofman, Leon; Provornikova, Elena; Wang, Tongjiang

    2014-06-01

    The solar corona is typically observed in EUV by SDO/AIA and other instruments using the heavy ion emission lines such as Fe IX, Fe XII, and other ion emission lines. However, the relative (to protons) abundance of the emitting ions is very low and the collisional coupling between the Fe ions and electrons decreases rapidly with height in the low corona, while gravitational settling may become significant in quiescent long-lived magnetic structures, such as streamers. Thus, the structure of the weakly collisional solar corona imaged in Fe IX (and other heavy ions) may differ significantly from the structure of the main electron-proton constituents of the corona. The electron structure is observed by white light coronagraphs, and during solar eclipses in the low corona. I present the results of multi-fluid modeling of coronal streamers and other magnetic structures that demonstrate the effects of weak coupling between the heavy ions and the coronal electron-proton components, and show that the multi-ion coronal structure must be taken into account in interpretation of EUV observations.

  12. Instrumentation by accelerometers and distributed optical fiber sensors of a real ballastless track structure

    NASA Astrophysics Data System (ADS)

    Chapeleau, Xavier; Cottineau, Louis-Marie; Sedran, Thierry; Cailliau, Joël; Gueguen, Ivan; Dumoulin, Jean

    2015-04-01

    While relatively expensive to build, ballastless track structures are presently seen as an attractive alternative to conventional ballast. Firstly, they are built quickly since the slabs can be cast in place in an automated fashion by a slipform paver. Secondly, with its service life of at least 60 years, they requires little maintenance and hence they offers great availability. Other reasons for using ballastless tracks instead of ballasted tracks are the lack of suitable ballast material and the need of less noise and vibration for high-speed, in particularly. In the framework of a FUI project (n° 072906053), a new ballastless track structure based on concrete slabs was designed and its thermal-mechanical behavior in fatigue under selected mechanical and thermal conditions was tested on a real scale mockup in our laboratory [1,2]. By applying to the slabs both together mechanical stresses and thermal gradients, finite elements simulation and experimental results show that the weather conditions influence significantly the concrete slabs curvatures and by the way, the contact conditions with the underlaying layers. So it is absolutely necessary to take into account this effect in the design of the ballastless track structures in order to guarantee a long target life of at least of 50 years. After design and experimental tests in laboratory, a real ballastless track structure of 1km was built in France at the beginning of year 2013. This structure has 2 tracks on which several trains circulate every day since the beginning of year 2014. Before the construction, it was decided to monitor this structure to verify that the mechanical behavior is conform to the simulations. One part of the instrumentation is dedicated to monitor quasi-continuously the evolution of the curvature of a concrete slab. For this, 2 accelerometers were fixed on the slab under the track. One was placed on the edge and the other in the middle of the slab. The acquisition of the signals by a

  13. Combining structured light and ladar for pose tracking in THz sensor management

    NASA Astrophysics Data System (ADS)

    Engström, Philip; Axelsson, Maria; Karlsson, Mikael

    2013-05-01

    Stand-off 3D THz imaging to detect concealed treats is currently under development. The technology can provide high resolution 3D range data of a passing subject showing layers of clothes and if there are concealed items. However, because it is a scanning sensor technology with a narrow field of view, the subjects pose and position need to be accurately tracked in real time to focus the system and map the imaged THz data to specific body parts. Structured light is a technique to obtain 3D range information. It is, for example, used in the Microsoft Kinect for pose tracking of game players in real time. We demonstrate how structured light can contribute to a THz sensor management system and track subjects in real time. The main advantage of structured light is its simplicity, the disadvantages are the sensitivity to lighting conditions and material properties as well as a relatively low accuracy. Time of flight laser scanning is a technique that complements structured light well, the accuracy is usually much higher and it is less sensitive to lighting conditions. We show that by combining the techniques it is possible to create a robust real time pose tracking system for THz sensor management. We present a concept system based on the Microsoft Kinect and a SICK LMS-511 laser scanner. The laser scanner is used for 2D tracking of the subjects, this tracking is then used to initialize and validate the Microsoft Kinect pose tracking. We have evaluated the sensors individually in both static and dynamic scenes and present their advantages and drawbacks.

  14. Simulation analysis for ion assisted fast ignition using structured targets

    NASA Astrophysics Data System (ADS)

    Sakagami, H.; Johzaki, T.; Sunahara, A.; Nagatomo, H.

    2016-05-01

    As the heating efficiency by fast electrons in the fast ignition scheme is estimated to be very low due to their large divergence angle and high energy. To mitigate this problem, low-density plastic foam, which can generate not only proton (H+) but also carbon (C6+) beams, can be introduced to currently used cone-guided targets and additional core heating by ions is expected. According to 2D PIC simulations, it is found that the ion beams also diverge by the static electric field and concave surface deformation. Thus structured targets are suggested to optimize ion beam characteristics, and their improvement and core heating enhancement by ion beams are confirmed.

  15. Structural insights into protein-metal ion partnerships.

    PubMed

    Barondeau, David P; Getzoff, Elizabeth D

    2004-12-01

    New metalloprotein structures continue to provide discoveries regarding protein-metal ion partnerships. Many recent structures reveal metal ion sites that control or are controlled by protein conformational change, including modulation by alternative splice variants and striking conformational changes. Only a few novel catalytic metal centers have been revealed recently, such as the surprising Ni-hook superoxide dismutase catalytic site and the cubane-like Mn(3)CaO(4) photosynthetic oxygen-evolving center. However, important new variations on old heme themes, breakthroughs in the fields of metal ion regulation and metallochaperones, and captivating insights into partnerships between proteins and minerals have also been described. Very high resolution metal site structures and metalloprotein design will be increasingly important in order to leverage the wealth of native metalloprotein structures into a deep understanding of metal ion site specificity and activity. PMID:15582401

  16. Simulated tornado debris tracks: implications for inferring corner flow structure

    NASA Astrophysics Data System (ADS)

    Zimmerman, Michael; Lewellen, David

    2011-11-01

    A large collection of three-dimensional large eddy simulations of tornadoes with fine debris have been recently been performed as part of a longstanding effort at West Virginia University to understand tornado corner flow structure and dynamics. Debris removal and deposition is accounted for at the surface, in effect simulating formation of tornado surface marks. Physical origins and properties of the most prominent marks will be presented, and the possibility of inferring tornado corner flow structure from real marks in the field will be discussed. This material is based upon work supported by the National Science Foundation under Grants No. 0635681 and AGS-1013154.

  17. Computational Model Tracking Primary Electrons, Secondary Electrons, and Ions in the Discharge Chamber of an Ion Engine

    NASA Technical Reports Server (NTRS)

    Mahalingam, Sudhakar; Menart, James A.

    2005-01-01

    Computational modeling of the plasma located in the discharge chamber of an ion engine is an important activity so that the development and design of the next generation of ion engines may be enhanced. In this work a computational tool called XOOPIC is used to model the primary electrons, secondary electrons, and ions inside the discharge chamber. The details of this computational tool are discussed in this paper. Preliminary results from XOOPIC are presented. The results presented include particle number density distributions for the primary electrons, the secondary electrons, and the ions. In addition the total number of a particular particle in the discharge chamber as a function of time, electric potential maps and magnetic field maps are presented. A primary electron number density plot from PRIMA is given in this paper so that the results of XOOPIC can be compared to it. PRIMA is a computer code that the present investigators have used in much of their previous work that provides results that compare well to experimental results. PRIMA only models the primary electrons in the discharge chamber. Modeling ions and secondary electrons, as well as the primary electrons, will greatly increase our ability to predict different characteristics of the plasma discharge used in an ion engine.

  18. Ion Trapping, Storage, and Ejection in Structures for Lossless Ion Manipulations

    SciTech Connect

    Zhang, Xinyu; Garimella, Venkata BS; Prost, Spencer A.; Webb, Ian K.; Chen, Tsung-Chi; Tang, Keqi; Tolmachev, Aleksey V.; Norheim, Randolph V.; Baker, Erin Shammel; Anderson, Gordon A.; Ibrahim, Yehia M.; Smith, Richard D.

    2015-06-16

    A structure for lossless ion manipulation (SLIM) module was constructed with electrode arrays patterned on a pair of parallel printed circuit boards (PCB) separated by 5 mm and utilized to investigate capabilities for ion trapping at 4 Torr. Positive ions were confined by application of RF having alternating phases on a series of inner rung electrodes and by positive DC potentials on surrounding guard electrodes on each PCB. An axial DC field was also introduced by stepwise varying the DC potential of the inner rung electrodes so as to control the ion transport and accumulation inside the ion trap. We show that ions could be trapped and accumulated with 100% efficiency, stored for at least 5 hours with no losses, and could be rapidly ejected from the SLIM trap.

  19. A comparative study of the structure and cytotoxicity of polytetrafluoroethylene after ion etching and ion implantation

    NASA Astrophysics Data System (ADS)

    Shtansky, D. V.; Glushankova, N. A.; Kiryukhantsev-Korneev, F. V.; Sheveiko, A. N.; Sigarev, A. A.

    2011-03-01

    The ion-plasma treatment has been widely used for modifying the surface structure of polymers in order to improve their properties, but it can lead to destruction of the surface and, as a consequence, to an increase in their toxicity. A comparative study of the structure and cytotoxicity of polytetrafluoroethylene (PTFE) after the ion etching (IE) and ion implantation (II) for 10 min with energy densities of 363 and 226 J/cm2, respectively, has been performed. It has been shown that, unlike the ion implantation, the ion etching results in the destruction of the polymer and in the appearance of the cytotoxicity. The factors responsible for this effect, which are associated with the bulk and surface treatment, as well as with the influence of the temperature, have been discussed.

  20. Characterization of Traveling Wave Ion Mobility Separations in Structures for Lossless Ion Manipulations

    SciTech Connect

    Hamid, Ahmed M.; Ibrahim, Yehia M.; Garimella, Venkata BS; Webb, Ian K.; Deng, Liulin; Chen, Tsung-Chi; Anderson, Gordon A.; Prost, Spencer A.; Norheim, Randolph V.; Tolmachev, Aleksey V.; Smith, Richard D.

    2015-10-28

    We report on the development and characterization of a new traveling wave-based Structure for Lossless Ion Manipulations (TW-SLIM) for ion mobility separations (IMS). The TW-SLIM module uses parallel arrays of rf electrodes on two closely spaced surfaces for ion confinement, where the rf electrodes are separated by arrays of short electrodes, and using these TWs can be created to drive ion motion. In this initial work, TWs are created by the dynamic application of dc potentials. The capabilities of the TW-SLIM module for efficient ion confinement, lossless ion transport, and ion mobility separations at different rf and TW parameters are reported. The TW-SLIM module is shown to transmit a wide mass range of ions (m/z 200–2500) utilizing a confining rf waveform (~1 MHz and ~300 Vp-p) and low TW amplitudes (<20 V). Additionally, the short TW-SLIM module achieved resolutions comparable to existing commercially available low pressure IMS platforms and an ion mobility peak capacity of ~32 for TW speeds of <210 m/s. TW-SLIM performance was characterized over a wide range of rf and TW parameters and demonstrated robust performance. In conclusion, the combined attributes of the flexible design and low voltage requirements for the TW-SLIM module provide a basis for devices capable of much higher resolution and more complex ion manipulations.

  1. Characterization of Traveling Wave Ion Mobility Separations in Structures for Lossless Ion Manipulations.

    PubMed

    Hamid, Ahmed M; Ibrahim, Yehia M; Garimella, Sandilya V B; Webb, Ian K; Deng, Liulin; Chen, Tsung-Chi; Anderson, Gordon A; Prost, Spencer A; Norheim, Randolph V; Tolmachev, Aleksey V; Smith, Richard D

    2015-11-17

    We report on the development and characterization of a traveling wave (TW)-based Structures for Lossless Ion Manipulations (TW-SLIM) module for ion mobility separations (IMS). The TW-SLIM module uses parallel arrays of rf electrodes on two closely spaced surfaces for ion confinement, where the rf electrodes are separated by arrays of short electrodes, and using these TWs can be created to drive ion motion. In this initial work, TWs are created by the dynamic application of dc potentials. The capabilities of the TW-SLIM module for efficient ion confinement, lossless ion transport, and ion mobility separations at different rf and TW parameters are reported. The TW-SLIM module is shown to transmit a wide mass range of ions (m/z 200-2500) utilizing a confining rf waveform (∼1 MHz and ∼300 Vp-p) and low TW amplitudes (<20 V). Additionally, the short TW-SLIM module achieved resolutions comparable to existing commercially available low pressure IMS platforms and an ion mobility peak capacity of ∼32 for TW speeds of <210 m/s. TW-SLIM performance was characterized over a wide range of rf and TW parameters and demonstrated robust performance. The combined attributes of the flexible design and low voltage requirements for the TW-SLIM module provide a basis for devices capable of much higher resolution and more complex ion manipulations. PMID:26510005

  2. Characterization of Traveling Wave Ion Mobility Separations in Structures for Lossless Ion Manipulations

    DOE PAGESBeta

    Hamid, Ahmed M.; Ibrahim, Yehia M.; Garimella, Venkata BS; Webb, Ian K.; Deng, Liulin; Chen, Tsung-Chi; Anderson, Gordon A.; Prost, Spencer A.; Norheim, Randolph V.; Tolmachev, Aleksey V.; et al

    2015-10-28

    We report on the development and characterization of a new traveling wave-based Structure for Lossless Ion Manipulations (TW-SLIM) for ion mobility separations (IMS). The TW-SLIM module uses parallel arrays of rf electrodes on two closely spaced surfaces for ion confinement, where the rf electrodes are separated by arrays of short electrodes, and using these TWs can be created to drive ion motion. In this initial work, TWs are created by the dynamic application of dc potentials. The capabilities of the TW-SLIM module for efficient ion confinement, lossless ion transport, and ion mobility separations at different rf and TW parameters aremore » reported. The TW-SLIM module is shown to transmit a wide mass range of ions (m/z 200–2500) utilizing a confining rf waveform (~1 MHz and ~300 Vp-p) and low TW amplitudes (<20 V). Additionally, the short TW-SLIM module achieved resolutions comparable to existing commercially available low pressure IMS platforms and an ion mobility peak capacity of ~32 for TW speeds of <210 m/s. TW-SLIM performance was characterized over a wide range of rf and TW parameters and demonstrated robust performance. In conclusion, the combined attributes of the flexible design and low voltage requirements for the TW-SLIM module provide a basis for devices capable of much higher resolution and more complex ion manipulations.« less

  3. Ion mixing of III-V compound semiconductor layered structures

    SciTech Connect

    Xia, W.; Pappert, S.A.; Zhu, B.; Clawson, A.R.; Yu, P.K.L.; Lau, S.S. ); Poker, D.B.; White, C.W. ); Schwarz, S.A. )

    1992-03-15

    Compositional disordering of III-V compound superlattice structures has received considerable attention recently due to its potential application for photonic devices. The conventional method to induce compositional disorder in a layered structure is to implant a moderate dose of impurity ions ({similar to}10{sup 15}/cm{sup 2}) into the structure at room temperature, followed by a high-temperature annealing step (this process is referred to as IA here). Ion irradiation at room temperature alone does not cause any significant intermixing of layers. The subsequent high-temperature annealing step tends to restrict device processing flexibility. Ion mixing (IM) is capable of enhancing compositional disordering of layers at a rate which increases exponentially with the ion irradiation temperature. As a processing technique to planarize devices, ion mixing appears to be an attractive technology. In this work, we investigate compositional disordering in the AlGaAs/GaAs and the InGaAs/InP systems using ion mixing. We found that the ion mixing behavior of these two systems shows a thermally activated regime as well as an athermal regime, similar to that observed for metal-metal and metal-semiconductor systems. Ion mixing is observed to induce compositional disordering at significantly lower temperatures than that for the IA process. We have compared the two processes in terms of five parameters: (1) irradiation temperature, (2) dose dependence, (3) dose rate dependence, (4) annealing, and (5) ion dependence (including electrical effects and mass dependence). We found that the IM process is more efficient in utilizing the defects generated by ion irradiation to cause disordering. Both the physical mechanism of ion mixing and possible device implications will be discussed.

  4. Structural dynamic interaction with solar tracking control for evolutionary Space Station concepts

    NASA Technical Reports Server (NTRS)

    Lim, Tae W.; Cooper, Paul A.; Ayers, J. Kirk

    1992-01-01

    The sun tracking control system design of the Solar Alpha Rotary Joint (SARJ) and the interaction of the control system with the flexible structure of Space Station Freedom (SSF) evolutionary concepts are addressed. The significant components of the space station pertaining to the SARJ control are described and the tracking control system design is presented. Finite element models representing two evolutionary concepts, enhanced operations capability (EOC) and extended operations capability (XOC), are employed to evaluate the influence of low frequency flexible structure on the control system design and performance. The design variables of the control system are synthesized using a constrained optimization technique to meet design requirements, to provide a given level of control system stability margin, and to achieve the most responsive tracking performance. The resulting SARJ control system design and performance of the EOC and XOC configurations are presented and compared to those of the SSF configuration. Performance limitations caused by the low frequency of the dominant flexible mode are discussed.

  5. Functional Insights from Glutamate Receptor Ion Channel Structures

    PubMed Central

    Kumar, Janesh; Mayer, Mark L.

    2014-01-01

    X-ray crystal structures for the soluble amino terminal and ligand binding domains of glutamate receptor ion channels, combined with a 3.6 Å resolution structure of the full length AMPA receptor GluA2 homotetramer, provide unique insights into the mechanisms of iGluR assembly and function. Increasingly sophisticated biochemical, computational and electrophysiological experiments are beginning to reveal the mechanism of action of partial agonists, and yield new models for the mechanism of action of allosteric modulators. Newly identified NMDA receptor ligands acting at novel sites offer hope for development of subtype selective modulators. Many issues remain unsolved, including the role of the ATD in AMPA receptor signaling, and the mechanisms by which auxiliary proteins regulate receptor activity. The structural basis for ion permeation and ion channel block also remain areas of uncertainty, and despite substantial progress, molecular dynamics simulations have yet to reveal how binding of glutamate opens the ion channel pore. PMID:22974439

  6. Kinetic structure of slow shocks - Effects of the electromagnetic ion/ion cyclotron instability

    NASA Technical Reports Server (NTRS)

    Omidi, N.; Winske, D.

    1992-01-01

    The structure of slow magnetosonic shocks in the low beta regime is analyzed with attention given to ion heating and the effects of waves upstream of the electromagnetic ion/ion cyclotron (EMIIC) instability. Shock formation is assessed by means of three methods - a relaxation method and two based on dynamic flow interactions - to determine the effects of initialization and boundary conditions on the formation. Good solutions are found with the piston method and the similar flow-flow method in which the plasma is injected from two boundaries to form two slow shocks. Plasma parameters and shock normal angle are found to be the key variables dictating the structure of the magnetosonic shocks. Four unique classes of resultant shock structures are described in which classical, steady, or nonsteady behavior is found. The analysis also yields insight into the relationship between EMIIC instability and ion dissipation.

  7. Track structure simulations at relativistic energies: an update on cross section calculations

    NASA Astrophysics Data System (ADS)

    Dingfelder, Michael

    Charged particle track structure simulations follow the primary, as well as all (produced) sec-ondary particles in an event-by-event matter, from starting or ejection energies down to total stopping. They provide detailed information on the spacial distributions of energy depositions, interaction types, and radical species produced. These quantities provide a starting point to describe the interaction of the radiation with matter of biological interest and to explore and estimate the effects of radiation quality on various biological responses of these systems. Of special interest is liquid water which serves as surrogate for soft tissue. Ionization and excitation cross sections for bare charged particles can be calculated within the framework of the (relativistic) plane-wave Born approximation or the (relativistic) Bethe approximation. Both theories rely on a realistic model of the dielectric response function of the material under consideration and need to address relativistic medium polarization effects like the Fermi-density effect in a consistent way. In this talk we will review and present new and updated aspects of charged particle cross section calculations for relativistic heavy ions with liquid water and other materials of biological interest. This includes an updated model for the dielectric response function of liquid water to better reflect new data from inelastic X-ray scattering (IXS) experiments using synchrotron radiation and a model for the dielectric response function of calcium, which serves as a bone surrogate. We will also discuss the implementation of relativistic effect, especially of the Fermi-density effect into the cross section calculations. This work is supported by the National Aeronautics and Space Administration (NASA), grant no. NNJ04HF39G.

  8. Eye Tracking Detects Disconjugate Eye Movements Associated with Structural Traumatic Brain Injury and Concussion

    PubMed Central

    Ritlop, Robert; Reyes, Marleen; Nehrbass, Elena; Li, Meng; Lamm, Elizabeth; Schneider, Julia; Shimunov, David; Sava, Maria; Kolecki, Radek; Burris, Paige; Altomare, Lindsey; Mehmood, Talha; Smith, Theodore; Huang, Jason H.; McStay, Christopher; Todd, S. Rob; Qian, Meng; Kondziolka, Douglas; Wall, Stephen; Huang, Paul

    2015-01-01

    Abstract Disconjugate eye movements have been associated with traumatic brain injury since ancient times. Ocular motility dysfunction may be present in up to 90% of patients with concussion or blast injury. We developed an algorithm for eye tracking in which the Cartesian coordinates of the right and left pupils are tracked over 200 sec and compared to each other as a subject watches a short film clip moving inside an aperture on a computer screen. We prospectively eye tracked 64 normal healthy noninjured control subjects and compared findings to 75 trauma subjects with either a positive head computed tomography (CT) scan (n=13), negative head CT (n=39), or nonhead injury (n=23) to determine whether eye tracking would reveal the disconjugate gaze associated with both structural brain injury and concussion. Tracking metrics were then correlated to the clinical concussion measure Sport Concussion Assessment Tool 3 (SCAT3) in trauma patients. Five out of five measures of horizontal disconjugacy were increased in positive and negative head CT patients relative to noninjured control subjects. Only one of five vertical disconjugacy measures was significantly increased in brain-injured patients relative to controls. Linear regression analysis of all 75 trauma patients demonstrated that three metrics for horizontal disconjugacy negatively correlated with SCAT3 symptom severity score and positively correlated with total Standardized Assessment of Concussion score. Abnormal eye-tracking metrics improved over time toward baseline in brain-injured subjects observed in follow-up. Eye tracking may help quantify the severity of ocular motility disruption associated with concussion and structural brain injury. PMID:25582436

  9. Scaling behavior and local structure of ion aggregates in single-ion conductors.

    PubMed

    Lu, Keran; Rudzinski, Joseph F; Noid, W G; Milner, Scott T; Maranas, Janna K

    2014-02-21

    Single-ion conductors are attractive electrolyte materials because of their inherent safety and ease of processing. Most ions in a sodium-neutralized PEO sulfonated-isophthalate ionomer electrolyte exist as one dimensional chains, restricted in dimensionality by the steric hindrance of the attached polymer. Because the ions are slow to reconfigure, atomistic MD simulations of this material are unable to adequately sample equilibrium ion structures. We apply a novel coarse-graining scheme using a generalized-YBG procedure in which the polymer backbone is completely removed and implicitly represented by the effective potentials of the remaining ions. The ion-only coarse-grained simulation allows for substantial sampling of equilibrium aggregate configurations. We extend the wormlike micelle theory to model ion chain equilibrium. Our aggregates are random walks which become more positively charged with increasing size. Defects occur on the string-like structure in the form of “dust” and “knots,” which form due to cation coordination with open sites along the string. The presence of these defects suggest that cation hopping along open third-coordination sites could be an important mechanism of charge transport using ion aggregates. PMID:24983107

  10. Three-dimensional structures and elemental distributions of Stardust impact tracks using synchrotron microtomography and X-ray fluorescence analysis

    NASA Astrophysics Data System (ADS)

    Tsuchiyama, A.; Nakamura, T.; Okazaki, T.; Uesugi, K.; Nakano, T.; Sakamoto, K.; Akaki, T.; Iida, Y.; Kadono, T.; Jogo, K.; Suzuki, Y.

    2009-08-01

    Three-dimensional structures and elemental abundances of four impact tracks in silica aerogel keystones of Stardust samples from comet 81P/Wild 2 (bulbous track 67 and carrot-type tracks 46, 47, and 68) were examined non-destructively by synchrotron radiation-based microtomography and X-ray fluorescence analysis. Track features, such as lengths, volumes and width as a function of track depth, were obtained quantitatively by tomography. A bulbous portion was present near the track entrance even in carrot-type tracks. Each impact of a cometary dust particle results in the particle disaggregated into small pieces that were widely distributed on the track walls as well as at its terminal. Fe, S, Ca, Ni, and eight minor elements are concentrated in the bulbous portion of track 68 as well as in terminal grains. It was confirmed that bulbous portions and thin tracks were formed by disaggregation of very fine fragile materials and relatively coarse crystalline particles, respectively. The almost constant ratio of whole Fe mass to track volume indicates that the track volume is almost proportional to the impact kinetic energy. The size of the original impactor was estimated from the absolute Fe mass by assuming its Fe content (CI) and bulk density. Relations between the track sizes normalized by the impactor size and impact conditions are roughly consistent with those of previous hypervelocity impact experiments.

  11. Simulation of Electric Potentials and Ion Motion in Planar Electrode Structures for Lossless Ion Manipulations (SLIM)

    SciTech Connect

    Garimella, Sandilya V. B; Ibrahim, Yehia M.; Webb, Ian K.; Tolmachev, Aleksey V.; Zhang, Xinyu; Prost, Spencer A.; Anderson, Gordon A.; Smith, Richard D.

    2014-09-26

    Here we report a conceptual study and computational evaluation of novel planar electrode Structures for Lossless Ion Manipulations (SLIM). Planar electrode SLIM devices were designed that allow for flexible ion confinement, transport and storage using a combination of RF and DC fields. Effective potentials can be generated that provide near ideal regions for confining ions in the presence of a gas. Ion trajectory simulations using SIMION 8.1 demonstrated the capability for lossless ion motion in these devices over a wide m/z range and a range of electric fields at low pressures (e.g. a few torr). More complex ion manipulations, e.g. turning ions by 90° and dynamically switching selected ion species into orthogonal channels, are also feasible. Lastly, the performance of SLIM devices at ~4 torr pressure for performing ion mobility based separations (IMS) is computationally evaluated and compared to initial experimental results, and both of which agree closely with experimental and theoretical IMS performance for a conventional drift tube design.

  12. Mobility-Selected Ion Trapping and Enrichment Using Structures for Lossless Ion Manipulations

    DOE PAGESBeta

    Chen, Tsung-Chi; Ibrahim, Yehia M.; Webb, Ian K.; Garimella, Sandilya V. B.; Zhang, Xing; Hamid, Ahmed M.; Deng, Liulin; Karnesky, William E.; Prost, Spencer A.; Sandoval, Jeremy A.; et al

    2016-01-11

    The integration of ion mobility spectrometry (IMS) with mass spectrometry (MS) and the ability to trap ions in IMS-MS measurements is of great importance for performing reactions, accumulating ions, and increasing analytical measurement sensitivity. The development of Structures for Lossless Ion Manipulations (SLIM) offers the potential for ion manipulations in a more reliable and cost-effective manner, while opening opportunities for much more complex sequences of manipulations. Here, we demonstrate an ion separation and trapping module and a method based upon SLIM that consists of a linear mobility ion drift region, a switch/tee and a trapping region that allows the isolationmore » and accumulation of mobility-separated species. The operation and optimization of the SLIM switch/tee and trap are described and demonstrated for the enrichment of the low abundance ions. Lastly, we observed a linear increase in ion intensity with the number of trapping/accumulation events using the SLIM trap, illustrating its potential for enhancing the sensitivity of low abundance or targeted species.« less

  13. Simulation of Electric Potentials and Ion Motion in Planar Electrode Structures for Lossless Ion Manipulations (SLIM)

    SciTech Connect

    Garimella, Venkata BS; Ibrahim, Yehia M.; Webb, Ian K.; Tolmachev, Aleksey V.; Zhang, Xinyu; Prost, Spencer A.; Anderson, Gordon A.; Smith, Richard D.

    2014-11-01

    We report a conceptual study and computational evaluation of novel planar electrode Structures for Lossless Ion Manipulations (SLIM). Planar electrode SLIM devices were designed that allow for flexible ion confinement, transport and storage using a combination of RF and DC fields. Effective potentials can be generated that provide near ideal regions for confining ions in the presence of a gas. Ion trajectory simulations using SIMION 8.1 demonstrated the capability for lossless ion motion in these devices over a wide m/z range and a range of electric fields at low pressures (e.g. a few torr). More complex ion manipulations, e.g. turning ions by 90o and dynamically switching selected ion species into orthogonal channels, are also feasible. The performance of SLIM devices at ~4 torr pressure for performing ion mobility based separations (IMS) is computationally evaluated and compared to initial experimental results, and both of which agree closely with experimental and theoretical IMS performance for a conventional drift tube design.

  14. Simulation of Electric Potentials and Ion Motion in Planar Electrode Structures for Lossless Ion Manipulations (SLIM)

    DOE PAGESBeta

    Garimella, Sandilya V. B; Ibrahim, Yehia M.; Webb, Ian K.; Tolmachev, Aleksey V.; Zhang, Xinyu; Prost, Spencer A.; Anderson, Gordon A.; Smith, Richard D.

    2014-09-26

    Here we report a conceptual study and computational evaluation of novel planar electrode Structures for Lossless Ion Manipulations (SLIM). Planar electrode SLIM devices were designed that allow for flexible ion confinement, transport and storage using a combination of RF and DC fields. Effective potentials can be generated that provide near ideal regions for confining ions in the presence of a gas. Ion trajectory simulations using SIMION 8.1 demonstrated the capability for lossless ion motion in these devices over a wide m/z range and a range of electric fields at low pressures (e.g. a few torr). More complex ion manipulations, e.g.more » turning ions by 90° and dynamically switching selected ion species into orthogonal channels, are also feasible. Lastly, the performance of SLIM devices at ~4 torr pressure for performing ion mobility based separations (IMS) is computationally evaluated and compared to initial experimental results, and both of which agree closely with experimental and theoretical IMS performance for a conventional drift tube design.« less

  15. Simulation of Electric Potentials and Ion Motion in Planar Electrode Structures for Lossless Ion Manipulations (SLIM)

    PubMed Central

    Garimella, Sandilya V.B.; Ibrahim, Yehia M.; Webb, Ian K.; Tolmachev, Aleksey V.; Zhang, Xinyu; Prost, Spencer A.; Anderson, Gordon A.; Smith, Richard D.

    2014-01-01

    We report a conceptual study and computational evaluation of novel planar electrode Structures for Lossless Ion Manipulations (SLIM). Planar electrode SLIM devices were designed that allow for flexible ion confinement, transport and storage using a combination of RF and DC fields. Effective potentials can be generated that provide near ideal regions for confining and manipulating ions in the presence of a gas. Ion trajectory simulations using SIMION 8.1 demonstrated the capability for lossless ion motion in these devices over a wide m/z range and a range of electric fields at low pressures (e.g. a few torr). More complex ion manipulations, e.g. turning ions by 90° and dynamically switching selected ion species into orthogonal channels, are also shown feasible. The performance of SLIM devices at ~4 torr pressure for performing ion mobility based separations (IMS) is computationally evaluated and compared to initial experimental results, and both of which are also shown to agree closely with experimental and theoretical IMS performance for a conventional drift tube design. PMID:25257188

  16. Orbit-based analysis of nonlinear energetic ion dynamics in tokamaks. I. Effective mode number profile and resonant frequency tracking

    NASA Astrophysics Data System (ADS)

    Bierwage, Andreas; Shinohara, Kouji

    2016-04-01

    The nonlinear interactions between shear Alfvén modes and tangentially injected beam ions in the 150-400 keV range are studied numerically in a JT-60U tokamak scenario with realistic geometry, large magnetic drifts, and strong beam drive. For this purpose, the recently developed orbit-based resonance analysis (ORA) method for circulating particles is extended, so that it can be applied to the nonlinear regime, where the spectrum of orbit-based poloidal mode numbers m orb varies in time as the fast ions undergo wave-particle trapping and radial transport. In particular, the extended ORA method captures the effect of nonlinear overlaps between resonances associated with neighboring harmonics ( m orb , n ) and ( m orb + 1 , n ) that cause long-distance ballistic transport. Two cases with low toroidal mode numbers n ≳ 1 are studied: an n = 1 mode without resonance overlap and a strongly driven n = 3 mode with resonance overlap. For both cases, an effective radial profile of the resonant poloidal mode number m res = M eff ( r ) is computed and used to track the effective resonant frequency ω res ( t ) of individual particles during their radial motion r(t). In Paper II, this frequency tracking technique will be applied to study the nonlinear frequency chirping and convective amplification of the modes.

  17. Ion track based tunable device as humidity sensor: a neural network approach

    NASA Astrophysics Data System (ADS)

    Sharma, Mamta; Sharma, Anuradha; Bhattacherjee, Vandana

    2013-01-01

    Artificial Neural Network (ANN) has been applied in statistical model development, adaptive control system, pattern recognition in data mining, and decision making under uncertainty. The nonlinear dependence of any sensor output on the input physical variable has been the motivation for many researchers to attempt unconventional modeling techniques such as neural networks and other machine learning approaches. Artificial neural network (ANN) is a computational tool inspired by the network of neurons in biological nervous system. It is a network consisting of arrays of artificial neurons linked together with different weights of connection. The states of the neurons as well as the weights of connections among them evolve according to certain learning rules.. In the present work we focus on the category of sensors which respond to electrical property changes such as impedance or capacitance. Recently, sensor materials have been embedded in etched tracks due to their nanometric dimensions and high aspect ratio which give high surface area available for exposure to sensing material. Various materials can be used for this purpose to probe physical (light intensity, temperature etc.), chemical (humidity, ammonia gas, alcohol etc.) or biological (germs, hormones etc.) parameters. The present work involves the application of TEMPOS structures as humidity sensors. The sample to be studied was prepared using the polymer electrolyte (PEO/NH4ClO4) with CdS nano-particles dispersed in the polymer electrolyte. In the present research we have attempted to correlate the combined effects of voltage and frequency on impedance of humidity sensors using a neural network model and results have indicated that the mean absolute error of the ANN Model for the training data was 3.95% while for the validation data it was 4.65%. The corresponding values for the LR model were 8.28% and 8.35% respectively. It was also demonstrated the percentage improvement of the ANN Model with respect to the

  18. Surface pressure profiles, vortex structure and initialization for hurricane prediction. Part II: numerical simulations of track, structure and intensity

    NASA Astrophysics Data System (ADS)

    Davidson, Noel E.; Ma, Yimin

    2012-07-01

    In part 1 of this study, an assessment of commonly used surface pressure profiles to represent TC structures was made. Using the Australian tropical cyclone model, the profiles are tested in case studies of high-resolution prediction of track, structure and intensity. We demonstrate that: (1) track forecasts are mostly insensitive to the imposed structure; (2) in some cases [here Katrina (2005)], specification of vortex structure can have a large impact on prediction of structure and intensity; (3) the forecast model mostly preserves the characteristics of the initial structure and so correct structure at t = 0 is a requirement for improved structure forecasting; and (4) skilful prediction of intensity does not guarantee skilful prediction of structure. It is shown that for Ivan (2004) the initial structure from each profile is preserved during the simulations, and that markedly different structures can have similar intensities. Evidence presented suggests that different initial profiles can sometimes change the timing of intensification. Thus, correct initial vortex structure is an essential ingredient for more accurate intensity and structure prediction.

  19. Structural Heterogeneity of Doubly-Charged Peptide b-Ions

    NASA Astrophysics Data System (ADS)

    Li, Xiaojuan; Huang, Yiqun; O'Connor, Peter B.; Lin, Cheng

    2011-02-01

    Performing collisionally activated dissociation (CAD) and electron capture dissociation (ECD) in tandem has shown great promise in providing comprehensive sequence information that was otherwise unobtainable by using either fragmentation method alone or in duet. However, the general applicability of this MS3 approach in peptide sequencing may be undermined by the formation of non-direct sequence ions, as sometimes observed under CAD, particularly when multiple stages of CAD are involved. In this study, varied-sized doubly-charged b-ions from three tachykinin peptides were investigated by ECD. Sequence scrambling was observed in ECD of all b-ions from neurokinin A (HKTDSFVGLM-NH2), suggesting the presence of N- and C-termini linked macro-cyclic conformers. On the contrary, none of the b-ions from eledoisin (pEPSKDAFIGLM-NH2) produced non-direct sequence ions under ECD, as it does not contain a free N-terminal amino group. ECD of several b-ions from Substance P (RPKPQQFFGLM-NH2) showed series of cm-Lys fragment ions which suggested that the macro-cyclic structure may also be formed by connecting the C-terminal carbonyl group and the ɛ-amino group of the lysine side chain. Theoretical investigation of selected Substance P b-ions revealed several low energy conformers, including both linear oxazolones and macro-ring structures, in corroboration with the experimental observation. This study showed that a b-ion may exist as a mixture of several forms, with their propensities influenced by its N-terminus, length, and certain side-chain groups. Further, the presence of several macro-cyclic structures may result in erroneous sequence assignment when the combined CAD and ECD methods are used in peptide sequencing.

  20. Structural Modification of Nanocrystalline Ceria using Ion Beams

    SciTech Connect

    Zhang, Yanwen; Edmondson, Philip D; Varga, Tamas; Moll, Sandra; Namavar, Fereydoon; Weber, William J

    2011-01-01

    Exceptional size-dependent electronic-ionic conductivity of nanostructured ceria can significantly alter materials properties in chemical, physical, electronic and optical applications. Using energetic ions, we have demonstrated effective modification of interface volume and grain size in nanocrystalline ceria from a few nm up to ~ 25 nm, which is the critical region for controlling size-dependent material property. The unique self-healing response of radiation damage at grain boundaries is applied to control the grain size at nanoscale as a function of ion dose and irradiation temperature. Structural modification by energetic ions is proposed to achieve disirable electronic-ionic conductivity.

  1. Structural basis for ion permeation mechanism in pentameric ligand-gated ion channels

    PubMed Central

    Sauguet, Ludovic; Poitevin, Frédéric; Murail, Samuel; Van Renterghem, Catherine; Moraga-Cid, Gustavo; Malherbe, Laurie; Thompson, Andrew W; Koehl, Patrice; Corringer, Pierre-Jean; Baaden, Marc; Delarue, Marc

    2013-01-01

    To understand the molecular mechanism of ion permeation in pentameric ligand-gated ion channels (pLGIC), we solved the structure of an open form of GLIC, a prokaryotic pLGIC, at 2.4 Å. Anomalous diffraction data were used to place bound anions and cations. This reveals ordered water molecules at the level of two rings of hydroxylated residues (named Ser6′ and Thr2′) that contribute to the ion selectivity filter. Two water pentagons are observed, a self-stabilized ice-like water pentagon and a second wider water pentagon, with one sodium ion between them. Single-channel electrophysiology shows that the side-chain hydroxyl of Ser6′ is crucial for ion translocation. Simulations and electrostatics calculations complemented the description of hydration in the pore and suggest that the water pentagons observed in the crystal are important for the ion to cross hydrophobic constriction barriers. Simulations that pull a cation through the pore reveal that residue Ser6′ actively contributes to ion translocation by reorienting its side chain when the ion is going through the pore. Generalization of these findings to the pLGIC family is proposed. PMID:23403925

  2. Heliospheric tracking of enhanced density structures of the 6 October 2010 CME

    NASA Astrophysics Data System (ADS)

    Mishra, Wageesh; Srivastava, Nandita

    2015-07-01

    A Coronal Mass Ejection (CME) is an inhomogeneous structure consisting of different features which evolve differently with the propagation of the CME. Simultaneous heliospheric tracking of different observed features of a CME can improve our understanding about relative forces acting on them. It also helps to estimate accurately their arrival times at the Earth and identify them in in-situ data. This also enables finding any association between remotely observed features and in-situ observations near the Earth. In this paper, we attempt to continuously track two density enhanced features in the CME of 6 October 2010, one at the front and another at the rear edge. This is achieved by using time-elongation maps constructed from STEREO/SECCHI observations. We derive the kinematics of the tracked features using various reconstruction methods. The estimated kinematics are used as inputs in the Drag Based Model (DBM) to estimate the arrival time of the tracked features of the CME at L1. On comparing the estimated kinematics as well as the arrival times of the remotely observed features with in-situ observations by Advanced Composition Explorer (ACE) and Wind, we find that the tracked bright feature at the rear edge of 6 October 2010 CME corresponds most probably to the enhanced density structure after the magnetic cloud detected by ACE and Wind. In-situ plasma and compositional parameters provide evidence that the rear edge density structure may correspond to a filament associated with the CME while the density enhancement at the front corresponds to the leading edge of the CME. Based on this single event study, we discuss the relevance and significance of Heliospheric Imager (HI) observations in identification of the three-part structure of the CME.

  3. Computer simulation of structural modifications induced by highly energetic ions in uranium dioxide

    NASA Astrophysics Data System (ADS)

    Sasajima, Y.; Osada, T.; Ishikawa, N.; Iwase, A.

    2013-11-01

    The structural modification caused by the high-energy-ion irradiation of single-crystalline uranium dioxide was simulated by the molecular dynamics method. As the initial condition, high kinetic energy was supplied to the individual atoms within a cylindrical region of nanometer-order radius located in the center of the specimen. The potential proposed by Basak et al. [C.B. Basak, A.K. Sengupta, H.S. Kamath, J. Alloys Compd. 360 (2003) 210-216] was utilized to calculate interaction between atoms. The supplied kinetic energy was first spent to change the crystal structure into an amorphous one within a short period of about 0.3 ps, then it dissipated in the specimen. The amorphous track radius Ra was determined as a function of the effective stopping power gSe, i.e., the kinetic energy of atoms per unit length created by ion irradiation (Se: electronic stopping power, g: energy transfer ratio from stopping power to lattice vibration energy). It was found that the relationship between Ra and gSe follows the relation Ra2=aln(gS)+b. Compared to the case of Si and β-cristobalite single crystals, it was harder to produce amorphous track because of the long range interaction between U atoms.

  4. Atomic structure of highly-charged ions. Final report

    SciTech Connect

    Livingston, A. Eugene

    2002-05-23

    Atomic properties of multiply charged ions have been investigated using excitation of energetic heavy ion beams. Spectroscopy of excited atomic transitions has been applied from the visible to the extreme ultraviolet wavelength regions to provide accurate atomic structure and transition rate data in selected highly ionized atoms. High-resolution position-sensitive photon detection has been introduced for measurements in the ultraviolet region. The detailed structures of Rydberg states in highly charged beryllium-like ions have been measured as a test of long-range electron-ion interactions. The measurements are supported by multiconfiguration Dirac-Fock calculations and by many-body perturbation theory. The high-angular-momentum Rydberg transitions may be used to establish reference wavelengths and improve the accuracy of ionization energies in highly charged systems. Precision wavelength measurements in highly charged few-electron ions have been performed to test the most accurate relativistic atomic structure calculations for prominent low-lying excited states. Lifetime measurements for allowed and forbidden transitions in highly charged few-electron ions have been made to test theoretical transition matrix elements for simple atomic systems. Precision lifetime measurements in laser-excited alkali atoms have been initiated to establish the accuracy of relativistic atomic many-body theory in many-electron systems.

  5. Ion mobility–mass spectrometry for structural proteomics

    PubMed Central

    Zhong, Yueyang; Hyung, Suk-Joon; Ruotolo, Brandon T

    2012-01-01

    Ion mobility coupled to mass spectrometry has been an important tool in the fields of chemical physics and analytical chemistry for decades, but its potential for interrogating the structure of proteins and multiprotein complexes has only recently begun to be realized. Today, ion mobility– mass spectrometry is often applied to the structural elucidation of protein assemblies that have failed high-throughput crystallization or NMR spectroscopy screens. Here, we highlight the technology, approaches and data that have led to this dramatic shift in use, including emerging trends such as the integration of ion mobility–mass spectrometry data with more classical (e.g., ‘bottom-up’) proteomics approaches for the rapid structural characterization of protein networks. PMID:22292823

  6. Heparan sulfate proteoglycan is present in basement membrane as a double-tracked structure.

    PubMed

    Inoue, S; Grant, D; Leblond, C P

    1989-05-01

    Basement membranes contain 4.5-nm wide sets of two parallel lines, along which short prongs called "spikes" occur at regular intervals. The nature of this structure, referred to as "double tracks," was investigated in Lowicryl sections of mouse kidney and rat Reichert's membrane immunolabeled for basement membrane components using secondary antibodies conjugated to 5-nm gold particles. When the mouse glomerular basement membrane and rat Reichert's membrane were exposed to antibodies directed to the core protein of heparan sulfate proteoglycan, 95% or more of the gold particles were over double tracks, whereas after exposure of Reichert's membrane to antisera against laminin, collagen IV, or entactin, labeling of the double tracks remained at the random level. When heparan sulfate proteoglycan was incubated in Tris buffer, pH 7.4, at 35 degrees C for 1 hr, a precipitate resulted which, on electron microscopic examination, was found to consist of 5- to 6-nm wide sets of two parallel lines along which densities were observed. Immunolabeling confirmed the presence of the proteoglycan's core protein in the sets. Since double tracks were closely similar to this structure and were labeled with the same antibodies, they were likely to be also composed of heparan sulfate proteoglycan. PMID:2522961

  7. Visual Tracking via Coarse and Fine Structural Local Sparse Appearance Models.

    PubMed

    Jia, Xu; Lu, Huchuan; Yang, Ming-Hsuan

    2016-10-01

    Sparse representation has been successfully applied to visual tracking by finding the best candidate with a minimal reconstruction error using target templates. However, most sparse representation-based tracking methods only consider holistic rather than local appearance to discriminate between target and background regions, and hence may not perform well when target objects are heavily occluded. In this paper, we develop a simple yet robust tracking algorithm based on a coarse and fine structural local sparse appearance model. The proposed method exploits both partial and structural information of a target object based on sparse coding using the dictionary composed of patches from multiple target templates. The likelihood obtained by averaging and pooling operations exploits consistent appearance of object parts, thereby helping not only locate targets accurately but also handle partial occlusion. To update templates more accurately without introducing occluding regions, we introduce an occlusion detection scheme to account for pixels belonging to the target objects. The proposed method is evaluated on a large benchmark data set with three evaluation metrics. Experimental results demonstrate that the proposed tracking algorithm performs favorably against several state-of-the-art methods. PMID:27448350

  8. Tracking the motion trajectories of junction structures in 4D CT images of the lung

    NASA Astrophysics Data System (ADS)

    Xiong, Guanglei; Chen, Chuangzhen; Chen, Jianzhou; Xie, Yaoqin; Xing, Lei

    2012-08-01

    Respiratory motion poses a major challenge in lung radiotherapy. Based on 4D CT images, a variety of intensity-based deformable registration techniques have been proposed to study the pulmonary motion. However, the accuracy achievable with these approaches can be sub-optimal because the deformation is defined globally in space. Therefore, the accuracy of the alignment of local structures may be compromised. In this work, we propose a novel method to detect a large collection of natural junction structures in the lung and use them as the reliable markers to track the lung motion. Specifically, detection of the junction centers and sizes is achieved by analysis of local shape profiles on one segmented image. To track the temporal trajectory of a junction, the image intensities within a small region of interest surrounding the center are selected as its signature. Under the assumption of the cyclic motion, we describe the trajectory by a closed B-spline curve and search for the control points by maximizing a metric of combined correlation coefficients. Local extrema are suppressed by improving the initial conditions using random walks from pair-wise optimizations. Several descriptors are introduced to analyze the motion trajectories. Our method was applied to 13 real 4D CT images. More than 700 junctions in each case are detected with an average positive predictive value of greater than 90%. The average tracking error between automated and manual tracking is sub-voxel and smaller than the published results using the same set of data.

  9. Automatic tracking of vessel-like structures from a single starting point.

    PubMed

    Oliveira, Dário Augusto Borges; Leal-Taixé, Laura; Feitosa, Raul Queiroz; Rosenhahn, Bodo

    2016-01-01

    The identification of vascular networks is an important topic in the medical image analysis community. While most methods focus on single vessel tracking, the few solutions that exist for tracking complete vascular networks are usually computationally intensive and require a lot of user interaction. In this paper we present a method to track full vascular networks iteratively using a single starting point. Our approach is based on a cloud of sampling points distributed over concentric spherical layers. We also proposed a vessel model and a metric of how well a sample point fits this model. Then, we implement the network tracking as a min-cost flow problem, and propose a novel optimization scheme to iteratively track the vessel structure by inherently handling bifurcations and paths. The method was tested using both synthetic and real images. On the 9 different data-sets of synthetic blood vessels, we achieved maximum accuracies of more than 98%. We further use the synthetic data-set to analyze the sensibility of our method to parameter setting, showing the robustness of the proposed algorithm. For real images, we used coronary, carotid and pulmonary data to segment vascular structures and present the visual results. Still for real images, we present numerical and visual results for networks of nerve fibers in the olfactory system. Further visual results also show the potential of our approach for identifying vascular networks topologies. The presented method delivers good results for the several different datasets tested and have potential for segmenting vessel-like structures. Also, the topology information, inherently extracted, can be used for further analysis to computed aided diagnosis and surgical planning. Finally, the method's modular aspect holds potential for problem-oriented adjustments and improvements. PMID:26619263

  10. Three-dimensional tracking and analysis of ion channel signals across dendritic arbors

    PubMed Central

    Ginger, Melanie; Broser, Philip; Frick, Andreas

    2013-01-01

    Most neuron types possess elaborate dendritic arbors that receive and integrate excitatory and inhibitory inputs from numerous other neurons to give rise to cell-type specific firing patterns. The computational properties of these dendrites are therefore crucial for neuronal information processing, and are strongly determined by the expression of many types of voltage-gated ion channels in their membrane. The dendritic distribution patterns of these ion channels are characteristic for each ion channel type, are dependent on the neuronal identity, and can be modified in a plastic or pathophysiological manner. We present a method that enables us to semi-automatically map and quantify in 3D the expression levels of specific ion channel types across the entire dendritic arbor. To achieve this, standard immunohistochemistry was combined with reconstruction and quantification procedures for the localization and relative distribution of ion channels with respect to dendritic morphology. This method can, in principle, be applied to any fluorescent signal, including fluorescently tagged membrane proteins, RNAs, or intracellular signaling molecules. PMID:23576958

  11. Structure-structure coupling by liquids: Vibration measurements on a rotating disk with self-tracking LDV

    NASA Astrophysics Data System (ADS)

    Weder, Mario; Horisberger, Beat; Monette, Christine; Dual, Jürg

    2016-06-01

    We present an experimental setup to investigate the structure-structure coupling of a stationary and a rotating disk coupled by an intermediate liquid. This coupling mechanism is particularly important in the mechanical design of Francis turbines, where the vibration of the turbine runner is coupled with the adjacent non-rotating structure. The vibration of the disks is measured using laser Doppler velocimetry (LDV). Whereas we could use a standard scanning LDV system to measure the stationary disk, we had to design and implement a polar scan unit based on the self-tracking LDV method. Here we show the design concept of the setup with a closer look on the self-tracking LDV system as well as selected results of the coupled vibration.

  12. Electron-ion recombination in nuclear recoils tracks in nonpolar liquids. Calculation of the effect of external electric field on the escape probability

    NASA Astrophysics Data System (ADS)

    Mateja, Piotr; Wojcik, Mariusz

    2016-07-01

    A computer simulation method is applied to study electron-ion recombination in tracks of low-energy nuclear recoils in nonpolar liquids in which the electron transport can be described as ideal diffusion. The electron escape probability is calculated as a function of applied electric field, both for the field parallel to the track and for the field perpendicular to the track. The dependence of escape probability on the field direction is the stronger, the longer the ionization track, with a significant effect being found already for tracks of ~100 nm length. The results are discussed in the context of possible applications of nonpolar molecular liquids as target media in directional dark matter detectors.

  13. Structural Basis for Allosteric Regulation of GPCRs by Sodium Ions

    SciTech Connect

    Liu, Wei; Chun, Eugene; Thompson, Aaron A.; Chubukov, Pavel; Xu, Fei; Katritch, Vsevolod; Han, Gye Won; Roth, Christopher B.; Heitman, Laura H.; IJzerman, Adriaan P.; Cherezov, Vadim; Stevens, Raymond C.

    2012-08-31

    Pharmacological responses of G protein-coupled receptors (GPCRs) can be fine-tuned by allosteric modulators. Structural studies of such effects have been limited due to the medium resolution of GPCR structures. We reengineered the human A{sub 2A} adenosine receptor by replacing its third intracellular loop with apocytochrome b{sub 562}RIL and solved the structure at 1.8 angstrom resolution. The high-resolution structure allowed us to identify 57 ordered water molecules inside the receptor comprising three major clusters. The central cluster harbors a putative sodium ion bound to the highly conserved aspartate residue Asp{sup 2.50}. Additionally, two cholesterols stabilize the conformation of helix VI, and one of 23 ordered lipids intercalates inside the ligand-binding pocket. These high-resolution details shed light on the potential role of structured water molecules, sodium ions, and lipids/cholesterol in GPCR stabilization and function.

  14. Instrumentation by distributed optical fiber sensors of a new ballastless track structure

    NASA Astrophysics Data System (ADS)

    Chapeleau, Xavier; Cottineau, Louis-Marie; Sedran, Thierry; Gueguen, Ivan; Cailliau, Joël

    2013-04-01

    While relatively expensive to build, ballastless track structures are presently seen as an attractive alternative to conventional ballast. With its service life of at least 60 years, they require little maintenance and hence they offer great availability. Other reasons for using ballastless tracks instead of ballasted tracks are the lack of suitable ballast material and the need of less noise and vibration for high-speed, in particularly. A new ballastless track structure has been designed to be circulated up to 300km/h, with a target life of 100 years. It is an interoperable way on concrete slabs that are cast-in-place and slip formed. This structure has been built and tested at the scale one in our laboratory. Indeed, ten millions cyclic loads were applied at 2.5Hz to evaluate the fatigue behaviour under selected mechanical and thermal conditions. To monitor the thermo-mechanical behavior of this new structure and to verify the numerical simulations used for its design, a lot of sensors have been embedded. In particularly, we have tested an optical fiber as distributed sensors to measure strain distribution in the railway model. This sensor can also be used to detect, localize and monitor cracks in concrete slabs. The optical fiber sensing technique ("Rayleigh technique") used in this experimentation has a centimetric spatial resolution which allows to measure complex strain profiles unlike electrical strain gauges which only give local information. Firstly, optical cables used as sensors have been successfully embedded and attached to the reinforcing steel bars in the structure. We have noted that they are resistant enough to resist concrete pouring and working activities. Secondly, strains measured by conventional strain gauges has confirmed the quality of the strain profiles measurements obtained by optical fiber sensors. Moreover, we have found a good agreement between experimental profiles measurements and those obtained by numerical simulations. Early

  15. Effect of LET and track structure on the statistical distribution of chromosome aberrations

    NASA Astrophysics Data System (ADS)

    Gudowska-Nowak, E.; Lee, R.; Nasonova, E.; Ritter, S.; Scholz, M.

    Chromosome aberration data obtained for various types of mammalian cells after exposure to low and high LET radiation clearly demonstrate differences in the energy deposition pattern of both radiation qualities. In the present study we focus on the distributions of chromosome aberrations induced in human peripheral blood lymphocytes after exposure to 990 MeV/u Fe ions (LET = 155 keV/μm) or X-rays. For the analysis three different types of distributions were applied, namely a Poisson distribution, a compound Poisson-Poisson (Neyman type A) distribution and a convoluted Poisson-Neyman distribution. The analysis showed that after low LET radiation the distribution of aberrations can be well described by Poisson statistics, reflecting a simple random distribution of damages as expected according to the homogeneous pattern of energy depositions. In contrast, for particles the energy is deposited spatially very inhomogeneous and concentrated along the ion trajectories. After exposure to high energy, high LET particles where the track radius is much larger than the cell nucleus, best fits to the data were achieved by a convoluted Poisson-Neyman statistics. The analysis indicates that, under this exposure condition, the distribution of aberrations is determined by two independent components. The first component is determined by the damage induced by a center of the tracks and follows the Neyman distribution. The second component is determined by the overlapping part of tracks which in the case of very high energetic particles leads to a "photon-like" background dose and is thus characterized by a Poisson distribution.

  16. Ion Streaming Instabilities in Pair Ion Plasma and Localized Structure with Non-Thermal Electrons

    NASA Astrophysics Data System (ADS)

    Nasir Khattak, M.; Mushtaq, A.; Qamar, A.

    2015-12-01

    Pair ion plasma with a fraction of non-thermal electrons is considered. We investigate the effects of the streaming motion of ions on linear and nonlinear properties of unmagnetized, collisionless plasma by using the fluid model. A dispersion relation is derived, and the growth rate of streaming instabilities with effect of streaming motion of ions and non-thermal electrons is calculated. A qausi-potential approach is adopted to study the characteristics of ion acoustic solitons. An energy integral equation involving Sagdeev potential is derived during this process. The presence of the streaming term in the energy integral equation affects the structure of the solitary waves significantly along with non-thermal electrons. Possible application of the work to the space and laboratory plasmas are highlighted.

  17. Structure and dynamics of aqueous solution of uranyl ions

    SciTech Connect

    Chopra, Manish; Choudhury, Niharendu

    2014-04-24

    The present work describes a molecular dynamics simulation study of structure and dynamics of aqueous solution of uranyl ions in water. Structural properties of the system in terms of radial distribution functions and dynamical characteristics as obtained through velocity autocorrelation function and mean square displacements have been analyzed. The results for radial distribution functions show the oxygen of water to form the first solvation shell at 2.4 Å around the uranium atom, whereas the hydrogen atoms of water are distributed around the uranium atom with the major peak at around 3.0 Å. Analyses of transport behaviors of ions and water through MSD indicates that the diffusion of the uranyl ion is much less as compared to that of the water molecules. It is also observed that the dynamical behavior of water molecules gets modified due to the presence of uranyl ion. The effect of increase in concentration of uranyl ions on the structure and dynamics of water molecules is also studied.

  18. LV motion tracking from 3D echocardiography using textural and structural information.

    PubMed

    Myronenko, Andriy; Song, Xubo; Sahn, David J

    2007-01-01

    Automated motion reconstruction of the left ventricle (LV) from 3D echocardiography provides insight into myocardium architecture and function. Low image quality and artifacts make 3D ultrasound image processing a challenging problem. We introduce a LV tracking method, which combines textural and structural information to overcome the image quality limitations. Our method automatically reconstructs the motion of the LV contour (endocardium and epicardium) from a sequence of 3D ultrasound images. PMID:18044597

  19. Track-Structure Monte Carlo Modelling in X-ray and Megavoltage Photon Radiotherapy

    NASA Astrophysics Data System (ADS)

    Hugtenburg, Richard P.

    The use of track structure calculations in radiotherapy using conventional low-LET radiation sources is discussed. Microdosimetry and emergent nanodosimetry methods are considered in explaining variations in quality factors associated with clinical practice and in vitro data. Transformation rate in the human derived for the in vitro system CGL1 is presented as a model for the induction of secondary cancer, a late effect associated with radiotherapy treatment.

  20. Enhanced Ion Acceleration from Micro-tube Structured Targets

    NASA Astrophysics Data System (ADS)

    Snyder, Joseph; Ji, Liangliang; Akli, Kramer

    2015-11-01

    We present an enhanced ion acceleration method that leverages recent advancements in 3D printing for target fabrication. Using the three-dimensional Particle-in-Cell simulation code Virtual Laser-Plasma Lab (VLPL), we model the interaction of a short pulse, high intensity laser with a micro-tube plasma (MTP) structured target. When compared to flat foils, the MTP target enhances the maximum proton energy by a factor of about 4. The ion enhancement is attributed to two main factors: high energy electrons extracted from the tube structure enhancing the accelerating field and light intensification within the MTP target increasing the laser intensity at the location of the foil. We also present results on ion energy scaling with micro-tube diameter and incident laser pulse intensity. This work was supported by the AFOSR under contract No. FA9550-14-1-0085.

  1. Investigations on the structure of the extracted ion beam from an electron cyclotron resonance ion source

    SciTech Connect

    Spaedtke, P.; Lang, R.; Maeder, J.; Rossbach, J.; Tinschert, K.; Maimone, F.

    2012-02-15

    Using improved beam diagnostic tools, the structure of an ion beam extracted from an electron cyclotron resonance ion source (ECRIS) becomes visible. Especially viewing targets to display the beam profile and pepper pot devices for emittance measurements turned out to be very useful. On the contrary, diagnostic tools integrating over one space coordinate like wire harps for profile measurements or slit-slit devices, respectively slit-grid devices to measure the emittance might be applicable for beam transport investigations in a quadrupole channel, but are not very meaningful for investigations regarding the given ECRIS symmetry. Here we try to reproduce the experimentally found structure on the ion beam by simulation. For the simulation, a certain model has to be used to reproduce the experimental results. The model is also described in this paper.

  2. Ab initio simulations for the ion-ion structure factor of warm dense aluminum.

    PubMed

    Rüter, Hannes R; Redmer, Ronald

    2014-04-11

    We perform ab initio simulations based on finite-temperature density functional theory in order to determine the static and dynamic ion-ion structure factor in aluminum. We calculate the dynamic structure factor via the intermediate scattering function and extract the dispersion relation for the collective excitations. The results are compared with available experimental x-ray scattering data. Very good agreement is obtained for the liquid metal domain. In addition we perform simulations for warm dense aluminum in order to obtain the ion dynamics in this strongly correlated quantum regime. We determine the sound velocity for both liquid and warm dense aluminum which can be checked experimentally using narrow-bandwidth free electron laser radiation. PMID:24765982

  3. Monte-Carlo simulations of electronic excitations in swift heavy ion tracks in SiO{sub 2}

    SciTech Connect

    Medvedev, N. A.; Volkov, A. E.

    2008-04-10

    Monte-Carlo simulations were applied for investigation of the initial electronic kinetics ({<=}10{sup -14} s) in tracks of Ca{sup +19} (11.4 MeV/u) in SiO{sub 2}. The spatial and temporal distributions of the volume and excess energy densities of free electrons, electronic vacancies in different atomic shells and the lattice were obtained. It was demonstrated that at 10{sup -14} s an essential part ({approx}55%) of the energy deposited by the ion is trapped in electronic vacancies. The energy transferred to the lattice at times shorter than the characteristic time of electron-phonon coupling was determined. It was found that only {approx}6% of the excess energy of delocalized electrons near the projectile trajectory ({approx}6 nm) may be thermalized on the time 10{sup -14} s from the projectile passage. Ballistic spatial propagation of excess energy cannot be described by thermal diffusion.

  4. Impact of tracking station distribution structure on BeiDou satellite orbit determination

    NASA Astrophysics Data System (ADS)

    Zhang, Rui; Zhang, Qin; Huang, Guanwen; Wang, Le; Qu, Wei

    2015-11-01

    The racking station distribution structure plays an important role in GNSS satellite orbit determination. Due to the current satellite distribution of the BeiDou satellite navigation system (BDS), the problem how to construct a reasonable distribution of tracking stations to obtain BDS satellite orbits with high precision has become a highly imperative issue. Based on the theory of dynamic orbit determination, two different station distributions were analyzed to study their impact on BDS precise and real-time orbit determination. Subsequently, the impact of Satellite Position Dilution of Precision (SPDOP) values on orbit determination was analyzed. Finally, an improved scheme for the tracking station distribution was designed based on the original scheme. The numerical results show that the SPDOP value can be used to evaluate the contribution of the tracking stations distribution on the BDS IGSO and MEO satellites orbit determination. In addition, the tracking stations which focus on the Asia-Pacific region play a key role in current BDS orbit determination.

  5. Structuring of material parameters in lithium niobate crystals with low-mass, high-energy ion radiation

    NASA Astrophysics Data System (ADS)

    Peithmann, K.; Eversheim, P.-D.; Goetze, J.; Haaks, M.; Hattermann, H.; Haubrich, S.; Hinterberger, F.; Jentjens, L.; Mader, W.; Raeth, N. L.; Schmid, H.; Zamani-Meymian, M.-R.; Maier, K.

    2011-10-01

    Ferroelectric lithium niobate crystals offer a great potential for applications in modern optics. To provide powerful optical components, tailoring of key material parameters, especially of the refractive index n and the ferroelectric domain landscape, is required. Irradiation of lithium niobate crystals with accelerated ions causes strong structured modifications in the material. The effects induced by low-mass, high-energy ions (such as 3He with 41 MeV, which are not implanted, but transmit through the entire crystal volume) are reviewed. Irradiation yields large changes of the refractive index Δn, improved domain engineering capability within the material along the ion track, and waveguiding structures. The periodic modification of Δn as well as the formation of periodically poled lithium niobate (PPLN) (supported by radiation damage) is described. Two-step knock-on displacement processes, 3He→Nb and 3He→O causing thermal spikes, are identified as origin for the material modifications.

  6. Optimization design about gimbal structure of high-precision autonomous celestial navigation tracking mirror system

    NASA Astrophysics Data System (ADS)

    Huang, Wei; Yang, Xiao-xu; Han, Jun-feng; Wei, Yu; Zhang, Jing; Xie, Mei-lin; Yue, Peng

    2016-01-01

    High precision tracking platform of celestial navigation with control mirror servo structure form, to solve the disadvantages of big volume and rotational inertia, slow response speed, and so on. It improved the stability and tracking accuracy of platform. Due to optical sensor and mirror are installed on the middle-gimbal, stiffness and resonant frequency requirement for high. Based on the application of finite element modality analysis theory, doing Research on dynamic characteristics of the middle-gimbal, and ANSYS was used for the finite element dynamic emulator analysis. According to the result of the computer to find out the weak links of the structure, and Put forward improvement suggestions and reanalysis. The lowest resonant frequency of optimization middle-gimbal avoid the bandwidth of the platform servo mechanism, and much higher than the disturbance frequency of carrier aircraft, and reduces mechanical resonance of the framework. Reaching provides a theoretical basis for the whole machine structure optimization design of high-precision of autonomous Celestial navigation tracking mirror system.

  7. The effect of surfactants on chemical development of ion track nanopores in polymer

    NASA Astrophysics Data System (ADS)

    Yamauchi, Y. U.; Apel, P. Y. U.

    2010-11-01

    The use of surfactants in etching of the track membranes (TMs) enables one to control the pore shape in TMs. This technique is useful to improve flow rate, and to optimize the retention and permeation properties of TMs. The addition of an anionic surfactant, sodium dodecyl diphenyloxide disulphonate (SDDD), to etching solutions leads to the highly tapered pore shape in TMs of the polyethylene terephthalate (PET). To understand the mechanism of the surfactant effect on track etching in the nanometer range, we study the diffusion and adsorption of SDDD on non-etched non-porous, etched non-porous and etched porous PET films. The comparison of non-etched non-porous and etched non-porous films shows the effect of negatively charged surface on the adsorption of surfactant. The comparison of etched non-porous and etched porous PET films shows the different adsorption on film surface and inner wall of nanopore, thus the influence of curvature of the surface on the adsorption of surfactant molecules.

  8. Beam energy tracking system on Optima XEx high energy ion implanter

    SciTech Connect

    David, Jonathan; Satoh, Shu; Wu Xiangyang; Geary, Cindy; Deluca, James

    2012-11-06

    The Axcelis Optima XEx high energy implanter is an RF linac-based implanter with 12 RF resonators for beam acceleration. Even though each acceleration field is an alternating, sinusoidal RF field, the well known phase-focusing principle produces a beam with a sharp quasi-monoenergetic energy spectrum. A magnetic energy filter after the linac further attenuates the low energy continuum in the energy spectrum often associated with RF acceleration. The final beam energy is a function of the phase and amplitude of the 12 resonators in the linac. When tuning a beam, the magnetic energy filter is set to the desired energy, and each linac parameter is tuned to maximize the transmission through the filter. Once a beam is set up, all the parameters are stored in a recipe, which can be easily tuned and has proven to be quite repeatable. The magnetic field setting of the energy filter selects the beam energy from the RF Linac accelerator, and in-situ verification of beam energy in addition to the magnetic energy filter setting has long been desired. An independent energy tracking system was developed for this purpose, using the existing electrostatic beam scanner as a deflector to construct an in-situ electrostatic energy analyzer. This paper will describe the system and performance of the beam energy tracking system.

  9. Freestanding single-crystalline magnetic structures fabricated by ion bombardment

    NASA Astrophysics Data System (ADS)

    Schoenherr, P.; Bischof, A.; Boehm, B.; Eib, P.; Grimm, S.; Alvarado, S. F.; Gross, L.; Allenspach, R.

    2015-01-01

    Starting from an ultrathin Fe film grown epitaxially on top of a GaAs(001) substrate, we show that freestanding structures can be created by ion-beam treatment. These structures are single-crystalline blisters and only a few nanometers thick. Anisotropic stress in the rim of a blister induces magnetic domain states magnetized in the direction normal to the blister edge. Experimental evidence is provided that the lateral size can be confined by starting from a nanostructured template.

  10. Freestanding single-crystalline magnetic structures fabricated by ion bombardment

    SciTech Connect

    Schoenherr, P.; Bischof, A.; Boehm, B.; Eib, P.; Grimm, S.; Gross, L.; Allenspach, R.; Alvarado, S. F.

    2015-01-19

    Starting from an ultrathin Fe film grown epitaxially on top of a GaAs(001) substrate, we show that freestanding structures can be created by ion-beam treatment. These structures are single-crystalline blisters and only a few nanometers thick. Anisotropic stress in the rim of a blister induces magnetic domain states magnetized in the direction normal to the blister edge. Experimental evidence is provided that the lateral size can be confined by starting from a nanostructured template.

  11. Prompt Gas Desorption Due to Ion Impact on Accelerator Structures

    NASA Astrophysics Data System (ADS)

    Vijay, Sagar; Seidl, Peter A.; Faltens, Andy; Lidia, Steven M.

    2011-10-01

    The repetition rate and peak current of high intensity ion accelerators for inertial fusion or other applications may be limited under certain conditions by the desorption of gas molecules and atoms due to stray ions striking the accelerator structure. We have measured the prompt yield of atoms in close proximity to the point of impact of the ions on a surface. Using the 300-keV, K+ ion beam of the Neutralized Drift Compression Experiment (NDCX-I), ions strike a metal target in a 5-10 microsecond bunch. The collector of a Bayert-Alpert style ionization gauge is used to detect the local pressure burst several centimeters away. Pressure transients are observed on a micro-second time scale due to the initial burst of desorbed gas, and on a much longer (~1 second) timescale, corresponding to the equilibration of the pressure after many ``bounces'' of atoms in the vacuum chamber. We report on these time dependent pressure measurements, modeling of the pressure transient, and implications for high-intensity ion accelerators. Work performed under auspices of U.S. DOE by LBNL under Contract DE-AC02-05CH1123.

  12. Mechanochemically synthesized fluorides: local structures and ion transport.

    PubMed

    Preishuber-Pflügl, Florian; Wilkening, Martin

    2016-06-01

    The performance of new sensors or advanced electrochemical energy storage devices strongly depends on the active materials chosen to realize such systems. In particular, their morphology may greatly influence their overall macroscopic properties. Frequently, limitations in classical ways of chemical preparation routes hamper the development of materials with tailored properties. Fortunately, such hurdles can be overcome by mechanochemical synthesis. The versatility of mechanosynthesis allows the provision of compounds that are not available through common synthesis routes. The mechanical treatment of two or three starting materials in high-energy ball mills enables the synthesis not only of new compounds but also of nanocrystalline materials with unusual properties such as enhanced ion dynamics. Fast ion transport is of crucial importance in electrochemical energy storage. It is worth noting that mechanosynthesis also provides access to metastable phases that cannot be synthesized by conventional solid state synthesis. Ceramic synthesis routes often yield the thermally, i.e., thermodynamically, stable products rather than metastable compounds. In this perspective we report the mechanochemical synthesis of nanocrystalline fluorine ion conductors that serve as model substances to understand the relationship between local structures and ion dynamics. While ion transport properties were complementarily probed via conductivity spectroscopy and nuclear magnetic relaxation, local structures of the phases prepared were investigated by high-resolution (19)F NMR spectroscopy carried out by fast magic angle spinning. The combination of nuclear and non-nuclear techniques also helped us to shed light on the mechanisms controlling mechanochemical reactions in general. PMID:27172256

  13. Application of ion beams to synthesis of environmentally responsive track membranes

    NASA Astrophysics Data System (ADS)

    Omichi, H.; Yoshida, M.; Asano, M.; Nagaoka, N.; Kubota, H.; Katakai, R.; Spohr, R.; Reber, N.; Wolf, A.; Alder, G. M.; Ang, V.; Bashford, C. L.; Pasternak, C. A.

    1997-08-01

    Heavy ion beams with energy in the order of 10 MeV/n were irradiated onto polyethylene terephthalate (PET) and polydiethyleneglycol-bis-allylcarbonate commercially known as CR-39 for producing organic porous membranes. The condition to obtain cylindrical pores was accounted for the relation of restricted energy loss, REL, from ion beams to the polymer films with relative etching rate, Q, in the region along ion's trajectory versus non-irradiated region. Then the porous membranes were chemically modified by grafting such monomers as N-isopropylacrylamide and acryloyl-L-proline methyl ester onto the surface of pores to impart the characteristic of the hydrogel obtained from these polymers to the membrane. The pore size of the membrane changed from an open state to a completely closed state when environmental conditions such as temperature were changed. The permeation of water, choline, insulin and albumin through the membrane was controlled by temperature. An abrupt change of permeability was observed at the phase transition temperature of the hydrogel.

  14. Stable Ion Beam Analysis (RBS and PIXE) Study of Photocatalytic Track-Etched Membranes

    NASA Astrophysics Data System (ADS)

    Rossouw, A.; Artoshina, O. V.; Nechaev, A. N.; Apel, P. Yu.; Petrik, L.; Perold, W. J.; Pineda-Vargas, C. A.

    2015-11-01

    In microfiltration, caking is a major problem. Organic molecules get absorbed on the track-etched membrane TM surface during water purification. This leads to a loss of efficiency and changes in TM selectivity. A solution devised to solve this problem is the creation of self-cleaning, low-absorptive TM coatings. The TM surface was modified by depositing a thin-film photocatalytic semiconductor, titanium dioxide (TiO2). Strong oxidizing agents appear on the TiO2 surface in the presence of water, dissolved oxygen and UV irradiation. This results in the mineralization of the organic compounds present, By applying the use of exotic beams in the material research, it becomes possible to investigate properties regarding the layer thickness, homogeneity and purity of the modified TMs, not otherwise attainable.

  15. Calibration of solid state nuclear track detectors at high energy ion beams for cosmic radiation measurements: HAMLET results

    NASA Astrophysics Data System (ADS)

    Szabó, J.; Pálfalvi, J. K.

    2012-12-01

    The MATROSHKA experiments and the related HAMLET project funded by the European Commission aimed to study the dose burden of the crew working on the International Space Station (ISS). During these experiments a human phantom equipped with several thousands of radiation detectors was exposed to cosmic rays inside and outside the ISS. Besides the measurements realized in Earth orbit, the HAMLET project included also a ground-based program of calibration and intercomparison of the different detectors applied by the participating groups using high-energy ion beams. The Space Dosimetry Group of the Centre for Energy Research (formerly Atomic Energy Research Institute) participated in these experiments with passive solid state nuclear track detectors (SSNTDs). The paper presents the results of the calibration experiments performed in the years 2008-2011 at the Heavy Ion Medical Accelerator (HIMAC) of the National Institute of Radiological Sciences (NIRS), Chiba, Japan. The data obtained serve as update and improvement for the previous calibration curves which are necessary for the evaluation of the SSNTDs exposed in unknown space radiation fields.

  16. Ion channel voltage sensors: structure, function, and pathophysiology.

    PubMed

    Catterall, William A

    2010-09-23

    Voltage-gated ion channels generate electrical signals in species from bacteria to man. Their voltage-sensing modules are responsible for initiation of action potentials and graded membrane potential changes in response to synaptic input and other physiological stimuli. Extensive structure-function studies, structure determination, and molecular modeling are now converging on a sliding-helix mechanism for electromechanical coupling in which outward movement of gating charges in the S4 transmembrane segments catalyzed by sequential formation of ion pairs pulls the S4-S5 linker, bends the S6 segment, and opens the pore. Impairment of voltage-sensor function by mutations in Na+ channels contributes to several ion channelopathies, and gating pore current conducted by mutant voltage sensors in Na(V)1.4 channels is the primary pathophysiological mechanism in hypokalemic periodic paralysis. The emerging structural model for voltage sensor function opens the way to development of a new generation of ion-channel drugs that act on voltage sensors rather than blocking the pore. PMID:20869590

  17. The effect of track structure on cell inactivation and chromosome damage at a constant let of 120 keV/mum

    NASA Astrophysics Data System (ADS)

    Goodwin, E. H.; Bailey, S. M.; Chen, D. J.; Cornforth, M. N.

    The influence of track structure on chromosome damage and cell inactivation are being investigated. Plateau-phase normal human fibroblast cultures were irradiated with gamma rays, and He, Ne and Ar ions. Particle velocities were chosen so that all beams had an LET of 120 keV/mum. In this constant-LET experimental design, the radial distribution of excitations and ionizations about the particle track is the most significant variable. Using premature chromosome condensation, chromatin breaks were measured at two time points, promptly after irradiation and after a prolonged incubation to allow for repair. These measurements give an indication of both initial chromosomal damage and also residual damage that is either not repaired or is misrepaired. Survival was measured under the same conditions. Results indicate that the RBEs for both cell inactivation and, to a lesser extent, chromosome damage decrease as particle energy increases.

  18. Incremental Structured Dictionary Learning for Video Sensor-Based Object Tracking

    PubMed Central

    Xue, Ming; Yang, Hua; Zheng, Shibao; Zhou, Yi; Yu, Zhenghua

    2014-01-01

    To tackle robust object tracking for video sensor-based applications, an online discriminative algorithm based on incremental discriminative structured dictionary learning (IDSDL-VT) is presented. In our framework, a discriminative dictionary combining both positive, negative and trivial patches is designed to sparsely represent the overlapped target patches. Then, a local update (LU) strategy is proposed for sparse coefficient learning. To formulate the training and classification process, a multiple linear classifier group based on a K-combined voting (KCV) function is proposed. As the dictionary evolves, the models are also trained to timely adapt the target appearance variation. Qualitative and quantitative evaluations on challenging image sequences compared with state-of-the-art algorithms demonstrate that the proposed tracking algorithm achieves a more favorable performance. We also illustrate its relay application in visual sensor networks. PMID:24549252

  19. Microdosimetry of the full slowing down of protons using Monte Carlo track structure simulations.

    PubMed

    Liamsuwan, T; Uehara, S; Nikjoo, H

    2015-09-01

    The article investigates two approaches in microdosimetric calculations based on Monte Carlo track structure (MCTS) simulations of a 160-MeV proton beam. In the first approach, microdosimetric parameters of the proton beam were obtained using the weighted sum of proton energy distributions and microdosimetric parameters of proton track segments (TSMs). In the second approach, phase spaces of energy depositions obtained using MCTS simulations in the full slowing down (FSD) mode were used for the microdosimetric calculations. Targets of interest were water cylinders of 2.3-100 nm in diameters and heights. Frequency-averaged lineal energies ([Formula: see text]) obtained using both approaches agreed within the statistical uncertainties. Discrepancies beyond this level were observed for dose-averaged lineal energies ([Formula: see text]) towards the Bragg peak region due to the small number of proton energies used in the TSM approach and different energy deposition patterns in the TSM and FSD of protons. PMID:25904698

  20. Metal ion influence on eumelanin fluorescence and structure

    NASA Astrophysics Data System (ADS)

    Sutter, Jens-Uwe; Birch, David J. S.

    2014-06-01

    Melanin has long been thought to have an unworkably weak and complex fluorescence, but here we study its intrinsic fluorescence in order to demonstrate how metal ions can be used to control the rate of formation, constituents and structure of eumelanin formed from the well-known laboratory auto-oxidation of 3,4-dihydroxy-L-phenylalanine (L-DOPA). The effect on eumelanin absorption and fluorescence of a range of solvated metal ions is reported including Cu, Zn, Ni, Na and K. Monovalent cations and Zn have little effect, but the effect of transition metal cations can be considerable. For example, at pH 10, copper ions are shown to accelerate the onset of eumelanin formation, but not the rate of formation once it commences, and simplify the usual complex structure and intrinsic fluorescence of eumelanin in a way that is consistent with an increased abundance of 5,5-dihydroxyindole-2-carboxylic acid (DHICA). The presence of a dominant 6 ns fluorescence decay time at 480 nm, when excited at 450 nm describes a distinct photophysical species, which we tentatively assign to small oligomers. Copper is well-known to normally quench fluorescence, but increasing amounts of copper surprisingly leads to an increase in the fluorescence decay time of eumelanin, while reducing the fluorescence intensity, suggesting copper modification of the excited state. Such results have bearing on diverse areas. The most accepted morphology for melanin is that of a graphite-like sheet structure, and one which readily binds metal ions, an interaction that is thought to have an important, though as yet unclear bearing on several areas of medicine including neurology. There is also increasing interest in bio-mimicry by preparing and labelling sheet structures with metal ions for new electronic and photonic materials.

  1. Structural modification of nanocrystalline ceria by ion beams

    SciTech Connect

    Zhang, Yanwen; Edmondson, Philip D.; Varga, Tamas; Moll, Sandra; Namavar, Fereydoon; Lan, Chune; Weber, William J.

    2011-01-01

    Exceptional size-dependent electronic–ionic conductivity of nanostructured ceria can significantly alter materials properties in chemical, physical, electronic and optical applications. Using energetic ions, we have demonstrated effective modification of interface volume and grain size in nanocrystalline ceria from a few nm up to ~25 nm, which is the critical region for controlling size-dependent material property. The grain size increases and follows an exponential law as a function of ion fluence that increases with temperature, while the cubic phase is stable under the irradiation. The unique self-healing response of radiation damage at grain boundaries is utilized to control the grain size at the nanoscale. Structural modification by energetic ions is proposed to achieve desirable electronic–ionic conductivity.

  2. Ion aggregation in high salt solutions. V. Graph entropy analyses of ion aggregate structure and water hydrogen bonding network.

    PubMed

    Choi, Jun-Ho; Cho, Minhaeng

    2016-05-28

    Dissolved ions in water tend to form polydisperse ion aggregates such as ion pairs, relatively compact ion clusters, and even spatially extended ion networks with increasing salt concentration. Combining molecular dynamics simulation and graph theoretical analysis methods, we recently studied morphological structures of ion aggregates with distinctively different characteristics. They can be distinguished from each other by calculating various spectral graph theoretical properties such as eigenvalues and eigenvectors of adjacency matrices of ion aggregates and water hydrogen-bonding networks, minimum path lengths, clustering coefficients, and degree distributions. Here, we focus on percolation and graph entropic properties of ion aggregates and water hydrogen-bonding networks in high salt solutions. Ion network-forming K(+) and SCN(-) ions at high concentrations show a percolating behavior in their aqueous solutions, but ion cluster-forming ions in NaCl solutions do not show such a transition from isolated ion aggregates to percolating ion-water mixture morphology. Despite that the ion aggregate structures are strikingly different for either cluster- or network-forming ions in high salt solutions, it is interesting that the water structures remain insensitive to the electrostatic properties, such as charge densities and polydentate properties, of dissolved ions, and morphological structures of water H-bonding networks appear to be highly robust regardless of the nature and concentration of salt. We anticipate that the present graph entropy analysis results would be of use in understanding a variety of anomalous behaviors of interfacial water around biomolecules as well as electric conductivities of high electrolyte solutions. PMID:27250298

  3. Ion aggregation in high salt solutions. V. Graph entropy analyses of ion aggregate structure and water hydrogen bonding network

    NASA Astrophysics Data System (ADS)

    Choi, Jun-Ho; Cho, Minhaeng

    2016-05-01

    Dissolved ions in water tend to form polydisperse ion aggregates such as ion pairs, relatively compact ion clusters, and even spatially extended ion networks with increasing salt concentration. Combining molecular dynamics simulation and graph theoretical analysis methods, we recently studied morphological structures of ion aggregates with distinctively different characteristics. They can be distinguished from each other by calculating various spectral graph theoretical properties such as eigenvalues and eigenvectors of adjacency matrices of ion aggregates and water hydrogen-bonding networks, minimum path lengths, clustering coefficients, and degree distributions. Here, we focus on percolation and graph entropic properties of ion aggregates and water hydrogen-bonding networks in high salt solutions. Ion network-forming K+ and SCN- ions at high concentrations show a percolating behavior in their aqueous solutions, but ion cluster-forming ions in NaCl solutions do not show such a transition from isolated ion aggregates to percolating ion-water mixture morphology. Despite that the ion aggregate structures are strikingly different for either cluster- or network-forming ions in high salt solutions, it is interesting that the water structures remain insensitive to the electrostatic properties, such as charge densities and polydentate properties, of dissolved ions, and morphological structures of water H-bonding networks appear to be highly robust regardless of the nature and concentration of salt. We anticipate that the present graph entropy analysis results would be of use in understanding a variety of anomalous behaviors of interfacial water around biomolecules as well as electric conductivities of high electrolyte solutions.

  4. Reduction and structural modification of zirconolite on He+ ion irradiation

    NASA Astrophysics Data System (ADS)

    Gupta, Merry; Kulriya, P. K.; Shukla, Rishabh; Dhaka, R. S.; Kumar, Raj; Ghumman, S. S.

    2016-07-01

    The immobilization of minor actinides and alkaline-earth metal is a major concern in nuclear industry due to their long-term radioactive contribution to the high level waste (HLW). Materials having zirconolite, pyrochlore, and perovskite structure are promising candidates for immobilization of HLW. The zirconolite which exhibits high radiation stability and corrosion resistance behavior is investigated for its radiation stability against alpha particles in the present study. CaZrTi2O7 pellets prepared using solid state reaction techniques, were irradiated with 30 keV He+ ions for the ion fluence varying from 1 × 1017 to 1 × 1021 ions/m2. Scanning electron microscopy (SEM) images of the un-irradiated sample exhibited well separated grains with average size of about 6.8 μm. On the ion irradiation, value of the average grains size was about 7.1 μm, and change in the microstructure was insignificant. The X-ray photoelectron spectroscopy (XPS) studies showed a shift in the core level peak position (of Ca 2p, Ti 2p and Zr 3d) towards lower binding energy with respect to pristine sample as well as loss of oxygen was also observed for sample irradiated with the ion fluence of 1 × 1020 ions/m2. These indicate a decrease in co-ordination number and the ionic character of Msbnd O bond. Moreover, core level XPS signal was not detected for sample irradiated with ion fluence of 1 × 1021 ions/m2, suggesting surface damage of the sample at this ion fluence. However, X-ray diffraction (XRD) studies showed that zirconolite was not amorphized even on irradiation up to a fluence order of 1 × 1021 ion/m2. But, significant decrease in peak intensity due to creation of defects and a marginal positive peak shift due to tensile strain induced by irradiation, were observed. Thus, XRD along with XPS investigation suggests that reduction, decrease in co-ordination number, and increase in covalency are responsible for the radiation damage in zirconolite.

  5. Investigation of Semiconductor Surface Structure by Transmission Ion Channeling.

    NASA Astrophysics Data System (ADS)

    Lyman, Paul Francis

    The primary thrust of this dissertation is the investigation of the composition and structure of two important surface systems on Si, and the study of how this structure evolves under the influence of ion bombardment or film growth. I have studied the initial stages of oxidation of Si immediately following removal of a surface oxide by an HF etch. I have also studied the structure of Ge deposited on clean Si(100) at low temperatures. These systems are of considerable technological interest, but were chosen because they naturally pose fundamental questions regarding physical and chemical processes at surfaces. In the study of the oxidation of Si, I have focused on the influence of the bombarding ion beam in altering the structure and composition of the surface layer. Thus, the system then provides a natural vehicle to study ion-induced chemistry. In the study of low-temperature growth of Ge, I have focused on the structure of the Ge layer and the evolution of that structure upon further deposition or upon heating. This simple system is a model one for observing strained semiconductor heteroepitaxial growth. The primary probe for these studies was transmission channeling of MeV ions. The sensitivity of this technique to correlations between the substrate and an overlayer allowed us to make the following observations. The O, Si and H bound in the thin oxide formed after an HF etch and H_2O rinse occupy preferred positions with respect to the Si matrix. Upon ion bombardment, the O further reacts with the Si (the reaction proceeds linearly with the ion fluence) and the portion of the H that is uncorrelated to the substrate is preferentially desorbed. For the case of Ge growth on Si(100)-(2 x 1) at room temperature, a substantial fraction of the Ge films is strained to occupy sites having the lattice constant of the Si substrate (pseudomorphic growth). A model for film growth is proposed in which pseudomorphic domains constitute roughly half of the Ge films up to a

  6. Structure property relationships of carbonaceous films grown under ion enhancement

    SciTech Connect

    Weissmantel, C.; Ackermann, E.; Bewilogua, K.; Hecht, G.; Kupfer, H.; Rau, B.

    1986-11-01

    Based on our own results and in comparison with data published by other groups the structure property relationships of carbon and carbon/metal films prepared by sputtering and deposition of partially ionized species are discussed. Films grown by ion beam sputtering are dark brownish and amorphous with a small fraction of microcrystals. However, a transition to transparent and insulating layers can be effected by ion bombardment. C/Me coatings, where Me stands for Ti or Sn, were obtained by magnetron sputtering of composite targets. The films proved to be amorphous up to metal concentrations of more than 10 at. %, but metal and carbide crystals grow upon annealing. Measurements of the hardness, the electrical conductivity, and the contact behavior in dependence on the composition provided interesting information. For carbon films prepared by deposition of partially ionized benzene species it has been found that the properties depend characteristically on the ion energy; typical ''diamondlike'' i-C films are obtained by applying a bias voltage from 1--3 keV. The thermal stability of the amorphous coatings is discussed in conjunction with their electrical conductivity. Summarizing extensive structure investigations, a structure model based on tetrahedrally interlinked carbon rings is proposed. Composites of the type i-C/Me (Me: Al, Ti, Cr), which were prepared by simultaneous metal evaporation, exhibit a wide range of structure property relations.

  7. Study of coal structure using secondary ion mass spectrometry

    SciTech Connect

    Tingey, G.L.; Lytle, J.M.; Baer, D.R.; Thomas, M.T.

    1980-12-01

    Secondary-ion Mass Spectrometry (SIMS) is examined as a tool for studying the chemical structure of coal. SIMS has potential for analysis of coal because of the following characteristics: sensitivity to chemical structure; high sensitivity to all masses; application to solids; excellent depth resolution; and reasonable spatial resolution. SIMS spectra of solid coals show differences with respect to coal rank, the spectra of high rank coal being similar to that of graphite, and the spectra of low rank coal being similar to that of wood. Some functional group analysis is also possible using SIMS. Low rank coals show a larger peak at 15 amu indicating more methyl groups than found in the higher rank coals. Fragments with two and three carbon atoms have also been examined; much larger fragments are undoubtedly present but were not evaluated in this study. Examination of these groups, which are expected to contain valuable information on coal structure, is planned for future work. It has been observed that mineral atoms present in the coal have large secondary ion yields which complicate the interpretation of the spectra. Studies on mineral-free coals and model compounds are therefore recommended to facilitate determination of organic coal structure. In addition, mass spectrometry with much greater mass resolution will aid in distinguishing between various ion species.

  8. Data mining of metal ion environments present in protein structures.

    PubMed

    Zheng, Heping; Chruszcz, Maksymilian; Lasota, Piotr; Lebioda, Lukasz; Minor, Wladek

    2008-09-01

    Analysis of metal-protein interaction distances, coordination numbers, B-factors (displacement parameters), and occupancies of metal-binding sites in protein structures determined by X-ray crystallography and deposited in the PDB shows many unusual values and unexpected correlations. By measuring the frequency of each amino acid in metal ion-binding sites, the positive or negative preferences of each residue for each type of cation were identified. Our approach may be used for fast identification of metal-binding structural motifs that cannot be identified on the basis of sequence similarity alone. The analysis compares data derived separately from high and medium-resolution structures from the PDB with those from very high-resolution small-molecule structures in the Cambridge Structural Database (CSD). For high-resolution protein structures, the distribution of metal-protein or metal-water interaction distances agrees quite well with data from CSD, but the distribution is unrealistically wide for medium (2.0-2.5A) resolution data. Our analysis of cation B-factors versus average B-factors of atoms in the cation environment reveals substantial numbers of structures contain either an incorrect metal ion assignment or an unusual coordination pattern. Correlation between data resolution and completeness of the metal coordination spheres is also found. PMID:18614239

  9. Data mining of metal ion environments present in protein structures

    PubMed Central

    Zheng, Heping; Chruszcz, Maksymilian; Lasota, Piotr; Lebioda, Lukasz; Minor, Wladek

    2010-01-01

    Analysis of metal-protein interaction distances, coordination numbers, B-factors (displacement parameters), and occupancies of metal binding sites in protein structures determined by X-ray crystallography and deposited in the PDB shows many unusual values and unexpected correlations. By measuring the frequency of each amino acid in metal ion binding sites, the positive or negative preferences of each residue for each type of cation were identified. Our approach may be used for fast identification of metal-binding structural motifs that cannot be identified on the basis of sequence similarity alone. The analysis compares data derived separately from high and medium resolution structures from the PDB with those from very high resolution small-molecule structures in the Cambridge Structural Database (CSD). For high resolution protein structures, the distribution of metal-protein or metal-water interaction distances agrees quite well with data from CSD, but the distribution is unrealistically wide for medium (2.0 – 2.5 Å) resolution data. Our analysis of cation B-factors versus average B-factors of atoms in the cation environment reveals substantial numbers of structures contain either an incorrect metal ion assignment or an unusual coordination pattern. Correlation between data resolution and completeness of the metal coordination spheres is also found. PMID:18614239

  10. Studying Radiation Damage in Structural Materials by Using Ion Accelerators

    NASA Astrophysics Data System (ADS)

    Hosemann, Peter

    2011-02-01

    Radiation damage in structural materials is of major concern and a limiting factor for a wide range of engineering and scientific applications, including nuclear power production, medical applications, or components for scientific radiation sources. The usefulness of these applications is largely limited by the damage a material can sustain in the extreme environments of radiation, temperature, stress, and fatigue, over long periods of time. Although a wide range of materials has been extensively studied in nuclear reactors and neutron spallation sources since the beginning of the nuclear age, ion beam irradiations using particle accelerators are a more cost-effective alternative to study radiation damage in materials in a rather short period of time, allowing researchers to gain fundamental insights into the damage processes and to estimate the property changes due to irradiation. However, the comparison of results gained from ion beam irradiation, large-scale neutron irradiation, and a variety of experimental setups is not straightforward, and several effects have to be taken into account. It is the intention of this article to introduce the reader to the basic phenomena taking place and to point out the differences between classic reactor irradiations and ion irradiations. It will also provide an assessment of how accelerator-based ion beam irradiation is used today to gain insight into the damage in structural materials for large-scale engineering applications.

  11. Correlation of ion dynamics and structure of superionic tellurite glasses

    SciTech Connect

    Dutta, D.; Ghosh, A.

    2008-01-28

    Ion dynamics and structure of a series of superionic AgI-doped silver tellurite glasses have been investigated in this paper. The composition dependence of the dc conductivity and the activation energy of these glasses has been compared with those of AgI-doped silver phosphate and borate glasses. We have observed that the conductivity increases and the activation energy decreases with increase of AgI content and that the tellurite glasses have higher conductivity than those for phosphate or borate glasses. We have analyzed the ac electrical data in the framework of the power law and the electric modulus formalisms. We have established a correlation between the crossover rate of the mobile silver ions and the rearrangement of the structural units in tellurite glasses. The scaling of the conductivity spectra has been used to interpret the temperature and composition dependence of the relaxation dynamics. Analysis of the dielectric relaxation in the framework of modulus formalism indicates an increase in the ion-ion cooperation in the glass compositions with increasing AgI content.

  12. Filamented ion tail structures at Titan: A hybrid simulation study

    NASA Astrophysics Data System (ADS)

    Feyerabend, Moritz; Simon, Sven; Motschmann, Uwe; Liuzzo, Lucas

    2015-11-01

    This study investigates the processes that lead to the detection of split signatures in ion density during several crossings of the Cassini spacecraft through Titan's mid-range plasma tail (T9, T63, and T75). During each of these flybys, the Cassini Plasma Spectrometer detected Titan's ionospheric ion population twice; i.e., the spacecraft passed through two spatially separated regions where cold ions were detected, with the regions also being dominated by ions of different masses in the case of T9. Whether this filamented tail structure is an omnipresent feature of Titan's plasma interaction or a result of non-stationary upstream conditions during specific flybys is still unclear. To explain these features, we apply the hybrid simulation code AIKEF (kinetic ions and fluid electrons). Our model includes chemical reactions as well as a realistic photoionization model for a sophisticated description of the ionospheric composition of Titan. Our simulations show that the filamentation of Titan's tail is indeed a common feature of the moon's plasma interaction. Light ionospheric species escape along draped magnetic field lines to form a parabolically shaped filament structure, which is mainly seen in planes that contain the upstream magnetospheric magnetic field and the upstream flow direction. In addition, transport of ions of all species from the ramside towards downstream produces a cone structure behind Titan, with a region of decreased density inside and filaments of 1-2 RT (RT=2575 km) thickness and enhanced density at the surface of the cone. Spacecraft trajectories that penetrate these structures allow for the detection of split signatures in the tail. The orientation of the upstream magnetic field and plasma flow as well as local time effects (i.e., Titan's orbital position) influence the location of the filaments in the tail and can also cause asymmetries in their sizes and densities. The detection of the split signatures along a spacecraft trajectory may

  13. Solvation structures of protons and hydroxide ions in water

    NASA Astrophysics Data System (ADS)

    Chen, Chen; Huang, Congcong; Waluyo, Iradwikanari; Nordlund, Dennis; Weng, Tsu-Chien; Sokaras, Dimosthenis; Weiss, Thomas; Bergmann, Uwe; Pettersson, Lars G. M.; Nilsson, Anders

    2013-04-01

    X-ray Raman spectroscopy (XRS) combined with small-angle x-ray scattering (SAXS) were used to study aqueous solutions of HCl and NaOH. Hydrated structures of H+ and OH- are not simple mirror images of each other. While both ions have been shown to strengthen local hydrogen bonds in the hydration shell as indicated by XRS, SAXS suggests that H+ and OH- have qualitatively different long-range effects. The SAXS structure factor of HCl (aq) closely resembles that of pure water, while NaOH (aq) behaves similar to NaF (aq). We propose that protons only locally enhance hydrogen bonds while hydroxide ions induce tetrahedrality in the overall hydrogen bond network of water.

  14. Ion Channel Voltage Sensors: Structure, Function, and Pathophysiology

    PubMed Central

    Catterall, William A.

    2010-01-01

    Voltage-gated ion channels generate electrical signals in species from bacteria to man. Their voltage-sensing modules are responsible for initiation of action potentials and graded membrane potential changes in response to synaptic input and other physiological stimuli. Extensive structure-function studies, structure determination, and molecular modeling are now converging on a sliding-helix mechanism for electromechanical coupling in which outward movement of gating charges in the S4 transmembrane segments catalyzed by sequential formation of ion pairs pulls the S4-S5 linker, bends the S6 segment, and opens the pore. Impairment of voltage-sensor function by mutations in Na+ channels contributes to several ion channelopathies, and gating pore current conducted by mutant voltage sensors in NaV1.4 channels is the primary pathophysiological mechanism in Hypokalemic Periodic Paralysis. The emerging structural model for voltage sensor function opens the way to development of a new generation of ionchannel drugs that act on voltage sensors rather than blocking the pore. PMID:20869590

  15. Examining the Influence of Phosphorylation on Peptide Ion Structure by Ion Mobility Spectrometry-Mass Spectrometry.

    PubMed

    Glover, Matthew S; Dilger, Jonathan M; Acton, Matthew D; Arnold, Randy J; Radivojac, Predrag; Clemmer, David E

    2016-05-01

    Ion mobility spectrometry-mass spectrometry (IMS-MS) techniques are used to study the general effects of phosphorylation on peptide structure. Cross sections for a library of 66 singly phosphorylated peptide ions from 33 pairs of positional isomers, and unmodified analogues were measured. Intrinsic size parameters (ISPs) derived from these measurements yield calculated collision cross sections for 85% of these phosphopeptide sequences that are within ±2.5% of experimental values. The average ISP for the phosphoryl group (0.64 ± 0.05) suggests that in general this moiety forms intramolecular interactions with the neighboring residues and peptide backbone, resulting in relatively compact structures. We assess the capability of ion mobility to separate positional isomers (i.e., peptide sequences that differ only in the location of the modification) and find that more than half of the isomeric pairs have >1% difference in collision cross section. Phosphorylation is also found to influence populations of structures that differ in the cis/trans orientation of Xaa-Pro peptide bonds. Several sequences with phosphorylated Ser or Thr residues located N-terminally adjacent to Pro residues show fewer conformations compared to the unmodified sequences. Graphical Abstract ᅟ. PMID:26860087

  16. Examining the Influence of Phosphorylation on Peptide Ion Structure by Ion Mobility Spectrometry-Mass Spectrometry

    NASA Astrophysics Data System (ADS)

    Glover, Matthew S.; Dilger, Jonathan M.; Acton, Matthew D.; Arnold, Randy J.; Radivojac, Predrag; Clemmer, David E.

    2016-05-01

    Ion mobility spectrometry-mass spectrometry (IMS-MS) techniques are used to study the general effects of phosphorylation on peptide structure. Cross sections for a library of 66 singly phosphorylated peptide ions from 33 pairs of positional isomers, and unmodified analogues were measured. Intrinsic size parameters (ISPs) derived from these measurements yield calculated collision cross sections for 85% of these phosphopeptide sequences that are within ±2.5% of experimental values. The average ISP for the phosphoryl group (0.64 ± 0.05) suggests that in general this moiety forms intramolecular interactions with the neighboring residues and peptide backbone, resulting in relatively compact structures. We assess the capability of ion mobility to separate positional isomers (i.e., peptide sequences that differ only in the location of the modification) and find that more than half of the isomeric pairs have >1% difference in collision cross section. Phosphorylation is also found to influence populations of structures that differ in the cis/ trans orientation of Xaa-Pro peptide bonds. Several sequences with phosphorylated Ser or Thr residues located N-terminally adjacent to Pro residues show fewer conformations compared to the unmodified sequences.

  17. Examining the Influence of Phosphorylation on Peptide Ion Structure by Ion Mobility Spectrometry-Mass Spectrometry

    NASA Astrophysics Data System (ADS)

    Glover, Matthew S.; Dilger, Jonathan M.; Acton, Matthew D.; Arnold, Randy J.; Radivojac, Predrag; Clemmer, David E.

    2016-02-01

    Ion mobility spectrometry-mass spectrometry (IMS-MS) techniques are used to study the general effects of phosphorylation on peptide structure. Cross sections for a library of 66 singly phosphorylated peptide ions from 33 pairs of positional isomers, and unmodified analogues were measured. Intrinsic size parameters (ISPs) derived from these measurements yield calculated collision cross sections for 85% of these phosphopeptide sequences that are within ±2.5% of experimental values. The average ISP for the phosphoryl group (0.64 ± 0.05) suggests that in general this moiety forms intramolecular interactions with the neighboring residues and peptide backbone, resulting in relatively compact structures. We assess the capability of ion mobility to separate positional isomers (i.e., peptide sequences that differ only in the location of the modification) and find that more than half of the isomeric pairs have >1% difference in collision cross section. Phosphorylation is also found to influence populations of structures that differ in the cis/trans orientation of Xaa-Pro peptide bonds. Several sequences with phosphorylated Ser or Thr residues located N-terminally adjacent to Pro residues show fewer conformations compared to the unmodified sequences.

  18. Ion transport in a model gramicidin channel. Structure and thermodynamics.

    PubMed Central

    Roux, B; Karplus, M

    1991-01-01

    The potential of mean force for Na+ and K+ ions as a function of position in the interior of a periodic poly(L,D)-alanine model for the gramicidin beta-helix is calculated with a detailed atomic model and realistic interactions. The calculated free energy barriers are 4.5 kcal/mol for Na+ and 1.0 kcal/mol for K+. A decomposition of the free energy demonstrates that the water molecules make a significant contribution to the free energy of activation. There is an increase in entropy at the transition state associated with greater fluctuations. Analysis reveals that the free energy profile of ions in the periodic channel is controlled not by the large interaction energy involving the ion but rather by the weaker water-water, water-peptide and peptide-peptide hydrogen bond interactions. The interior of the channel retains much of the solvation properties of a liquid in its interactions with the cations. Of particular importance is the flexibility of the helix, which permits it to respond to the presence of an ion in a fluidlike manner. The distortion of the helix is local (limited to a few carbonyls) because the structure is too flexible to transmit a perturbation to large distances. The plasticity of the structure (i.e., the property to deform without generating a large energy stress) appears to be an essential factor in the transport of ions, suggesting that a rigid helix model would be inappropriate. Images FIGURE 1 FIGURE 10 PMID:1714305

  19. Ion aggregation in high salt solutions. IV. Graph-theoretical analyses of ion aggregate structure and water hydrogen bonding network.

    PubMed

    Choi, Jun-Ho; Cho, Minhaeng

    2015-09-14

    Ions in high salt solutions form a variety of ion aggregates, from ion pairs to clusters and networks. Their influences on water hydrogen bonding (H-bonding) network structures have long been of great interest. Recently, we have shown that the morphological structures of ion aggregates can be analyzed by using a spectral graph analysis theory, where each ion cluster or ion network is represented by a properly defined graph with edges and vertices. Here, to further examine the network properties of ion aggregates and water H-bonding networks in high salt solutions, we consider a few representative graph-theoretical descriptors: clustering coefficient, minimum path length, global efficiency, and degree distribution of ion aggregates. From the molecular dynamics trajectories, these graph theoretical properties of ion aggregates and water structures in NaCl and kosmotropic solutions are calculated and shown to be strongly dependent on the two types of ion aggregate structures, i.e., ion cluster and ion network. Ion clusters in high NaCl solutions exhibit typical behaviors of scale free network. The corresponding graph theoretical properties of ion networks in high KSCN solutions are notably different from those of NaCl ion clusters and furthermore they are very similar to those of water hydrogen-bonding network. The present graph-theoretical analysis results indicate that the high solubility limits of KSCN and other ion-network-forming salts might originate from their ability to form a large scale morphological network that can be intertwined with co-existing water H-bonding network. Furthermore, it is shown that the graph-theoretical properties of water H-bonding network structures do not strongly depend on the nature of dissolved ions nor on the morphological structures of ion aggregates, indicating that water's H-bonding interaction and network-forming capability are highly robust. We anticipate that the present graph-theoretical analysis results of high salt

  20. Ion aggregation in high salt solutions. IV. Graph-theoretical analyses of ion aggregate structure and water hydrogen bonding network

    NASA Astrophysics Data System (ADS)

    Choi, Jun-Ho; Cho, Minhaeng

    2015-09-01

    Ions in high salt solutions form a variety of ion aggregates, from ion pairs to clusters and networks. Their influences on water hydrogen bonding (H-bonding) network structures have long been of great interest. Recently, we have shown that the morphological structures of ion aggregates can be analyzed by using a spectral graph analysis theory, where each ion cluster or ion network is represented by a properly defined graph with edges and vertices. Here, to further examine the network properties of ion aggregates and water H-bonding networks in high salt solutions, we consider a few representative graph-theoretical descriptors: clustering coefficient, minimum path length, global efficiency, and degree distribution of ion aggregates. From the molecular dynamics trajectories, these graph theoretical properties of ion aggregates and water structures in NaCl and kosmotropic solutions are calculated and shown to be strongly dependent on the two types of ion aggregate structures, i.e., ion cluster and ion network. Ion clusters in high NaCl solutions exhibit typical behaviors of scale free network. The corresponding graph theoretical properties of ion networks in high KSCN solutions are notably different from those of NaCl ion clusters and furthermore they are very similar to those of water hydrogen-bonding network. The present graph-theoretical analysis results indicate that the high solubility limits of KSCN and other ion-network-forming salts might originate from their ability to form a large scale morphological network that can be intertwined with co-existing water H-bonding network. Furthermore, it is shown that the graph-theoretical properties of water H-bonding network structures do not strongly depend on the nature of dissolved ions nor on the morphological structures of ion aggregates, indicating that water's H-bonding interaction and network-forming capability are highly robust. We anticipate that the present graph-theoretical analysis results of high salt

  1. Structural difference rule for amorphous alloy formation by ion mixing

    NASA Technical Reports Server (NTRS)

    Liu, B.-X.; Johnson, W. L.; Nicolet, M.A.; Lau, S. S.

    1983-01-01

    A rule is formulated which establishes a sufficient condition that an amorphous binary alloy will be formed by ion mixing of multilayered samples when the two constituent metals are of different crystalline structure, regardless of their atomic sizes and electronegativities. The rule is supported by the experimental results obtained on six selected binary metal systems, as well as by the previous data reported in the literature. The amorphization mechanism is discussed in terms of the competition between two different structures resulting in frustration of the crystallization process.

  2. Track structure based modelling of chromosome aberrations after photon and alpha-particle irradiation.

    PubMed

    Friedland, Werner; Kundrát, Pavel

    2013-08-30

    A computational model of radiation-induced chromosome aberrations in human cells within the PARTRAC Monte Carlo simulation framework is presented. The model starts from radiation-induced DNA damage assessed by overlapping radiation track structures with multi-scale DNA and chromatin models, ranging from DNA double-helix in atomic resolution to chromatin fibre loops, heterochromatic and euchromatic regions, and chromosome territories. The repair of DNA double-strand breaks via non-homologous end-joining is followed. Initial spatial distribution and complexity, diffusive motion, enzymatic processing, synapsis and ligation of individual DNA ends from the breaks are simulated. To enable scoring of different chromosome aberration types resulting from improper joining of DNA fragments, the repair module has been complemented by tracking the chromosome origin of the ligated fragments and the positions of centromeres. The modelled motion of DNA ends has sub-diffusive characteristics and corresponds to measured chromatin mobility within time-scales of a few hours. The calculated formation of dicentrics after photon and α-particle irradiation in human fibroblasts is compared to experimental data (Cornforth et al., 2002, Radiat Res 158, 43). The predicted yields of dicentrics overestimate the measurements by factors of five for γ-rays and two for α-particle irradiation. Nevertheless, the observed relative dependence on radiation dose is correctly reproduced. Calculated yields and size distributions of other aberration types are discussed. The present work represents a first mechanistic approach to chromosome aberrations and their kinetics, combining full track structure simulations with detailed models of chromatin and accounting for the kinetics of DNA repair. PMID:23811166

  3. Time-resolved X-ray Tracking of Expansion and Compression Dynamics in Supersaturating Ion-Networks

    PubMed Central

    Matsushita, Y.; Sekiguchi, H.; Ichiyanagi, K.; Ohta, N.; Ikezaki, K.; Goto, Y.; Sasaki, Y. C.

    2015-01-01

    Supersaturation of a solution system is a metastable state containing more solute than can be normally solubilized. Moreover, this condition is thermodynamically important for a system undergoing a phase transition. This state plays critical roles in deposition morphology in inorganic, organic, polymer and protein solution systems. In particular, microscopic solution states under supersaturated conditions have recently received much attention. In this report, we observed the dynamic motion of individual ion-network domains (INDs) in a supersaturated sodium acetate trihydrate solution (6.4 M) by using microsecond time-resolved and high accuracy (picometre scale) X-ray observations (diffracted X-ray tracking; DXT). We found that there are femto-Newton (fN) anisotropic force fields in INDs that correspond to an Angstrom-scale relaxation process (continuous expansion and compression) of the INDs at 25 μs time scale. The observed anisotropic force-field (femto-Newton) from DXT can lead to new explanations of how material crystallization is triggered. This discovery could also influence the interpretation of supercooling, bio-polymer and protein aggregation processes, and supersaturated systems of many other materials. PMID:26658326

  4. Time-resolved X-ray Tracking of Expansion and Compression Dynamics in Supersaturating Ion-Networks

    NASA Astrophysics Data System (ADS)

    Matsushita, Y.; Sekiguchi, H.; Ichiyanagi, K.; Ohta, N.; Ikezaki, K.; Goto, Y.; Sasaki, Y. C.

    2015-12-01

    Supersaturation of a solution system is a metastable state containing more solute than can be normally solubilized. Moreover, this condition is thermodynamically important for a system undergoing a phase transition. This state plays critical roles in deposition morphology in inorganic, organic, polymer and protein solution systems. In particular, microscopic solution states under supersaturated conditions have recently received much attention. In this report, we observed the dynamic motion of individual ion-network domains (INDs) in a supersaturated sodium acetate trihydrate solution (6.4 M) by using microsecond time-resolved and high accuracy (picometre scale) X-ray observations (diffracted X-ray tracking; DXT). We found that there are femto-Newton (fN) anisotropic force fields in INDs that correspond to an Angstrom-scale relaxation process (continuous expansion and compression) of the INDs at 25 μs time scale. The observed anisotropic force-field (femto-Newton) from DXT can lead to new explanations of how material crystallization is triggered. This discovery could also influence the interpretation of supercooling, bio-polymer and protein aggregation processes, and supersaturated systems of many other materials.

  5. Linear Quadratic Tracking Design for a Generic Transport Aircraft with Structural Load Constraints

    NASA Technical Reports Server (NTRS)

    Burken, John J.; Frost, Susan A.; Taylor, Brian R.

    2011-01-01

    When designing control laws for systems with constraints added to the tracking performance, control allocation methods can be utilized. Control allocations methods are used when there are more command inputs than controlled variables. Constraints that require allocators are such task as; surface saturation limits, structural load limits, drag reduction constraints or actuator failures. Most transport aircraft have many actuated surfaces compared to the three controlled variables (such as angle of attack, roll rate & angle of side slip). To distribute the control effort among the redundant set of actuators a fixed mixer approach can be utilized or online control allocation techniques. The benefit of an online allocator is that constraints can be considered in the design whereas the fixed mixer cannot. However, an online control allocator mixer has a disadvantage of not guaranteeing a surface schedule, which can then produce ill defined loads on the aircraft. The load uncertainty and complexity has prevented some controller designs from using advanced allocation techniques. This paper considers actuator redundancy management for a class of over actuated systems with real-time structural load limits using linear quadratic tracking applied to the generic transport model. A roll maneuver example of an artificial load limit constraint is shown and compared to the same no load limitation maneuver.

  6. Crystal structure of a heterotetrameric NMDA receptor ion channel

    PubMed Central

    Karakas, Erkan; Furukawa, Hiro

    2014-01-01

    N -methyl-D-aspartate (NMDA) receptors belong to the family of ionotropic glutamate receptors, which mediate most excitatory synaptic transmission in mammalian brains. Calcium permeation triggered by activation of NMDA receptors is the pivotal event for initiation of neuronal plasticity. Here we show the crystal structure of the intact heterotetrameric GluN1/GluN2B NMDA receptor ion channel at 4 Å. The NMDA receptors are arranged as a dimer of GluN1-GluN2B heterodimers with the two-fold symmetry axis running through the entire molecule composed of an amino terminal domain (ATD), a ligand-binding domain (LBD), and a transmembrane domain (TMD). The ATD and LBD are much more highly packed in the NMDA receptors than non-NMDA receptors, which may explain why ATD regulates ion channel activity in NMDA receptors but not in non-NMDA receptors. PMID:24876489

  7. Nuclear structure and heavy-ion fusion. [Lecture

    SciTech Connect

    Stokstad, R.G.

    1980-10-01

    A series of lectures is presented on experimental studies of heavy-ion fusion reactions with emphasis on the role of nuclear structure in the fusion mechanism. The experiments considered are of three types: the fusion of lighter heavy ions at subcoulomb energies is studied with in-beam ..gamma..-ray techniques; the subbarrier fusion of /sup 16/O and /sup 40/Ar with the isotopes of samarium is detected out of beam by x-radiation from delayed activity; and measurements at very high energies, again for the lighter ions, employ direct particle identification of evaporation residues. The experimental data are compared with predictions based on the fusion of two spheres with the only degree of freedom being the separation of the centers, and which interact via potentials that vary smoothly with changes in the mass and charge of the projectile and target. The data exhibit with the isotopes of samarium, a portion of these deviations can be understood in terms of the changing deformation of the target nucleus, but an additional degree of freedom such as neck formation appears necessary. The results on /sup 10/B + /sup 16/O and /sup 12/C + /sup 14/N ..-->.. /sup 26/Al at high bombarding energies indicate a maximum limiting angular momentum characteristic of the compound nucleus. At lower energies the nuclear structure of the colliding ion seems to affect strongly the cross section for fusion. Measurements made at subbarrier energies for a variety of projectile-target combinations in the 1p and 2s - 1d shell also indicate that the valence nucleons can affect the energy dependence for fusion. About half the systems studied so far have structureless excitation functions which follow a standard prediction. The other half exhibit large variations from this prediction. The possible importance of neutron transfer is discussed. The two-center shell model appears as a promising approach for gaining a qualitative understanding of these phenomena. 95 references, 52 figures, 1 table.

  8. Coherent structures in ion temperature gradient turbulence-zonal flow

    SciTech Connect

    Singh, Rameswar; Singh, R.; Kaw, P.; Gürcan, Ö. D.; Diamond, P. H.

    2014-10-15

    Nonlinear stationary structure formation in the coupled ion temperature gradient (ITG)-zonal flow system is investigated. The ITG turbulence is described by a wave-kinetic equation for the action density of the ITG mode, and the longer scale zonal mode is described by a dynamic equation for the m = n = 0 component of the potential. Two populations of trapped and untrapped drift wave trajectories are shown to exist in a moving frame of reference. This novel effect leads to the formation of nonlinear stationary structures. It is shown that the ITG turbulence can self-consistently sustain coherent, radially propagating modulation envelope structures such as solitons, shocks, and nonlinear wave trains.

  9. Structure and activity of the acid-sensing ion channels

    PubMed Central

    Sherwood, Thomas W.; Frey, Erin N.

    2012-01-01

    The acid-sensing ion channels (ASICs) are a family of proton-sensing channels expressed throughout the nervous system. Their activity is linked to a variety of complex behaviors including fear, anxiety, pain, depression, learning, and memory. ASICs have also been implicated in neuronal degeneration accompanying ischemia and multiple sclerosis. As a whole, ASICs represent novel therapeutic targets for several clinically important disorders. An understanding of the correlation between ASIC structure and function will help to elucidate their mechanism of action and identify potential therapeutics that specifically target these ion channels. Despite the seemingly simple nature of proton binding, multiple studies have shown that proton-dependent gating of ASICs is quite complex, leading to activation and desensitization through distinct structural components. This review will focus on the structural aspects of ASIC gating in response to both protons and the newly discovered activators GMQ and MitTx. ASIC modulatory compounds and their action on proton-dependent gating will also be discussed. This review is dedicated to the memory of Dale Benos, who made a substantial contribution to our understanding of ASIC activity. PMID:22843794

  10. Characterization and properties of micro- and nanowires of controlled size, composition, and geometry fabricated by electrodeposition and ion-track technology

    PubMed Central

    2012-01-01

    Summary The combination of electrodeposition and polymeric templates created by heavy-ion irradiation followed by chemical track etching provides a large variety of poly- and single-crystalline nanowires of controlled size, geometry, composition, and surface morphology. Recent results obtained by our group on the fabrication, characterization and size-dependent properties of nanowires synthesized by this technique are reviewed, including investigations on electrical resistivity, surface plasmon resonances, and thermal instability. PMID:23365800

  11. Ion manipulations in structures for lossless ion manipulations (SLIM): computational evaluation of a 90° turn and a switch

    SciTech Connect

    Garimella, Sandilya V. B.; Ibrahim, Yehia. M.; Webb, Ian K.; Ipsen, Andreas B.; Chen, Tsung-Chi; Tolmachev, Aleksey V.; Baker, Erin S.; Anderson, Gordon A.; Smith, Richard D.

    2015-08-19

    The process of redirecting ions through 90° turns and ‘tee’ switches utilizing Structures for Lossless Ion Manipulations (SLIM) was evaluated using theoretical and simulation methods at 4 Torr pressure. SIMION simulations were used to optimize and evaluate conditions for performing turns without loss of signal intensity or ion mobility resolving power. Fundamental considerations indicated that the “race track” effect during ion turns may incur only small losses to the ion mobility resolving power at 4 Torr pressure for the typical plume widths predicted in an optimized SLIM ‘tee’ switch design. The dynamic switching of ions into orthogonal channels was also evaluated using SIMION ion trajectory simulations, and achieved similar performance. Simulation results were in close agreement with experimental results and were used to refine SLIM designs and applied potentials for their use.

  12. Ion manipulations in structures for lossless ion manipulations (SLIM): computational evaluation of a 90° turn and a switch

    DOE PAGESBeta

    Garimella, Sandilya V. B.; Ibrahim, Yehia. M.; Webb, Ian K.; Ipsen, Andreas B.; Chen, Tsung-Chi; Tolmachev, Aleksey V.; Baker, Erin S.; Anderson, Gordon A.; Smith, Richard D.

    2015-08-19

    The process of redirecting ions through 90° turns and ‘tee’ switches utilizing Structures for Lossless Ion Manipulations (SLIM) was evaluated using theoretical and simulation methods at 4 Torr pressure. SIMION simulations were used to optimize and evaluate conditions for performing turns without loss of signal intensity or ion mobility resolving power. Fundamental considerations indicated that the “race track” effect during ion turns may incur only small losses to the ion mobility resolving power at 4 Torr pressure for the typical plume widths predicted in an optimized SLIM ‘tee’ switch design. The dynamic switching of ions into orthogonal channels was alsomore » evaluated using SIMION ion trajectory simulations, and achieved similar performance. Simulation results were in close agreement with experimental results and were used to refine SLIM designs and applied potentials for their use.« less

  13. ION MANIPULATIONS IN STRUCTURES FOR LOSSLESS ION MANIPULATIONS (SLIM): COMPUTATIONAL EVALUATION OF A 90o TURN AND A SWITCH

    SciTech Connect

    Garimella, Venkata BS; Ibrahim, Yehia M.; Webb, Ian K.; Ipsen, Andreas B.; Chen, Tsung-Chi; Tolmachev, Aleksey V.; Baker, Erin Shammel; Anderson, Gordon A.; Smith, Richard D.

    2015-08-19

    The process of redirecting ions through 90o turns and ‘tee’ switches utilizing Structures for Lossless Ion Manipulations (SLIM) was evaluated using theoretical and simulation methods at 4 Torr pressure. SIMION simulations were used to optimize and evaluate conditions for performing turns without loss of signal intensity or ion mobility resolving power. Fundamental considerations indicated that the “race track” effect during ion turns may incur only small losses to the ion mobility resolving power at 4 Torr pressure for the typical plume widths predicted in an optimized SLIM ‘tee’ switch design. The dynamic switching of ions into orthogonal channels was also evaluated using SIMION ion trajectory simulations, and achieved similar performance. Simulation results were in close agreement with experimental results and were used to refine SLIM designs and applied potentials for their use.

  14. Symplectic tracking and compensation of dynamic field integrals in complex undulator structures

    NASA Astrophysics Data System (ADS)

    Bahrdt, Johannes; Wüstefeld, Godehard

    2011-04-01

    In first approximation storage ring multipole magnets are described as simple two-dimensional magnet structures and many linear and nonlinear beam optic features of a magnet lattice can already be derived from this model. In contrast, undulators, and in particular variably polarizing devices, employ complicated three-dimensional magnetic fields which may have a severe impact on the electron beam, in particular, in low energy third generation storage rings. A Taylor expanded generating function method is presented to generate a fast, flexible, and symplectic mapping routine for particle tracking in magnetic fields. This method is quite general and is based on the solution of the Hamilton-Jacobi equation. It requires an analytical representation of the fields, which can be differentiated and integrated. For undulators of the APPLE II type, an accurate analytic field model is derived which is suitable for the tracking routine. This field model is fully parametrized representing all operation modes for the production of elliptical or linear polarized light with an arbitrary inclination angle or even arbitrary polarization. Based on this field model, analytic expressions for 2nd order kicks are derived. They are used to estimate the influence of APPLE II undulators on the electron beam dynamic. Furthermore, an analytic model for the description of shims is given. The shims are needed for field and performance optimization. Passive and active shimming concepts for the compensation of linear and nonlinear effects of variably polarizing undulators are discussed.

  15. DUAL HEATED ION SOURCE STRUCTURE HAVING ARC SHIFTING MEANS

    DOEpatents

    Lawrence, E.O.

    1959-04-14

    An ion source is presented for calutrons, particularly an electrode arrangement for the ion generator of a calutron ion source. The ion source arc chamber is heated and an exit opening with thermally conductive plates defines the margins of the opening. These plates are electrically insulated from the body of the ion source and are connected to a suitable source of voltage to serve as electrodes for shaping the ion beam egressing from the arc chamber.

  16. Structural and compositional changes of dissolved organic matter upon solid-phase extraction tracked by multiple analytical tools.

    PubMed

    Chen, Meilian; Kim, Sunghwan; Park, Jae-Eun; Jung, Heon-Jae; Hur, Jin

    2016-09-01

    Although PPL-based solid-phase extraction (SPE) has been widely used before dissolved organic matter (DOM) analyses via advanced measurements such as ultrahigh resolution Fourier transform ion cyclotron resonance mass spectrometry (FT-ICR-MS), much is still unknown about the structural and compositional changes in DOM pool through SPE. In this study, selected DOM from various sources were tested to elucidate the differences between before and after the SPE utilizing multiple analytical tools including fluorescence spectroscopy, FT-ICR-MS, and size exclusion chromatography with organic carbon detector (SEC-OCD). The changes of specific UV absorbance indicated the decrease of aromaticity after the SPE, suggesting a preferential exclusion of aromatic DOM structures, which was also confirmed by the substantial reduction of fluorescent DOM (FDOM). Furthermore, SEC-OCD results exhibited very low recoveries (1-9 %) for the biopolymer fraction, implying that PPL needs to be used cautiously in SPE sorbent materials for treating high molecular weight compounds (i.e., polysaccharides, proteins, and amino sugars). A careful examination via FT-ICR-MS revealed that the formulas lost by the SPE might be all DOM source-dependent. Nevertheless, the dominant missing compound groups were identified to be the tannins group with high O/C ratios (>0.7), lignins/carboxyl-rich alicyclic molecules (CRAM), aliphatics with high H/C >1.5, and heteroatomic formulas, all of which were prevailed by pseudo-analogous molecular formula families with different methylene (-CH2) units. Our findings shed new light on potential changes in the compound composition and the molecular weight of DOM upon the SPE, implying precautions needed for data interpretation. Graphical Abstract Tracking the characteristics of DOM from various origins upon PPL-based SPE utilizing EEMPARAFAC, SEC-OCD, and FT-ICR-MS. PMID:27387996

  17. Labeling the Structural Integrity of Nanoparticles for Advanced In Situ Tracking in Bionanotechnology.

    PubMed

    Meder, Fabian; Thomas, Steffi S; Fitzpatrick, Laurence W; Alahmari, Amirah; Wang, Suxiao; Beirne, Jason G; Vaz, Gizela; Redmond, Gareth; Dawson, Kenneth A

    2016-04-26

    Observing structural integrity of nanoparticles is essential in bionanotechnology but not always straightforward to measure in situ and in real-time. Fluorescent labels used for tracking intrinsically nonfluorescent nanomaterials generally do not allow simultaneous observation of integrity. Consequently, structural changes like degradation and disassembly cannot easily be followed in situ using fluorescence signals. We show that thioflavin T (ThT), a fluorophore and molecular rotor known to tag specific fibril structures in amyloids, can "label" the structural integrity of widely used and intrinsically nonfluorescent, silica nanoparticles (SiNPs). Entrapment of ThT in SiNPs controls the fluorohphore's relaxation pathway and leads to a red-shifted fluorescence spectrum providing real time information on SiNP integrity. The dynamic change of ThT fluorescence during degradation of doped SiNPs is found much higher than that of common labels fluorescein and rhodamine. Degradation kinetics of core-shell structures recorded by ThT fluorescence and light scattering prove the capability to clearly distinguish structural features during SiNPs degradation and allow obtaining degradation kinetics in vitro, in biological media, in serum, and in cells. The effect is transferable to different types of materials, here shown for ThT incorporated SiNPs with tightly tailorable sizes (9-100 nm), poly(lactic-co-glycolic acid) (PLGA) nanoparticles, poly(9-vinylcarbazole) (PVK) nanoparticles, and iron-doped-SiNPs (FeSiNPs). We thus suggest molecular rotors such as ThT as additional labels to effectively and easily sense nanoparticle structural status in situ and to enhance understanding and development of programmed nanoparticle disassembly in bionanotechnology. PMID:26959685

  18. Structured light-based motion tracking in the limited view of an MR head coil

    NASA Astrophysics Data System (ADS)

    Erikshøj, M.; Olesen, O. V.; Conradsen, K.; Højgaard, L.; Larsen, R.

    2013-02-01

    A markerless motion tracking (MT) system developed for use in PET brain imaging has been tested in the limited field of view (FOV) of the MR head coil from the Siemens Biograph mMR. The system is a 3D surface scanner that uses structured light (SL) to create point cloud reconstructions of the facial surface. The point clouds are continuously realigned to a reference scan to obtain pose estimates. The system has been tested on a mannequin head performing controlled rotational and translational axial movements within the head coil outside the range of the magnetic field. The RMS of the residual error of the rotation was 0.11° and the RMS difference in the translation with the control system was 0.17 mm, within the trackable range of movement.

  19. Flight parameters monitoring system for tracking structural integrity of rotary-wing aircraft

    NASA Technical Reports Server (NTRS)

    Mohammadi, Jamshid; Olkiewicz, Craig

    1994-01-01

    Recent developments in advanced monitoring systems used in conjunction with tracking structural integrity of rotary-wing aircraft are explained. The paper describes: (1) an overview of rotary-wing aircraft flight parameters that are critical to the aircraft loading conditions and each parameter's specific requirements in terms of data collection and processing; (2) description of the monitoring system and its functions used in a survey of rotary-wing aircraft; and (3) description of the method of analysis used for the data. The paper presents a newly-developed method in compiling flight data. The method utilizes the maneuver sequence of events in several pre-identified flight conditions to describe various flight parameters at three specific weight ranges.

  20. Using particle filter to track horizontal variations of atmospheric duct structure from radar sea clutter

    NASA Astrophysics Data System (ADS)

    Zhao, X. F.; Huang, S. X.

    2012-08-01

    This paper addresses the problem of estimating range-varying parameters of the height-dependent refractivity over the sea surface from radar sea clutter. In the forward simulation, the split-step Fourier parabolic equation (PE) is used to compute the radar clutter power in the complex refractive environments. Making use of the inherent Markovian structure of the split-step Fourier PE solution, the refractivity from clutter (RFC) problem is formulated within a nonlinear recursive Bayesian state estimation framework. Particle filter (PF) that is a technique for implementing a recursive Bayesian filter by Monte Carlo simulations is used to track range-varying characteristics of the refractivity profiles. Basic ideas of employing PF to solve RFC problem are introduced. Both simulation and real data results are presented to check up the feasibility of PF-RFC performances.

  1. Using particle filter to track horizontal variations of atmospheric duct structure from radar sea clutter

    NASA Astrophysics Data System (ADS)

    Zhao, X. F.; Huang, S. X.; Wang, D. X.

    2012-11-01

    This paper addresses the problem of estimating range-varying parameters of the height-dependent refractivity over the sea surface from radar sea clutter. In the forward simulation, the split-step Fourier parabolic equation (PE) is used to compute the radar clutter power in the complex refractive environments. Making use of the inherent Markovian structure of the split-step Fourier PE solution, the refractivity from clutter (RFC) problem is formulated within a nonlinear recursive Bayesian state estimation framework. Particle filter (PF), which is a technique for implementing a recursive Bayesian filter by Monte Carlo simulations, is used to track range-varying characteristics of the refractivity profiles. Basic ideas of employing PF to solve RFC problem are introduced. Both simulation and real data results are presented to confirm the feasibility of PF-RFC performances.

  2. Optimal structural design of a 5-kW CPV tracking system by considering the ISO 4017/4762 standard through structure and flow simulations

    NASA Astrophysics Data System (ADS)

    Lee, Hyo Geun; Kim, Sang Suk; Kim, Sung Jo; Park, Su-Jin; Yun, Chang-wuk; Im, Gil-pyeong

    2015-09-01

    Photovoltaic generation systems have disadvantage in that they are usually installed outdoors and are exposed to extreme environments such as wind, snow and rain loadings. The structure of a photovoltaic generation system should be designed to have sufficient stiffness and strength against such loads. Especially, electric power generation by a concentrator photovoltaic(CPV) system can produce enough power if a right angle is main fained between the solar and the CPV panel within 90° ± 1°. To make the CPV tracking system in this study, we designed the structure by calculating the variations in and the strees applied to the structure by the wind load when the CPV tracking was influenced by the wind load. In this study, a 5-kW CPV tracking structure was designed through a structural analysis and a finiteelement analysis for a wind speed of 65 m/s by using ANSYS. The simulation of the structural design showed that the, structure of the 5-kW CPV tracking system corresponded with the ISO4017/ISO4762 standard. Based on this research, we will produce a 5-kW CPV tracking system and proceed to field test.

  3. Glutamate Receptor Ion Channels: Structure, Regulation, and Function

    PubMed Central

    Wollmuth, Lonnie P.; McBain, Chris J.; Menniti, Frank S.; Vance, Katie M.; Ogden, Kevin K.; Hansen, Kasper B.; Yuan, Hongjie; Myers, Scott J.; Dingledine, Ray

    2010-01-01

    The mammalian ionotropic glutamate receptor family encodes 18 gene products that coassemble to form ligand-gated ion channels containing an agonist recognition site, a transmembrane ion permeation pathway, and gating elements that couple agonist-induced conformational changes to the opening or closing of the permeation pore. Glutamate receptors mediate fast excitatory synaptic transmission in the central nervous system and are localized on neuronal and non-neuronal cells. These receptors regulate a broad spectrum of processes in the brain, spinal cord, retina, and peripheral nervous system. Glutamate receptors are postulated to play important roles in numerous neurological diseases and have attracted intense scrutiny. The description of glutamate receptor structure, including its transmembrane elements, reveals a complex assembly of multiple semiautonomous extracellular domains linked to a pore-forming element with striking resemblance to an inverted potassium channel. In this review we discuss International Union of Basic and Clinical Pharmacology glutamate receptor nomenclature, structure, assembly, accessory subunits, interacting proteins, gene expression and translation, post-translational modifications, agonist and antagonist pharmacology, allosteric modulation, mechanisms of gating and permeation, roles in normal physiological function, as well as the potential therapeutic use of pharmacological agents acting at glutamate receptors. PMID:20716669

  4. Crystal structures of a double-barrelled fluoride ion channel

    PubMed Central

    Stockbridge, Randy B.; Kolmakova-Partensky, Ludmila; Shane, Tania; Koide, Akiko; Koide, Shohei; Miller, Christopher; Newstead, Simon

    2016-01-01

    To contend with hazards posed by environmental fluoride, microorganisms export this anion through F--specific ion channels of the Fluc family1–4. Since the recent discovery of Fluc channels, numerous idiosyncratic features of these proteins have been unearthed, including extreme selectivity for F- over Cl- and dual-topology dimeric assembly5–6. To understand the chemical basis for F- permeation and how the antiparallel subunits convene to form a F--selective pore, we solved crystal structures of two bacterial Fluc homologues in complex with three different monobody inhibitors, with and without F- present, to a maximum resolution of 2.1 Å. The structures reveal a surprising “double-barrelled” channel architecture in which two F- ion pathways span the membrane and the dual-topology arrangement includes a centrally coordinated cation, most likely Na+. F- selectivity is proposed to arise from the very narrow pores and an unusual anion coordination that exploits the quadrupolar edges of conserved phenylalanine rings. PMID:26344196

  5. Crystal structures of a double-barrelled fluoride ion channel.

    PubMed

    Stockbridge, Randy B; Kolmakova-Partensky, Ludmila; Shane, Tania; Koide, Akiko; Koide, Shohei; Miller, Christopher; Newstead, Simon

    2015-09-24

    To contend with hazards posed by environmental fluoride, microorganisms export this anion through F(-)-specific ion channels of the Fluc family. Since the recent discovery of Fluc channels, numerous idiosyncratic features of these proteins have been unearthed, including strong selectivity for F(-) over Cl(-) and dual-topology dimeric assembly. To understand the chemical basis for F(-) permeation and how the antiparallel subunits convene to form a F(-)-selective pore, here we solve the crystal structures of two bacterial Fluc homologues in complex with three different monobody inhibitors, with and without F(-) present, to a maximum resolution of 2.1 Å. The structures reveal a surprising 'double-barrelled' channel architecture in which two F(-) ion pathways span the membrane, and the dual-topology arrangement includes a centrally coordinated cation, most likely Na(+). F(-) selectivity is proposed to arise from the very narrow pores and an unusual anion coordination that exploits the quadrupolar edges of conserved phenylalanine rings. PMID:26344196

  6. Crystallographic structure of ubiquitin in complex with cadmium ions

    PubMed Central

    2009-01-01

    Background Ubiquitination plays a critical role in regulating many cellular processes, from DNA repair and gene transcription to cell cycle and apoptosis. It is catalyzed by a specific enzymatic cascade ultimately leading to the conjugation of ubiquitin to lysine residues of the target protein that can be the ubiquitin molecule itself and to the formation of poly-ubiquitin chains. Findings We present the crystal structure at 3.0 Å resolution of bovine ubiquitin crystallized in presence of cadmium ions. Two molecules of ubiquitin are present in the asymmetric unit. Interestingly this non-covalent dimeric arrangement brings Lys-6 and Lys-63 of each crystallographically-independent monomer in close contact with the C-terminal ends of the other monomer. Residues Leu-8, Ile-44 and Val-70 that form a hydrophobic patch at the surface of the Ub monomer are trapped at the dimer interface. Conclusions The structural basis for signalling by poly-Ub chains relies on a visualization of conformations of alternatively linked poly-Ub chains. This arrangement of ubiquitin could illustrate how linkages involving Lys-6 or Lys-63 of ubiquitin are produced in the cell. It also details how ubiquitin molecules can specifically chelate cadmium ions. PMID:20003470

  7. Diamond structure recovery during ion irradiation at elevated temperatures

    NASA Astrophysics Data System (ADS)

    Deslandes, Alec; Guenette, Mathew C.; Belay, Kidane; Elliman, Robert G.; Karatchevtseva, Inna; Thomsen, Lars; Riley, Daniel P.; Lumpkin, Gregory R.

    2015-12-01

    CVD diamond is irradiated by 5 MeV carbon ions, with each sample held at a different temperature (300-873 K) during irradiations. The defect structures resulting from the irradiations are evident as vacancy, interstitial and amorphous carbon signals in Raman spectra. The observed variation of the full width at half maximum (FWHM) and peak position of the diamond peak suggests that disorder in the diamond lattice is reduced for high temperature irradiations. The dumbbell interstitial signal is reduced for irradiations at 873 K, which suggests this defect is unstable at these temperatures and that interstitials have migrated to crystal surfaces. Near edge X-ray absorption fine structure (NEXAFS) spectroscopy results indicate that damage to the diamond structure at the surface has occurred for room temperature irradiations, however, this structure is at least partially recovered for irradiations performed at 473 K and above. The results suggest that, in a high temperature irradiation environment such as a nuclear fusion device, in situ annealing of radiation-created defects can maintain the diamond structure and prolong the lifetime of diamond components.

  8. Selective exchange of divalent transition metal ions in cryptomelane-type manganic acid with tunnel structure

    SciTech Connect

    Tsuji, M. ); Komarneni, S. )

    1993-03-01

    The ion-exchange selectivity of divalent transition metal ions on cryptomelane-type manganic acid (CMA) with tunnel structure has been studied using the distribution coefficients ([ital K][sub [ital d

  9. Comparative SEU sensitivities to relativistic heavy ions

    SciTech Connect

    Koga, R.; Crain, S.H.; Crain, W.R.; Crawford, K.B.; Hansel, S.J.

    1998-12-01

    SEU sensitivity of microcircuits to relativistic heavy ions is compared to that measured with low-energy ions of comparable LET values. Multiple junction charge collection in a complex circuit seems to mask the effect of varying charge generations due to different iron track structures. Heavy ions at sub-relativistic speeds may generate nuclear fragments, sometimes resulting in SEUs.

  10. Tracking metal ions through a Cu/Ag efflux pump assigns the functional roles of the periplasmic proteins

    PubMed Central

    Mealman, Tiffany D.; McEvoy, Megan M.; Blackburn, Ninian J.

    2014-01-01

    Copper is an essential nutrient for all aerobic organisms but is toxic in excess. At the host–pathogen interface, macrophages respond to bacterial infection by copper-dependent killing mechanisms, whereas the invading bacteria are thought to counter with an up-regulation of copper transporters and efflux pumps. The tripartite efflux pump CusCBA and its metallochaperone CusF are vital to the detoxification of copper and silver ions in the periplasm of Escherichia coli. However, the mechanism of efflux by this complex, which requires the activation of the inner membrane pump CusA, is poorly understood. Here, we use selenomethionine (SeM) active site labels in a series of biological X-ray absorption studies at the selenium, copper, and silver edges to establish a “switch” role for the membrane fusion protein CusB. We determine that metal-bound CusB is required for activation of cuprous ion transfer from CusF directly to a site in the CusA antiporter, showing for the first time (to our knowledge) the in vitro activation of the Cus efflux pump. This metal-binding site of CusA is unlike that observed in the crystal structures of the CusA protein and is composed of one oxygen and two sulfur ligands. Our results suggest that metal transfer occurs between CusF and apo-CusB, and that, when metal-loaded, CusB plays a role in the regulation of metal ion transfer from CusF to CusA in the periplasm. PMID:25313055

  11. Structure Modulates Similarity-Based Interference in Sluicing: An Eye Tracking study

    PubMed Central

    Harris, Jesse A.

    2015-01-01

    In cue-based content-addressable approaches to memory, a target and its competitors are retrieved in parallel from memory via a fast, associative cue-matching procedure under a severely limited focus of attention. Such a parallel matching procedure could in principle ignore the serial order or hierarchical structure characteristic of linguistic relations. I present an eye tracking while reading experiment that investigates whether the sentential position of a potential antecedent modulates the strength of similarity-based interference, a well-studied effect in which increased similarity in features between a target and its competitors results in slower and less accurate retrieval overall. The manipulation trades on an independently established Locality bias in sluiced structures to associate a wh-remnant (which ones) in clausal ellipsis with the most local correlate (some wines), as in The tourists enjoyed some wines, but I don't know which ones. The findings generally support cue-based parsing models of sentence processing that are subject to similarity-based interference in retrieval, and provide additional support to the growing body of evidence that retrieval is sensitive to both the structural position of a target antecedent and its competitors, and the specificity or diagnosticity of retrieval cues. PMID:26733893

  12. Vibronic-structure tracking: A shortcut for vibrationally resolved UV/Vis-spectra calculations

    SciTech Connect

    Barton, Dennis; König, Carolin; Neugebauer, Johannes

    2014-10-28

    The vibrational coarse structure and the band shapes of electronic absorption spectra are often dominated by just a few molecular vibrations. By contrast, the simulation of the vibronic structure even in the simplest theoretical models usually requires the calculation of the entire set of normal modes of vibration. Here, we exploit the idea of the mode-tracking protocol [M. Reiher and J. Neugebauer, J. Chem. Phys. 118, 1634 (2003)] in order to directly target and selectively calculate those normal modes which have the largest effect on the vibronic band shape for a certain electronic excitation. This is achieved by defining a criterion for the importance of a normal mode to the vibrational progressions in the absorption band within the so-called “independent mode, displaced harmonic oscillator” (IMDHO) model. We use this approach for a vibronic-structure investigation for several small test molecules as well as for a comparison of the vibronic absorption spectra of a truncated chlorophyll a model and the full chlorophyll a molecule. We show that the method allows to go beyond the often-used strategy to simulate absorption spectra based on broadened vertical excitation peaks with just a minimum of computational effort, which in case of chlorophyll a corresponds to about 10% of the cost for a full simulation within the IMDHO approach.

  13. Structure analysis of bimetallic Co-Au nanoparticles formed by sequential ion implantation

    NASA Astrophysics Data System (ADS)

    Chen, Hua-jian; Wang, Yu-hua; Zhang, Xiao-jian; Song, Shu-peng; chen, Hong; Zhang, Ke; Xiong, Zu-zhao; Ji, Ling-ling; Dai, Hou-mei; Wang, Deng-jing; Lu, Jian-duo; Wang, Ru-wu; Zheng, Li-rong

    2016-08-01

    Co-Au alloy Metallic nanoparticles (MNPs) are formed by sequential ion implantation of Co and Au into silica glass at room temperature. The ion ranges of Au ions implantation process have been displayed to show the ion distribution. We have used the atomic force microscopy (AFM) and transmission electron microscopy (TEM) to investigate the formation of bimetallic nanoparticles. The extended X-ray absorption fine structure (EXAFS) has been used to study the local structural information of bimetallic nanoparticles. With the increase of Au ion implantation, the local environments of Co ions are changed enormously. Hence, three oscillations, respectively, Co-O, Co-Co and Co-Au coordination are determined.

  14. Travelling wave ion mobility and negative ion fragmentation for the structural determination of N-linked glycans.

    PubMed

    Harvey, David J; Scarff, Charlotte A; Edgeworth, Matthew; Crispin, Max; Scanlan, Christopher N; Sobott, Frank; Allman, Sarah; Baruah, Kavitha; Pritchard, Laura; Scrivens, James H

    2013-08-01

    Travelling wave ion mobility was investigated for its ability to separate N-glycans from other compounds and for resolution of isomers. Charged glycans, exemplified by sialylated complex N-glycans released from bovine fetuin and ionised by electrospray, could be separated from residual glycopeptides allowing the minor, more highly sialylated compounds to be detected where their ions were obscured by ions from other compounds in different charge states. This technique was also found to be excellent for extracting the N-glycan profiles from contaminated samples. Structural identification of the glycans was performed by negative ion CID fragmentation, a method that provides a wealth of structurally diagnostic ions. However, fragment ions can also appear in the glycan profiles where they can be mistaken for glycan molecular ions. Fragments and molecular ions were frequently shown to have different drift time profiles, allowing them to be differentiated. Some separation of isomers was found but only for the smallest compounds. Differentiation from conformers was achieved by plotting drift time profiles of the fragments; these profiles matched those of the precursor ions where conformers were present. The techniques were applied to investigations of N-glycans released from the fungus Piptoporus betulinus where the technique was used to separate different carbohydrate types present in biological extracts. PMID:23712623

  15. On the structural denaturation of biological analytes in trapped ion mobility spectrometry - mass spectrometry.

    PubMed

    Liu, Fanny C; Kirk, Samuel R; Bleiholder, Christian

    2016-06-01

    Key to native ion mobility/mass spectrometry is to prevent the structural denaturation of biological molecules in the gas phase. Here, we systematically assess structural changes induced in the protein ubiquitin during a trapped ion mobility spectrometry (TIMS) experiment. Our analysis shows that the extent of structural denaturation induced in ubiquitin ions is largely proportional to the amount of translational kinetic energy an ion gains from the applied electric field between two collisions with buffer gas particles. We then minimize the efficiency of the structural denaturation of ubiquitin ions in the gas phase during a TIMS experiment. The resulting "soft" TIMS spectra of ubiquitin are found largely identical to those observed on "soft" elevated-pressure ion mobility drift tubes and the corresponding calibrated cross sections are consistent with structures reported from NMR experiments for the native and A-state of ubiquitin. Thus, our analysis reveals that TIMS is useful for native ion mobility/mass spectrometry analysis. PMID:26998732

  16. The importance of phenological tracking to plant community structure under stationary versus nonstationary environments

    NASA Astrophysics Data System (ADS)

    Wolkovich, E. M.; Donahue, M. J.

    2014-12-01

    Recent work has found links between how a species' phenology shifts with climate change and its changes in performance with climate change. Species that appear to 'track' climate change, for example North American temperate plant species that shift leafing or flowering earlier with warmer springs, also tend to increase in abundance or other metrics of plant performance, while the reverse is generally seen for species that delay phenology with warming. This correlation between phenological tracking and performance has been implicated in plant invasions and appears to be an important factor in predicting future plant populations and communities under climate change scenarios. We have, however, little theory on why--or why not--species may phenologically track the start of spring. Early-season phenology gives priority access to light and soil resources and thus, in a simplistic model where the start of season varies between years, all species should strongly track the start of season, yet communities are always a mix of phenological tracking strategies (from species that do not track the start of season to strong trackers). Using a stochastic community assembly model we examined how phenological tracking influences species abundances across time under two different environmental scenarios: one with a stationary environment and one with a nonstationary environment where the start of season shifts earlier over time. Our model shows that trade-offs are required between phenological tracking and parameters related to species-specific resource use to maintain a community with a diversity of phenological tracking strategies and that nonstationary environments strongly favor species that track the start of season. Our results suggest that trade-offs established under a stationary climate that allow a diversity of phenological tracking strategies across species in a community may not hold under non-stationary environments to maintain the same diversity of species. Instead

  17. Long-Term Tracking of Corotating Density Structures Using Heliospheric Imaging

    NASA Astrophysics Data System (ADS)

    Plotnikov, I.; Rouillard, A. P.; Davies, J. A.; Bothmer, V.; Eastwood, J. P.; Gallagher, P.; Harrison, R. A.; Kilpua, E.; Möstl, C.; Perry, C. H.; Rodriguez, L.; Lavraud, B.; Génot, V.; Pinto, R. F.; Sanchez-Diaz, E.

    2016-08-01

    stream interface measured in situ by an average of 55 km s^{-1} at ST-A and 84 km s^{-1} at STEREO-B (ST-B). We show that the speeds of the corotating density structures derived using our fitting technique track well the long-term variation of the radial speed of the slow solar wind during solar minimum years (2007 - 2008). Furthermore, we demonstrate that these features originate near the coronal neutral line that eventually becomes the heliospheric current sheet.

  18. Long-Term Tracking of Corotating Density Structures Using Heliospheric Imaging

    NASA Astrophysics Data System (ADS)

    Plotnikov, I.; Rouillard, A. P.; Davies, J. A.; Bothmer, V.; Eastwood, J. P.; Gallagher, P.; Harrison, R. A.; Kilpua, E.; Möstl, C.; Perry, C. H.; Rodriguez, L.; Lavraud, B.; Génot, V.; Pinto, R. F.; Sanchez-Diaz, E.

    2016-06-01

    stream interface measured in situ by an average of 55 km s^{-1} at ST-A and 84 km s^{-1} at STEREO-B (ST-B). We show that the speeds of the corotating density structures derived using our fitting technique track well the long-term variation of the radial speed of the slow solar wind during solar minimum years (2007 - 2008). Furthermore, we demonstrate that these features originate near the coronal neutral line that eventually becomes the heliospheric current sheet.

  19. Cryo-focused-ion-beam applications in structural biology.

    PubMed

    Rigort, Alexander; Plitzko, Jürgen M

    2015-09-01

    The ability to precisely control the preparation of biological samples for investigations by electron cryo-microscopy is becoming increasingly important for ultrastructural imaging in biology. Precision machining instruments such as the focused ion beam microscope (FIB) were originally developed for applications in materials science. However, today we witness a growing use of these tools in the life sciences mainly due to their versatility, since they can be used both as manipulation and as imaging devices, when complemented with a scanning electron microscope (SEM). The advent of cryo-preparation equipment and accessories made it possible to pursue work on frozen-hydrated biological specimens with these two beam (FIB/SEM) instruments. In structural biology, the cryo-FIB can be used to site-specifically thin vitrified specimens for transmission electron microscopy (TEM) and tomography. Having control over the specimen thickness is a decisive factor for TEM imaging, as the thickness of the object under scrutiny determines the attainable resolution. Besides its use for TEM preparation, the FIB/SEM microscope can be additionally used to obtain three-dimensional volumetric data from biological specimens. The unique combination of an imaging and precision manipulation tool allows sequentially removing material with the ion beam and imaging the milled block faces by scanning with the electron beam, an approach known as FIB/SEM tomography. This review covers both fields of cryo-FIB applications: specimen preparation for TEM cryo-tomography and volume imaging by cryo-FIB/SEM tomography. PMID:25703192

  20. Crystal Structure of a Potassium Ion Transporter TrkH

    SciTech Connect

    Y Cao; X Jin; H Huang; M Getahun Derebe; E Levin; V Kabaleeswaran; Y Pan; M Punta; J Love; et al.

    2011-12-31

    The TrkH/TrkG/KtrB proteins mediate K{sup +} uptake in bacteria and probably evolved from simple K{sup +} channels by multiple gene duplications or fusions. Here we present the crystal structure of a TrkH from Vibrio parahaemolyticus. TrkH is a homodimer, and each protomer contains an ion permeation pathway. A selectivity filter, similar in architecture to those of K{sup +} channels but significantly shorter, is lined by backbone and side-chain oxygen atoms. Functional studies showed that TrkH is selective for permeation of K{sup +} and Rb{sup +} over smaller ions such as Na{sup +} or Li{sup +}. Immediately intracellular to the selectivity filter are an intramembrane loop and an arginine residue, both highly conserved, which constrict the permeation pathway. Substituting the arginine with an alanine significantly increases the rate of K{sup +} flux. These results reveal the molecular basis of K{sup +} selectivity and suggest a novel gating mechanism for this large and important family of membrane transport proteins.

  1. Conformal SiO2 coating of sub-100 nm diameter channels of polycarbonate etched ion-track channels by atomic layer deposition

    PubMed Central

    Sobel, Nicolas; Lukas, Manuela; Spende, Anne; Stühn, Bernd; Trautmann, Christina

    2015-01-01

    Summary Polycarbonate etched ion-track membranes with about 30 µm long and 50 nm wide cylindrical channels were conformally coated with SiO2 by atomic layer deposition (ALD). The process was performed at 50 °C to avoid thermal damage to the polymer membrane. Analysis of the coated membranes by small angle X-ray scattering (SAXS) reveals a homogeneous, conformal layer of SiO2 in the channels at a deposition rate of 1.7–1.8 Å per ALD cycle. Characterization by infrared and X-ray photoelectron spectroscopy (XPS) confirms the stoichiometric composition of the SiO2 films. Detailed XPS analysis reveals that the mechanism of SiO2 formation is based on subsurface crystal growth. By dissolving the polymer, the silica nanotubes are released from the ion-track membrane. The thickness of the tube wall is well controlled by the ALD process. Because the track-etched channels exhibited diameters in the range of nanometres and lengths in the range of micrometres, cylindrical tubes with an aspect ratio as large as 3000 have been produced. PMID:25821688

  2. Some electronic and magnetic properties of Fluoride ion in Fluoride structure nanocrystals

    NASA Astrophysics Data System (ADS)

    Imtani, Ali Nasir

    2012-01-01

    We have investigated the effects of the environment potential around Fluoride ion on some important electronic and magnetic properties such as dipole polarisability, moment of oscillator strengths S(k) and magnetic susceptibility. The theoretical procedure is based on the variational-perturbation theory with two parameter trial functions incorporated in an ionic model. We estimate these properties in four cases for Fluoride ion; free ion, ion under different potentials, ion in the crystals and ion in nanocrystal, CdF2, CaF2, PbF2, SrF2 and BaF2. Our results indicate that these properties vary with ion environments and the free state of Fluoride ion has higher values and there is linearity behaviour of these properties with lattice constant. For Fluoride ion in nanocrystal, we have found that there is an extra parameter that can also affect the dipole polarisability, the number of ions in the structure.

  3. TURBULENT DYNAMICS IN SOLAR FLARE SHEET STRUCTURES MEASURED WITH LOCAL CORRELATION TRACKING

    SciTech Connect

    McKenzie, D. E.

    2013-03-20

    High-resolution observations of the Sun's corona in extreme ultraviolet and soft X-rays have revealed a new world of complexity in the sheet-like structures connecting coronal mass ejections (CMEs) to the post-eruption flare arcades. This article presents initial findings from an exploration of dynamic flows in two flares observed with Hinode/XRT and SDO/AIA. The flows are observed in the hot ({approx}> 10 MK) plasma above the post-eruption arcades and measured with local correlation tracking. The observations demonstrate significant shears in velocity, giving the appearance of vortices and stagnations. Plasma diagnostics indicate that the plasma {beta} exceeds unity in at least one of the studied events, suggesting that the coronal magnetic fields may be significantly affected by the turbulent flows. Although reconnection models of eruptive flares tend to predict a macroscopic current sheet in the region between the CME and the flare arcade, it is not yet clear whether the observed sheet-like structures are identifiable as the current sheets or 'thermal halos' surrounding the current sheets. Regardless, the relationship between the turbulent motions and the embedded magnetic field is likely to be complicated, involving dynamic fluid processes that produce small length scales in the current sheet. Such processes may be crucial for triggering, accelerating, and/or prolonging reconnection in the corona.

  4. Status of structural analysis of 30 cm diameter ion optics

    NASA Technical Reports Server (NTRS)

    Macrae, Gregory S.; Hering, Gary T.

    1990-01-01

    Three structural finite element programs are compared with theory, experimental data, and each other to evaluate their usefulness for modeling the thermomechanical deflection of ion engine electrodes. Two programs, NASTRAN and MARC, used a Cray XMP and the third, Algor, used an IBM compatible personal computer. The shape of the applied temperature gradient greatly affects off-axis displacement, implying that an accurate temperature distribution is required to analyze new designs. The use of bulk material constants to model the perforated electrodes was investigated. The stress and displacement predictions are shown to be sensitive to the temperature gradient and the Young's modulus, and insensitive to number of nodes, above some minimum value, and the Poisson ratio used. The models are shown to be useful tools for evaluating designs. Experimental measurements of temperatures and displacements was identified as the most critical area.

  5. Status of structural analysis of 30 cm diameter ion optics

    NASA Technical Reports Server (NTRS)

    Macrae, Gregory S.; Hering, Gary T.

    1990-01-01

    Three structural finite element programs are compared with theory, experimental data, and each other to evaluate their usefulness for modeling the thermomechanical deflection of ion engine electrodes. Two programs, NASTRAN and MARC, used a Cray XMP and the third, Algor, used an IBM compatible personal computer. The shape of the applied temperature gradient greatly affects off-axis displacement, implying that an accurate temperature distribution is required to analyze new designs. The use of bulk material constants to model the perforated electrodes was investigated. The stress and displacement predictions are shown to be sensitive to the temperature gradient and the Young's modulus, and insensitive to number of nodes, above some minimum value, and the Poisson ratio used. The models are shown to be useful tools for evaluating designs. Experimental measurement of temperatures and displacements was identified as the most critical area for further work.

  6. Optical properties of structurally modified glasses doped with gold ions.

    PubMed

    Qiu, Jianrong; Jiang, Xiongwei; Zhu, Congshan; Inouye, Hideyuki; Si, Jinhai; Hirao, Kazuyuki

    2004-02-15

    We report on the optical properties of a structurally modified silicate glass doped with Au ions. The area in the vicinity of the focal point of an 800-nm femtosecond laser in a glass sample became gray as a result of the formation of color centers after laser irradiation and turned red because of precipitation of Au nanoparticles after further annealing at 550 degrees C for 30 min. When the glass was excited by UV light at 365 nm, yellowish-white and orange-yellow emissions were observed in the laser-irradiated and the Au-nanoparticle-precipitated area, respectively. An optical Kerr shutter experiment showed that the Au nanoparticle-precipitated glass had an ultrafast nonlinear optical response, and the third-order nonlinear susceptibility was estimated to be approximately 10(-11) esu. PMID:14971756

  7. Optical properties of structurally modified glasses doped with gold ions

    NASA Astrophysics Data System (ADS)

    Qiu, Jianrong; Jiang, Xiongwei; Zhu, Congshan; Inouye, Hideyuki; Si, Jinhai; Hirao, Kazuyuki

    2004-02-01

    We report on the optical properties of a structurally modified silicate glass doped with Au ions. The area in the vicinity of the focal point of an 800-nm femtosecond laser in a glass sample became gray as a result of the formation of color centers after laser irradiation and turned red because of precipitation of Au nanoparticles after further annealing at 550 °C for 30 min. When the glass was excited by UV light at 365 nm, yellowish-white and orange-yellow emissions were observed in the laser-irradiated and the Au-nanoparticle-precipitated area, respectively. An optical Kerr shutter experiment showed that the Au nanoparticle-precipitated glass had an ultrafast nonlinear optical response, and the third-order nonlinear susceptibility was estimated to be ~10-11 esu.

  8. Method and system for detecting polygon boundaries of structures in images as particle tracks through fields of corners and pixel gradients

    DOEpatents

    Paglieroni, David W.; Manay, Siddharth

    2011-12-20

    A stochastic method and system for detecting polygon structures in images, by detecting a set of best matching corners of predetermined acuteness .alpha. of a polygon model from a set of similarity scores based on GDM features of corners, and tracking polygon boundaries as particle tracks using a sequential Monte Carlo approach. The tracking involves initializing polygon boundary tracking by selecting pairs of corners from the set of best matching corners to define a first side of a corresponding polygon boundary; tracking all intermediate sides of the polygon boundaries using a particle filter, and terminating polygon boundary tracking by determining the last side of the tracked polygon boundaries to close the polygon boundaries. The particle tracks are then blended to determine polygon matches, which may be made available, such as to a user, for ranking and inspection.

  9. Synthesis, properties and structure of ion exchanged hydrosodalite

    NASA Astrophysics Data System (ADS)

    Kendrick, Emma; Dann, Sandra

    2004-04-01

    Alkali metal and alkali-earth metal hydrosodalites with the formula M6[AlSiO 4] 6·8H 2O ( M=Li, Na, K, Mg, Ca, Sr) have been prepared by ion exchange of Na 6[AlSiO 4] 6·8H 2O using a solution of the appropriate metal nitrate solution under reflux for a period of 24 h. The starting materials and products were characterized using a combination of techniques including IR, DSC, TGA, ICP, AA, MASNMR and X-ray diffraction. The alkali metal and alkali-earth metal hydrosodalites crystallize with the primitive cubic sodalite unit cell and an ordered AlO 4/SiO 4 framework in the space group P 4¯3n with cell parameters lying between 8.8 and 9.2 Å. The structures of these materials have been refined using powder X-ray diffraction data in order to delineate structural changes as a function of the occluded cation. Temperature-dependent powder X-ray diffraction has been used to observe changes in the structure as a function of temperature. Results from the DSC and TGA analysis show that the temperature at which water is lost from the β cages is a two-stage process. In the second stage, the temperature rises as the size of occluded cation increases, implying that the presence of a larger cation in the six-ring window blocks the path of the exiting water molecules.

  10. Microwave Spectrum of the SD+3 Ion: Molecular Structure.

    PubMed

    Araki; Ozeki; Saito

    1998-11-01

    The J = 1-0 to 4-3 spectral lines of SD+3 were measured in the 152-610 GHz region using a source-modulated microwave spectrometer. The SD+3 ion was generated in a free space absorption cell by a hollow-cathode discharge in a gas mixture of D2S and D2. The rotational constant B0 and the centrifugal distortion constants DJ and DJK were determined from the measured frequencies. A vibration-rotation analysis was carried out and the rz structures of SH+3 and SD+3 were derived from their zero point averaged rotational constants, expressed as SH+3: rz = 1.36512(22) Å and thetaz = 94.098(26) degrees, and SD+3: rz = 1.36086(16) Å and thetaz = 94.1211(195) degrees, where the difference between thetaz(HSH) and thetaz(DSD) was assumed to be the same as that between thetaz(HPH) of PH3 and thetaz(DPD) of PD3. From the shift between the rz structures of SH+3 and SD+3, the re structure of SH+3 was estimated to be re = 1.35001(113) Å, thetae = 94.181(135) degrees. Copyright 1998 Academic Press. PMID:9770407

  11. Structure of the TRPA1 ion channel suggests regulatory mechanisms

    PubMed Central

    Paulsen, Candice E.; Armache, Jean-Paul; Gao, Yuan; Cheng, Yifan; Julius, David

    2015-01-01

    The TRPA1 ion channel (a.k.a the ‘wasabi receptor’) is a detector of noxious chemical agents encountered in our environment or produced endogenously during tissue injury or drug metabolism. These include a broad class of electrophiles that activate the channel through covalent protein modification. TRPA1 antagonists hold potential for treating neurogenic inflammatory conditions provoked or exacerbated by irritant exposure. Despite compelling reasons to understand TRPA1 function, structural mechanisms underlying channel regulation remain obscure. Here, we use single-particle electron cryo-microscopy to determine the structure of full-length human TRPA1 to ~4Å resolution in the presence of pharmacophores, including a potent antagonist. A number of unexpected features are revealed, including an extensive coiled-coil assembly domain stabilized by polyphosphate co-factors and a highly integrated nexus that converges on an unpredicted TRP-like allosteric domain. These findings provide novel insights into mechanisms of TRPA1 regulation, and establish a blueprint for structure-based design of analgesic and anti-inflammatory agents. PMID:25855297

  12. Variable frequency heavy-ion linac, RILAC I. Design, construction and operation of its accelerating structure

    NASA Astrophysics Data System (ADS)

    Odera, Masatoshi; Chiba, Yoshiaki; Tonuma, Tadao; Hemmi, Masatake; Miyazawa, Yoshitoshi; Inoue, Toshihiko; Kambara, Tadashi; Kase, Masayuki; Kubo, Toshiyuki; Yoshida, Fusako

    1984-11-01

    A variable frequency linear accelerator at RIKEN (IPCR), which is named RILAC, is designed to accelerate ions of almost every element in the periodic table. In this report, the design, construction and performance of the resonator cavities of this linac are described. A new accelerating structure was developed for the variable frequency scheme. The principal aim of the development was to obtain a configuration within the cavity to keep a uniform voltage distribution along the accelerating axis over the wide range of resonant frequencies required. The final form adopted is a coaxial quarter-wave type resonator with a race-track-like cross section for its coaxial inner and outer conductors. It has a movable shorting device as a frequency tuner and its open end is enlarged and loaded with drift tubes, connected to the inner and outer conductors alternatingly. The structure can maintain the required uniformity of the accelerating voltage within 10% in spite of resonant frequency tuning between 17 and 45 MHz. A relatively modest accelerating gradient was chosen so that cw operation could be realized. The RILAC is composed of six such cavities which are independently excited and it succeeded in the acceleration of a beam through all the cavities in 1981.

  13. Crustal and uppermost mantle structure variation beneath La Réunion hotspot track

    NASA Astrophysics Data System (ADS)

    Fontaine, Fabrice R.; Barruol, Guilhem; Tkalčić, Hrvoje; Wölbern, Ingo; Rümpker, Georg; Bodin, Thomas; Haugmard, Méric

    2015-10-01

    The Piton de la Fournaise basaltic volcano, on La Réunion Island in the western Indian Ocean, is one of the most active volcanoes in the world. This volcano is classically considered as the surface expression of an upwelling mantle plume and its activity is continuously monitored, providing detailed information on its superficial dynamics and on the edifice structure. Deeper crustal and upper mantle structure under La Réunion Island is surprisingly poorly constrained, motivating this study. We used receiver function techniques to determine a shear wave velocity profile through the crust and uppermost mantle beneath La Réunion, but also at other seismic stations located on the hotspot track, to investigate the plume and lithosphere interaction and its evolution through time. Receiver functions (RFs) were computed at permanent broad-band seismic stations from the GEOSCOPE network (on La Réunion and Rodrigues), at IRIS stations MRIV and DGAR installed on Mauritius and Diego Garcia islands, and at the GEOFON stations KAAM and HMDM on the Maldives. We performed non-linear inversions of RFs through modelling of P-to-S conversions at various crustal and upper mantle interfaces. Joint inversion of RF and surface wave dispersion data suggests a much deeper Mohorovičić discontinuity (Moho) beneath Mauritius (˜21 km) compared to La Réunion (˜12 km). A magmatic underplated body may be present under La Réunion as a thin layer (≤3 km thick), as suggested by a previous seismic refraction study, and as a much thicker layer beneath other stations located on the hotspot track, suggesting that underplating is an important process resulting from the plume-lithosphere interaction. We find evidence for a strikingly low velocity layer starting at about 33 km depth beneath La Réunion that we interpret as a zone of partial melt beneath the active volcano. We finally observe low velocities below 70 km beneath La Réunion and below 50 km beneath Mauritius that could represent

  14. On the consistency of Monte Carlo track structure DNA damage simulations

    SciTech Connect

    Pater, Piotr Seuntjens, Jan; El Naqa, Issam; Bernal, Mario A.

    2014-12-15

    Purpose: Monte Carlo track structures (MCTS) simulations have been recognized as useful tools for radiobiological modeling. However, the authors noticed several issues regarding the consistency of reported data. Therefore, in this work, they analyze the impact of various user defined parameters on simulated direct DNA damage yields. In addition, they draw attention to discrepancies in published literature in DNA strand break (SB) yields and selected methodologies. Methods: The MCTS code Geant4-DNA was used to compare radial dose profiles in a nanometer-scale region of interest (ROI) for photon sources of varying sizes and energies. Then, electron tracks of 0.28 keV–220 keV were superimposed on a geometric DNA model composed of 2.7 × 10{sup 6} nucleosomes, and SBs were simulated according to four definitions based on energy deposits or energy transfers in DNA strand targets compared to a threshold energy E{sub TH}. The SB frequencies and complexities in nucleosomes as a function of incident electron energies were obtained. SBs were classified into higher order clusters such as single and double strand breaks (SSBs and DSBs) based on inter-SB distances and on the number of affected strands. Results: Comparisons of different nonuniform dose distributions lacking charged particle equilibrium may lead to erroneous conclusions regarding the effect of energy on relative biological effectiveness. The energy transfer-based SB definitions give similar SB yields as the one based on energy deposit when E{sub TH} ≈ 10.79 eV, but deviate significantly for higher E{sub TH} values. Between 30 and 40 nucleosomes/Gy show at least one SB in the ROI. The number of nucleosomes that present a complex damage pattern of more than 2 SBs and the degree of complexity of the damage in these nucleosomes diminish as the incident electron energy increases. DNA damage classification into SSB and DSB is highly dependent on the definitions of these higher order structures and their

  15. Response of CR39 track etch detector to 10 A GeV Fe 26+ ion beam and total charge changing cross section measurement

    NASA Astrophysics Data System (ADS)

    Kumar, A.; Gupta, R.; Jalota, S.; Giacomelli, G.; Patrizii, L.; Togo, V.

    2012-01-01

    Total charge changing cross-section of 10 A GeV Fe 26+ ion beam on polyethylene and CR39 targets was measured. Charge of the fragments of projectiles was detected using CR39 nuclear track detectors by a new technique of one-side etching using an automated optical microscope with an image analysing software. The calculated value of total charge changing cross-section is σ tot = (2694 ± 142)mb and is in good agreement with the experimental values by other methods within error. The restricted energy loss ( REL) at energy 10 A GeV for all the fragments was theoretically calculated by using Bethe-Bloch equation and then obtained a calibration curve of reduced etch-rate ratio ( p) versus REL showing the response of CR39 track detectors to 10 A GeV Fe 26+ beam. The curve was fitted by a polynomial showing the relation between p and REL.

  16. STRUCTURAL CHARACTERIZATION OF SULFONATED AZO DYES USING LIQUID SECONDARY ION MASS SPECTROMETRY/TANDEM MASS SPECTROMETRY

    EPA Science Inventory

    Eight monosulfonated and disulfonated azo dyes were analyzed using liquid secondary ion mass spectrometry/tandem mass spectrometry, in the negative ion mode, under low-energy conditions (110-150 eV). any structurally characteristic fragment ions were obtained, several of which ha...

  17. Structural and Thermodynamic Properties of Selective Ion Binding in a K+ Channel

    SciTech Connect

    Lockless,S.; Zhou, M.; MacKinnon, R.

    2007-01-01

    Thermodynamic measurements of ion binding to the Streptomyces lividans K+ channel were carried out using isothermal titration calorimetry, whereas atomic structures of ion-bound and ion-free conformations of the channel were characterized by x-ray crystallography. Here we use these assays to show that the ion radius dependence of selectivity stems from the channel's recognition of ion size (i.e., volume) rather than charge density. Ion size recognition is a function of the channel's ability to adopt a very specific conductive structure with larger ions (K+, Rb+, Cs+, and Ba2+) bound and not with smaller ions (Na+, Mg2+, and Ca2+). The formation of the conductive structure involves selectivity filter atoms that are in direct contact with bound ions as well as protein atoms surrounding the selectivity filter up to a distance of 15 Angstroms from the ions. We conclude that ion selectivity in a K+ channel is a property of size-matched ion binding sites created by the protein structure.

  18. Structural and Thermodynamic Properties of Selective Ion Binding in a K+ Channel

    PubMed Central

    Lockless, Steve W; Zhou, Ming; MacKinnon, Roderick

    2007-01-01

    Thermodynamic measurements of ion binding to the Streptomyces lividans K+ channel were carried out using isothermal titration calorimetry, whereas atomic structures of ion-bound and ion-free conformations of the channel were characterized by x-ray crystallography. Here we use these assays to show that the ion radius dependence of selectivity stems from the channel's recognition of ion size (i.e., volume) rather than charge density. Ion size recognition is a function of the channel's ability to adopt a very specific conductive structure with larger ions (K+, Rb+, Cs+, and Ba2+) bound and not with smaller ions (Na+, Mg2+, and Ca2+). The formation of the conductive structure involves selectivity filter atoms that are in direct contact with bound ions as well as protein atoms surrounding the selectivity filter up to a distance of 15 Å from the ions. We conclude that ion selectivity in a K+ channel is a property of size-matched ion binding sites created by the protein structure. PMID:17472437

  19. Phosphate Ions Affect the Water Structure at Functionalized Membrane Surfaces.

    PubMed

    Barrett, Aliyah; Imbrogno, Joseph; Belfort, Georges; Petersen, Poul B

    2016-09-01

    Antifouling surfaces improve function, efficiency, and safety in products such as water filtration membranes, marine vehicle coatings, and medical implants by resisting protein and biofilm adhesion. Understanding the role of water structure at these materials in preventing protein adhesion and biofilm formation is critical to designing more effective coatings. Such fouling experiments are typically performed under biological conditions using isotonic aqueous buffers. Previous studies have explored the structure of pure water at a few different antifouling surfaces, but the effect of electrolytes and ionic strength (I) on the water structure at antifouling surfaces is not well studied. Here sum frequency generation (SFG) spectroscopy is used to characterize the interfacial water structure at poly(ether sulfone) (PES) and two surface-modified PES films in contact with 0.01 M phosphate buffer with high and low salt (Ionic strength, I= 0.166 and 0.025 M, respectively). Unmodified PES, commonly used as a filtration membrane, and modified PES with a hydrophobic alkane (C18) and with a poly(ethylene glycol) (PEG) were used. In the low ionic strength phosphate buffer, water was strongly ordered near the surface of the PEG-modified PES film due to exclusion of phosphate ions and the creation of a surface potential resulting from charge separation between phosphate anions and sodium cations. However, in the high ionic strength phosphate buffer, the sodium and potassium chloride (138 and 3 mM, respectively) in the phosphate buffered saline screened this charge and substantially reduced water ordering. A much smaller water ordering and subsequent reduction upon salt addition was observed for the C18-modified PES, and little water structure change was seen for the unmodified PES. The large difference in water structuring with increasing ionic strength between widely used phosphate buffer and phosphate buffered saline at the PEG interface demonstrates the importance of studying

  20. Registration procedure for spatial correlation of physical energy deposition of particle irradiation and cellular response utilizing cell-fluorescent ion track hybrid detectors

    NASA Astrophysics Data System (ADS)

    Niklas, M.; Zimmermann, F.; Schlegel, J.; Schwager, C.; Debus, J.; Jäkel, O.; Abdollahi, A.; Greilich, S.

    2016-09-01

    The hybrid technology cell-fluorescent ion track hybrid detector (Cell-Fit-HD) enables the investigation of radiation-related cellular events along single ion tracks on the subcellular scale in clinical ion beams. The Cell-Fit-HD comprises a fluorescent nuclear track detector (FNTD, the physical compartment), a device for individual particle detection and a substrate for viable cell-coating, i.e. the biological compartment. To date both compartments have been imaged sequentially in situ by confocal laser scanning microscopy (CLSM). This is yet in conflict with a functional read-out of the Cell-Fit-HD utilizing a fast live-cell imaging of the biological compartment with low phototoxicity on greater time scales. The read-out of the biological from the physical compartment was uncoupled. A read-out procedure was developed to image the cell layer by conventional widefield microscopy whereas the FNTD was imaged by CLSM. Point mapping registration of the confocal and widefield imaging data was performed. Non-fluorescent crystal defects (spinels) visible in both read-outs were used as control point pairs. The accuracy achieved was on the sub-µm scale. The read-out procedure by widefield microscopy does not impair the unique ability of spatial correlation by the Cell-Fit-HD. The uncoupling will enlarge the application potential of the hybrid technology significantly. The registration allows for an ultimate correlation of microscopic physical beam parameters and cell kinetics on greater time scales. The method reported herein will be instrumental for the introduction of a novel generation of compact detectors facilitating biodosimetric research towards high-throughput analysis.

  1. Registration procedure for spatial correlation of physical energy deposition of particle irradiation and cellular response utilizing cell-fluorescent ion track hybrid detectors.

    PubMed

    Niklas, M; Zimmermann, F; Schlegel, J; Schwager, C; Debus, J; Jäkel, O; Abdollahi, A; Greilich, S

    2016-09-01

    The hybrid technology cell-fluorescent ion track hybrid detector (Cell-Fit-HD) enables the investigation of radiation-related cellular events along single ion tracks on the subcellular scale in clinical ion beams. The Cell-Fit-HD comprises a fluorescent nuclear track detector (FNTD, the physical compartment), a device for individual particle detection and a substrate for viable cell-coating, i.e. the biological compartment. To date both compartments have been imaged sequentially in situ by confocal laser scanning microscopy (CLSM). This is yet in conflict with a functional read-out of the Cell-Fit-HD utilizing a fast live-cell imaging of the biological compartment with low phototoxicity on greater time scales. The read-out of the biological from the physical compartment was uncoupled. A read-out procedure was developed to image the cell layer by conventional widefield microscopy whereas the FNTD was imaged by CLSM. Point mapping registration of the confocal and widefield imaging data was performed. Non-fluorescent crystal defects (spinels) visible in both read-outs were used as control point pairs. The accuracy achieved was on the sub-µm scale. The read-out procedure by widefield microscopy does not impair the unique ability of spatial correlation by the Cell-Fit-HD. The uncoupling will enlarge the application potential of the hybrid technology significantly. The registration allows for an ultimate correlation of microscopic physical beam parameters and cell kinetics on greater time scales. The method reported herein will be instrumental for the introduction of a novel generation of compact detectors facilitating biodosimetric research towards high-throughput analysis. PMID:27499388

  2. Ion-scale structure in Mercury's magnetopause reconnection diffusion region

    NASA Astrophysics Data System (ADS)

    Gershman, Daniel J.; Dorelli, John C.; DiBraccio, Gina A.; Raines, Jim M.; Slavin, James A.; Poh, Gangkai; Zurbuchen, Thomas H.

    2016-06-01

    The strength and time dependence of the electric field in a magnetopause diffusion region relate to the rate of magnetic reconnection between the solar wind and a planetary magnetic field. Here we use ~150 ms measurements of energetic electrons from the Mercury Surface, Space Environment, GEochemistry, and Ranging (MESSENGER) spacecraft observed over Mercury's dayside polar cap boundary (PCB) to infer such small-scale changes in magnetic topology and reconnection rates. We provide the first direct measurement of open magnetic topology in flux transfer events at Mercury, structures thought to account for a significant portion of the open magnetic flux transport throughout the magnetosphere. In addition, variations in PCB latitude likely correspond to intermittent bursts of ~0.3-3 mV/m reconnection electric fields separated by ~5-10 s, resulting in average and peak normalized dayside reconnection rates of ~0.02 and ~0.2, respectively. These data demonstrate that structure in the magnetopause diffusion region at Mercury occurs at the smallest ion scales relevant to reconnection physics.

  3. Studying nucleon structure using an Electron-Ion Collider

    NASA Astrophysics Data System (ADS)

    Burton, Thomas; EIC Team

    2011-04-01

    The detailed composition of the spin of the nucleon remains unknown. Numerous experiments over the past two decades have shown that the spin of quarks alone cannot account for more than a third of the nucleon's spin. Proton-proton collisions at RHIC suggest a small gluon polarisation, but uncertainties remain large. An Electron-Ion Collider is proposed as future machine for precision studies of nucleon and nuclear structure. It will allow the study of the spin contribution from gluons and quarks, including their flavour decomposition, in heretofore unprecedented precision, and will access a much wider kinematic space than ever before, in particular extending to the currently unmeasured low Bjorken-x sea. The formalism of generalised parton distributions (GPDs), accessible for example via deeply-virtual Compton scattering, promises to allow study of the role of orbital angular momentum in nucleon spin. Furthermore, GPDs will extend understanding of parton distributions beyond the well-known one-dimensional PDFs, accessing three-dimensional structure via the impact parameter distributions of partons.

  4. Improving accuracy of overhanging structures for selective laser melting through reliability characterization of single track formation on thick powder beds

    NASA Astrophysics Data System (ADS)

    Mohanty, Sankhya; Hattel, Jesper H.

    2016-04-01

    Repeatability and reproducibility of parts produced by selective laser melting is a standing issue, and coupled with a lack of standardized quality control presents a major hindrance towards maturing of selective laser melting as an industrial scale process. Consequently, numerical process modelling has been adopted towards improving the predictability of the outputs from the selective laser melting process. Establishing the reliability of the process, however, is still a challenge, especially in components having overhanging structures. In this paper, a systematic approach towards establishing reliability of overhanging structure production by selective laser melting has been adopted. A calibrated, fast, multiscale thermal model is used to simulate the single track formation on a thick powder bed. Single tracks are manufactured on a thick powder bed using same processing parameters, but at different locations in a powder bed and in different laser scanning directions. The difference in melt track widths and depths captures the effect of changes in incident beam power distribution due to location and processing direction. The experimental results are used in combination with numerical model, and subjected to uncertainty and reliability analysis. Cumulative probability distribution functions obtained for melt track widths and depths are found to be coherent with observed experimental values. The technique is subsequently extended for reliability characterization of single layers produced on a thick powder bed without support structures, by determining cumulative probability distribution functions for average layer thickness, sample density and thermal homogeneity.

  5. Highly charged ions for atomic clocks and search for variation of the fine structure constant

    NASA Astrophysics Data System (ADS)

    Dzuba, V. A.; Flambaum, V. V.

    2015-11-01

    We review a number of highly charged ions which have optical transitions suitable for building extremely accurate atomic clocks. This includes ions from Hf 12+ to U 34+, which have the 4 f 12 configuration of valence electrons, the Ir 17+ ion, which has a hole in almost filled 4 f subshell, the Ho 14+, Cf 15+, Es 17+ and Es 16+ ions. Clock transitions in most of these ions are sensitive to variation of the fine structure constant, α (α = e2/hbar c). E.g., californium and einsteinium ions have largest known sensitivity to α-variation while holmium ion looks as the most suitable ion for experimental study. We study the spectra of the ions and their features relevant to the use as frequency standards.

  6. Linguistic complexity and information structure in Korean: Evidence from eye-tracking during reading

    PubMed Central

    Lee, Yoonhyoung; Lee, Hanjung; Gordon, Peter C.

    2006-01-01

    The nature of the memory processes that support language comprehension and the manner in which information packaging influences online sentence processing were investigated in three experiments that used eye-tracking during reading to measure the ease of understanding complex sentences in Korean. All three experiments examined reading of embedded complement sentences; the third experiment additionally examined reading of sentences with object-modifying, object-extracted relative clauses. In Korean, both of these structures place two NPs with nominative case marking early in the sentence, with the embedded and matrix verbs following later. The type (pronoun, name or description) of these two critical NPs was varied in the experiments. When the initial NPs were of the same type, comprehension was slowed after participants had read the sentence-final verbs, a finding that supports the view that working memory in language comprehension is constrained by similarity-based interference during the retrieval of information necessary to determine the syntactic or semantic relations between noun phrases and verb phrases. Ease of comprehension was also influenced by the association between type of NP and syntactic position, with the best performance being observed when more definite NPs (pronouns and names) were in a prominent syntactic position (e.g., matrix subject) and less definite NPs (descriptions) were in a non-prominent syntactic position (embedded subject). This pattern provides evidence that the interpretation of sentences is facilitated by consistent packaging of information in different linguistic elements. PMID:16970936

  7. Differential time scales of change to learning frequency structures of isometric force tracking.

    PubMed

    Studenka, Breanna E; King, Adam C; Newell, Karl M

    2014-08-01

    Multiple processes support the persistent (learning) and transient (adaptive) change in behavior over time. We investigated whether practice and rest influence similarly the learning and adaptation of slow and fast frequency structures in isometric force tracking of pathways that varied in their regularity. Participants practiced 25 trials on each of 5 days in either a constant force target or 1 with the 1/f distributional properties of brown or pink noise. There was a reduction in root mean squared error (RMSE) as well as an increasing positive correlation between force output and the target pathway for all noise conditions over days. The spectral frequency analysis of force output and RMSE revealed task dependent outcomes of learning and adaptation as a function of the relatively slow (0-4 Hz) and fast (8-12 Hz) oscillatory time scales. These contrasting findings show that the persistent and transient properties of learning occur across different timescales and dimensions of behavior (force output and outcome-RMSE). PMID:24911014

  8. Mobility-Resolved Ion Selection in Uniform Drift Field Ion Mobility Spectrometry/Mass Spectrometry; Dynamic Switching in Structures for Lossless Ion Manipulations

    SciTech Connect

    Webb, Ian K.; Garimella, Venkata BS; Tolmachev, Aleksey V.; Chen, Tsung-Chi; Zhang, Xinyu; Cox, Jonathan T.; Norheim, Randolph V.; Prost, Spencer A.; Lamarche, Brian L.; Anderson, Gordon A.; Ibrahim, Yehia M.; Smith, Richard D.

    2014-10-07

    A Structures for Lossless Ion Manipulations (SLIM) module that allows ion mobility separations and the switching of ions between alternative drift paths is described. The SLIM switch component has a “Tee” configuration and allows switching of ions between a linear path and a 90-degree bend. By controlling switching times, ions can be deflected to an alternative channel as a function of their mobilities. In the initial evaluation the switch is used in a static mode and shown compatible with high performance ion mobility separations at 4 torr. In the “dynamic mode” we show that mobility-selected ions can be switched into the alternative channel, and that various ion species can be independently selected based on their mobilities for time-of-flight mass spectrometer (TOF MS) IMS detection and mass analysis. This development also provides the basis for e.g. the selection of specific mobilities for storage and accumulation, and key modules for the assembly of SLIM devices enabling much more complex sequences of ion manipulations.

  9. The correlation between the radial distribution of high-energetic ions and the structural as well as electrical properties of magnetron sputtered ZnO:Al films

    SciTech Connect

    Bikowski, André; Welzel, Thomas; Ellmer, Klaus

    2013-12-14

    The origin of the pronounced radial distributions of structural and electrical properties of magnetron sputtered ZnO:Al films has been investigated. The film properties were correlated with the radially resolved ion-distribution functions. While the positive ions exhibit low energies and a radial distribution with a maximum intensity opposite the center of the target, the negative ions can have energies up to several hundred eV, depending on the target potential, with a radial distribution with two maxima opposite the erosion tracks. The most prominent positive ion is that of the working gas (Ar{sup +}), while the highest flux of the negative ions is measured for negative oxygen O{sup −}. The radial distribution of the flux of the high-energetic negative ions can clearly be related to the radial variations of the structural (c-axis lattice parameter, crystallite size) and electronic (resistivity) properties for sputtering from the planar target, which points to the decisive role of the high-energetic negative oxygen ions for the film quality. The relation between the negative ion bombardment and the structural as well as electronic properties can be explained by a qualitative model recently developed by us. The same target has also been investigated in the eroded state. In this case, the limited acceptance angle of the mass spectrometer leads to a misinterpretation of the radial distribution of the flux of the high-energetic negative ions. This effect can be explained by a simulation, based on the assumption that the high-energetic negative ions are mainly accelerated in the cathode (target) sheath perpendicular to the uneven substrate surface.

  10. Ion trap array mass analyzer: structure and performance.

    PubMed

    Li, Xiaoxu; Jiang, Gongyu; Luo, Chan; Xu, Fuxing; Wang, Yuanyuan; Ding, Li; Ding, Chuan-Fan

    2009-06-15

    An ion trap array (ITA) mass analyzer--a novel ion trap mass analyzer with multiple ion trapping and analyzing channels--was designed and constructed. Its property and performance were investigated and reported in this paper. The ITA was built with several planar electrodes including two parallel printed circuit board (PCB) plates. Each PCB plate was fabricated to several identical rectangular electric strips based on normal PCB fabrication technology and was placed symmetrically to those on the opposite plate. There is no electrode between any two adjacent strips. Every strip was supplied with an rf voltage while the polarity of the voltage applied to the adjacent two strips was opposite. So the electric potential at the central plane between two adjacent strips is zero. Multiple identical electric field regions that contain the dominant quadrupole plus some other high-order fields were produced between the two PCB plates. The multiple identical electric field regions will have the property of ion trapping, ion storage, and mass analysis functions. So an ITA could work as multiple ion trap mass analyzers. It could perform multiple sample ion storage, mass-selected ion isolation, ion ejection, and mass analysis simultaneously. The ITA was operated at both "digital ion trap mode" and "conventional rf mode" experimentally. A preliminary mass spectrum has been carried out in one of the ion trap channels, and it shows a mass resolution of over 1000. Additional functions such as mass-selected ion isolation and mass-selected ion ejection have also been tested. Furthermore, the ITA has a small size and very low cost. An ITA with four channels is less than 30 cm(3) in total volume, and it shows a great promise for the miniaturization of the whole mass spectrometer instrument and high-throughput mass analysis. PMID:19441854

  11. Water radiolysis with heavy ions of energies up to 28 GeV. . 1. Measurements of primary g values as track segment yields

    NASA Astrophysics Data System (ADS)

    Yamashita, Shinichi; Katsumura, Yosuke; Lin, Mingzhang; Muroya, Yusa; Miyazaki, Toyoaki; Murakami, Takeshi

    2008-04-01

    Water radiolysis has been investigated with heavy ions having energies up to 28 GeV provided from the Heavy Ion Medical Accelerator in Chiba (HIMAC) at the National Institute of Radiological Sciences (NIRS). Beams of 4He 2+, 12C 6+, 20Ne 10+, 28Si 14+, 40Ar 18+ and 56Fe 26+ with respective energies of 150, 400, 400, 490, 500 and 500 MeV/ u corresponding LET values of 2.2, 13, 30, 54, 92 and 183 eV/nm, respectively, were taken for the irradiation. The LET changes in sample solutions can be neglected due to their high energies for the irradiation of 1-cm cells. Primary g values have been determined for three important products, hydrated electron (e -aq), hydroxyl radical (·OH), and hydrogen peroxide (H 2O 2) as track segment yields (differential yields) under the conditions of neutral pH. With increasing LET, the g values of e -aq and ·OH decrease from 2.4 and 2.6 in 4He 2+ radiolysis to 0.9 and 1.1 (100 eV) -1 in 56Fe 26+ radiolysis, respectively. It was also found that the primary g value of e -aq is smaller than that of ·OH for any type of ion beam. For the 12C 6+ beam, other energies such as 290, 220, 135 MeV/ u were taken for the irradiation to investigate the effects of type or atomic number of ions on the measured yields. Furthermore, effects of dissolved oxygen on enhancement of H 2O 2 production have also been investigated with aerated NaNO 3 solutions. The presence of dissolved oxygen caused 15-35% enhancement in H 2O 2 yields for all beams. In addition, the results of the present work were compared with reported track segment yields.

  12. Thermal structure of ions and electrons in Saturn's inner magnetosphere

    NASA Astrophysics Data System (ADS)

    Barbosa, D. D.

    1993-06-01

    A theoretical model of thermal ion and electron temperatures in Saturn's inner magnetospheres is presented which is based on a fast model of radial diffusive plasma transport. It is shown that the ion and electron temperatures and the latitudinal behavior of temperatures are consistent with the fast diffusion hypothesis, assuming that O(+) is the dominant ion and that its source is the Dione-Tethys plasma torus. The present results reinforce the conclusions of Barbosa (1990).

  13. Dust-ion-acoustic solitary structure with opposite polarity ions and non-thermal electrons

    NASA Astrophysics Data System (ADS)

    Haider, M. M.

    2016-02-01

    The propagation of dust-ion-acoustic solitary waves in magnetized plasmas containing opposite polarity ions, opposite polarity dusts and non-thermal electrons has been studied. The fluid equations in the system are reduced to a Korteweg-de Vries equation in the limit of small amplitude perturbation. The effect of non-thermal electrons and the opposite polarity of ions and dusts in the solitary waves are presented graphically and numerically.

  14. Altitude distributions of upward flowing ion beams and solitary wave structures in the Viking data

    SciTech Connect

    Maelkki, A.; Lundin, R.

    1994-10-01

    The authors present a study of correlations between accelerated ion beam structures in the auroral zones, and the appearance of solitary waves, or weak double layers. The data is studied as a function of altitude in the stratosphere. They observe a clear correlation between the wave structures and the accelerated ion beams. They discuss several possible interpretations of this correlation.

  15. A structural health monitoring fastener for tracking fatigue crack growth in bolted metallic joints

    NASA Astrophysics Data System (ADS)

    Rakow, Alexi Schroder

    Fatigue cracks initiating at fastener hole locations in metallic components are among the most common form of airframe damage. The fastener hole site has been surveyed as the second leading initiation site for fatigue related accidents of fixed wing aircraft. Current methods for inspecting airframes for these cracks are manual, whereby inspectors rely on non-destructive inspection equipment or hand-held probes to scan over areas of a structure. Use of this equipment often demands disassembly of the vehicle to search appropriate hole locations for cracks, which elevates the complexity and cost of these maintenance inspections. Improved reliability, safety, and reduced cost of such maintenance can be realized by the permanent integration of sensors with a structure to detect this damage. Such an integrated system of sensors would form a structural health monitoring (SHM) system. In this study, an Additive, Interleaved, Multi-layer Electromagnetic (AIME) sensor was developed and integrated with the shank of a fastener to form a SHM Fastener, a new SHM technology targeted at detection of fastener hole cracks. The major advantages of the SHM Fastener are its installation, which does not require joint layer disassembly, its capability to detect inner layer cracks, and its capability to operate in a continuous autonomous mode. Two methods for fabricating the proposed SHM Fastener were studied. The first option consisted of a thin flexible printed circuit film that was bonded around a thin metallic sleeve placed around the fastener shank. The second option consisted of coating sensor materials directly to the shank of a part in an effort to increase the durability of the sensor under severe loading conditions. Both analytical and numerical models were developed to characterize the capability of the sensors and provide a design tool for the sensor layout. A diagnostic technique for crack growth monitoring was developed to complete the SHM system, which consists of the

  16. Comparison of nanodosimetric parameters of track structure calculated by the Monte Carlo codes Geant4-DNA and PTra

    NASA Astrophysics Data System (ADS)

    Lazarakis, P.; Bug, M. U.; Gargioni, E.; Guatelli, S.; Rabus, H.; Rosenfeld, A. B.

    2012-03-01

    The concept of nanodosimetry is based on the assumption that initial damage to cells is related to the number of ionizations (the ionization cluster size) directly produced by single particles within, or in the close vicinity of, short segments of DNA. The ionization cluster-size distribution and other nanodosimetric quantities, however, are not directly measurable in biological targets and our current knowledge is mostly based on numerical simulations of particle tracks in water, calculating track structure parameters for nanometric target volumes. The assessment of nanodosimetric quantities derived from particle-track calculations using different Monte Carlo codes plays, therefore, an important role for a more accurate evaluation of the initial damage to cells and, as a consequence, of the biological effectiveness of ionizing radiation. The aim of this work is to assess the differences in the calculated nanodosimetric quantities obtained with Geant4-DNA as compared to those of the ad hoc particle-track Monte Carlo code ‘PTra’ developed at Physikalisch-Technische Bundesanstalt (PTB), Germany. The comparison of the two codes was made for incident electrons of energy in the range between 50 eV and 10 keV, for protons of energy between 300 keV and 10 MeV, and for alpha particles of energy between 1 and 10 MeV as these were the energy ranges available in both codes at the time this investigation was carried out. Good agreement was found for nanodosimetric characteristics of track structure calculated in the high-energy range of each particle type. For lower energies, significant differences were observed, most notably in the estimates of the biological effectiveness. The largest relative differences obtained were over 50%; however, generally the order of magnitude was between 10% and 20%.

  17. Comparison of nanodosimetric parameters of track structure calculated by the Monte Carlo codes Geant4-DNA and PTra.

    PubMed

    Lazarakis, P; Bug, M U; Gargioni, E; Guatelli, S; Rabus, H; Rosenfeld, A B

    2012-03-01

    The concept of nanodosimetry is based on the assumption that initial damage to cells is related to the number of ionizations (the ionization cluster size) directly produced by single particles within, or in the close vicinity of, short segments of DNA. The ionization cluster-size distribution and other nanodosimetric quantities, however, are not directly measurable in biological targets and our current knowledge is mostly based on numerical simulations of particle tracks in water, calculating track structure parameters for nanometric target volumes. The assessment of nanodosimetric quantities derived from particle-track calculations using different Monte Carlo codes plays, therefore, an important role for a more accurate evaluation of the initial damage to cells and, as a consequence, of the biological effectiveness of ionizing radiation. The aim of this work is to assess the differences in the calculated nanodosimetric quantities obtained with Geant4-DNA as compared to those of the ad hoc particle-track Monte Carlo code 'PTra' developed at Physikalisch-Technische Bundesanstalt (PTB), Germany. The comparison of the two codes was made for incident electrons of energy in the range between 50 eV and 10 keV, for protons of energy between 300 keV and 10 MeV, and for alpha particles of energy between 1 and 10 MeV as these were the energy ranges available in both codes at the time this investigation was carried out. Good agreement was found for nanodosimetric characteristics of track structure calculated in the high-energy range of each particle type. For lower energies, significant differences were observed, most notably in the estimates of the biological effectiveness. The largest relative differences obtained were over 50%; however, generally the order of magnitude was between 10% and 20%. PMID:22330641

  18. Probing the defect nanostructure of helium and proton tracks in LiF:Mg,Ti using optical absorption: Implications to track structure theory calculations of heavy charged particle relative efficiency

    NASA Astrophysics Data System (ADS)

    Eliyahu, I.; Horowitz, Y. S.; Oster, L.; Weissman, L.; Kreisel, A.; Girshevitz, O.; Marino, S.; Druzhyna, S.; Biderman, S.; Mardor, I.

    2015-04-01

    A major objective of track structure theory (TST) is the calculation of heavy charged particle (HCP) induced effects. Previous calculations have been based exclusively on the radiation action/dose response of the released secondary electrons during the HCP slowing down. The validity of this presumption is investigated herein using optical absorption (OA) measurements on LiF:Mg,Ti (TLD-100) samples following irradiation with 1.4 MeV protons and 4 MeV He ions at levels of fluence from 1010 cm-2 to 2 × 1014 cm-2. The major bands in the OA spectrum are the 5.08 eV (F band), 4.77 eV, 5.45 eV and the 4.0 eV band (associated with the trapping structure leading to composite peak 5 in the thermoluminescence (TL) glow curve). The maximum intensity of composite peak 5 occurs at a temperature of ∼200 °C in the glow curve and is the glow peak used for most dosimetric applications. The TST calculations use experimentally measured OA dose response following low ionization density (LID) 60Co photon irradiation over the dose-range 10-105 Gy for the simulation of the radiation action of the HCP induced secondary electron spectrum. Following proton and He irradiation the saturation levels of concentration for the F band and the 4.77 eV band are approximately one order of magnitude greater than following LID irradiation indicating enhanced HCP creation of the relevant defects. Relative HCP OA efficiencies, ηHCP, are calculated by TST and are compared with experimentally measured values, ηm, at levels of fluence from 1010 cm-2 to 1011 cm-2 where the response is linear due to negligible track overlap. For the F band, values of ηm/ηHCP = 2.0 and 2.6 for the He ions and protons respectively arise from the neglect of enhanced Fluorine vacancy/F center creation by the HCPs in the TST calculations. It is demonstrated that kinetic analysis simulating LID F band dose response with enhanced Fluorine vacancy creation, and incorporated into the TST calculation, can lead to values of

  19. The measurement results of carbon ion beam structure extracted by bent crystal from U-70 accelerator

    NASA Astrophysics Data System (ADS)

    Afonin, A. G.; Barnov, E. V.; Britvich, G. I.; Chesnokov, Yu A.; Chirkov, P. N.; Durum, A. A.; Kostin, M. Yu; Maisheev, V. A.; Pitalev, V. I.; Reshetnikov, S. F.; Yanovich, A. A.; Nazhmudinov, R. M.; Kubankin, A. S.; Shchagin, A. V.

    2016-07-01

    The carbon ion +6C beam with energy 25 GeV/nucleon was extracted by bent crystal from the U-70 ring. The bent angle of silicon crystal was 85 mrad. About 2×105 particles for 109 circulated ions in the ring were observed in beam line 4a after bent crystal. Geometrical parameters, time structure and ion beam structure were measured. The ability of the bent monocrystal to extract and generate ion beam with necessary parameters for regular usage in physical experiments is shown in the first time.

  20. Controlled deposition of sulphur-containing semiconductor and dielectric nano-structured films on metals in SF6 ion-ion plasma

    NASA Astrophysics Data System (ADS)

    Rafalskyi, Dmytro; Bredin, Jérôme; Aanesland, Ane

    2013-12-01

    In the present paper, the deposition processes and formation of films in SF6 ion-ion plasma, with positive and negative ion flows accelerated to the surface, are investigated. The PEGASES (acronym for Plasma Propulsion with Electronegative GASES) source is used as an ion-ion plasma source capable of generating almost ideal ion-ion plasma with negative ion to electron density ratio more than 2500. It is shown that film deposition in SF6 ion-ion plasma is very sensitive to the polarity of the incoming ions. The effect is observed for Cu, W, and Pt materials. The films formed on Cu electrodes during negative and positive ion assisted deposition were analyzed. Scanning electron microscope analysis has shown that both positive and negative ion fluxes influence the copper surface and leads to film formation, but with different structures of the surface: the low-energy positive ion bombardment causes the formation of a nano-pored film transparent for ions, while the negative ion bombardment leads to a continuous smooth insulating film. The transversal size of the pores in the porous film varies in the range 50-500 nm, and further analysis of the film has shown that the film forms a diode together with the substrate preventing positive charge drain, and positive ions are neutralized by passing through the nano-pores. The film obtained with the negative ion bombardment has an insulating surface, but probably with a multi-layer structure: destroying the top surface layer allows to measure similar "diode" IV-characteristics as for the nano-pored film case. Basing on results, practical conclusions for the probes and electrodes cleaning in ion-ion SF6 plasmas have been made. Different applications are proposed for the discovered features of the controlled deposition from ion-ion plasmas, from Li-sulphur rechargeable batteries manufacturing and nanofluidics issues to the applications for microelectronics, including low-k materials formation.

  1. Perveance and ion bunch structure from a 'compact, high-pressure' laser ion source

    SciTech Connect

    Yeates, P.; Costello, J. T.; Kennedy, E. T.

    2010-12-15

    The Dublin City University (DCU) laser ion source (LIS) is a 'compact high-pressure' laser ion source utilizing a table top Q-switched laser. The DCU-LIS combines high laser fluence (F>4 kJ cm{sup -2}), high laser intensity (I>10{sup 11} W cm{sup -2}) with a short field free region (L=48 mm) and high source potential (V{sub ext}>40 kV) in order to offset recombination losses within the plasma and maximize the proportion of highly charged ions which are extracted from the plasma plume. Such a configuration also provides high peak currents (I{sub p}>3 mA), high current densities (J>5 mA cm{sup -2}), and high charge states (Cu{sup 6+}) in the extracted ion-bunch train. However, to obtain and utilize these parameter values in a high pressure LIS requires characterization and control of a number of processes related to ion dynamics and space charge effects on the extracted ions at the plasma plume-anode-extraction gap interface. Relevant issues include electric field distortion, Debye shielding, beam divergence, overfocusing, and perveance (P) in addition to current density profiles for the extracted ion beam. In this paper we focus on these issues and their impact on charge particle extraction and acceleration with a view to elucidating the parameter regimes within which the DCU-LIS performance envelope is optimal.

  2. Structure and mechanism of formation of an important ion in doping control

    NASA Astrophysics Data System (ADS)

    Borges, Chad R.; Taccogno, James; Crouch, Dennis J.; Le, Ly; Truong, Thanh N.

    2005-12-01

    An ion with m/z 143 serves as a biomarker that is often continuously monitored in urine samples undergoing screening by electron ionization gas chromatography/mass spectrometry (EI GC/MS) for banned anabolic agents. The ion is known to arise from trimethylsilyl (TMS)-derivatized synthetic 17-hydroxy, 17-methyl steroids. The purpose of this work was to characterize, in detail, the origin(s), structure(s), and mechanism(s) of formation of such ions with m/z 143. High resolution mass spectrometry (HRMS) data revealed the elemental composition of the D-ring derived m/z 143 ion to be C7H15OSi. Analysis of dihydrotestosterone (DHT) and its 2-methyl substituted analog dromostanolone by HRMS revealed that an elementally equivalent ion of m/z 143 could be derived from the A-ring of TMS-derivatized 3-keto-enol steroids demonstrating that an abnormally intense peak in the m/z 143 extracted ion chromatogram of urine samples undergoing screening for banned anabolic agents does not necessarily indicate the presence of a 17-hydroxy, 17-methyl steroid. To gain information on ion structure, breakdown curves for the most abundant product ions of the m/z 143 ion were generated using both native and perdeutero-TMS derivatives, providing structures for second, third, and fourth generation product ions. An EI-mass spectrum of [16,16,17-2H3]-DHT (DHT-d3) demonstrated that one of the C-16 hydrogen atoms is removed prior to the formation of an ion that is highly analogous to the ion with m/z 143 strongly suggesting, in accord with all other evidence, one particular fragmentation pathway and resulting product: a resonance stabilized 3-(O-trimethylsilyl)but-1-ene ion.

  3. Auroral ion acceleration from lower hybrid solitary structures: A summary of sounding rocket observations

    NASA Astrophysics Data System (ADS)

    Lynch, K. A.; Arnoldy, R. L.; Kintner, P. M.; Schuck, P.; Bonnell, J. W.; Coffey, V.

    In this paper we present a review of sounding rocket observations of the ion acceleration seen in nightside auroral zone lower hybrid solitary structures. Observations from Topaz3, Amicist, and Phaze2 are presented on various spatial scales, including the two-point measurements of the Amicist mission. From this collection of observations we will demonstrate the following characteristics of transverse acceleration of ions (TAI) in lower hybrid solitary structures (LHSS). The ion acceleration process is narrowly confined to 90° pitch angle, in spatially confined regions of up to a few hundred meters across B. The acceleration process does not affect the thermal core of the ambient distribution and does not directly create a measurable effect on the ambient ion population outside the LHSS themselves. This precludes observation with these data of any nonlinear feedback between the ion acceleration and the existence or evolution of the density irregularities on which these LHSS events grow. Within the LHSS region the acceleration process creates a high-energy tail beginning at a few times the thermal ion speed. The ion acceleration events are closely associated with localized wave events. Accelerated ions bursts are also seen without a concurrent observation of a localized wave event, for two possible reasons. In some cases, the pitch angles of the accelerated tail ions are elevated above perpendicular; that is, the acceleration occurred below the observer and the mirror force has begun to act upon the distribution, moving it upward from the source. In other cases, the accelerated ion structure is spatially larger than the wave event structure, and the observation catches only the ion event. The occurrence rate of these ion acceleration events is related to the ambient environment in two ways: its altitude dependence can be modeled with the parameter B2/ne, and it is highest in regions of intense VLF activity. The cumulative ion outflow from these LHSS TAI is

  4. Nanocomposites with embedded structures for lithium-ion batteries

    NASA Astrophysics Data System (ADS)

    Yang, Zichao

    Lithium-ion batteries (LIBs) have been widely employed in portable electronics and are rapidly expanding into emerging markets such as hybrid and electric vehicles and potentially electric grid storage. These new opportunities create new challenges for LIBs and further improvement of specific energy, cycling performance and rate capability are required. A major strategy in performance enhancement for the electrode materials involves the creation of carbon composites to provide mechanical buffering of active material and to improve electrical conductivity. In the current work, a platform is developed for creating functional hybrid materials by copolymerization of organic molecules and inorganic compounds followed by thermal pyrolysis, and the approach yields nanostructured composites in which nanoparticles are uniformly embedded in a porous, partially graphitic carbon matrix. Depending upon the chemistry of the starting materials, nanocomposites with embedded structures created using the approach are attractive as anode or cathode materials for next-generation rechargeable lithium battery systems. The platform is very versatile and through ex situ conversion or utilization of multiple precursors, can be applied to various classes of materials including metal oxides (single or mixed), metals, metal sulfides, alloys, metalloids, phosphates, etc. The approach also lends itself to the development of scalable processes for production of nanostructured battery materials. Mechanistic analysis was performed and reveals that the performance enhancement of the embedded nanocomposite configuration is mainly brought about by the mechanical buffering effect offered by the carbon matrix. The active material loading was shown to be an important factor in the design of the composites as electrode materials. In addition to the polymerization-based approach, other in situ methods such as one based on spray pyrolysis are also explored and demonstrate the versatility of the in situ

  5. Experimental study of adaptive pointing and tracking for large flexible space structures

    NASA Technical Reports Server (NTRS)

    Boussalis, D.; Bayard, D. S.; Ih, C.; Wang, S. J.; Ahmed, A.

    1991-01-01

    This paper describes an experimental study of adaptive pointing and tracking control for flexible spacecraft conducted on a complex ground experiment facility. The algorithm used in this study is based on a multivariable direct model reference adaptive control law. Several experimental validation studies were performed earlier using this algorithm for vibration damping and robust regulation, with excellent results. The current work extends previous studies by addressing the pointing and tracking problem. As is consistent with an adaptive control framework, the plant is assumed to be poorly known to the extent that only system level knowledge of its dynamics is available. Explicit bounds on the steady-state pointing error are derived as functions of the adaptive controller design parameters. It is shown that good tracking performance can be achieved in an experimental setting by adjusting adaptive controller design weightings according to the guidelines indicated by the analytical expressions for the error.

  6. Real-time tracking of neuronal network structure using data assimilation

    NASA Astrophysics Data System (ADS)

    Hamilton, Franz; Berry, Tyrus; Peixoto, Nathalia; Sauer, Timothy

    2013-11-01

    A nonlinear data assimilation technique is applied to determine and track effective connections between ensembles of cultured spinal cord neurons measured with multielectrode arrays. The method is statistical, depending only on confidence intervals, and requiring no form of arbitrary thresholding. In addition, the method updates connection strengths sequentially, enabling real-time tracking of nonstationary networks. The ensemble Kalman filter is used with a generic spiking neuron model to estimate connection strengths as well as other system parameters to deal with model mismatch. The method is validated on noisy synthetic data from Hodgkin-Huxley model neurons before being used to find network connections in the neural culture recordings.

  7. Nonlinear structure of ion-acoustic waves in completely degenerate electron-positron and ion plasma

    SciTech Connect

    Rasheed, A.; Tsintsadze, N. L.; Murtaza, G.

    2010-07-15

    A rigorous theoretical investigation has been made of fully nonlinear ion-acoustic waves in nonrelativistic and ultrarelativistic, collisionless, unmagnetized plasma containing of degenerate electrons and positrons, and classical cold ions. In both (nonrelativistic and ultrarelativistic) regimes the electrons and positrons are assumed to follow the corresponding Fermi distribution while the ions are described by the hydrodynamic equations. An energy balancelike equation involving a Sagdeev-type pseudopotential is derived separately for both the regimes. In addition, stationary periodic and solitary waves are also investigated for the two cases. The present work would be helpful to understand the excitation of nonlinear ion-acoustic waves in a degenerate plasma such as in superdense white dwarfs.

  8. Using support vector machines to improve elemental ion identification in macromolecular crystal structures

    SciTech Connect

    Morshed, Nader; Echols, Nathaniel; Adams, Paul D.

    2015-05-01

    A method to automatically identify possible elemental ions in X-ray crystal structures has been extended to use support vector machine (SVM) classifiers trained on selected structures in the PDB, with significantly improved sensitivity over manually encoded heuristics. In the process of macromolecular model building, crystallographers must examine electron density for isolated atoms and differentiate sites containing structured solvent molecules from those containing elemental ions. This task requires specific knowledge of metal-binding chemistry and scattering properties and is prone to error. A method has previously been described to identify ions based on manually chosen criteria for a number of elements. Here, the use of support vector machines (SVMs) to automatically classify isolated atoms as either solvent or one of various ions is described. Two data sets of protein crystal structures, one containing manually curated structures deposited with anomalous diffraction data and another with automatically filtered, high-resolution structures, were constructed. On the manually curated data set, an SVM classifier was able to distinguish calcium from manganese, zinc, iron and nickel, as well as all five of these ions from water molecules, with a high degree of accuracy. Additionally, SVMs trained on the automatically curated set of high-resolution structures were able to successfully classify most common elemental ions in an independent validation test set. This method is readily extensible to other elemental ions and can also be used in conjunction with previous methods based on a priori expectations of the chemical environment and X-ray scattering.

  9. Dynamics of High Energy Ions at a Structured Collisionless Shock Front

    NASA Astrophysics Data System (ADS)

    Gedalin, M.; Dröge, W.; Kartavykh, Y. Y.

    2016-07-01

    Ions undergoing first-order Fermi acceleration at a shock are scattered in the upstream and downstream regions by magnetic inhomogeneities. For high energy ions this scattering is efficient at spatial scales substantially larger than the gyroradius of the ions. The transition from one diffusive region to the other occurs via crossing the shock, and the ion dynamics during this crossing is mainly affected by the global magnetic field change between the upstream and downstream region. We study the effects of the fine structure of the shock front, such as the foot-ramp-overshoot profile and the phase-standing upstream and downstream magnetic oscillations. We also consider time dependent features, including reformation and large amplitude coherent waves. We show that the influence of the spatial and temporal structure of the shock front on the dependence of the transition and reflection on the pitch angle of the ions is already weak at ion speeds five times the speed of the upstream flow.

  10. Xenon-ion Induced Magnetic and Structural Modifications of Ferromagnetic Alloys

    NASA Astrophysics Data System (ADS)

    Gupta, Ratnesh; Lieb, K. P.; Müller, G. A.; Schaaf, P.; Zhang, K.

    2005-01-01

    Thin polycrystalline films of permalloy (Ni79Fe21) and permendur (Co50Fe50) have been irradiated with Xe-ions to fluences of 1014 1016 ions/cm2. Ion-induced structural and magnetic modifications have been measured by grazing angle X-ray diffraction, Rutherford backscattering and magneto-optical Kerr effect. In the case of permendur, the Xe-ion implantation first reduced the coercivity, because of stress relaxation, while higher ion fluences increased the coercivity due to pinning centers generated in the film. The ion irradiation aligned the in-plane easy axis of the magnetization along the direction of the external magnetic field during implantation. Phase shifts obtained from magnetic force microscopy confirmed these modifications. The effects of Xe-ion irradiation in permalloy films are much weaker and underline the importance of magnetostriction in the variation of the coercivity and anisotropy.

  11. From one to one million: How does community structure track disturbance across time and space?

    NASA Astrophysics Data System (ADS)

    Webb, A. E.

    2012-12-01

    The rate and severity of disturbances to the biosphere have been increasing over the last millennium due in part to anthropogenic effects, and the results of these disturbances are of increasing interest to the scientific and public communities. This project examines the impact of acidification and global warming on communities across a spectrum of temporal and spatial scales in both modern and fossil systems. Twenty datasets were selected from published zoo- and phyto-plankton literature to represent a temporal and spatial gradient, from small lakes to the open ocean, and from one year to one million years. Each dataset is associated with a proxy for an environmental disturbance (isotopes, pH, sedimentology, etc.) and consists of 15-300 samples across the interval of disturbance. To test the biotic changes induced by disturbance, community structure is measured by quantifying species-abundance distributions using rank-abundance curves and ordinations. A community consists of the individuals present in a given location at a given time, and the relative abundance of different species serves as a proxy for resource-partitioning. Disturbances cause a change in resource-partitioning, either by changing resource availability or by removing/adding species which compete for those resources. Therefore, shifts in resource-partitioning resulting from disturbance can be tracked by changes in community composition. Prior to an environmental disturbance, communities typically consist of many species that evenly partition resources and thereby abundance. After a disturbance, communities are dominated by a few species that can tolerate or thrive in the new conditions. Non-metric multi-dimensional scaling and Bray-Curtis polar ordinations reveal a progression from pre-disturbance communities, through the disturbance, and into the eventual recovery, which may or may not resemble the pre-disturbance communities. Larger disturbances (in terms of spatial extent or temporal duration

  12. Acceleration of ions to suprathermal energies by turbulence in the plasmoid-like magnetic structures

    NASA Astrophysics Data System (ADS)

    Grigorenko, E. E.; Malykhin, A. Yu.; Kronberg, E. A.; Malova, Kh. V.; Daly, P. W.

    2015-08-01

    We study energetic spectra of H+, He+, and O+ ion fluxes in the energy range ≥130 keV measured by Cluster/Research with Adaptive Particle Imaging Detectors (RAPID) instruments during 37 intervals of the tailward bulk flow propagation in the near-Earth tail (at X ≤ -19 RE). In all events from our database, the plasmoid-like magnetic structures with the superimposed low-frequency magnetic and electric field fluctuations were observed along with the tailward bulk flows. The plasmoid-like structures were associated with the enhancements of energetic ion fluxes and the hardening of energy spectra of H+ and He+ ion components in 80% of events and of O+ ion component in 64% of events. The hardening of energy spectra was more pronounced for heavy ions than for protons. The analysis of the magnetic structures and power spectral density (PSD) of the magnetic and electric field fluctuations from our database revealed the following factors favorable for the ion energization: (1) the spatial scale of a plasmoid should exceed the thermal gyroradius of a given ion component in the neutral plane inside the plasmoid; (2) the PSD of the magnetic fluctuations near the gyrofrequency of a particular ion component should exceed ~ 50.0 nT2/Hz for oxygen ions; while the energization of helium ions and protons takes place for much lower values of the PSD. The kinetic analysis of ion dynamics in the plasmoid-like magnetic configuration similar to the observed one with the superimposed turbulence confirms the importance of ion resonant interactions with the low-frequency electromagnetic fluctuations for ion energization inside plasmoids.

  13. The structure of ions and zwitterionic lipids regulates the charge of dipolar membranes.

    PubMed

    Szekely, Or; Steiner, Ariel; Szekely, Pablo; Amit, Einav; Asor, Roi; Tamburu, Carmen; Raviv, Uri

    2011-06-21

    In pure water, zwitterionic lipids form lamellar phases with an equilibrium water gap on the order of 2 to 3 nm as a result of the dominating van der Waals attraction between dipolar bilayers. Monovalent ions can swell those neutral lamellae by a small amount. Divalent ions can adsorb onto dipolar membranes and charge them. Using solution X-ray scattering, we studied how the structure of ions and zwitterionic lipids regulates the charge of dipolar membranes. We found that unlike monovalent ions that weakly interact with all of the examined dipolar membranes, divalent and trivalent ions adsorb onto membranes containing lipids with saturated tails, with an association constant on the order of ∼10 M(-1). One double bond in the lipid tail is sufficient to prevent divalent ion adsorption. We suggest that this behavior is due to the relatively loose packing of lipids with unsaturated tails that increases the area per lipid headgroup, enabling their free rotation. Divalent ion adsorption links two lipids and limits their free rotation. The ion-dipole interaction gained by the adsorption of the ions onto unsaturated membranes is insufficient to compensate for the loss of headgroup free-rotational entropy. The ion-dipole interaction is stronger for cations with a higher valence. Nevertheless, polyamines behave as monovalent ions near dipolar interfaces in the sense that they interact weakly with the membrane surface, whereas in the bulk their behavior is similar to that of multivalent cations. Advanced data analysis and comparison with theory provide insight into the structure and interactions between ion-induced regulated charged interfaces. This study models biologically relevant interactions between cell membranes and various ions and the manner in which the lipid structure governs those interactions. The ability to monitor these interactions creates a tool for probing systems that are more complex and forms the basis for controlling the interactions between dipolar

  14. Photonic guiding structures in lithium niobate crystals produced by energetic ion beams

    NASA Astrophysics Data System (ADS)

    Chen, Feng

    2009-10-01

    A range of ion beam techniques have been used to fabricate a variety of photonic guiding structures in the well-known lithium niobate (LiNbO3 or LN) crystals that are of great importance in integrated photonics/optics. This paper reviews the up-to-date research progress of ion-beam-processed LiNbO3 photonic structures and reports on their fabrication, characterization, and applications. Ion beams are being used with this material in a wide range of techniques, as exemplified by the following examples. Ion beam milling/etching can remove the selected surface regions of LiNbO3 crystals via the sputtering effects. Ion implantation and swift ion irradiation can form optical waveguide structures by modifying the surface refractive indices of the LiNbO3 wafers. Crystal ion slicing has been used to obtain bulk-quality LiNbO3 single-crystalline thin films or membranes by exfoliating the implanted layer from the original substrate. Focused ion beams can either generate small structures of micron or submicron dimensions, to realize photonic bandgap crystals in LiNbO3, or directly write surface waveguides or other guiding devices in the crystal. Ion beam-enhanced etching has been extensively applied for micro- or nanostructuring of LiNbO3 surfaces. Methods developed to fabricate a range of photonic guiding structures in LiNbO3 are introduced. Modifications of LiNbO3 through the use of various energetic ion beams, including changes in refractive index and properties related to the photonic guiding structures as well as to the materials (i.e., electro-optic, nonlinear optic, luminescent, and photorefractive features), are overviewed in detail. The application of these LiNbO3 photonic guiding structures in both micro- and nanophotonics are briefly summarized.

  15. Structural transitions in ion coordination driven by changes in competition for ligand binding

    PubMed Central

    Varma, Sameer; Rempe, Susan B.

    2009-01-01

    Transferring Na+ and K+ ions from their preferred coordination states in water to states having different coordination numbers incurs a free energy cost. In several examples in nature, however, these ions readily partition from aqueous-phase coordination states into spatial regions having much higher coordination numbers. Here we utilize statistical theory of solutions, quantum chemical simulations, classical mechanics simulations and structural informatics to understand this aspect of ion partitioning. Our studies lead to the identification of a specific role of the solvation environment in driving transitions in ion coordination structures. Although ion solvation in liquid media is an exergonic reaction overall, we find it is also associated with considerable free energy penalties for extracting ligands from their solvation environments to form coordinated ion complexes. Reducing these penalties increases the stabilities of higher-order coordinations and brings down the energetic cost to partition ions from water into over-coordinated binding sites in biomolecules. These penalties can be lowered via a reduction in direct favorable interactions of the coordinating ligands with all atoms other than the ions themselves. A significant reduction in these penalties can, in fact, also drive up ion coordination preferences. Similarly, an increase in these penalties can lower ion coordination preferences, akin to a Hofmeister effect. Since such structural transitions are effected by the properties of the solvation phase, we anticipate that they will also occur for other ions. The influence of other factors, including ligand density, ligand chemistry and temperature, on the stabilities of ion coordination structures are also explored. PMID:18954053

  16. Dissociative recombination of interstellar ions: electronic structure calculations for HCO/sup +/

    SciTech Connect

    Kraemer, W.P.; Hazi, A.U.

    1985-07-02

    The present study of the interstellar formyl ion HCO/sup +/ is the first attempt to investigate dissociative recombination for a triatomic molecular ion using an entirely theoretical approach. We describe a number of fairly extensive electronic structure calculations that were performed to determine the reaction mechanism of the e-HCO/sup +/ process. Similar calculations for the isoelectronic ions HOC/sup +/ and HN/sub 2//sup +/ are in progress. 60 refs.

  17. Linguistic Complexity and Information Structure in Korean: Evidence from Eye-Tracking during Reading

    ERIC Educational Resources Information Center

    Lee, Yoonhyoung; Lee, Hanjung; Gordon, Peter C.

    2007-01-01

    The nature of the memory processes that support language comprehension and the manner in which information packaging influences online sentence processing were investigated in three experiments that used eye-tracking during reading to measure the ease of understanding complex sentences in Korean. All three experiments examined reading of embedded…

  18. Surface ion trap structures with excellent optical access for quantum information processing

    NASA Astrophysics Data System (ADS)

    Maunz, P.; Blain, M.; Benito, F.; Chou, C.; Clark, C.; Descour, M.; Ellis, R.; Haltli, R.; Heller, E.; Kemme, S.; Sterk, J.; Tabakov, B.; Tigges, C.; Stick, D.

    2013-05-01

    Microfabricated surface electrode ion traps are necessary for the advancement of trapped ion quantum information processing as it offers a scalable way for realizing complex trap structures capable of storing and controlling many ions. The most promising way of performing two-qubit quantum gates in a chain of trapped ions is to focus laser beams on individual ions of the chain to drive gates. However, in surface ion traps the close proximity of the ions to the surface and the size of the chips usually cannot accommodate the tightly focused laser beams necessary to address individual ions parallel to the chip surface. Here we present a surface electrode ion trap monolithically fabricated in standard silicon technology that implements a linear quadrupole trap on a bowtie shaped chip with a narrow section that is only 1.2 mm wide. Laser beams parallel to the surface can be focused down to a waist of 4 μm with enough separation from the trap chip to prevent light scattering. The trap structure incorporates two Y-junctions for reordering ions and is optimized for quantum information processing. This work was supported by the Intelligence Advanced Research Projects Activity (IARPA). Sandia National Laboratories is a multi-program laboratory managed and operated by Sandia Corporation, a wholly owned subsidiary of Lockheed Martin Corporation, for the US Department of Energy's National Nuclear Security Administration under contract DE-AC04-94AL85000.

  19. "Trunk-like" heavy ion structures observed by the Van Allen Probes

    NASA Astrophysics Data System (ADS)

    Zhang, J.-C.; Kistler, L. M.; Spence, H. E.; Wolf, R. A.; Reeves, G.; Skoug, R.; Funsten, H.; Larsen, B. A.; Niehof, J. T.; MacDonald, E. A.; Friedel, R.; Ferradas, C. P.; Luo, H.

    2015-10-01

    Dynamic ion spectral features in the inner magnetosphere are the observational signatures of ion acceleration, transport, and loss in the global magnetosphere. We report "trunk-like" ion structures observed by the Van Allen Probes on 2 November 2012. This new type of ion structure looks like an elephant's trunk on an energy-time spectrogram, with the energy of the peak flux decreasing Earthward. The trunks are present in He+ and O+ ions but not in H+. During the event, ion energies in the He+ trunk, located at L = 3.6-2.6, magnetic local time (MLT) = 9.1-10.5, and magnetic latitude (MLAT) = -2.4-0.09°, vary monotonically from 3.5 to 0.04 keV. The values at the two end points of the O+ trunk are energy = 4.5-0.7 keV, L = 3.6-2.5, MLT = 9.1-10.7, and MLAT = -2.4-0.4°. Results from backward ion drift path tracings indicate that the trunks are likely due to (1) a gap in the nightside ion source or (2) greatly enhanced impulsive electric fields associated with elevated geomagnetic activity. Different ion loss lifetimes cause the trunks to differ among ion species.

  20. COMPARISON OF SOLAR SURFACE FLOWS INFERRED FROM TIME-DISTANCE HELIOSEISMOLOGY AND COHERENT STRUCTURE TRACKING USING HMI/SDO OBSERVATIONS

    SciTech Connect

    Svanda, Michal; Roudier, Thierry; Rieutord, Michel; Burston, Raymond; Gizon, Laurent

    2013-07-01

    We compare measurements of horizontal flows on the surface of the Sun using helioseismic time-distance inversions and coherent structure tracking of solar granules. Tracking provides two-dimensional horizontal flows on the solar surface, whereas the time-distance inversions estimate the full three-dimensional velocity flows in the shallow near-surface layers. Both techniques use Helioseismic and Magnetic Imager observations as input. We find good correlations between the various measurements resulting from the two techniques. Further, we find a good agreement between these measurements and the time-averaged Doppler line-of-sight velocity, and also perform sanity checks on the vertical flow that resulted from the three-dimensional time-distance inversion.

  1. Structural Metals in the Group I Intron: A Ribozyme with a Multiple Metal Ion Core

    SciTech Connect

    Stahley,M.; Adams, P.; Wang, J.; Strobel, S.

    2007-01-01

    Metal ions play key roles in the folding and function for many structured RNAs, including group I introns. We determined the X-ray crystal structure of the Azoarcus bacterial group I intron in complex with its 5' and 3' exons. In addition to 222 nucleotides of RNA, the model includes 18 Mg2+ and K+ ions. Five of the metals bind within 12 Angstroms of the scissile phosphate and coordinate the majority of the oxygen atoms biochemically implicated in conserved metal-RNA interactions. The metals are buried deep within the structure and form a multiple metal ion core that is critical to group I intron structure and function. Eight metal ions bind in other conserved regions of the intron structure, and the remaining five interact with peripheral structural elements. Each of the 18 metals mediates tertiary interactions, facilitates local bends in the sugar-phosphate backbone or binds in the major groove of helices. The group I intron has a rich history of biochemical efforts aimed to identify RNA-metal ion interactions. The structural data are correlated to the biochemical results to further understand the role of metal ions in group I intron structure and function.

  2. Conduction Mechanisms and Structure of Ionomeric Single-Ion Conductors

    SciTech Connect

    Colby, Ralph H.; Maranas, Janna K; Mueller, Karl T; Runt, James; Winey, Karen I

    2015-03-05

    Our team has designed using DFT (Gaussian) and synthesized low glass transition temperature single-ion conductors that are either polyanions that conduct small cations Li, Na, Cs or polycations that conduct small anions F, OH, Br. We utilize a wide range of complimentary experimental materials charactization tools to understand ion transport; differential scanning calorimetry, dielectric relaxation spectroscopy, infrared spectroscopy, nuclear magnetic resonance spectroscopy, linear viscoelasticity, X-ray scattering and molecular dynamics simulations. The glass transition temperature Tg needs to be as low as possible to facilitate ion transport, so the nonionic parts of the polymer need to be polar, flexible and have strong solvation interactions with the ions. The lowest Tg we have managed for polyanions conducting Li is -60 C. In contrast, polysiloxanes with PEO side chains and tetrabutylphosphonium cationic side groups have Tg ~ -75C that barely increases with ion content, as anticipated by DFT. A survey of all polyanions in the literature suggests that Tg < -80C is needed to achieve the 10-4 S/cm conductivity needed for battery separators.

  3. Carbohydrate Structure Characterization by Tandem Ion Mobility Mass Spectrometry (IMMS)2

    PubMed Central

    Li, Hongli; Bendiak, Brad; Siems, William F.; Gang, David R.; Hill, Herbert H.

    2013-01-01

    A high resolution ion mobility spectrometer was interfaced to a Synapt G2 high definition mass spectrometer (HDMS) to produce IMMS-IMMS analysis. The hybrid instrument contained an electro-spray ionization source, two ion gates, an ambient pressure linear ion mobility drift tube, a quadrupole mass filter, a traveling wave ion mobility spectrometer (TWIMS) and a time of flight mass spectrometer. The dual gate drift tube ion mobility spectrometer (DTIMS) could be used to acquire traditional IMS spectra, but also could selectively transfer specific mobility selected precursor ions to the Synapt G2 HDMS for mass filtration (quadrupole). The mobility and mass selected ions could then be introduced into a collision cell for fragmentation followed by mobility separation of the fragment ions with the traveling wave ion mobility spectrometer. These mobility separated fragment ions are finally mass analyzed using a time-of-flight mass spectrometer. This results in an IMMS-IMMS analysis and provides a method to evaluate the isomeric heterogeneity of precursor ions by both DTIMS and TWIMS, to acquire a mobility-selected and mass-filtered fragmentation pattern and to additionally obtain traveling wave ion mobility spectra of the corresponding product ions. This new IMMS2 instrument enables the structural diversity of carbohydrates to be studied in greater detail. The physical separation of isomeric oligosaccharide mixtures was achieved by both DTIMS and TWIMS, with DTIMS demonstrating higher resolving power (70~80) than TWIMS (30~40). Mobility selected MS/MS spectra were obtained, and TWIMS evaluation of product ions showed that isomeric forms of fragment ions existed for identical m/z values. PMID:23330948

  4. Carbohydrate structure characterization by tandem ion mobility mass spectrometry (IMMS)2.

    PubMed

    Li, Hongli; Bendiak, Brad; Siems, William F; Gang, David R; Hill, Herbert H

    2013-03-01

    A high resolution ion mobility spectrometer was interfaced to a Synapt G2 high definition mass spectrometer (HDMS) to produce IMMS-IMMS analysis. The hybrid instrument contained an electrospray ionization source, two ion gates, an ambient pressure linear ion mobility drift tube, a quadrupole mass filter, a traveling wave ion mobility spectrometer (TWIMS), and a time-of-flight mass spectrometer. The dual gate drift tube ion mobility spectrometer (DTIMS) could be used to acquire traditional IMS spectra but also could selectively transfer specific mobility selected precursor ions to the Synapt G2 HDMS for mass filtration (quadrupole). The mobility and mass selected ions could then be introduced into a collision cell for fragmentation followed by mobility separation of the fragment ions with the traveling wave ion mobility spectrometer. These mobility separated fragment ions are finally mass analyzed using a time-of-flight mass spectrometer. This results in an IMMS-IMMS analysis and provides a method to evaluate the isomeric heterogeneity of precursor ions by both DTIMS and TWIMS to acquire a mobility-selected and mass-filtered fragmentation pattern and to additionally obtain traveling wave ion mobility spectra of the corresponding product ions. This new IMMS(2) instrument enables the structural diversity of carbohydrates to be studied in greater detail. The physical separation of isomeric oligosaccharide mixtures was achieved by both DTIMS and TWIMS, with DTIMS demonstrating higher resolving power (70-80) than TWIMS (30-40). Mobility selected MS/MS spectra were obtained, and TWIMS evaluation of product ions showed that isomeric forms of fragment ions existed for identical m/z values. PMID:23330948

  5. Stability and structure of cluster ions: Halide ions with CO2

    NASA Astrophysics Data System (ADS)

    Hiraoka, Kenzo; Mizuse, Susumu; Yamabe, Shinichi

    1987-09-01

    Thermodynamic data, ΔH0n-1,n and ΔS0n-1,n, for clustering reactions of halide ions with CO2 were measured with a pulsed electron-beam high-pressure mass spectrometer. The large value of -ΔH00,1 (32.3 kcal/mol) and a sudden decrease of -ΔH01,2 (7.3 kcal/mol) for reaction F-(CO2)n-1+CO2=F-(CO2)n indicate the formation of the core ion, not F-ṡCO2, but FCO-2, i.e., FCO-2 is the fluoroformate ion. The measured binding energies -ΔH0n-1,n for the clusters F-(CO2)n were reproduced satisfactorily by the ab initio MO calculations. The FCO-2 ion is attacked successively and electrostatically by five CO2 molecules to form the first solvation shell. The two oxygen atoms in the core ion FCO-2 are able to accept four CO2 molecules as ligands. The bonding of CI-, Br-, and I- to CO2 is found to be mainly electrostatic.

  6. Structure and Dynamics of NaCl Ion Pairing in Solutions of Water and Methanol.

    PubMed

    Kelley, Morgan; Donley, Amber; Clark, Sue; Clark, Aurora

    2015-12-24

    Ion pairing can have profound effects upon the ionic strength of electrolyte solutions but is poorly understood in solutions containing more than one solvent. Herein a combined density functional theory and molecular dynamics approach is used to examine the effect of both methanol concentration and interionic distance upon the structure and dynamics within successive solvation shells of Na(+) and Cl(-) in water/methanol binary solutions. The structure and dynamics of the first and second solvation shells were studied along a reaction coordinate associated with ion pair formation using potential of mean force simulations. The lifetimes of the solvent-solvent hydrogen bonds become perturbed when the second solvation shells of the ions begin to interact. In contrast, the structural properties within the first and second solvation shells of the ions were found to be largely independent of both methanol concentration and interionic distance until a contact ion pair is formed. Thus, as the ions are brought together, the effect of the opposing ion manifests itself in the solvation dynamics before any structural changes are observed. As anticipated based upon the decreased dielectric constant of the binary solution, ion pair formation becomes energetically more favorable as the concentration of methanol increases. PMID:26641882

  7. Ion streaming instabilities with application to collisionless shock wave structure

    NASA Technical Reports Server (NTRS)

    Golden, K. I.; Linson, L. M.; Mani, S. A.

    1973-01-01

    The electromagnetic dispersion relation for two counterstreaming ion beams of arbitrary relative strength flowing parallel to a dc magnetic field is derived. The beams flow through a stationary electron background and the dispersion relation in the fluid approximation is unaffected by the electron thermal pressure. The dispersion relation is solved with a zero net current condition applied and the regions of instability in the k-U space (U is the relative velocity between the two ion beams) are presented. The parameters are then chosen to be applicable for parallel shocks. It was found that unstable waves with zero group velocity in the shock frame can exist near the leading edge of the shock for upstream Alfven Mach numbers greater than 5.5. It is suggested that this mechanism could generate sufficient turbulence within the shock layer to scatter the incoming ions and create the required dissipation for intermediate strength shocks.

  8. Structural phase transitions and topological defects in ion Coulomb crystals

    SciTech Connect

    Partner, Heather L.; Nigmatullin, Ramil; Burgermeister, Tobias; Keller, Jonas; Pyka, Karsten; Plenio, Martin B.; Retzker, Alex; Zurek, Wojciech Hubert; del Campo, Adolfo; Mehlstaubler, Tanja E.

    2014-11-19

    We use laser-cooled ion Coulomb crystals in the well-controlled environment of a harmonic radiofrequency ion trap to investigate phase transitions and defect formation. Topological defects in ion Coulomb crystals (kinks) have been recently proposed for studies of nonlinear physics with solitons and as carriers of quantum information. Defects form when a symmetry breaking phase transition is crossed non-adiabatically. For a second order phase transition, the Kibble-Zurek mechanism predicts that the formation of these defects follows a power law scaling in the rate of the transition. We demonstrate a scaling of defect density and describe kink dynamics and stability. We further discuss the implementation of mass defects and electric fields as first steps toward controlled kink preparation and manipulation.

  9. Nanoscale surface structuring during ion bombardment of elemental semiconductors

    NASA Astrophysics Data System (ADS)

    Anzenberg, Eitan

    2013-01-01

    Nano-patterning of surfaces with uniform ion bombardment yields a rich phase-space of topographic patterns. Particle irradiation can cause surface ultra-smoothing or self-organized nanoscale pattern formation in surface topography. Topographic pattern formation has previously been attributed to the effects of the removal of target atoms by sputter erosion. In this thesis, the surface morphology evolution of Si(100) and Ge(100) during low energy ion bombardment of Ar+ and Kr+ ions, respectively, is studied. Our facilities for studies of surface processes at the National Synchrotron Light Source (NSLS) allow in-situ characterization of surface morphology evolution during ion bombardment using grazing incidence small angle x-ray scattering (GISAXS). This technique is used to measure in reciprocal space the kinetics of formation or decay of correlated nanostructures on the surface, effectively measuring the height-height correlations. A linear model is used to characterize the early time kinetic behavior during ion bombardment as a function of ion beam incidence angle. The curvature coefficients predicted by the widely used erosive model of Bradley and Harper are quantitatively negligible and of the wrong sign when compared to the observed effect in both Si and Ge. A mass-redistribution model explains the observed ultra-smoothing at low angles, exhibits an instability at higher angles, and predicts the observed 45° critical angle separating these two regimes in Si. The Ge surface evolution during Kr+ irradiation is qualitatively similar to that observed for Ar+ irradiation of Si at the same ion energy. However, the critical angle for Ge cannot be quantitatively reproduced by the simple mass redistribution model. Crater function theory, as developed by Norris et al., incorporates both mass redistributive and erosive effects, and predicts constraining relationships between curvature coefficients. These constraints are compared to experimental data of both Si and Ge

  10. Large ions: Their vaporization, detection and structural analysis

    SciTech Connect

    Baer, T.; Ng, C.Y.; Powis, I.

    1997-12-31

    This book focuses on some of the fundamental chemistry and physics associated with the behavior of large ions, with the contributors addressing the issues in a quantitative fashion, in order to elucidate clearly some of the key recent advances which have taken place. As such, Large Ions provides an excellent snapshot of current research in this fascinating and important area. The six chapters are written by some of the leading experts in the field, and together they will be of great interest to experts and newcomers, both of whom will benefit from the in-depth discussion of the latest methods and results.

  11. FAST TRACK COMMUNICATION: The electrical asymmetry effect in capacitively coupled radio frequency discharges - measurements of dc self bias, ion energy and ion flux

    NASA Astrophysics Data System (ADS)

    Schulze, J.; Schüngel, E.; Czarnetzki, U.

    2009-05-01

    The recently theoretically predicted electrical asymmetry effect (EAE) (Heil et al 2008 IEEE Trans. Plasma Sci. 36 1404, Heil et al 2008 J. Phys. D: Appl. Phys. 41 165202, Czarnetzki et al 2009 J. Phys.: Conf. Ser. at press) in capacitively coupled radio frequency (CCRF) discharges and the related separate control of ion energy and flux via the EAE (Czarnetzki et al 2009 J. Phys.: Conf. Ser. at press, Donkó et al 2008 J. Phys. D: Appl. Phys. 42 025205) are tested experimentally for the first time. A geometrically symmetric CCRF discharge (equal electrode surface areas) operated at 13.56 and 27.12 MHz with variable phase angle between the harmonics is operated in argon at different pressures. The dc self bias, the energy as well as the flux of ions at the grounded electrode, and the space and phase resolved optical emission are measured. The results verify the predictions of models and simulations: via the EAE a dc self bias is generated as an almost linear function of the phase. This variable dc self bias allows separate control of ion energy and flux in an almost ideal way under various discharge conditions.

  12. Fine structures and ion images on fresh frozen dried ultrathin sections by transmission electron and scanning ion microscopy

    NASA Astrophysics Data System (ADS)

    Takaya, K.; Okabe, M.; Sawataishi, M.; Takashima, H.; Yoshida, T.

    2003-01-01

    Ion microscopy (IM) of air-dried or freeze-dried cryostat and semi-thin cryosections has provided ion images of elements and organic substances in wide areas of the tissue. For reproducible ion images by a shorter time of exposure to the primary ion beam, fresh frozen dried ultrathin sections were prepared by freezing the tissue in propane chilled with liquid nitrogen, cryocut at 60 nm, mounted on grids and silicon wafer pieces, and freeze-dried. Rat Cowper gland and sciatic nerve, bone marrow of the rat administered of lithium carbonate, tree frog and African toad spleen and buffy coat of atopic dermatitis patients were examined. Fine structures and ion images of the corresponding areas in the same or neighboring sections were observed by transmission electron microscopy (TEM) followed by sector type and time-of-flight type IM. Cells in the buffy coat contained larger amounts of potassium and magnesium while plasma had larger amounts of sodium and calcium. However, in the tissues, lithium, sodium, magnesium, calcium and potassium were distributed in the cell and calcium showed a granular appearance. A granular cell of the tree frog spleen contained sodium and potassium over the cell and magnesium and calcium were confined to granules.

  13. Structure and simulation of a Zundel ion stabilized by 8-hydroxyquinoline-5, 7 disulphonic acid

    NASA Astrophysics Data System (ADS)

    Venkatakrishnan, Hasthi Annapurna; Venkatakrishnan, Ramaseshan; Pennathur, Anuj Krishnasundar; Pennathur, Gautam

    2016-07-01

    8-hydroxyquinoline-5, 7 disulphonic was synthesized and recrystallized in methanol to strip away molecules of water. The structure of the molecule revealed that Zundel ion was stabilized in the crystal. Ab-initio molecular dynamics simulation was then carried out to understand the dynamics of proton hopping in this complex. During the course of simulation, the Zundel ion coordinates with a water molecule to form an open H7O3+ structure. This transition state structure de-solvated rapidly forming Zundel ion facilitating proton hopping in the first solvation shell. One of the sulphonic acid groups in the 5 or 7 position of the 8-hydroxyquinoline 5,7 disulphonic acid bonds with the Zundel ion favoring the proton to be transferred to the nearby water molecule through the formation of proton defects. The simulation results support the structural diffusion mechanism and that charged complex migrates through the hydrogen bond network.

  14. Structural Mechanism for Light-driven Transport by a New Type of Chloride Ion Pump, Nonlabens marinus Rhodopsin-3.

    PubMed

    Hosaka, Toshiaki; Yoshizawa, Susumu; Nakajima, Yu; Ohsawa, Noboru; Hato, Masakatsu; DeLong, Edward F; Kogure, Kazuhiro; Yokoyama, Shigeyuki; Kimura-Someya, Tomomi; Iwasaki, Wataru; Shirouzu, Mikako

    2016-08-19

    The light-driven inward chloride ion-pumping rhodopsin Nonlabens marinus rhodopsin-3 (NM-R3), from a marine flavobacterium, belongs to a phylogenetic lineage distinct from the halorhodopsins known as archaeal inward chloride ion-pumping rhodopsins. NM-R3 and halorhodopsin have distinct motif sequences that are important for chloride ion binding and transport. In this study, we present the crystal structure of a new type of light-driven chloride ion pump, NM-R3, at 1.58 Å resolution. The structure revealed the chloride ion translocation pathway and showed that a single chloride ion resides near the Schiff base. The overall structure, chloride ion-binding site, and translocation pathway of NM-R3 are different from those of halorhodopsin. Unexpectedly, this NM-R3 structure is similar to the crystal structure of the light-driven outward sodium ion pump, Krokinobacter eikastus rhodopsin 2. Structural and mutational analyses of NM-R3 revealed that most of the important amino acid residues for chloride ion pumping exist in the ion influx region, located on the extracellular side of NM-R3. In contrast, on the opposite side, the cytoplasmic regions of K. eikastus rhodopsin 2 were reportedly important for sodium ion pumping. These results provide new insight into ion selection mechanisms in ion pumping rhodopsins, in which the ion influx regions of both the inward and outward pumps are important for their ion selectivities. PMID:27365396

  15. Analysis Of The Structure Of Ion Micro-Beams Emitted From RPI- And PF-Type Facilities

    SciTech Connect

    Malinowski, K.; Skladnik-Sadowska, E.; Czaus, K.; Sadowski, M. J.; Scholz, M.; Schmidt, H.

    2006-01-15

    The paper concerns measurements and quantitative analysis of micro-beams of fast ions produced by high-current pulse plasma discharges, which are investigated within different experimental facilities of the Rod Plasma Injector (RPI) and Plasma-Focus (PF) type. The reported ion measurements were performed mainly within the RPI-IBIS device at the IPJ in Swierk and within the large PF-1000 facility at the IPPLM in Warsaw. The pulsed ion streams were recorded by means of ion-pinhole cameras equipped with solid-state nuclear track detectors (SSNTD). Before their irradiation those detectors were calibrated, i.e. their responses to different ion species of various energies were determined. For this purpose there were used mono-energetic ion beams (obtained from particle accelerators) or ion tracks measured along the ion parabolas recorded by means of a Thomson-type spectrometer. During the described ion measurements the ion-pinhole cameras were placed at different angles to the symmetry axes of the investigated experimental facilities.

  16. Track structure model for damage to mammalian cell cultures during solar proton events

    NASA Technical Reports Server (NTRS)

    Cucinotta, F. A.; Wilson, J. W.; Townsend, L. W.; Shinn, J. L.; Katz, R.

    1992-01-01

    Solar proton events (SPEs) occur infrequently and unpredictably, thus representing a potential hazard to interplanetary space missions. Biological damage from SPEs will be produced principally through secondary electron production in tissue, including important contributions due to delta rays from nuclear reaction products. We review methods for estimating the biological effectiveness of SPEs using a high energy proton model and the parametric cellular track model. Results of the model are presented for several of the historically largest flares using typical levels and body shielding.

  17. Probing the nuclear structure with heavy-ion reactions

    SciTech Connect

    Broglia, R.A.

    1982-01-01

    Nuclei display distortions in both ordinary space and in gauge space. It is suggested that it is possible to learn about the spatial distribution of the Nilsson orbitals and about the change of the pairing gap with the rotational frequency through the analysis of one- and two-nucleon transfer reactions induced in heavy-ion collisions.

  18. Seeing the song: left auditory structures may track auditory-visual dynamic alignment.

    PubMed

    Mossbridge, Julia A; Grabowecky, Marcia; Suzuki, Satoru

    2013-01-01

    Auditory and visual signals generated by a single source tend to be temporally correlated, such as the synchronous sounds of footsteps and the limb movements of a walker. Continuous tracking and comparison of the dynamics of auditory-visual streams is thus useful for the perceptual binding of information arising from a common source. Although language-related mechanisms have been implicated in the tracking of speech-related auditory-visual signals (e.g., speech sounds and lip movements), it is not well known what sensory mechanisms generally track ongoing auditory-visual synchrony for non-speech signals in a complex auditory-visual environment. To begin to address this question, we used music and visual displays that varied in the dynamics of multiple features (e.g., auditory loudness and pitch; visual luminance, color, size, motion, and organization) across multiple time scales. Auditory activity (monitored using auditory steady-state responses, ASSR) was selectively reduced in the left hemisphere when the music and dynamic visual displays were temporally misaligned. Importantly, ASSR was not affected when attentional engagement with the music was reduced, or when visual displays presented dynamics clearly dissimilar to the music. These results appear to suggest that left-lateralized auditory mechanisms are sensitive to auditory-visual temporal alignment, but perhaps only when the dynamics of auditory and visual streams are similar. These mechanisms may contribute to correct auditory-visual binding in a busy sensory environment. PMID:24194873

  19. Seeing the Song: Left Auditory Structures May Track Auditory-Visual Dynamic Alignment

    PubMed Central

    Mossbridge, Julia A.; Grabowecky, Marcia; Suzuki, Satoru

    2013-01-01

    Auditory and visual signals generated by a single source tend to be temporally correlated, such as the synchronous sounds of footsteps and the limb movements of a walker. Continuous tracking and comparison of the dynamics of auditory-visual streams is thus useful for the perceptual binding of information arising from a common source. Although language-related mechanisms have been implicated in the tracking of speech-related auditory-visual signals (e.g., speech sounds and lip movements), it is not well known what sensory mechanisms generally track ongoing auditory-visual synchrony for non-speech signals in a complex auditory-visual environment. To begin to address this question, we used music and visual displays that varied in the dynamics of multiple features (e.g., auditory loudness and pitch; visual luminance, color, size, motion, and organization) across multiple time scales. Auditory activity (monitored using auditory steady-state responses, ASSR) was selectively reduced in the left hemisphere when the music and dynamic visual displays were temporally misaligned. Importantly, ASSR was not affected when attentional engagement with the music was reduced, or when visual displays presented dynamics clearly dissimilar to the music. These results appear to suggest that left-lateralized auditory mechanisms are sensitive to auditory-visual temporal alignment, but perhaps only when the dynamics of auditory and visual streams are similar. These mechanisms may contribute to correct auditory-visual binding in a busy sensory environment. PMID:24194873

  20. 'Trunk-like' ion structures observed by the Van Allen Probes

    NASA Astrophysics Data System (ADS)

    Zhang, J.; Kistler, L. M.; Spence, H.; Wolf, R.; Reeves, G. D.; Skoug, R. M.; Funsten, H. O.; Larsen, B.; Niehof, J. T.; MacDonald, E.; Friedel, R. H.

    2013-12-01

    Dynamic ion spectral features in the inner magnetosphere are the observational signatures of ion acceleration, transport, and loss in the global magnetosphere. In this study, we report 'trunk-like' ion structures observed in situ by the Van Allen Probes on 2 November 2012. The trunk structures are present in heavy ions but not in H+. For the particular event, ion energies in the He+ trunks, located at L = 3.7-2.6, MLT = 8.8-10.3, and MLAT = -2.0-0.03°, vary monotonically from 3.5 to 0.04 keV. It is suggested that the trunk phenomenon is due to a combination of 1) deeper ion injections from storm activity, 2) the longer charge exchange lifetimes of heavy ions than H+, 3) the separation of a narrow layer of ions around the Alfvén layer from other convecting ions, and 4) the trajectory of the Van Allen Probes (i.e., an orbital effect). Both observation analysis and numerical modeling are utilized in the study.

  1. Evolution of structural and magnetic properties of Co-doped TiO2 thin films irradiated with 100 MeV Ag7+ ions

    NASA Astrophysics Data System (ADS)

    Mohanty, P.; Singh, V. P.; Mishra, N. C.; Ojha, S.; Kanjilal, D.; Rath, Chandana

    2014-08-01

    In continuation to our earlier studies where we have shown room temperature ferromagnetism observed in TiO2 and Co-doped TiO2 (CTO) thin films independent of their phase (Mohanty et al 2012 J. Phys. D: Appl. Phys. 45 325301), here the modifications in structure and magnetic properties in CTO thin films using 100 MeV Ag7+ ion irradiation are reported. Owing to the important role of defects in tailoring the magnetic properties of the material, we vary the ion fluence from 5 × 1011 to 1 × 1012 ions cm-2 to create post-deposition defects. While the film deposited under 0.1 mTorr oxygen partial pressure retains its crystallinity showing radiation-resistant behaviour even at a fluence of 1 × 1012 ions cm-2, films deposited under 1 to 300 mTorr oxygen partial pressure becomes almost amorphous at the same fluence. Using Poisson's law, the diameter of the amorphized region surrounding the ion path is calculated to be ˜4.2 nm from the x-ray diffraction peak intensity ((1 1 0) for rutile phase) as a function of ion fluence. The saturation magnetization (Ms) decreases exponentially similar to the decrease in x-ray peak intensity with fluence, indicating magnetic disordered region surrounding the ion path. The diameter of the magnetic disordered region is found to be ˜6.6 nm which is larger than the diameter of the amorphized latent track. Therefore, it is confirmed that swift heavy ion irradiation induces a more significant magnetic disorder than the structural disorder.

  2. Critical issues in the formation of quantum computer test structures by ion implantation

    SciTech Connect

    Schenkel, T.; Lo, C. C.; Weis, C. D.; Schuh, A.; Persaud, A.; Bokor, J.

    2009-04-06

    The formation of quantum computer test structures in silicon by ion implantation enables the characterization of spin readout mechanisms with ensembles of dopant atoms and the development of single atom devices. We briefly review recent results in the characterization of spin dependent transport and single ion doping and then discuss the diffusion and segregation behaviour of phosphorus, antimony and bismuth ions from low fluence, low energy implantations as characterized through depth profiling by secondary ion mass spectrometry (SIMS). Both phosphorus and bismuth are found to segregate to the SiO2/Si interface during activation anneals, while antimony diffusion is found to be minimal. An effect of the ion charge state on the range of antimony ions, 121Sb25+, in SiO2/Si is also discussed.

  3. Advances in ion trap mass spectrometry: Photodissociation as a tool for structural elucidation

    SciTech Connect

    Stephenson, J.L. Jr.; Booth, M.M.; Eyler, J.R.; Yost, R.A.

    1995-12-01

    Photo-induced dissociation (PID) is the next most frequently used method (after collisional activation) for activation of Polyatomic ions in tandem mass spectrometry. The range of internal energies present after the photon absorption process are much narrower than those obtained with collisional energy transfer. Therefore, the usefulness of PID for the study of ion structures is greatly enhanced. The long storage times and instrumental configuration of the ion trap mass spectrometer are ideally suited for photodissociation experiments. This presentation will focus on both the fundamental and analytical applications of CO{sub 2} lasers in conjunction with ion trap mass spectrometry. The first portion of this talk will examine the fundamental issues of wavelength dependence, chemical kinetics, photoabsorption cross section, and collisional effects on photodissociation efficiency. The second half of this presentation will look at novel instrumentation for electrospray/ion trap mass spectrometry, with the concurrent development of photodissociation as a tool for structural elucidation of organic compounds and antibiotics.

  4. Coupled ion Binding and Structural Transitions Along the Transport Cycle of Glutamate Transporters

    SciTech Connect

    Verdon, Gregory; Oh, SeCheol; Serio, Ryan N.; Boudker, Olga

    2014-05-19

    Membrane transporters that clear the neurotransmitter glutamate from synapses are driven by symport of sodium ions and counter-transport of a potassium ion. Previous crystal structures of a homologous archaeal sodium and aspartate symporter showed that a dedicated transport domain carries the substrate and ions across the membrane. We report new crystal structures of this homologue in ligand-free and ions-only bound outward- and inward-facing conformations. We then show that after ligand release, the apo transport domain adopts a compact and occluded conformation that can traverse the membrane, completing the transport cycle. Sodium binding primes the transport domain to accept its substrate and triggers extracellular gate opening, which prevents inward domain translocation until substrate binding takes place. Moreover, we describe a new cation-binding site ideally suited to bind a counter-transported ion. We suggest that potassium binding at this site stabilizes the translocation-competent conformation of the unloaded transport domain in mammalian homologues.

  5. Structure of ion acoustic solitons and shock waves in a two-component plasma.

    NASA Technical Reports Server (NTRS)

    White, R. B.; Fried, B. D.; Coroniti, F. V.

    1972-01-01

    Time-independent solitary waves and shocks are investigated in a two-component plasma using a fluid model and kinetic theory. It is found that very small concentrations of a light ion can drastically alter the structure, changing the potential maximum by an order of magnitude. For a fixed Mach number, a critical density ratio of light to heavy ions is found at which the potential maximum changes discontinuously from a value large enough to reflect the light ions to one which allows them to traverse the shock front and enter the downstream flow. The downstream oscillatory structure normally seen in a shock is completely quenched by dissipation due to light ion reflection at concentrations of 3-8% He in an Ar plasma for typical electron to ion temperature ratios and Mach number values.

  6. Global structural changes of an ion channel during its gating are followed by ion mobility mass spectrometry

    PubMed Central

    Konijnenberg, Albert; Yilmaz, Duygu; Ingólfsson, Helgi I.; Dimitrova, Anna; Marrink, Siewert J.; Li, Zhuolun; Vénien-Bryan, Catherine; Sobott, Frank; Koçer, Armağan

    2014-01-01

    Mechanosensitive ion channels are sensors probing membrane tension in all species; despite their importance and vital role in many cell functions, their gating mechanism remains to be elucidated. Here, we determined the conditions for releasing intact mechanosensitive channel of large conductance (MscL) proteins from their detergents in the gas phase using native ion mobility–mass spectrometry (IM-MS). By using IM-MS, we could detect the native mass of MscL from Escherichia coli, determine various global structural changes during its gating by measuring the rotationally averaged collision cross-sections, and show that it can function in the absence of a lipid bilayer. We could detect global conformational changes during MscL gating as small as 3%. Our findings will allow studying native structure of many other membrane proteins. PMID:25404294

  7. Shallow nitrogen ion implantation: Evolution of chemical state and defect structure in titanium

    NASA Astrophysics Data System (ADS)

    Manojkumar, P. A.; Chirayath, V. A.; Balamurugan, A. K.; Krishna, Nanda Gopala; Ilango, S.; Kamruddin, M.; Amarendra, G.; Tyagi, A. K.; Raj, Baldev

    2016-09-01

    Evolution of chemical states and defect structure in titanium during low energy nitrogen ion implantation by Plasma Immersion Ion Implantation (PIII) process is studied. The underlying process of chemical state evolution is investigated using secondary ion mass spectrometry and X-ray photoelectron spectroscopy. The implantation induced defect structure evolution as a function of dose is elucidated using variable energy positron annihilation Doppler broadening spectroscopy (PAS) and the results were corroborated with chemical state. Formation of 3 layers of defect state was modeled to fit PAS results.

  8. Stripline fast faraday cup for measuring GHz structure of ion beams

    DOEpatents

    Bogaty, John M.

    1992-01-01

    The Stripline Fast Faraday Cup is a device which is used to quantitatively and qualitatively measure gigahertz time structure characteristics of ion beams with energies up to at least 30 Mev per nucleon. A stripline geometry is employed in conjunction with an electrostatic screen and a Faraday cup to provide for analysis of the structural characteristics of an ion beam. The stripline geometry allows for a large reduction in the size of the instrument while the electrostatic screen permits measurements of the properties associated with low speed ion beams.

  9. Ion-beam induced domain structure in piezoelectric PMN-PT single crystal

    SciTech Connect

    Kim, Kyou-Hyun; Payne, David A.; Zuo Jianmin

    2010-12-27

    We report an investigation of the domain structure in Pb(Mg{sub 1/3}Nb{sub 2/3})O{sub 3}-30%PbTiO{sub 3} single crystals after ion milling. We show that ion milling induces microdomains, typically 0.1-1 {mu}m in size. The induced microdomains disappear after temperature annealing or electric poling, leaving behind nanodomains of a few nanometers in size. We attribute the microdomains to surface stress induced by ion milling. The results demonstrate the general importance of separating sample preparation artifacts from the true domain structure in the study of ferroic materials.

  10. Structural Variations and Solvent Structure of r(UGGGGU) Quadruplexes Stabilized by Sr2+ Ions

    PubMed Central

    Fyfe, Alastair C.; Dunten, Pete W.; Martick, Monika M.; Scott, William G.

    2015-01-01

    Guanine-rich sequences can, under appropriate conditions, adopt a distinctive, four-stranded, helical fold known as a G-quadruplex. Interest in quadruplex folds has grown in recent years as evidence of their biological relevance has accumulated from both sequence analysis and function-specific assays. The folds are unusually stable and their formation appears to require close management to maintain cell health; regulatory failure correlates with genomic instability and a number of cancer phenotypes. Biologically relevant quadruplex folds are anticipated to form transiently in mRNA and in single-stranded, unwound DNA. To elucidate factors, including bound solvent, that contribute to the stability of RNA quadruplexes, we examine, by X-ray crystallography and small-angle X-ray scattering, the structure of a previously reported tetramolecular quadruplex, UGGGGU stabilized by Sr2+ ions. Crystal forms of the octameric assembly formed by this sequence exhibit unusually strong diffraction and anomalous signal enabling the construction of reliable models to a resolution of 0.88 Å. The solvent structure confirms hydration patterns reported for other nucleic acid helical conformations and provides support for the greater stability of RNA quadruplexes relative to DNA. Novel features detected in the octameric RNA assembly include a new crystal form, evidence of multiple conformations and structural variations in the 3′ U tetrad, including one that leads to the formation of a hydrated internal cavity. PMID:25861762

  11. Magnetosheath Filamentary Structures Formed by Ion Acceleration at the Quasi-Parallel Bow Shock

    NASA Technical Reports Server (NTRS)

    Omidi, N.; Sibeck, D.; Gutynska, O.; Trattner, K. J.

    2014-01-01

    Results from 2.5-D electromagnetic hybrid simulations show the formation of field-aligned, filamentary plasma structures in the magnetosheath. They begin at the quasi-parallel bow shock and extend far into the magnetosheath. These structures exhibit anticorrelated, spatial oscillations in plasma density and ion temperature. Closer to the bow shock, magnetic field variations associated with density and temperature oscillations may also be present. Magnetosheath filamentary structures (MFS) form primarily in the quasi-parallel sheath; however, they may extend to the quasi-perpendicular magnetosheath. They occur over a wide range of solar wind Alfvénic Mach numbers and interplanetary magnetic field directions. At lower Mach numbers with lower levels of magnetosheath turbulence, MFS remain highly coherent over large distances. At higher Mach numbers, magnetosheath turbulence decreases the level of coherence. Magnetosheath filamentary structures result from localized ion acceleration at the quasi-parallel bow shock and the injection of energetic ions into the magnetosheath. The localized nature of ion acceleration is tied to the generation of fast magnetosonic waves at and upstream of the quasi-parallel shock. The increased pressure in flux tubes containing the shock accelerated ions results in the depletion of the thermal plasma in these flux tubes and the enhancement of density in flux tubes void of energetic ions. This results in the observed anticorrelation between ion temperature and plasma density.

  12. Magnetosheath filamentary structures formed by ion acceleration at the quasi-parallel bow shock

    NASA Astrophysics Data System (ADS)

    Omidi, N.; Sibeck, D.; Gutynska, O.; Trattner, K. J.

    2014-04-01

    Results from 2.5-D electromagnetic hybrid simulations show the formation of field-aligned, filamentary plasma structures in the magnetosheath. They begin at the quasi-parallel bow shock and extend far into the magnetosheath. These structures exhibit anticorrelated, spatial oscillations in plasma density and ion temperature. Closer to the bow shock, magnetic field variations associated with density and temperature oscillations may also be present. Magnetosheath filamentary structures (MFS) form primarily in the quasi-parallel sheath; however, they may extend to the quasi-perpendicular magnetosheath. They occur over a wide range of solar wind Alfvénic Mach numbers and interplanetary magnetic field directions. At lower Mach numbers with lower levels of magnetosheath turbulence, MFS remain highly coherent over large distances. At higher Mach numbers, magnetosheath turbulence decreases the level of coherence. Magnetosheath filamentary structures result from localized ion acceleration at the quasi-parallel bow shock and the injection of energetic ions into the magnetosheath. The localized nature of ion acceleration is tied to the generation of fast magnetosonic waves at and upstream of the quasi-parallel shock. The increased pressure in flux tubes containing the shock accelerated ions results in the depletion of the thermal plasma in these flux tubes and the enhancement of density in flux tubes void of energetic ions. This results in the observed anticorrelation between ion temperature and plasma density.

  13. The Structure and Transport of Water and Hydrated Ions Within Hydrophobic, Nanoscale Channels

    SciTech Connect

    Holt, J K; Herberg, J L; Wu, Y; Schwegler, E; Mehta, A

    2009-06-15

    The purpose of this project includes an experimental and modeling investigation into water and hydrated ion structure and transport at nanomaterials interfaces. This is a topic relevant to understanding the function of many biological systems such as aquaporins that efficiently shuttle water and ion channels that permit selective transport of specific ions across cell membranes. Carbon nanotubes (CNT) are model nanoscale, hydrophobic channels that can be functionalized, making them artificial analogs for these biological channels. This project investigates the microscopic properties of water such as water density distributions and dynamics within CNTs using Nuclear Magnetic Resonance (NMR) and the structure of hydrated ions at CNT interfaces via X-ray Absorption Spectroscopy (XAS). Another component of this work is molecular simulation, which can predict experimental measurables such as the proton relaxation times, chemical shifts, and can compute the electronic structure of CNTs. Some of the fundamental questions this work is addressing are: (1) what is the length scale below which nanoscale effects such as molecular ordering become important, (2) is there a relationship between molecular ordering and transport?, and (3) how do ions interact with CNT interfaces? These are questions of interest to the scientific community, but they also impact the future generation of sensors, filters, and other devices that operate on the nanometer length scale. To enable some of the proposed applications of CNTs as ion filtration media and electrolytic supercapacitors, a detailed knowledge of water and ion structure at CNT interfaces is critical.

  14. Molecular scale track structure simulations in liquid water using the Geant4-DNA Monte-Carlo processes.

    PubMed

    Francis, Z; Incerti, S; Capra, R; Mascialino, B; Montarou, G; Stepan, V; Villagrasa, C

    2011-01-01

    This paper presents a study of energy deposits induced by ionising particles in liquid water at the molecular scale. Particles track structures were generated using the Geant4-DNA processes of the Geant4 Monte-Carlo toolkit. These processes cover electrons (0.025 eV-1 MeV), protons (1 keV-100 MeV), hydrogen atoms (1 keV-100 MeV) and alpha particles (10 keV-40 MeV) including their different charge states. Electron ranges and lineal energies for protons were calculated in nanometric and micrometric volumes. PMID:20810287

  15. Effects of magnesium ions on the stabilization of RNA oligomers of defined structures.

    PubMed Central

    Serra, Martin J; Baird, John D; Dale, Taraka; Fey, Bridget L; Retatagos, Kimberly; Westhof, Eric

    2002-01-01

    Optical melting was used to determine the stabilities of 11 small RNA oligomers of defined secondary structure as a function of magnesium ion concentration. The oligomers included helices composed of Watson-Crick base pairs, GA tandem base pairs, GU tandem base pairs, and loop E motifs (both eubacterial and eukaryotic). The effect of magnesium ion concentration on stability was interpreted in terms of two simple models. The first assumes an uptake of metal ion upon duplex formation. The second assumes nonspecific electrostatic attraction of metal ions to the RNA oligomer. For all oligomers, except the eubacterial loop E, the data could best be interpreted as nonspecific binding of metal ions to the RNAs. The effect of magnesium ions on the stability of the eubacterial loop E was distinct from that seen with the other oligomers in two ways. First, the extent of stabilization by magnesium ions (as measured by either change in melting temperature or free energy) was three times greater than that observed for the other helical oligomers. Second, the presence of magnesium ions produces a doubling of the enthalpy for the melting transition. These results indicate that magnesium ion stabilizes the eubacterial loop E sequence by chelating the RNA specifically. Further, these results on a rather small system shed light on the large enthalpy changes observed upon thermal unfolding of large RNAs like group I introns. It is suggested that parts of those large enthalpy changes observed in the folding of RNAs may be assigned to variations in the hydration states and types of coordinating atoms in some specifically bound magnesium ions and to an increase in the observed cooperativity of the folding transition due to the binding of those magnesium ions coupling the two stems together. Brownian dynamic simulations, carried out to visualize the metal ion binding sites, reveal rather delocalized ionic densities in all oligomers, except for the eubacterial loop E, in which precisely

  16. Structure and characteristics of ions in hot plasma

    NASA Astrophysics Data System (ADS)

    Vainshtein, Leonid Abramovich; Shevel'Ko, Viacheslav Petrovich

    Methods for calculating the radiation and collision characteristics of atoms and ions, such as oscillator forces, transition probabilities, and interaction cross sections and velocities, are presented in a systematic manner. The book contains a large amount of reference data that are essential in nuclear physics, laser spectroscopy, astrophysics, and theory of atomic spectra and collisions. A computer program written in FORTRAN for calculating the characteristics of atoms is included.

  17. Hyper-temporal LiDAR for tracking fine-scale changes in vegetation structure, phenology, and physiology

    NASA Astrophysics Data System (ADS)

    Magney, T. S.; Vierling, L. A.; Eitel, J.; Greaves, H.

    2015-12-01

    Vegetation three-dimensional (3-D) structure is inherently dynamic - plants alter both the allocation of resources within the canopy and branch/shoot morphology at short time-steps to acclimate to local environmental conditions and maximize photosynthetic potential. However, 3-D structure is often ignored in ecological studies because it is difficult to characterize using traditional field methods. Terrestrial laser scanning (TLS) is a rapidly maturing technique to complement and enhance traditional field methods for quantifying 3-D geometric properties of ecosystems. Two major limitations of TLS include the low temporal resolution that often exists between each data acquisition, and the relatively high cost of such systems (entry level systems cost >$40,000 USD) that puts this method out of reach for many potential users. Consequently, TLS is currently limited as a mainstream method for capturing 3-D geometric ecosystem dynamics. Over the last several years, we have been developing a field-ready autonomously operating terrestrial laser scanner (ATLS) capable of monitoring fine-scale changes in vegetation structure on a daily time-step. We will present an overview of recent findings using the ATLS to track changes in vegetation structure in low-stature ecosystems - from cropping system dynamics to Arctic tundra phenology. Further, we will discuss the potential for laser intensity return information from both an ATLS and TLS to track changes in plant phenology and physiology (Chlorophyll content, photoprotective mechanisms, moisture) that occur simultaneously - or prior to - changes in vegetation structure. Our results suggest that fine-scale mapping of plant structure, phenology, and physiology using information from TLS and ATLS could provide new insights into vegetation dynamics in space and time.

  18. Structure of apo acyl carrier protein and a proposal to engineer protein crystallization through metal ions

    SciTech Connect

    Qiu, Xiayang; Janson, Cheryl A.

    2010-11-16

    A topic of current interest is engineering surface mutations in order to improve the success rate of protein crystallization. This report explores the possibility of using metal-ion-mediated crystal-packing interactions to facilitate rational design. Escherichia coli apo acyl carrier protein was chosen as a test case because of its high content of negatively charged carboxylates suitable for metal binding with moderate affinity. The protein was successfully crystallized in the presence of zinc ions. The crystal structure was determined to 1.1 {angstrom} resolution with MAD phasing using anomalous signals from the co-crystallized Zn{sup 2+} ions. The case study suggested an integrated strategy for crystallization and structure solution of proteins via engineering surface Asp and Glu mutants, crystallizing them in the presence of metal ions such as Zn{sup 2+} and solving the structures using anomalous signals.

  19. Etching and structural changes in nitrogen plasma immersion ion implanted polystyrene films

    NASA Astrophysics Data System (ADS)

    Gan, B. K.; Bilek, M. M. M.; Kondyurin, A.; Mizuno, K.; McKenzie, D. R.

    2006-06-01

    Plasma immersion ion implantation (PIII), with nitrogen ions of energy 20 keV in the fluence range of 5 × 1014-2 × 1016 ions cm-2, is used to modify 100 nm thin films of polystyrene on silicon wafer substrates. Ellipsometry is used to study changes in thickness with etching and changes in optical constants. Two distinctly different etch rates are observed as the polymer structure is modified. FTIR spectroscopy data reveals the structural changes, including changes in aromatic and aliphatic groups and oxidation and carbonisation processes, occurring in the polystyrene film as a function of the ion fluence. The transformation to a dense amorphous carbon-like material was observed to progress through an intermediate structural form containing a high concentration of Cdbnd C and Cdbnd O bonds.

  20. Post-equinox observations of Uranus: Berg's evolution, vertical structure, and track towards the equator

    NASA Astrophysics Data System (ADS)

    de Pater, Imke; Sromovsky, L. A.; Hammel, Heidi B.; Fry, P. M.; LeBeau, R. P.; Rages, Kathy; Showalter, Mark; Matthews, Keith

    2011-09-01

    We present observations of Uranus taken with the near-infrared camera NIRC2 on the 10-m W.M. Keck II telescope, the Wide Field Planetary Camera 2 (WFPC2) and the Wide Field Camera 3 (WFC3) on the Hubble Space Telescope (HST) from July 2007 through November 2009. In this paper we focus on a bright southern feature, referred to as the "Berg." In Sromovsky et al. (Sromovsky, L.A., Fry, P.M., Hammel, H.B., Ahue, A.W., de Pater, I., Rages, K.A., Showalter, M.R., van Dam, M. [2009]. Icarus 203, 265-286), we reported that this feature, which oscillated between latitudes of -32° and -36° for several decades, suddenly started on a northward track in 2005. In this paper we show the complete record of observations of this feature's track towards the equator, including its demise. After an initially slow linear drift, the feature's drift rate accelerated at latitudes ∣ θ∣ < 25°. By late 2009 the feature, very faint by then, was spotted at a latitude of -5° before disappearing from view. During its northward track, the feature's morphology changed dramatically, and several small bright unresolved features were occasionally visible poleward of the main "streak." These small features were sometimes visible at a wavelength of 2.2 μm, indicative that the clouds reached altitudes of ˜0.6 bar. The main part of the Berg, which is generally a long sometimes multipart streak, is estimated to be much deeper in the atmosphere, near 3.5 bars in 2004, but rising to 1.8-2.5 bars in 2007 after it began its northward drift. Through comparisons with Neptune's Great Dark Spot and simulations of the latter, we discuss why the Berg may be tied to a vortex, an anticyclone deeper in the atmosphere that is visible only through orographic companion clouds.

  1. Using support vector machines to improve elemental ion identification in macromolecular crystal structures

    DOE PAGESBeta

    Morshed, Nader; Echols, Nathaniel; Adams, Paul D.

    2015-04-25

    In the process of macromolecular model building, crystallographers must examine electron density for isolated atoms and differentiate sites containing structured solvent molecules from those containing elemental ions. This task requires specific knowledge of metal-binding chemistry and scattering properties and is prone to error. A method has previously been described to identify ions based on manually chosen criteria for a number of elements. Here, the use of support vector machines (SVMs) to automatically classify isolated atoms as either solvent or one of various ions is described. Two data sets of protein crystal structures, one containing manually curated structures deposited with anomalousmore » diffraction data and another with automatically filtered, high-resolution structures, were constructed. On the manually curated data set, an SVM classifier was able to distinguish calcium from manganese, zinc, iron and nickel, as well as all five of these ions from water molecules, with a high degree of accuracy. Additionally, SVMs trained on the automatically curated set of high-resolution structures were able to successfully classify most common elemental ions in an independent validation test set. This method is readily extensible to other elemental ions and can also be used in conjunction with previous methods based on a priori expectations of the chemical environment and X-ray scattering.« less

  2. Using support vector machines to improve elemental ion identification in macromolecular crystal structures

    SciTech Connect

    Morshed, Nader; Echols, Nathaniel; Adams, Paul D.

    2015-04-25

    In the process of macromolecular model building, crystallographers must examine electron density for isolated atoms and differentiate sites containing structured solvent molecules from those containing elemental ions. This task requires specific knowledge of metal-binding chemistry and scattering properties and is prone to error. A method has previously been described to identify ions based on manually chosen criteria for a number of elements. Here, the use of support vector machines (SVMs) to automatically classify isolated atoms as either solvent or one of various ions is described. Two data sets of protein crystal structures, one containing manually curated structures deposited with anomalous diffraction data and another with automatically filtered, high-resolution structures, were constructed. On the manually curated data set, an SVM classifier was able to distinguish calcium from manganese, zinc, iron and nickel, as well as all five of these ions from water molecules, with a high degree of accuracy. Additionally, SVMs trained on the automatically curated set of high-resolution structures were able to successfully classify most common elemental ions in an independent validation test set. This method is readily extensible to other elemental ions and can also be used in conjunction with previous methods based on a priori expectations of the chemical environment and X-ray scattering.

  3. Using support vector machines to improve elemental ion identification in macromolecular crystal structures

    PubMed Central

    Morshed, Nader; Echols, Nathaniel; Adams, Paul D.

    2015-01-01

    In the process of macromolecular model building, crystallographers must examine electron density for isolated atoms and differentiate sites containing structured solvent molecules from those containing elemental ions. This task requires specific knowledge of metal-binding chemistry and scattering properties and is prone to error. A method has previously been described to identify ions based on manually chosen criteria for a number of elements. Here, the use of support vector machines (SVMs) to automatically classify isolated atoms as either solvent or one of various ions is described. Two data sets of protein crystal structures, one containing manually curated structures deposited with anomalous diffraction data and another with automatically filtered, high-resolution structures, were constructed. On the manually curated data set, an SVM classifier was able to distinguish calcium from manganese, zinc, iron and nickel, as well as all five of these ions from water molecules, with a high degree of accuracy. Additionally, SVMs trained on the automatically curated set of high-resolution structures were able to successfully classify most common elemental ions in an independent validation test set. This method is readily extensible to other elemental ions and can also be used in conjunction with previous methods based on a priori expectations of the chemical environment and X-ray scattering. PMID:25945580

  4. Analysis of tracks in the stacked film track detector

    NASA Astrophysics Data System (ADS)

    Hosoe, M.; Hasegawa, H.

    1984-12-01

    A method to analyze the experimental data of a plastic track detector is presented. The charge distribution obtained for the cosmic ray heavy charged particles is shown, and it is used to criticize theories which have been proposed until now to explain the rate of chemical etching along ion tracks. The primary ionization J and the restricted energy loss REL are evaluated and compared at the same etching velocity for various charges. REL fits the etching rate well only for light elements Z < 15, and J is suitable either for Z < 15 or Z > 15, while overall fitting is not possible for either theory. The fine structures of the curves, REL, J, and (Z*/β)2 vs Z, serve as a measure to estimate the real mean atomic mass of each element in cosmic rays.

  5. Identification of Ion-Pair Structures in Solution by Vibrational Stark Effects.

    PubMed

    Hack, John; Grills, David C; Miller, John R; Mani, Tomoyasu

    2016-02-18

    Ion pairing is a fundamental consideration in many areas of chemistry and has implications in a wide range of sciences and technologies that include batteries and organic photovoltaics. Ions in solution are known to inhabit multiple possible states, including free ions (FI), contact ion pairs (CIP), and solvent-separated ion pairs (SSIP). However, in solutions of organic radicals and nonmetal electrolytes, it is often difficult to distinguish between these states. In the first part of this work, we report evidence for the formation of SSIPs in low-polarity solvents and distinct measurements of CIP, SSIP, and FI, by using the ν(C≡N) infrared (IR) band of a nitrile-substituted fluorene radical anion. Use of time-resolved IR detection following pulse radiolysis allowed us to unambiguously assign the peak of the FI. In the presence of nonmetal electrolytes, two distinct red-shifted peaks were observed and assigned to the CIP and SSIP. The assignments are interpreted in the framework of the vibrational Stark effect (VSE) and are supported by (1) the solvent dependence of ion-pair populations, (2) the observation of a cryptand-separated sodium ion pair that mimics the formation of SSIPs, and (3) electronic structure calculations. In the second part of this work, we show that a blue-shift of the ν(C≡N) IR band due to the VSE can be induced in a nitrile-substituted fluorene radical anion by covalently tethering it to a metal-chelating ligand that forms an intramolecular ion pair upon reduction and complexation with sodium ion. This adds support to the conclusion that the shift in IR absorptions by ion pairing originates from the VSE. These results combined show that we can identify ion-pair structures by using the VSE, including the existence of SSIPs in a low-polarity solvent. PMID:26807492

  6. Identification of ion-pair structures in solution by vibrational stark effects

    DOE PAGESBeta

    Hack, John; Mani, Tomoyasu; Grills, David C.; Miller, John R.

    2016-01-25

    Here, ion pairing is a fundamental consideration in many areas of chemistry and has implications in a wide range of sciences and technologies that include batteries and organic photovoltaics. Ions in solution are known to inhabit multiple possible states, including free ions (FI), contact ion pairs (CIP), and solvent-separated ion pairs (SSIP). However, in solutions of organic radicals and nonmetal electrolytes, it is often difficult to distinguish between these states. In the first part of this work, we report evidence for the formation of SSIPs in low-polarity solvents and distinct measurements of CIP, SSIP, and FI, by using the ν(C≡N)more » infrared (IR) band of a nitrile-substituted fluorene radical anion. Use of time-resolved IR detection following pulse radiolysis allowed us to unambiguously assign the peak of the FI. In the presence of nonmetal electrolytes, two distinct red-shifted peaks were observed and assigned to the CIP and SSIP. The assignments are interpreted in the framework of the vibrational Stark effect (VSE) and are supported by (1) the solvent dependence of ion-pair populations, (2) the observation of a cryptand-separated sodium ion pair that mimics the formation of SSIPs, and (3) electronic structure calculations. In the second part of this work, we show that a blue-shift of the ν(C≡N) IR band due to the VSE can be induced in a nitrile-substituted fluorene radical anion by covalently tethering it to a metal-chelating ligand that forms an intramolecular ion pair upon reduction and complexation with sodium ion. This adds support to the conclusion that the shift in IR absorptions by ion pairing originates from the VSE. These results combined show that we can identify ion-pair structures by using the VSE, including the existence of SSIPs in a low-polarity solvent.« less

  7. Plasma screening effects on the electronic structure of multiply charged Al ions using Debye and ion-sphere models

    NASA Astrophysics Data System (ADS)

    Das, Madhulita; Sahoo, B. K.; Pal, Sourav

    2016-05-01

    We analyze atomic structures of plasma-embedded aluminum (Al) atom and its ions in the weak- and strong-coupling regimes. The plasma screening effects in these atomic systems are accounted for using the Debye and ion-sphere (IS) potentials for the weakly and strongly coupled plasmas, respectively. Within the Debye model, special attention is given to investigate the spherical and nonspherical plasma screening effects considering in the electron-electron interaction potential. The relativistic coupled-cluster (RCC) method has been employed to describe the relativistic and electronic correlation effects in the above atomic systems. The variations in the ionization potentials (IPs) and excitation energies (EEs) of the plasma-embedded Al ions are presented. It is found that the atomic systems exhibit more stability when the exact screening effects are taken into account. It is also shown that in the presence of a strongly coupled plasma environment, the highly ionized Al ions show blueshifts and redshifts in the spectral lines of the transitions between the states with the same and different principal quantum numbers, respectively. Comparison among the results obtained from the Debye and IS models are also carried out considering similar plasma conditions.

  8. Optical and structural properties of YF3 thin films prepared by ion-assisted deposition or ion beam sputtering techniques

    NASA Astrophysics Data System (ADS)

    Robic, Jean-Yves; Muffato, Viviane; Chaton, Patrick; Ida, Michel; Berger, M.

    1994-11-01

    The properties of materials in thin films are strongly dependent on the coating techniques and on the technological parameters. We have investigated about some optical and structural properties of YF3 thin films prepared using different energetic techniques: ion assisted deposition (IAD) and ion beam sputtering (IBS). The properties of the thin films obtained by these energetic processes are compared to the properties obtained by classical electron beam evaporation. In classical evaporation, the optical properties in the visible range depend on the temperature of the deposition and on the incidence of the vapor flux. The optical properties are correlated with the density of the films measured by Rutherford backscattering. In the case of IAD, the influence on optical properties, both in the visible and in the infrared range, of some technological parameters (pressure, ion energy and ion density) are illustrated. The refractive index and the extinction coefficient have been obtained by spectrophotometry. Furthermore, we show that IBS may lead to YF3 layers of high density.

  9. Effect of calcium/sodium ion exchange on the osmotic properties and structure of polyelectrolyte gels.

    PubMed

    Horkay, Ferenc; Basser, Peter J; Hecht, Anne-Marie; Geissler, Erik

    2015-12-01

    We discuss the main findings of a long-term research program exploring the consequences of sodium/calcium ion exchange on the macroscopic osmotic and elastic properties, and the microscopic structure of representative synthetic polyelectrolyte (sodium polyacrylate, (polyacrylic acid)) and biopolymer gels (DNA). A common feature of these gels is that above a threshold calcium ion concentration, they exhibit a reversible volume phase transition. At the macroscopic level, the concentration dependence of the osmotic pressure shows that calcium ions influence primarily the third-order interaction term in the Flory-Huggins model of polymer solutions. Mechanical tests reveal that the elastic modulus is practically unaffected by the presence of calcium ions, indicating that ion bridging does not create permanent cross-links. At the microscopic level, small-angle neutron scattering shows that polyacrylic acid and DNA gels exhibit qualitatively similar structural features in spite of important differences (e.g. chain flexibility and chemical composition) between the two polymers. The main effect of calcium ions is that the neutron scattering intensity increases due to the decrease in the osmotic modulus. At the level of the counterion cloud around dissolved macroions, anomalous small-angle X-ray scattering measurements made on DNA indicate that divalent ions form a cylindrical sheath enveloping the chain, but they are not localized. Small-angle neutron scattering and small-angle X-ray scattering provide complementary information on the structure and interactions in polymer solutions and gels. PMID:26614803

  10. Local structural properties of Co-ion-implanted ZnO nanorods

    NASA Astrophysics Data System (ADS)

    Park, C. I.; Jin, Zhenlan; Jeong, E. S.; Hwang, I. H.; Han, S. W.

    2013-12-01

    We examined the local structural properties around Co and Zn ions in Co-ion-implanted ZnO nanorods by using an X-ray absorption fine structure (XAFS) analysis. Vertically-aligned ZnO nanorods were synthesized on Al2O3 substrates by using a catalyst-free metal-organic chemicalvapor deposition. Co ions (Co+ and Co2+) with energies of 50 and 100 keV and fluxes of 1013 and 1015 particles/cm2 were implanted in the ZnO nanorods, and the ion-implanted ZnO nanorods were annealed at 400-650°C. X-ray absorption near edge structure (XANES) analyses demonstrated that the chemical valence state of the Co ions were mostly 2+. An extended XAFS (EXAFS) analysis revealed that the Co ions were mostly substituted at the Zn sites of ZnO nanorods at a Coion flux of 1015 particles/cm2. However, at a flux of 1013 particles/cm2, Co ions formed Co-O and Co-Co clusters. These results were in contrast to the Co distribution in Co-added ZnO predicted by using a Monte Carlo method.

  11. Sheath structure in plasmas with nonextensively distributed electrons and thermal ions

    SciTech Connect

    Hatami, M. M.

    2015-02-15

    Sheath region of an electropositive plasma consisting of q-nonextensive electrons and singly charged positive ions with finite temperature is modeled. Using Sagdeev's pseudo potential technique to derive the modified sheath formation criterion, it is shown that the velocity of ions at the sheath edge is directly proportional to the ion temperatures and inversely proportional to the degree of nonextensivity of electrons (q-parameter). Using the modified Bohm criterion, effect of degree of nonextensivity of electrons and temperature of positive ions on the characteristics of the sheath region are investigated numerically. It is shown that an increase in the ion temperature gives rise to an increase in the electrostatic potential and the velocity of ions in the sheath regardless of the value of q. Furthermore, it is seen that the sheath width and the density distribution of the charged particles decrease by increasing the temperature of positive ions. In addition, it is found that the positive ion temperature is less effective on the sheath structure for higher values of the q-parameter. Finally, the results obtained for a thermal plasma with nonextensively distributed electrons are compared with the results of a cold plasma with nonextensive electrons and an extensive (Maxwellian) plasma with thermal ions.

  12. CR-39 track detector calibration for H, He, and C ions from 0.1-0.5 MeV up to 5 MeV for laser-induced nuclear fusion product identification

    SciTech Connect

    Baccou, C. Yahia, V.; Labaune, C.; Depierreux, S.; Neuville, C.; Goyon, C.; Consoli, F.; De Angelis, R.; Ducret, J. E.; Boutoux, G.; Rafelski, J.

    2015-08-15

    Laser-accelerated ion beams can be used in many applications and, especially, to initiate nuclear reactions out of thermal equilibrium. We have experimentally studied aneutronic fusion reactions induced by protons accelerated by the Target Normal Sheath Acceleration mechanism, colliding with a boron target. Such experiments require a rigorous method to identify the reaction products (alpha particles) collected in detectors among a few other ion species such as protons or carbon ions, for example. CR-39 track detectors are widely used because they are mostly sensitive to ions and their efficiency is near 100%. We present a complete calibration of CR-39 track detector for protons, alpha particles, and carbon ions. We give measurements of their track diameters for energy ranging from hundreds of keV to a few MeV and for etching times between 1 and 8 h. We used these results to identify alpha particles in our experiments on proton-boron fusion reactions initiated by laser-accelerated protons. We show that their number clearly increases when the boron fuel is preformed in a plasma state.

  13. CR-39 track detector calibration for H, He, and C ions from 0.1-0.5 MeV up to 5 MeV for laser-induced nuclear fusion product identification.

    PubMed

    Baccou, C; Yahia, V; Depierreux, S; Neuville, C; Goyon, C; Consoli, F; De Angelis, R; Ducret, J E; Boutoux, G; Rafelski, J; Labaune, C

    2015-08-01

    Laser-accelerated ion beams can be used in many applications and, especially, to initiate nuclear reactions out of thermal equilibrium. We have experimentally studied aneutronic fusion reactions induced by protons accelerated by the Target Normal Sheath Acceleration mechanism, colliding with a boron target. Such experiments require a rigorous method to identify the reaction products (alpha particles) collected in detectors among a few other ion species such as protons or carbon ions, for example. CR-39 track detectors are widely used because they are mostly sensitive to ions and their efficiency is near 100%. We present a complete calibration of CR-39 track detector for protons, alpha particles, and carbon ions. We give measurements of their track diameters for energy ranging from hundreds of keV to a few MeV and for etching times between 1 and 8 h. We used these results to identify alpha particles in our experiments on proton-boron fusion reactions initiated by laser-accelerated protons. We show that their number clearly increases when the boron fuel is preformed in a plasma state. PMID:26329181

  14. Study of ions and neutrons from a dense plasma focus instrument by means of nuclear tracks detectors

    NASA Astrophysics Data System (ADS)

    Castillo, F.; Golzarri, J. I.; Herrera, J. J. E.; Martınez, H.; Rangel, J.; Espinosa, G.

    2014-07-01

    A most interesting feature of dense plasma foci is the acceleration of charge particle at energy in the range of MeV per nucleon. Using deuterium gas, this devices produce fusion D-D reactions, generating fast neutron pulses (˜ 2.5 MeV). This work describes the studies of this phenomenon in a low energy device (˜ 5 kJ) with a 3 cm diameter and 10 cm long, copper inner electrode. The outer electrode is 10 cm in diameter. The device is operated with four 1.863 μF capacitor in parallel at 38 kV. Neutrons and accelerated particles are analyzed with PADC material detectors (CR-39 Lantrack®) for 2.75 Torr of pressure. A detailed study is made of track diameters when the plastic is chemically etched with, 6N KOH at 60°C (±1) for 18 h. Accelerated deuterons in the range of 1 to 10 MeV are observed.

  15. Tracking of mercury ions in living cells with a fluorescent chemodosimeter under single- or two-photon excitation.

    PubMed

    Lu, Zhou-Jun; Wang, Pei-Nan; Zhang, Yu; Chen, Ji-Yao; Zhen, Shen; Leng, Bing; Tian, He

    2007-08-01

    Tracking of Hg2+ in solutions as well as in living cells was conducted with a fluorescent chemodosimeter by measuring the spectral shift of its fluorescence under single- or two-photon excitation. The spectral hypsochromic shifts of this chemodosimeter when reacting with Hg2+ were found to be about 50 nm in acetonitrile/water solutions and 32 nm in Euglena gracilis 277 living cells. This chemodosimeter shows high sensitivity and selectivity, and is not influenced by the pH values. It can signal Hg2+ in solutions down to the ppb range under either single-photon excitation (SPE) at 405 nm or two-photon excitation (TPE) at 800 nm. However, with low cellular chemodosimeter concentrations, the SPE spectra were disturbed by the auto-fluorescence from the native fluorophore in the cell, while the TPE spectra were still of high quality since the two-photon absorption cross section of this chemodosimeter is much larger than that of the native fluorophores in the cell. PMID:17683744

  16. Electromagnetic solitary structures in dense electron-positron-ion magnetoplasmas

    NASA Astrophysics Data System (ADS)

    Masood, W.; Hussain, S.; Rizvi, H.; Mushtaq, A.; Ayub, M.

    2010-12-01

    The linear and nonlinear propagation characteristics of low-frequency obliquely propagating magnetoacoustic waves in dense electron-positron-ion magnetoplasmas are studied in this paper by using the quantum magnetohydrodynamic (QMHD) model. A quantum Kadomtsev-Petviashvili (KP) equation is derived by using the reductive perturbation technique. The dependence of the fast and slow magnetoacoustic solitary waves on the positron concentration, the obliqueness parameter θ and the magnetic field is also investigated. The present investigation may have relevance to dense astrophysical environments where the quantum effects are expected to dominate.

  17. Solution structure of a designed cyclic peptide ligand for nickel and copper ions

    PubMed Central

    Eshelman, Matthew R.; Aldous, Amanda R.; Neupane, Kosh P.; Kritzer, Joshua A.

    2014-01-01

    Nuclear magnetic resonance (NMR) spectroscopy was used to study a cyclic peptide derived from the amino-terminal copper-and-nickel-binding (ATCUN) motif. The three-dimensional structure of the unliganded peptide in aqueous solution was solved by simulated annealing using distance constraints derived from Nuclear Overhauser Effects. A structural model for the Ni(II)-bound complex was also produced based on NMR evidence and prior spectroscopic data, which are consistent with crystal structures of linear ATCUN complexes. Structural interpolation, or “morphing,” was used to understand the transition of this highly structured cyclic peptide from its unliganded structure to its metal-ion-bound structure. PMID:25414527

  18. High-spin nuclear structure studies with radioactive ion beams

    SciTech Connect

    Baktash, C.

    1992-12-31

    Two important developments in the sixties, namely the advent of heavy-ion accelerators and fabrication of Ge detectors, opened the way for the experimental studies of nuclear properties at high angular momentum. Addition of a new degree of freedom, namely spin, made it possible to observe such fascinating phenomena as occurrences and coexistence of a variety of novel shapes, rise, fall and occasionally rebirth of nuclear collectivity, and disappearance of pairing correlations. Today, with the promise of development of radioactive ion beams (RIB) and construction of the third-generation Ge-detection systems (GAMMASPHERE and EUROBALL), the authors are poised to explore new and equally fascinating phenomena that have been hitherto inaccessible. With the addition of yet another dimension, namely the isospin, they will be able to observe and verify predictions for exotic shapes as varied as rigid triaxiality, hyperdeformation and triaxial octupole shapes, or to investigate the T = 0 pairing correlations. In this paper, they shall review, separately for neutron-deficient and neutron-rich nuclei, these and a few other new high-spin physics opportunities that may be realized with RIB. Following this discussion, they shall present a list of the beam species, intensities and energies that are needed to fulfill these goals. The paper will conclude with a description of the experimental techniques and instrumentations that are required for these studies.

  19. Superconducting accelerating structures for very low velocity ion beams

    SciTech Connect

    Xu, J.; Shepard, K.W.; Ostroumov, P.N.; Fuerst, J.D.; Waldschmidt, G.; Gonin, I.V.; /Fermilab

    2008-01-01

    This paper presents designs for four types of very-low-velocity superconducting accelerating cavity capable of providing several MV of accelerating potential per cavity, and suitable for particle velocities in the range 0.006 < v/c < 0.06. Superconducting TEM-class cavities have been widely applied to CW acceleration of ion beams. SC linacs can be formed as an array of independently-phased cavities, enabling a variable velocity profile to maximize the output energy for each of a number of different ion species. Several laboratories in the US and Europe are planning exotic beam facilities based on SC linacs. The cavity designs presented here are intended for the front-end of such linacs, particularly for the post-acceleration of rare isotopes of low charge state. Several types of SC cavities have been developed recently to cover particle velocities above 0.06c. Superconducting four-gap quarter-wave resonators for velocities 0.008 < {beta} = v/c < 0.05 were developed about two decades ago and have been successfully operated at the ATLAS SC linac at Argonne National Laboratory. Since that time, progress in simulation tools, cavity fabrication and processing have increased SC cavity gradients by a factor of 3-4. This paper applies these tools to optimize the design of a four-gap quarter-wave resonator for exotic beam facilities and other low-velocity applications.

  20. Studies of the substorm on March 12, 1991: 1. Structure of substorm activity and auroral ions

    NASA Astrophysics Data System (ADS)

    Lazutin, L. L.; Kozelova, T. V.; Meredith, N. P.; Danielides, M.; Kozelov, B. V.; Jussila, J.; Korth, A.

    2007-02-01

    The substorm on March 12, 1991 is studied using the data of ground-based network of magnetometers, all-sky cameras and TV recordings of aurora, and measurements of particle fluxes and magnetic field onboard a satellite in the equatorial plane. The structure of substorm activity and the dynamics of auroral ions of the central plasma sheet (CPS) and energetic quasi-trapped ions related to the substorm are considered in the first part. It is shown that several sharp changes in the fluxes and pitch-angle distribution of the ions which form the substorm ion injection precede a dipolarization of the magnetic field and increases of energetic electrons, and coincide with the activation of aurora registered 20° eastward from the satellite. A conclusion is drawn about different mechanisms of the substorm acceleration (injection) of electrons and ions.

  1. Influence of Kilo-Electron Oxygen Ion Irradiation on Structural, Electrical and Optical Properties of CdTe Thin Films

    NASA Astrophysics Data System (ADS)

    Honey, Shehla; Thema, F. T.; Bhatti, M. T.; Ishaq, A.; Naseem, Shahzad; Maaza, M.

    2016-09-01

    In this paper, effect of oxygen (O+) ion irradiation on the properties of polycrystalline cubic structure CdTe thin films has been investigated. CdTe thin films were irradiated with O+ ions of energy 80keV at different fluence ranging from 1×1015 to 5×1016 ion/cm2 at room temperature. At 1×1015 ion/cm2 O+ ions fluence, the CdTe structure was maintained while XRD peaks of cubic phase were shifted toward lower angles. At 5×1016 ion/cm2 O+ ions fluence, cubic structure of CdTe thin films was transformed into hexagonal structure. In addition, electrical resistivity and optical bandgap were decreased with increasing O+ ion beam irradiation.

  2. Toward a Rational Design of Highly Folded Peptide Cation Conformations. 3D Gas-Phase Ion Structures and Ion Mobility Characterization

    NASA Astrophysics Data System (ADS)

    Pepin, Robert; Laszlo, Kenneth J.; Marek, Aleš; Peng, Bo; Bush, Matthew F.; Lavanant, Helène; Afonso, Carlos; Tureček, František

    2016-07-01

    Heptapeptide ions containing combinations of polar Lys, Arg, and Asp residues with non-polar Leu, Pro, Ala, and Gly residues were designed to study polar effects on gas-phase ion conformations. Doubly and triply charged ions were studied by ion mobility mass spectrometry and electron structure theory using correlated ab initio and density functional theory methods and found to exhibit tightly folded 3D structures in the gas phase. Manipulation of the basic residue positions in LKGPADR, LRGPADK, KLGPADR, and RLGPADK resulted in only minor changes in the ion collision cross sections in helium. Replacement of the Pro residue with Leu resulted in only marginally larger collision cross sections for the doubly and triply charged ions. Disruption of zwitterionic interactions in doubly charged ions was performed by converting the C-terminal and Asp carboxyl groups to methyl esters. This resulted in very minor changes in the collision cross sections of doubly charged ions and even slightly diminished collision cross sections in most triply charged ions. The experimental collision cross sections were related to those calculated for structures of lowest free energy ion conformers that were obtained by extensive search of the conformational space and fully optimized by density functional theory calculations. The predominant factors that affected ion structures and collision cross sections were due to attractive hydrogen bonding interactions and internal solvation of the charged groups that overcompensated their Coulomb repulsion. Structure features typically assigned to the Pro residue and zwitterionic COO-charged group interactions were only secondary in affecting the structures and collision cross sections of these gas-phase peptide ions.

  3. Acoustic double layer structures in dense magnetized electron-positron-ion plasmas

    SciTech Connect

    Akhtar, N.; Mahmood, S.

    2011-11-15

    The acoustic double layer structures are studied using quantum hydrodynamic model in dense magnetized electron-positron-ion plasmas. The extended Korteweg-de Vries is derived using reductive perturbation method. It is found that increase in the ion concentration in dense magnetized electron-positron plasmas increases the amplitude as well as the steepness of the double layer structure. However, increase in the magnetic field strength and decrease in the obliqueness of the nonlinear acoustic wave enhances only the steepness of the double layer structures. The numerical results have also been shown by using the data of the outer layer regions of white dwarfs given in the literature.

  4. Crystal structures reveal the molecular basis of ion translocation in sodium/proton antiporters.

    PubMed

    Coincon, Mathieu; Uzdavinys, Povilas; Nji, Emmanuel; Dotson, David L; Winkelmann, Iven; Abdul-Hussein, Saba; Cameron, Alexander D; Beckstein, Oliver; Drew, David

    2016-03-01

    To fully understand the transport mechanism of Na(+)/H(+) exchangers, it is necessary to clearly establish the global rearrangements required to facilitate ion translocation. Currently, two different transport models have been proposed. Some reports have suggested that structural isomerization is achieved through large elevator-like rearrangements similar to those seen in the structurally unrelated sodium-coupled glutamate-transporter homolog GltPh. Others have proposed that only small domain movements are required for ion exchange, and a conventional rocking-bundle model has been proposed instead. Here, to resolve these differences, we report atomic-resolution structures of the same Na(+)/H(+) antiporter (NapA from Thermus thermophilus) in both outward- and inward-facing conformations. These data combined with cross-linking, molecular dynamics simulations and isothermal calorimetry suggest that Na(+)/H(+) antiporters provide alternating access to the ion-binding site by using elevator-like structural transitions. PMID:26828964

  5. Structural manipulation in Ge by swift heavy ions governed by electron-phonon coupling strength

    NASA Astrophysics Data System (ADS)

    Hooda, S.; Satpati, B.; Ojha, S.; Kumar, T.; Kanjilal, D.; Kabiraj, D.

    2015-04-01

    The effect of electron-phonon coupling strength in structural manipulation of different degrees of pre-damaged Ge by swift heavy ions (SHI) has been investigated. Starting with c-Ge (100), three sets of samples were prepared with various degrees of damage, i.e. isolated amorphous pockets, connected amorphous zones and continuous amorphous layer by 100 keV Ar ion irradiation. Structural changes in these samples induced by 100 MeV Ag ions were investigated by RBS/C, micro-Raman spectroscopy and XTEM studies. Results show that the sample having isolated amorphous pockets undergoes re-crystallization whereas the sample having uniform amorphous layer shows volume expansion with formation of nanorod-like structures, after SHI irradiation. In this work, it is emphasized that the different degrees of pre-damage have a prominent role against SHI-induced structural manipulation under different laws or equations.

  6. Nonlinear ion-acoustic structures in dusty plasma with superthermal electrons and positrons

    SciTech Connect

    El-Tantawy, S. A.; El-Bedwehy, N. A.; Moslem, W. M.

    2011-05-15

    Nonlinear ion-acoustic structures are investigated in an unmagnetized, four-component plasma consisting of warm ions, superthermal electrons and positrons, as well as stationary charged dust impurities. The basic set of fluid equations is reduced to modified Korteweg-de Vries equation. The latter admits both solitary waves and double layers solutions. Numerical calculations indicate that these nonlinear structures cannot exist for all physical parameters. Therefore, the existence regions for both solitary and double layers excitations have been defined precisely. Furthermore, the effects of temperature ratios of ions-to-electrons and electrons-to-positrons, positrons and dust concentrations, as well as superthermal parameters on the profiles of the nonlinear structures are investigated. Also, the acceleration and deceleration of plasma species have been highlight. It is emphasized that the present investigation may be helpful in better understanding of nonlinear structures which propagate in astrophysical environments, such as in interstellar medium.

  7. Structural aspects of host molecules acting as ionophores in ion-selective electrodes

    NASA Astrophysics Data System (ADS)

    Bocheńska, Maria

    1998-09-01

    Structural aspects of ligand molecules acting as neutral ionophores in ion-selective membrane electrodes are discussed and examples of Li-selective ionophores are presented. The relationship between the structure of ionophore and its complex determined by X-ray and NMR study and the selectivity of ISE was determined.

  8. Detection, Tracking and Analysis of Turbulent Spots and Other Coherent Structures in Unsteady Transition

    NASA Technical Reports Server (NTRS)

    Lewalle, Jacques; Ashpis, David (Technical Monitor)

    2000-01-01

    Transition on turbine blades is an important factor in the determination of eventual flow separation and engine performance. The phenomenon is strongly affected by unsteady flow conditions (wake passing). It is likely that some physics of unsteadiness should be included in advanced models, but it is unclear which properties would best embody this information. In this paper, we use a GEAE experimental database in unsteady transition to test some tools of spot identification, tracking and characterization. In this preliminary study, we identify some parameters that appear to be insensitive to wake passing effects, such as convection speed, and others more likely to require unsteady modeling. The main findings are that wavelet duration can be used as a measure of spot size, and that spot energy density is most closely correlated to the wake passing. The energy density is also correlated to spot size, but spot size appears unrelated to the phase angle. Recommendations are made for further study.

  9. Finite resolution multitarget tracking

    NASA Astrophysics Data System (ADS)

    Mušicki, Darko; Morelande, Mark R.

    2005-09-01

    Target tracking algorithms have to operate in an environment of uncertain measurement origin, due to the presence of randomly detected target measurements as well as clutter measurements from unwanted random scatterers. A majority of Bayesian multi-target tracking algorithms suffer from computational complexity which is exponential in the number of tracks and the number of shared measurements. The Linear Multi-target (LM) tracking procedure is a Bayesian multi-target tracking approximation with complexity which is linear in the number of tracks and the number of shared measurements. It also has a much simpler structure than the "optimal" Bayesian multi-target tracking, with apparently negligible decrease in performance. A vast majority of target tracking algorithms have been developed with the assumption of infinite sensor resolution, where a measurement can have only one source. This assumption is not valid for real sensors, such as radars. This paper presents a multi-target tracking algorithm which removes this restriction. The procedure utilizes a simple structure of LM tracking procedure to obtain a LM Finite Resolution (LMfr) tracking procedure which is much simpler than the previously published efforts. Instead of calculating the probability of measurement merging for each combination of potentially merging targets, we evaluate only one merging hypotheses for each measurement and each track. A simulation study is presented which compares LMfr-IPDA with LM-IPDA and IPDA target tracking in a cluttered environment utilizing a finite resolution sensor with five crossing targets. The study concentrates on the false track discrimination performance and the track retention capabilities.

  10. Influence of Si ion implantation on structure and morphology of g-C3N4

    NASA Astrophysics Data System (ADS)

    Varalakshmi, B.; Sreenivasulu, K. V.; Asokan, K.; Srikanth, V. V. S. S.

    2016-07-01

    Effect of Si ion implantation on structural and morphological features of graphite-like carbon nitride (g-C3N4) was investigated. g-C3N4 was prepared by using a simple atmospheric thermal decomposition process. The g-C3N4 pellets were irradiated with a Si ion beam of energy 200 keV with different fluencies. Structural, morphological and elemental, and phase analysis of the implanted samples in comparison with the pristine samples was carried out by using X-ray diffraction (XRD), field emission scanning electron microscopy (FESEM) with energy dispersive spectroscopy (EDS) and Fourier transform infrared spectroscopy (FTIR) techniques, respectively. The observations revealed that Si ion implantation results in a negligible change in the crystallite size and alteration of the network-like to the sheet-like morphology of g-C3N4 and Si ions in the g-C3N4 network.

  11. Structural modifications of swift heavy ion irradiated PEN probed by optical and thermal measurements

    NASA Astrophysics Data System (ADS)

    Devgan, Kusum; Singh, Lakhwant; Samra, Kawaljeet Singh

    2013-07-01

    The effects of swift heavy ion irradiation on the structural characteristics of Polyethylene naphthalate (PEN) were studied. Samples were irradiated in vacuum at room temperature by lithium (50 MeV), carbon (85 MeV), nickel (120 MeV) and silver (120 MeV) ions with the fluence in the range of 1×1011-3×1012 ions cm-2. Ion induced changes were analyzed using X-ray diffraction (XRD), Fourier transform infra red (FT-IR), UV-visible spectroscopy, thermo-gravimetric analysis (TGA) and differential scanning calorimetry (DSC) techniques. Cross-linking was observed at lower doses resulting in modification of structural properties, however higher doses lead to the degradation of the investigated polymeric samples.

  12. Controlled deposition of sulphur-containing semiconductor and dielectric nano-structured films on metals in SF{sub 6} ion-ion plasma

    SciTech Connect

    Rafalskyi, Dmytro; Bredin, Jérôme; Aanesland, Ane

    2013-12-07

    In the present paper, the deposition processes and formation of films in SF{sub 6} ion-ion plasma, with positive and negative ion flows accelerated to the surface, are investigated. The PEGASES (acronym for Plasma Propulsion with Electronegative GASES) source is used as an ion-ion plasma source capable of generating almost ideal ion-ion plasma with negative ion to electron density ratio more than 2500. It is shown that film deposition in SF{sub 6} ion-ion plasma is very sensitive to the polarity of the incoming ions. The effect is observed for Cu, W, and Pt materials. The films formed on Cu electrodes during negative and positive ion assisted deposition were analyzed. Scanning electron microscope analysis has shown that both positive and negative ion fluxes influence the copper surface and leads to film formation, but with different structures of the surface: the low-energy positive ion bombardment causes the formation of a nano-pored film transparent for ions, while the negative ion bombardment leads to a continuous smooth insulating film. The transversal size of the pores in the porous film varies in the range 50–500 nm, and further analysis of the film has shown that the film forms a diode together with the substrate preventing positive charge drain, and positive ions are neutralized by passing through the nano-pores. The film obtained with the negative ion bombardment has an insulating surface, but probably with a multi-layer structure: destroying the top surface layer allows to measure similar “diode” IV-characteristics as for the nano-pored film case. Basing on results, practical conclusions for the probes and electrodes cleaning in ion-ion SF{sub 6} plasmas have been made. Different applications are proposed for the discovered features of the controlled deposition from ion-ion plasmas, from Li-sulphur rechargeable batteries manufacturing and nanofluidics issues to the applications for microelectronics, including low-k materials formation.

  13. Solitary and double-layer structures in quantum bi-ion plasma

    NASA Astrophysics Data System (ADS)

    Shahmansouri, Mehran; Tribeche, Mouloud

    2016-02-01

    Weak ion-acoustic solitary waves (IASWs) in an unmagnetized quantum plasmas having two-fluid ions and fluid electrons are considered. Using the one-dimensional quantum hydrodynamics model and then the reductive perturbation technique, a generalized form of nonlinear quantum Korteweg-de Vries (KdV) equation governing the dynamics of weak ion acoustic solitary waves is derived. The effects of ion population, warm ion temperature, quantum diffraction, and polarity of ions on the nonlinear properties of these IASWs are analyzed. It is found that our present plasma model may support compressive as well as rarefactive solitary structures. Furthermore, formation and characteristics properties of IA double layers in the present bi-ion plasma model are investigated. The results of this work should be useful and applicable in understanding the wide relevance of nonlinear features of localized electro-acoustic structures in laboratory and space plasma, such as in super-dense astrophysical objects [24] and in the Earth's magnetotail region (Parks [43]. The implications of our results in some space plasma situations are discussed.

  14. Solitary and double-layer structures in quantum bi-ion plasma

    NASA Astrophysics Data System (ADS)

    Shahmansouri, Mehran; Tribeche, Mouloud

    2016-06-01

    Weak ion-acoustic solitary waves (IASWs) in an unmagnetized quantum plasmas having two-fluid ions and fluid electrons are considered. Using the one-dimensional quantum hydrodynamics model and then the reductive perturbation technique, a generalized form of nonlinear quantum Korteweg-de Vries (KdV) equation governing the dynamics of weak ion acoustic solitary waves is derived. The effects of ion population, warm ion temperature, quantum diffraction, and polarity of ions on the nonlinear properties of these IASWs are analyzed. It is found that our present plasma model may support compressive as well as rarefactive solitary structures. Furthermore, formation and characteristics properties of IA double layers in the present bi-ion plasma model are investigated. The results of this work should be useful and applicable in understanding the wide relevance of nonlinear features of localized electro-acoustic structures in laboratory and space plasma, such as in super-dense astrophysical objects [24] and in the Earth's magnetotail region (Parks [43]. The implications of our results in some space plasma situations are discussed.

  15. Possible Diamond-Like Nanoscale Structures Induced by Slow Highly-Charged Ions on Graphite (HOPG)

    SciTech Connect

    Sideras-Haddad, E.; Schenkel, T.; Shrivastava, S.; Makgato, T.; Batra, A.; Weis, C. D.; Persaud, A.; Erasmus, R.; Mwakikunga, B.

    2009-01-06

    The interaction between slow highly-charged ions (SHCI) of different charge states from an electron-beam ion trap and highly oriented pyrolytic graphite (HOPG) surfaces is studied in terms of modification of electronic states at single-ion impact nanosizeareas. Results are presented from AFM/STM analysis of the induced-surface topological features combined with Raman spectroscopy. I-V characteristics for a number of different impact regions were measured with STM and the results argue for possible formation of diamond-like nanoscale structures at the impact sites.

  16. Self-organized field structures in electron-depleted multi-ion dusty plasma

    NASA Astrophysics Data System (ADS)

    Iqbal, M.; Gondal, S. M.; Shuaib, A.; Qurat-Ul-Ain

    2015-06-01

    It is shown that there exists a strong interaction between the magnetic and kinetic aspects of a multi-ion plasma. The interaction appears as a system of simultaneous equations which show the alignment of vortices to flows and satisfy the Beltrami condition. Solving these equations lead to a non-force-free magnetic field which can be cast as a superposition of three multiscale force-free magnetic field configurations. It is the consequence of different Beltrami parameters of positive and negative ion fluids. It is also shown that self-organized paramagnetic and diamagnetic field structures could be created by varying the vorticities and flows of ion fluids.