Science.gov

Sample records for atr experiment description

  1. Neutronics analysis of the DHCE experiment in ATR-ITV

    SciTech Connect

    Gomes, I.C.; Smith, D.L.; Tsai, H.

    1997-08-01

    The preliminary analysis of the DHCE experiments in the ITV and ATR was performed and its was concluded that such a vehicle is suitable for this kind of experiment. It is recommended to place an extra filter material in the thermocouple sleeve (such as B-10), to improve the helium to dpa ratio profile during irradiation. Also, it was concluded that a preliminary estimation of period of time for replacement of the external filter would be around 5 dps`s.

  2. Status of ATR-A1 irradiation experiment on vanadium alloys and low-activation steels

    SciTech Connect

    Tsai, H.; Strain, R.V.; Gomes, I.; Chung, H.; Smith, D.L.

    1997-04-01

    The ATR-A1 irradiation experiment in the Advanced Test Reactor (ATR) was a collaborative U.S./Japan effort to study at low temperatures the effects of neutron damage on vanadium alloys. The experiment also contained a limited quantity of low-activation ferritic steel specimens from Japan as part of the collaboration agreement. The irradiation was completed on May 5, 1996, as planned, after achieving an estimated neutron damage of 4.7 dpa in vanadium. The capsule has since been kept in the ATR water canal for the required radioactivity cool-down. Planning is underway for disassembly of the capsule and test specimen retrieval.

  3. A Descriptive Experiment.

    ERIC Educational Resources Information Center

    Brand, Josef

    1979-01-01

    In this experiment in description, students in a high school honors English class were asked to select a surrealistic painting and capture it in writing. Their compositions were given to art students who tried to reproduce the paintings from the written descriptions. (SJL)

  4. Spacelab J experiment descriptions

    SciTech Connect

    Miller, T.Y.

    1993-08-01

    Brief descriptions of the experiment investigations for the Spacelab J Mission which was launched from the Kennedy Space Center aboard the Endeavour in Sept. 1992 are presented. Experiments cover the following: semiconductor crystals; single crystals; superconducting composite materials; crystal growth; bubble behavior in weightlessness; microgravity environment; health monitoring of Payload Specialists; cultured plant cells; effect of low gravity on calcium metabolism and bone formation; and circadian rhythm. Separate abstracts have been prepared for articles from this report.

  5. Spacelab J experiment descriptions

    NASA Technical Reports Server (NTRS)

    Miller, Teresa Y. (Editor)

    1993-01-01

    Brief descriptions of the experiment investigations for the Spacelab J Mission which was launched from the Kennedy Space Center aboard the Endeavour in Sept. 1992 are presented. Experiments cover the following: semiconductor crystals; single crystals; superconducting composite materials; crystal growth; bubble behavior in weightlessness; microgravity environment; health monitoring of Payload Specialists; cultured plant cells; effect of low gravity on calcium metabolism and bone formation; and circadian rhythm.

  6. Status of ATR-A1 irradiation experiment on vanadium alloys and low-activation steels

    SciTech Connect

    Tsai, H.; Strain, R.V.; Gomes, I.; Smith, D.L.; Matsui, H.

    1996-10-01

    The ATR-A1 irradiation experiment was a collaborative U.S./Japan effort to study at low temperature the effects of neutron damage on vanadium alloys. The experiment also contained a limited quantity of low-activation ferritic steel specimens from Japan as part of the collaboration agreement. The irradiation started in the Advanced Test Reactor (ATR) on November 30, 1995, and ended as planned on May 5, 1996. Total exposure was 132.9 effective full power days (EFPDs) and estimated neutron damage in the vanadium was 4.7 dpa. The vehicle has been discharged from the ATR core and is scheduled to be disassembled in the next reporting period.

  7. ATR-A1 irradiation experiment on vanadium alloys and low activation steels

    SciTech Connect

    Tasi, H.; Strain, R.V.; Gomes, I.; Hins, A.G.; Smith, D.L.

    1996-04-01

    To study the mechanical properties of vanadium alloys under neutron irradiation at low temperatures, an experiment was designed and constructed for irradiation in the Advanced Test Reactor (ATR). The experiment contained Charpy, tensile, compact tension, TEM, and creep specimens of vanadium alloys. It also contained limited low-activation ferritic steel specimens as part of the collaborative agreement with Monbusho of Japan. The design irradiation temperatures for the vanadium alloy specimens in the experiment are {approx}200 and 300{degrees}C, achieved with passive gap-gap sizing and fill gas blending. To mitigate vanadium-to-chromium transmutation from the thermal neutron flux, the test specimens are contained inside gadolinium flux filters. All specimens are lithium-bonded. The irradiation started in Cycle 108A (December 3, 1995) and is expected to have a duration of three ATR cycles and a peak influence of 4.4 dpa.

  8. Detailed Fission Power 2D-Mapping of AFIP-2 Experiment in ATR CFT Position

    SciTech Connect

    G. S. Chang; M. A. Lillo

    2008-05-01

    The NNSA (National Nuclear Security Administration) RERTR (Reduced Enrichment for Research and Test Reactors) program assigned INL (Idaho National Laboratory) the responsibility of developing and demonstrating high uranium density research reactor fuel forms to enable the use of low enriched uranium (LEU) in the research reactors around the world. A series of full-size fuel plate irradiation tests are proposed for the ATR (Advanced Test Reactor). Labeled the AFIP (ATR Full-size-plates In center flux trap Position) experiments, these tests will be conducted in the ATR center flux trap. The AFIP-2 experiment will contain two full size fuel plates fabricated at the Oak Ridge National Laboratory-Y-12 (ORNL). The nominal fuel zone is rectangular in shape having a designed length of 21.5-in (54.6l-cm), width of 1.6-in (4.064-cm), and uniform thickness of 0.014-in (0.03556-cm). This gives a nominal fuel zone volume of 0.482 in3 (7.89 cm3) in each fuel plate. The test holder accommodates two independent test trains. Each test train is designed to hold 2 plates, for a total of 4 plates per test holder. AFIP-2 test plates will be irradiated at a peak surface heat flux of about 350 W/cm2 and discharged at a peak U-235 burn-up of about 70 at.%. Based on limited irradiation testing of the monolithic (U10Mo) fuel form, it is desirable to keep the peak fuel temperature below 250°C; to achieve this, it will be necessary to keep plate heat fluxes below 500 W/cm2. Due to the heavy U-235 loading and width of 1.6-in (4.064 cm), the neutron self-shielding will increase the local-to-average-ratio fission power near the sides of the fuel plates. To assure the AFIP-2 experiment will comply with the ATR safety requirements, a very detailed 2 dimensional (2D) Y-Z fission power profile was evaluated to best predict the fuel plate temperature distribution. The ability to accurately predict fuel plate power and burnup are essential in the AFIP-2 fuel test train design and the irradiated fuel

  9. Spacelab Mission 3 experiment descriptions

    NASA Technical Reports Server (NTRS)

    Hill, C. K. (Editor)

    1982-01-01

    The Spacelab 3 mission is the first operational flight of Spacelab aboard the shuttle transportation system. The primary objectives of this mission are to conduct application, science, and technology experimentation that requires the low gravity environment of Earth orbit and an extended duration, stable vehicle attitude with emphasis on materials processing. This document provides descriptions of the experiments to be performed during the Spacelab 3 mission.

  10. Model Experiments and Model Descriptions

    NASA Technical Reports Server (NTRS)

    Jackman, Charles H.; Ko, Malcolm K. W.; Weisenstein, Debra; Scott, Courtney J.; Shia, Run-Lie; Rodriguez, Jose; Sze, N. D.; Vohralik, Peter; Randeniya, Lakshman; Plumb, Ian

    1999-01-01

    The Second Workshop on Stratospheric Models and Measurements Workshop (M&M II) is the continuation of the effort previously started in the first Workshop (M&M I, Prather and Remsberg [1993]) held in 1992. As originally stated, the aim of M&M is to provide a foundation for establishing the credibility of stratospheric models used in environmental assessments of the ozone response to chlorofluorocarbons, aircraft emissions, and other climate-chemistry interactions. To accomplish this, a set of measurements of the present day atmosphere was selected. The intent was that successful simulations of the set of measurements should become the prerequisite for the acceptance of these models as having a reliable prediction for future ozone behavior. This section is divided into two: model experiment and model descriptions. In the model experiment, participant were given the charge to design a number of experiments that would use observations to test whether models are using the correct mechanisms to simulate the distributions of ozone and other trace gases in the atmosphere. The purpose is closely tied to the needs to reduce the uncertainties in the model predicted responses of stratospheric ozone to perturbations. The specifications for the experiments were sent out to the modeling community in June 1997. Twenty eight modeling groups responded to the requests for input. The first part of this section discusses the different modeling group, along with the experiments performed. Part two of this section, gives brief descriptions of each model as provided by the individual modeling groups.

  11. Hardening neutron spectrum for advanced actinide transmutation experiments in the ATR.

    PubMed

    Chang, G S; Ambrosek, R G

    2005-01-01

    The most effective method for transmuting long-lived isotopes contained in spent nuclear fuel into shorter-lived fission products is in a fast neutron spectrum reactor. In the absence of a fast test reactor in the United States, initial irradiation testing of candidate fuels can be performed in a thermal test reactor that has been modified to produce a test region with a hardened neutron spectrum. Such a test facility, with a spectrum similar but somewhat softer than that of the liquid-metal fast breeder reactor (LMFBR), has been constructed in the INEEL's Advanced Test Reactor (ATR). The radial fission power distribution of the actinide fuel pin, which is an important parameter in fission gas release modelling, needs to be accurately predicted and the hardened neutron spectrum in the ATR and the LMFBR fast neutron spectrum is compared. The comparison analyses in this study are performed using MCWO, a well-developed tool that couples the Monte Carlo transport code MCNP with the isotope depletion and build-up code ORIGEN-2. MCWO analysis yields time-dependent and neutron-spectrum-dependent minor actinide and Pu concentrations and detailed radial fission power profile calculations for a typical fast reactor (LMFBR) neutron spectrum and the hardened neutron spectrum test region in the ATR. The MCWO-calculated results indicate that the cadmium basket used in the advanced fuel test assembly in the ATR can effectively depress the linear heat generation rate in the experimental fuels and harden the neutron spectrum in the test region.

  12. Microstructural examination of V-(3-6%)Cr-(3-5%)Ti irradiated in the ATR-A1 experiment

    SciTech Connect

    Gelles, D.S.

    1998-09-01

    Microstructural examination results are reported for four heats of V-(3-6%)Cr-(3-5%)Ti irradiated in the ATR-A1 experiment to {approximately}4 dpa at {approximately}200 and 300 C to provide an understanding of the microstructural evolution that may be associated with degradation of mechanical properties. Fine precipitates were observed in high density intermixed with small defect clusters for all conditions examined following the irradiation. The irradiation-induced precipitation does not appear to be affected by preirradiation heat treatment or composition.

  13. ATR neutron spectral characterization

    SciTech Connect

    Rogers, J.W.; Anderl, R.A.

    1995-11-01

    The Advanced Test Reactor (ATR) at INEL provides intense neutron fields for irradiation-effects testing of reactor material samples, for production of radionuclides used in industrial and medical applications, and for scientific research. Characterization of the neutron environments in the irradiation locations of the ATR has been done by means of neutronics calculations and by means of neutron dosimetry based on the use of neutron activation monitors that are placed in the various irradiation locations. The primary purpose of this report is to present the results of an extensive characterization of several ATR irradiation locations based on neutron dosimetry measurements and on least-squares-adjustment analyses that utilize both neutron dosimetry measurements and neutronics calculations. This report builds upon the previous publications, especially the reference 4 paper. Section 2 provides a brief description of the ATR and it tabulates neutron spectral information for typical irradiation locations, as derived from the more historical neutron dosimetry measurements. Relevant details that pertain to the multigroup neutron spectral characterization are covered in section 3. This discussion includes a presentation on the dosimeter irradiation and analyses and a development of the least-squares adjustment methodology, along with a summary of the results of these analyses. Spectrum-averaged cross sections for neutron monitoring and for displacement-damage prediction in Fe, Cr, and Ni are given in section 4. In addition, section4 includes estimates of damage generation rates for these materials in selected ATR irradiation locations. In section 5, the authors present a brief discussion of the most significant conclusions of this work and comment on its relevance to the present ATR core configuration. Finally, detailed numerical and graphical results for the spectrum-characterization analyses in each irradiation location are provided in the Appendix.

  14. Tensile and impact properties of vanadium-base alloys irradiated at low temperatures in the ATR-A1 experiment

    SciTech Connect

    Tsai, H.; Nowicki, L.J.; Billone, M.C.; Chung, H.M.; Smith, D.L.

    1998-03-01

    Subsize tensile and Charpy specimens made from several V-(4-5)Cr-(4-5)Ti alloys were irradiated in the ATR-A1 experiment to study the effects of low-temperature irradiation on mechanical properties. These specimens were contained in lithium-bonded subcapsules and irradiated at temperatures between {approx}200 and 300 C. Peak neutron damage was {approx}4.7 dpa. Postirradiation testing of these specimens has begun. Preliminary results from a limited number of specimens indicate a significant loss of work-hardening capability and dynamic toughness due to the irradiation. These results are consistent with data from previous low-temperature neutron irradiation experiments on these alloys.

  15. Measuring Heterogeneous Reaction Rates with ATR-FTIR Spectroscopy to Evaluate Chemical Fates in an Atmospheric Environment: A Physical Chemistry and Environmental Chemistry Laboratory Experiment

    ERIC Educational Resources Information Center

    Roberts, Jason E.; Zeng, Guang; Maron, Marta K.; Mach, Mindy; Dwebi, Iman; Liu, Yong

    2016-01-01

    This paper reports an undergraduate laboratory experiment to measure heterogeneous liquid/gas reaction kinetics (ozone-oleic acid and ozone-phenothrin) using a flow reactor coupled to an attenuated total reflectance-Fourier transform infrared (ATR-FTIR) spectrometer. The experiment is specially designed for an upper-level undergraduate Physical…

  16. Monitoring the distribution of surfactants in the stratum corneum by combined ATR-FTIR and tape-stripping experiments.

    PubMed

    Hoppel, Magdalena; Holper, Evelyn; Baurecht, Dieter; Valenta, Claudia

    2015-01-01

    Combined ATR-FTIR (attenuated total reflection-Fourier transform infrared) spectroscopy and tape-stripping experiments in vitro on porcine ear skin were used to investigate the spatial distribution of different surfactants in the stratum corneum (SC). To reveal a possible connection between the size of the formed micelles and skin penetration, dynamic light-scattering measurements of the aqueous surfactant solutions were also taken. Compared to an alkyl polyglycoside and sucrose laurate, a deeper skin penetration of the anionic surfactants sodium dodecyl sulfate (SDS) und sodium lauryl ether sulfate (SLES) could be related to a smaller size of the formed micelles. Beside the differences in spatial distribution, a link between the physical presence of anionic surfactants in the SC and a decrease of skin hydration was found. Furthermore, the incorporation of SDS and SLES into the SC, even after a brief, consumer-orientated washing procedure with commercially available hair shampoos, was confirmed. PMID:25612540

  17. Monitoring the distribution of surfactants in the stratum corneum by combined ATR-FTIR and tape-stripping experiments.

    PubMed

    Hoppel, Magdalena; Holper, Evelyn; Baurecht, Dieter; Valenta, Claudia

    2015-01-01

    Combined ATR-FTIR (attenuated total reflection-Fourier transform infrared) spectroscopy and tape-stripping experiments in vitro on porcine ear skin were used to investigate the spatial distribution of different surfactants in the stratum corneum (SC). To reveal a possible connection between the size of the formed micelles and skin penetration, dynamic light-scattering measurements of the aqueous surfactant solutions were also taken. Compared to an alkyl polyglycoside and sucrose laurate, a deeper skin penetration of the anionic surfactants sodium dodecyl sulfate (SDS) und sodium lauryl ether sulfate (SLES) could be related to a smaller size of the formed micelles. Beside the differences in spatial distribution, a link between the physical presence of anionic surfactants in the SC and a decrease of skin hydration was found. Furthermore, the incorporation of SDS and SLES into the SC, even after a brief, consumer-orientated washing procedure with commercially available hair shampoos, was confirmed.

  18. ATR-FTIR Spectroscopy in the Undergraduate Chemistry Laboratory: Part II--A Physical Chemistry Laboratory Experiment on Surface Adsorption

    ERIC Educational Resources Information Center

    Schuttlefield, Jennifer D.; Larsen, Sarah C.; Grassian, Vicki H.

    2008-01-01

    Attenuated total reflectance-Fourier transform infrared (ATR-FTIR) spectroscopy is a useful technique for measuring the infrared spectra of solids and liquids as well as probing adsorption on particle surfaces. The use of FTIR-ATR spectroscopy in organic and inorganic chemistry laboratory courses as well as in undergraduate research was presented…

  19. PUREX new substation ATR

    SciTech Connect

    Nelson, D.E.

    1997-05-12

    This document is the acceptance test report (ATR) for the New PUREX Main and Minisubstations. It covers the factory and vendor acceptance and commissioning test reports. Reports are presented for the Main 5 kV substation building, the building fire system, switchgear, and vacuum breaker; the minisubstation control building and switch gear; commissioning test; electrical system and loads inspection; electrical utilities transformer and cable; and relay setting changes based on operational experience.

  20. Safety Assurance for ATR Irradiations

    SciTech Connect

    S. Blaine Grover

    2006-10-01

    The Advanced Test Reactor (ATR) located at the Idaho National Laboratory (INL) is the world’s premiere test reactor for performing high fluence, large volume, irradiation test programs. The ATR has many capabilities and a wide variety of tests are performed in this truly one of a kind reactor, including isotope production, simple self-contained static capsule experiments, instrumented/controlled experiments, and loop testing under pressurized water conditions. Along with the five pressurized water loops, ATR may also have gas (temperature controlled) lead experiments, fuel boosted fast flux experiments, and static sealed capsules all in the core at the same time. In addition, any or all of these tests may contain fuel or moderating materials that can affect reactivity levels in the ATR core. Therefore the safety analyses required to ensure safe operation of each experiment as well as the reactor itself are complex. Each test has to be evaluated against stringent reactor control safety criteria, as well as the effects it could have on adjacent tests and the reactor as well as the consequences of those effects. The safety analyses of each experiment are summarized in a document entitled the Experiment Safety Assurance Package (ESAP). The ESAP references and employs the results of the reactor physics, thermal, hydraulic, stress, seismic, vibration, and all other analyses necessary to ensure the experiment can be irradiated safely in the ATR. The requirements for reactivity worth, chemistry compatibilities, pressure limitations, material issues, etc. are all specified in the Technical Safety Requirements and the Upgraded Final Safety Analysis Report (UFSAR) for the ATR. This paper discusses the ESAP process, types of analyses, types of safety requirements and the approvals necessary to ensure an experiment can be safely irradiated in the ATR.

  1. Analysis of the DHCE experiment in the position A10 of the ATR reactor

    SciTech Connect

    Gomes, I.C.; Smith, D.L.; Tsai, H.

    1997-08-01

    Calculations were performed to assess the possibility of performing DHCE experiments in mixed spectrum fission reactors. Calculated values of key parameters were compared with limit values for each quantity. The values calculated were: He-4 production from the {sup 6}Li(n,t){sup 4}He reaction, tritium leakage, required tritium concentration in lithium, initial tritium charge per capsule, and helium to dpa ratio after 10 dpa of irradiation.

  2. Fabrication Report for the AFC-2A and AFC-2B Capsule Irradiations in the ATR

    SciTech Connect

    Timothy A. Hyde

    2007-10-01

    This document provides a general narrative description of the AFC-2A and 2B fuel fabrication processes for the AFC 2A and AFC 2B fuel irradiation experiments fabricated at the Idaho National Laboratory’s Materials and Fuels Complex (MFC) for irradiation in the Advanced Test Reactor (ATR).

  3. ATR performance modeling concepts

    NASA Astrophysics Data System (ADS)

    Ross, Timothy D.; Baker, Hyatt B.; Nolan, Adam R.; McGinnis, Ryan E.; Paulson, Christopher R.

    2016-05-01

    Performance models are needed for automatic target recognition (ATR) development and use. ATRs consume sensor data and produce decisions about the scene observed. ATR performance models (APMs) on the other hand consume operating conditions (OCs) and produce probabilities about what the ATR will produce. APMs are needed for many modeling roles of many kinds of ATRs (each with different sensing modality and exploitation functionality combinations); moreover, there are different approaches to constructing the APMs. Therefore, although many APMs have been developed, there is rarely one that fits a particular need. Clarified APM concepts may allow us to recognize new uses of existing APMs and identify new APM technologies and components that better support coverage of the needed APMs. The concepts begin with thinking of ATRs as mapping OCs of the real scene (including the sensor data) to reports. An APM is then a mapping from explicit quantized OCs (represented with less resolution than the real OCs) and latent OC distributions to report distributions. The roles of APMs can be distinguished by the explicit OCs they consume. APMs used in simulations consume the true state that the ATR is attempting to report. APMs used online with the exploitation consume the sensor signal and derivatives, such as match scores. APMs used in sensor management consume neither of those, but estimate performance from other OCs. This paper will summarize the major building blocks for APMs, including knowledge sources, OC models, look-up tables, analytical and learned mappings, and tools for signal synthesis and exploitation.

  4. Spacelab mission 1 experiment descriptions, third edition

    NASA Technical Reports Server (NTRS)

    Craven, P. D. (Editor)

    1983-01-01

    Experiments and facilities selected for flight on the first Spacelab mission are described. Chosen from responses to the Announcement of Opportunity for the Spacelab 1 mission, the experiments cover five broad areas of investigation: atmospheric physics and Earth observations; space plasma physics; astronomy and solar physics; material sciences and technology; and life sciences. The name of the principal investigator and country is listed for each experiment.

  5. Description of the Joint Damping Experiment (JDX)

    NASA Technical Reports Server (NTRS)

    Folkman, Steven L.; Redd, Frank J.

    1992-01-01

    The overall objective is to develop a small-scale shuttle flight experiment which allows researchers to: (1) characterize the influence of gravity and joint gaps on a small-scale truss model, and (2) evaluate the applicability of low-g aircraft test results for predicting on-orbit behavior. The experiment consists of a three-bay truss and associated hardware for truss excitation and measurement of oscillations. Other aspects of the investigation are presented in viewgraph form.

  6. ATS-6 description. [experiments and objectives

    NASA Technical Reports Server (NTRS)

    Redisch, W. N.

    1975-01-01

    Basic design features of Applications Technology Satellite-6 (ATS-6) are discussed, and a variety of experiments carried out with the satellite is described. The 9.1 m reflector is a furlable 48-rib design. The earth viewing module housing most of the electronics is connected to the reflector by an A-frame truss made of graphic fiber reinforced plastic with excellent dimensional stability over a wide temperature range. The solar arrays, extended beyond the diameter of the reflector, are fixed hemi-cylinders consisting of 16 flat panels each. The communications system is an integrated multifrequency RF repeater capable of receiving up to 3 signals in any of 4 frequency bands (C, S, L, VHF) and retransmitting them on any desired frequency in 4 frequency bands (C, S, L, UHF). Results of the Tracking and Data Relay Experiment with GEOS-3 are summarized. Accuracies of 0.1 to 0.2 deg have been maintained in the programmed mode of tracking using the ATS-6 Digital Operational Controller, and communications links for the relay of 1.56 kilobit telemetry data from GEOS and for acquisition of range and range rate data performed as predicted or better.

  7. The Oriented Scintillation Spectrometer Experiment - Instrument description

    NASA Astrophysics Data System (ADS)

    Johnson, W. N.; Kinzer, R. L.; Kurfess, J. D.; Strickman, M. S.; Purcell, W. R.; Grabelsky, D. A.; Ulmer, M. P.; Hillis, D. A.; Jung, G. V.; Cameron, R. A.

    1993-06-01

    The Oriented Scintillation Spectrometer Experiment on the Arthur Holly Compton Gamma Ray Observatory satellite uses four actively shielded NaI (Tl)-CsI(Na) phoswich detectors to provide gamma-ray line and continuum detection capability in the 0.05-10 MeV energy range. The instrument includes secondary capabilities for gamma-ray and neutron detection between 10 and 250 MeV. The detectors have 3.8 deg x 11.04 deg (FWHM) fields of view defined by tungsten collimators. Each detector has an independent, single-axis orientation system which permits offset pointing from the spacecraft Z-axis for background measurements and multitarget observations. The instrument, and its calibration and performance, are described.

  8. Vanadium irradiation at ATR - neutronics aspects

    SciTech Connect

    Gomes, I.C.; Smith, D.L.

    1995-04-01

    Calculations were performed to estimate damage and transmutation rates in vanadium irradiated in the ATR (Advanced Test Reactor) located in Idaho. The main focuses of the study are to evaluate the transmutation of vanadium to chromium and to explore ways to design the irradiation experiment to avoid excessive transmutation. It was found that the A-hole of ATR produces damage rate of {approximately} 0.2%/dpa of vanadium to chromium. A thermal neutron filter can be incorporated into the design to reduce the vanadium-to-chromium transmutation rate to low levels. A filter 1-2 mm thick of gadolinium or hafnium can be used.

  9. Overview of the ATR Power Supplies

    NASA Astrophysics Data System (ADS)

    Bruno, D.; Soukas, A.; Toldo, F.; Lambiase, B.

    1997-05-01

    The AGS to RHIC transfer Line (ATR) transports a variety of beams from the Alternating Gradient Synchrotron (AGS) which gets its input from the Booster Synchrotron. In turn, the Booster receives input beams from either a Tandem Van de Graaff (heavy ions) or a Linac(protons). The AGS extracts beam bunches, up to a rate of 30 Hertz, to the ATR which will eventually feed the Relativistic Heavy Ion Collider (RHIC) starting with the sextant test in January of 1996. The ATR is made up of the upgraded U line and the new W, X and Y lines. A test in 1995 transported beam to the end of the W line. During normal operation, a pulsed switching magnet at the end of the W line will bend the beam into the X line or the Y line so that the two rings in RHIC are filled with counter rotating beams. The ATR line is comprised of 80 power supplies (PS's), 17 of which are upgraded AGS PS's. The remaining 63 PS's were newly purchased. These PS's range from bipolar 600 watt linear type trim magnet PS's to 1 Megawatt, thyristor, dipole PS's. Results of the commissioning runs will be presented, as well as descriptions of regulation, filtering, and analog and digital controls.

  10. Overview of the ATR power supplies

    SciTech Connect

    Bruno, D.; Soukas, A.; Toldo, F.; Lambiase, R.F.

    1997-07-01

    The AGS to RHIC transfer line (ATR) transports a variety of beams from the Alternating Gradient Synchrotron (AGS) which gets its input from the Booster Synchrotron. In turn, the Booster receives input beams from either a Tandem Van de Graaff (heavy ions) or a Linac (protons). The AGS extracts beam bunches, up to a rate of 30 Hertz, to the ATR which feeds the Relativistic Heavy Ion Collider (RHIC) starting with the sextant test in January of 1997. The ATR is made up of the upgraded U line and the new W, X, and Y lines. A test in 1995 transported beam to the end of the W line. During normal operation, a pulsed switching magnet at the end of the W line will bend the beam into the X line or the Y line so that the two storage rings in RHIC are filled with counter rotating beams. The ATR line is comprised of 80 power supplies (PS`s), 17 of which are upgraded AGS PS`s. The remaining 63 PS`s were newly purchased. These PS`s range from bipolar 600 watt linear type trim magnet PS`s to 1 Megawatt, thyristor, dipole PS`s. Results of the commissioning runs will be presented, as well as descriptions of regulation, filtering, and analog and digital controls.

  11. As-Run Thermal Analysis of the GTL-1 Experiment Irradiated in the ATR South Flux Trap

    SciTech Connect

    Donna P. Guillen

    2011-05-01

    The GTL-1 experiment was conducted to assess corrosion the performance of the proposed Boosted Fast Flux Loop booster fuel at heat flux levels {approx}30% above the design operating condition. Sixteen miniplates fabricated from 25% enriched, high-density U3Si2/Al dispersion fuel with 6061 aluminum cladding were subjected to peak beginning of cycle (BOC) heat fluxes ranging from 411 W/cm2 to 593 W/cm2. Miniplates fabricated with three different fuel variations (without fines, annealed, and with standard powder) performed equally well, with negligible irradiation-induced swelling and a normal fission density gradient. Both the standard and the modified prefilm procedures produced hydroxide films that adequately protected the miniplates from failure. A detailed finite element model was constructed to calculate temperatures and heat flux for an as-run cycle average effective south lobe power of 25.4 MW(t). Results of the thermal analysis are given at four times during the cycle: BOC at 0 effective full power days (EFPD), middle of cycle (MOC) at 18 EFPD, MOC at 36 EFPD, and end of cycle at 48.9 EFPD. The highest temperatures and heat fluxes occur at the BOC and decrease in a linear manner throughout the cycle. Miniplate heat flux levels and fuel, cladding, hydroxide, and coolant-hydroxide interface temperatures were calculated using the average measured hydroxide thickness on each miniplate. The hydroxide layers are the largest on miniplates nearest to the core midplane, where heat flux and temperature are highest. The hydroxide layer thickness averages 20.4 {mu}m on the six hottest miniplates (B3, B4, C1, C2, C3, and C4). This tends to exacerbate the heating of these miniplates, since a thicker hydroxide layer reduces the heat transfer from the fuel to the coolant. These six hottest miniplates have the following thermal characteristics at BOC: (1) Peak fuel centerline temperature >300 C; (2) Peak cladding temperature >200 C; (3) Peak hydroxide temperature >190 C; (4

  12. Quantum theory as the most robust description of reproducible experiments

    SciTech Connect

    De Raedt, Hans; Katsnelson, Mikhail I.; Michielsen, Kristel

    2014-08-15

    It is shown that the basic equations of quantum theory can be obtained from a straightforward application of logical inference to experiments for which there is uncertainty about individual events and for which the frequencies of the observed events are robust with respect to small changes in the conditions under which the experiments are carried out. - Highlights: • It is shown that logical inference, that is, inductive reasoning, provides a rational explanation for the success of quantum theory. • The Schrödinger equation is obtained through logical inference applied to robust experiments. • The singlet and triplet states follow from logical inference applied to the Einstein-Podolsky-Rosen-Bohm experiment. • Robustness also leads to the quantum theoretical description of the Stern-Gerlach experiment.

  13. Reproducible computational biology experiments with SED-ML - The Simulation Experiment Description Markup Language

    PubMed Central

    2011-01-01

    Background The increasing use of computational simulation experiments to inform modern biological research creates new challenges to annotate, archive, share and reproduce such experiments. The recently published Minimum Information About a Simulation Experiment (MIASE) proposes a minimal set of information that should be provided to allow the reproduction of simulation experiments among users and software tools. Results In this article, we present the Simulation Experiment Description Markup Language (SED-ML). SED-ML encodes in a computer-readable exchange format the information required by MIASE to enable reproduction of simulation experiments. It has been developed as a community project and it is defined in a detailed technical specification and additionally provides an XML schema. The version of SED-ML described in this publication is Level 1 Version 1. It covers the description of the most frequent type of simulation experiments in the area, namely time course simulations. SED-ML documents specify which models to use in an experiment, modifications to apply on the models before using them, which simulation procedures to run on each model, what analysis results to output, and how the results should be presented. These descriptions are independent of the underlying model implementation. SED-ML is a software-independent format for encoding the description of simulation experiments; it is not specific to particular simulation tools. Here, we demonstrate that with the growing software support for SED-ML we can effectively exchange executable simulation descriptions. Conclusions With SED-ML, software can exchange simulation experiment descriptions, enabling the validation and reuse of simulation experiments in different tools. Authors of papers reporting simulation experiments can make their simulation protocols available for other scientists to reproduce the results. Because SED-ML is agnostic about exact modeling language(s) used, experiments covering models from

  14. The 30/20 GHz flight experiment system, phase 2. Volume 2: Experiment system description

    NASA Technical Reports Server (NTRS)

    Bronstein, L.; Kawamoto, Y.; Ribarich, J. J.; Scope, J. R.; Forman, B. J.; Bergman, S. G.; Reisenfeld, S.

    1981-01-01

    A detailed technical description of the 30/20 GHz flight experiment system is presented. The overall communication system is described with performance analyses, communication operations, and experiment plans. Hardware descriptions of the payload are given with the tradeoff studies that led to the final design. The spacecraft bus which carries the payload is discussed and its interface with the launch vehicle system is described. Finally, the hardwares and the operations of the terrestrial segment are presented.

  15. Microwave remote sensing of snow experiment description and preliminary results

    NASA Technical Reports Server (NTRS)

    Ulaby, F. T. (Principal Investigator); Stiles, W. H.; Hanson, B. C.

    1977-01-01

    The active and passive microwave responses to snow were investigated at a site near Steamboat Springs, Colorado during the February and March winter months. The microwave equipment was mounted atop truck-mounted booms. Data were acquired at numerous frequencies, polarizations, and angles of incidence for a variety of snow conditions. The experiment description, the characteristics of the microwave and ground truth instruments, and the results of a preliminary analysis of a small portion of the total data volume acquired in Colorado are documented.

  16. Experimental test accelerator: description and results of initial experiments

    SciTech Connect

    Fessenden, T.; Birx, D.; Briggs, R.

    1980-06-02

    The ETA is a high current (10,000 Amp) linear induction accelerator that produces short (30 ns) pulses of electrons at 5 MeV twice per second or in bursts of 5 pulses separated by as little as one millisecond. At this time the machine has operated at 65% of its design current and 90% of the design voltage. This report contains a description of the accelerator and its diagnostics; the results of the initial year of operation; a comparison of design codes with experiments on beam transport; and a discussion of some of the special problems and their status.

  17. Flight Experiment Demonstration System (FEDS) functional description and interface document

    NASA Technical Reports Server (NTRS)

    Belcher, R. C.; Shank, D. E.

    1984-01-01

    This document presents a functional description of the Flight Experiment Demonstration System (FEDS) and of interfaces between FEDS and external hardware and software. FEDS is a modification of the Automated Orbit Determination System (AODS). FEDS has been developed to support a ground demonstration of microprocessor-based onboard orbit determination. This document provides an overview of the structure and logic of FEDS and details the various operational procedures to build and execute FEDS. It also documents a microprocessor interface between FEDS and a TDRSS user transponder and describes a software simulator of the interface used in the development and system testing of FEDS.

  18. Quantum theory as the most robust description of reproducible experiments

    NASA Astrophysics Data System (ADS)

    De Raedt, Hans; Katsnelson, Mikhail I.; Michielsen, Kristel

    2014-08-01

    It is shown that the basic equations of quantum theory can be obtained from a straightforward application of logical inference to experiments for which there is uncertainty about individual events and for which the frequencies of the observed events are robust with respect to small changes in the conditions under which the experiments are carried out. There is no quantum world. There is only an abstract physical description. It is wrong to think that the task of physics is to find out how nature is. Physics concerns what we can say about nature [45]. Physics is to be regarded not so much as the study of something a priori given, but rather as the development of methods of ordering and surveying human experience. In this respect our task must be to account for such experience in a manner independent of individual subjective judgment and therefore objective in the sense that it can be unambiguously communicated in ordinary human language [46]. The physical content of quantum mechanics is exhausted by its power to formulate statistical laws governing observations under conditions specified in plain language [46]. The first two sentences of the first quote may be read as a suggestion to dispose of, in Mermin's words [47], the "bad habit" to take mathematical abstractions as the reality of the events (in the everyday sense of the word) that we experience through our senses. Although widely circulated, these sentences are reported by Petersen [45] and there is doubt that Bohr actually used this wording [48]. The last two sentences of the first quote and the second quote suggest that we should try to describe human experiences (confined to the realm of scientific inquiry) in a manner and language which is unambiguous and independent of the individual subjective judgment. Of course, the latter should not be construed to imply that the observed phenomena are independent of the choices made by the individual(s) in performing the scientific experiment [49].The third quote

  19. ATR National Scientific User Facility 2009 Annual Report

    SciTech Connect

    Todd R. Allen; Mitchell K. Meyer; Frances Marshall; Mary Catherine Thelen; Jeff Benson

    2010-11-01

    This report describes activities of the ATR NSUF from FY-2008 through FY-2009 and includes information on partner facilities, calls for proposals, users week and education programs. The report also contains project information on university research projects that were awarded by ATR NSUF in the fiscal years 2008 & 2009. This research is university-proposed researcher under a user facility agreement. All intellectual property from these experiments belongs to the university per the user agreement.

  20. HEATR project: ATR algorithm parallelization

    NASA Astrophysics Data System (ADS)

    Deardorf, Catherine E.

    1998-09-01

    High Performance Computing (HPC) Embedded Application for Target Recognition (HEATR) is a project funded by the High Performance Computing Modernization Office through the Common HPC Software Support Initiative (CHSSI). The goal of CHSSI is to produce portable, parallel, multi-purpose, freely distributable, support software to exploit emerging parallel computing technologies and enable application of scalable HPC's for various critical DoD applications. Specifically, the CHSSI goal for HEATR is to provide portable, parallel versions of several existing ATR detection and classification algorithms to the ATR-user community to achieve near real-time capability. The HEATR project will create parallel versions of existing automatic target recognition (ATR) detection and classification algorithms and generate reusable code that will support porting and software development process for ATR HPC software. The HEATR Team has selected detection/classification algorithms from both the model- based and training-based (template-based) arena in order to consider the parallelization requirements for detection/classification algorithms across ATR technology. This would allow the Team to assess the impact that parallelization would have on detection/classification performance across ATR technology. A field demo is included in this project. Finally, any parallel tools produced to support the project will be refined and returned to the ATR user community along with the parallel ATR algorithms. This paper will review: (1) HPCMP structure as it relates to HEATR, (2) Overall structure of the HEATR project, (3) Preliminary results for the first algorithm Alpha Test, (4) CHSSI requirements for HEATR, and (5) Project management issues and lessons learned.

  1. Problem set guidelines to facilitate ATR research, development, and performance assessments

    NASA Astrophysics Data System (ADS)

    Westerkamp, Lori A.; Wild, Thomas J.; Meredith, Donna; Morrison, S. A.; Mossing, John C.; Avent, Randy K.; Bergman, Annette; Bruckheim, Arthur; Castanon, David A.; Corbett, Francis J.; Hugo, Douglas; Hummel, Robert A.; Irvine, John M.; Merle, Bruce; Otto, Louis; Reynolds, Robert; Sadowski, Charles; Schachter, Bruce J.; Simonson, Katherine M.; Smit, Gene; Walters, Clarence P.

    2002-07-01

    In November of 2000, the Deputy Under Secretary of Defense for Science and Technology Sensor Systems (DUSD (S&T/SS)) chartered the ATR Working Group (ATRWG) to develop guidelines for sanctioned Problem Sets. Such Problem Sets are intended for development and test of ATR algorithms and contain comprehensive documentation of the data in them. A problem set provides a consistent basis to examine ATR performance and growth. Problem Sets will, in general, serve multiple purposes. First, they will enable informed decisions by government agencies sponsoring ATR development and transition. Problem Sets standardize the testing and evaluation process, resulting in consistent assessment of ATR performance. Second, they will measure and guide ATR development progress within this standardized framework. Finally, they quantify the state of the art for the community. Problem Sets provide clearly defined operating condition coverage. This encourages ATR developers to consider these critical challenges and allows evaluators to assess over them. Thus the widely distributed development and self-test portions, along with a disciplined methodology documented within the Problem Set, permit ATR developers to address critical issues and describe their accomplishments, while the sequestered portion permits government assessment of state-of-the-art and of transition readiness. This paper discusses the elements of an ATR problem set as a package of data and information that presents a standardized ATR challenge relevant to one or more scenarios. The package includes training and test data containing targets and clutter, truth information, required experiments, and a standardized analytical methodology to assess performance.

  2. Description of the Large-Gap Magnetic Suspension System (LGMSS) ground based experiment

    NASA Technical Reports Server (NTRS)

    Groom, Nelson J.

    1991-01-01

    An overview of the Large Gap Magnetic Suspension System (LGMSS) ground-based experiment is provided. A description of the experiment, as originally defined, and the experiment objectives and potential applications of the technology resulting from the experiment are presented. Also, the results of two studies which were conducted to investigate the feasibility of implementing the experiment are presented and discussed. Finally, a description of the configuration which was selected for the experiment is described, and a summary of the paper is presented.

  3. Experimenting with Impacts in a Conceptual Physics or Descriptive Astronomy Laboratory

    ERIC Educational Resources Information Center

    LoPresto, Michael C.

    2016-01-01

    What follows is a description of the procedure for and results of a simple experiment on the formation of impact craters designed for the laboratory portions of lower mathematical-level general education science courses such as conceptual physics or descriptive astronomy. The experiment provides necessary experience with data collection and…

  4. An informative confidence metric for ATR.

    SciTech Connect

    Bow, Wallace Johnston Jr.; Richards, John Alfred; Bray, Brian Kenworthy

    2003-03-01

    Automatic or assisted target recognition (ATR) is an important application of synthetic aperture radar (SAR). Most ATR researchers have focused on the core problem of declaration-that is, detection and identification of targets of interest within a SAR image. For ATR declarations to be of maximum value to an image analyst, however, it is essential that each declaration be accompanied by a reliability estimate or confidence metric. Unfortunately, the need for a clear and informative confidence metric for ATR has generally been overlooked or ignored. We propose a framework and methodology for evaluating the confidence in an ATR system's declarations and competing target hypotheses. Our proposed confidence metric is intuitive, informative, and applicable to a broad class of ATRs. We demonstrate that seemingly similar ATRs may differ fundamentally in the ability-or inability-to identify targets with high confidence.

  5. FLUX SENSOR EVALUATIONS AT THE ATR CRITICAL FACILITY

    SciTech Connect

    Troy Unruh; Joy Rempe; David Nigg; George Imel; Jason Harris; Eric Bonebrake

    2010-11-01

    The Advanced Test Reactor (ATR) and the ATR Critical (ATRC) facilities lack real-time methods for detecting thermal neutron flux and fission reaction rates for irradiation capsules. Direct measurements of the actual power deposited into a test are now possible without resorting to complicated correction factors. In addition, it is possible to directly measure minor actinide fission reaction rates and to provide time-dependent monitoring of the fission reaction rate or fast/thermal flux during transient testing. A joint Idaho State University /Idaho National Laboratory ATR National Scientific User Facility (ATR NSUF) project was recently initiated to evaluate new real-time state-of-the-art in-pile flux detection sensors. Initially, the project is comparing the accuracy, response time, and long duration performance of French Atomic Energy Commission (CEA)-developed miniature fission chambers, specialized self-powered neutron detectors (SPNDs) by the Argentinean National Energy Commission (CNEA), specially developed commercial SPNDs, and back-to-back fission (BTB) chambers developed by Argonne National Laboratory (ANL). As discussed in this paper, specialized fixturing and software was developed by INL to facilitate these joint ISU/INL evaluations. Calculations were performed by ISU to assess the performance of and reduce uncertainties in flux detection sensors and compare data obtained from these sensors with existing integral methods employed at the ATRC. Ultimately, project results will be used to select the detector that can provide the best online regional ATRC power measurement. It is anticipated that project results may offer the potential to increase the ATRC’s current power limit and its ability to perform low-level irradiation experiments. In addition, results from this effort will provide insights about the viability of using these detectors in the ATR. Hence, this effort complements current activities to improve ATR software tools, computational

  6. Processing Differences between Descriptions and Experience: A Comparative Analysis Using Eye-Tracking and Physiological Measures.

    PubMed

    Glöckner, Andreas; Fiedler, Susann; Hochman, Guy; Ayal, Shahar; Hilbig, Benjamin E

    2012-01-01

    Do decisions from description and from experience trigger different cognitive processes? We investigated this general question using cognitive modeling, eye-tracking, and physiological arousal measures. Three novel findings indeed suggest qualitatively different processes between the two types of decisions. First, comparative modeling indicates that evidence-accumulation models assuming averaging of all fixation-sampled outcomes predict choices best in decisions from experience, whereas Cumulative Prospect Theory predicts choices best in decisions from descriptions. Second, arousal decreased with increasing difference in expected value between gambles in description-based choices but not in experience. Third, the relation between attention and subjective weights given to outcomes was stronger for experience-based than for description-based tasks. Overall, our results indicate that processes in experience-based risky choice can be captured by sampling-and-averaging evidence-accumulation model. This model cannot be generalized to description-based decisions, in which more complex mechanisms are involved.

  7. Descriptions of Space Processing Applications Rocket (SPAR) experiments

    NASA Technical Reports Server (NTRS)

    Naumann, R. J. (Editor)

    1979-01-01

    The experiments for all the Space Processing Applications Rocket experiments, including those flown on previous Space Processing flights as well as those under development for future flights are described. The experiment objective, rationale, approach, and results or anticipated results are summarized.

  8. Quantum theory as a description of robust experiments: application to Stern-Gerlach and Einstein-Podolsky-Rosen-Bohm experiments

    NASA Astrophysics Data System (ADS)

    Roychoudhuri, Chandrasekhar; Kracklauer, Al F.; De Raedt, Hans

    2015-09-01

    We propose and develop the thesis that the quantum theoretical description of experiments emerges from the desire to organize experimental data such that the description of the system under scrutiny and the one used to acquire the data are separated as much as possible. Application to the Stern-Gerlach and Einstein-Podolsky-Rosen-Bohm experiments are shown to support this thesis. General principles of logical inference which have been shown to lead to the Schr\\"odinger and Pauli equation and the probabilistic descriptions of the Stern-Gerlach and Einstein-Podolsky-Rosen-Bohm experiments, are used to demonstrate that the condition for the separation procedure to yield the quantum theoretical description is intimately related to the assumptions that the observed events are independent and that the data generated by these experiments is robust with respect to small changes of the conditions under which the experiment is carried out.

  9. Gradient Heating Facility. Experiment cartridges. Description and general specifications

    NASA Technical Reports Server (NTRS)

    Breton, J.

    1982-01-01

    Specifications that define experiment cartridges that are compatible with the furnace of the gradient heating facility on board the Spacelab are presented. They establish a standard cartridge design independent of the type of experiment to be conducted. By using them, experimenters can design, construct, and test the hot section of the cartridge, known as the high temperature nacelle.

  10. ATR CONTRIBUTES TO CELL CYCLE ARREST AND SURVIVAL AFTER CISPLATIN BUT NOT OXALIPLATIN1

    PubMed Central

    Lewis, Kriste A.; Lilly, Kia K.; Reynolds, Evelyn A.; Sullivan, William P.; Kaufmann, Scott H.; Cliby, William A.

    2009-01-01

    The DNA cross-linking agents cisplatin and oxaliplatin are widely used in the treatment of human cancer. Lesions produced by these agents are widely known to activate the G1 and G2 cell cycle checkpoints. Less is known about the role of the intra-S phase checkpoint in the response to these agents. In the present study, two different cell lines expressing a dominant negative kinase-dead (kd) version of the ATR (ataxia telangiectasia and rad3-related) kinase in an inducible fashion were examined for their responses to these two platinating agents and a variety of other DNA cross-linking drugs. Expression of the kdATR allele markedly sensitized the cells to cisplatin, but not oxaliplatin, as assessed by inhibition of colony formation, induction of apoptosis, and cell cycle analysis. Similar differences in survival were noted for melphalan (ATR-dependent) and 4-hydroperoxycyclophosphamide (4HC) (ATR-independent). Further experiments demonstrated that ATR function is not necessary for removal of Pt-DNA adducts. The predominant difference between the responses to the two platinum drugs was presence of a drug-specific ATR-dependent S phase arrest after cisplatin but not oxaliplatin. These results indicate that involvement of ATR in the response to DNA cross-linking agents is lesion specific. This observation might need to be taken into account in the development and use of ATR or Chk1 inhibitors. PMID:19372558

  11. Description of the Spacecraft Control Laboratory Experiment (SCOLE) facility

    NASA Technical Reports Server (NTRS)

    Williams, Jeffrey P.; Rallo, Rosemary A.

    1987-01-01

    A laboratory facility for the study of control laws for large flexible spacecraft is described. The facility fulfills the requirements of the Spacecraft Control Laboratory Experiment (SCOLE) design challenge for laboratory experiments, which will allow slew maneuvers and pointing operations. The structural apparatus is described in detail sufficient for modelling purposes. The sensor and actuator types and characteristics are described so that identification and control algorithms may be designed. The control implementation computer and real-time subroutines are also described.

  12. Description of the Spacecraft Control Laboratory Experiment (SCOLE) facility

    NASA Technical Reports Server (NTRS)

    Williams, Jeffrey P.; Rallo, Rosemary A.

    1987-01-01

    A laboratory facility for the study of control laws for large flexible spacecraft is described. The facility fulfills the requirements of the Spacecraft Control Laboratory Experiment (SCOLE) design challenge for a laboratory experiment, which will allow slew maneuvers and pointing operations. The structural apparatus is described in detail sufficient for modelling purposes. The sensor and actuator types and characteristics are described so that identification and control algorithms may be designed. The control implementation computer and real-time subroutines are also described.

  13. The Plasma Interaction Experiment (PIX) description and test program. [electrometers

    NASA Technical Reports Server (NTRS)

    Ignaczak, L. R.; Haley, F. A.; Domino, E. J.; Culp, D. H.; Shaker, F. J.

    1978-01-01

    The plasma interaction experiment (PIX) is a battery powered preprogrammed auxiliary payload on the LANDSAT-C launch. This experiment is part of a larger program to investigate space plasma interactions with spacecraft surfaces and components. The varying plasma densities encountered during available telemetry coverage periods are deemed sufficient to determine first order interactions between the space plasma environment and the biased experimental surfaces. The specific objectives of the PIX flight experiment are to measure the plasma coupling current and the negative voltage breakdown characteristics of a solar array segment and a gold plated steel disk. Measurements will be made over a range of surface voltages up to plus or minus kilovolt. The orbital environment will provide a range of plasma densities. The experimental surfaces will be voltage biased in a preprogrammed step sequence to optimize the data returned for each plasma region and for the available telemetry coverage.

  14. High School Teachers' Experiences with Suicidal Students: A Descriptive Study

    ERIC Educational Resources Information Center

    Freedenthal, Stacey; Breslin, Lindsey

    2010-01-01

    Teachers are widely considered key gatekeepers to mental health services for students at risk for suicide. Using data from 120 teachers at two Denver-area high schools, this study investigated teachers' experiences with suicidal students. Analyses revealed that the majority of teachers (58.8%) reported that at least one student had disclosed…

  15. FABS (Formulated Abstracting): An Experiment in Regularized Content Description.

    ERIC Educational Resources Information Center

    Harris, Brian; Hofmann, Thomas R.

    This preliminary report of research conducted at the Linguistics Documentation Centre of the University of Ottawa describes a bilingual experiment into the elaboration of well structured formulary routines for making the writing of abstracts easier, and at the same time standardizing and generally augmenting the information given in them. The…

  16. Towards violation of Born's rule: description of a simple experiment

    SciTech Connect

    Khrennikov, Andrei

    2011-03-28

    Recently a new model with hidden variables of the wave type was elaborated, so called prequantum classical statistical field theory (PCSFT). Roughly speaking PCSFT is a classical signal theory applied to a special class of signals - 'quantum systems'. PCSFT reproduces successfully all probabilistic predictions of QM, including correlations for entangled systems. This model peacefully coexists with all known no-go theorems, including Bell's theorem. In our approach QM is an approximate model. All probabilistic predictions of QM are only (quite good) approximations of 'real physical averages'. The latter are averages with respect to fluctuations of prequantum fields. In particular, Born's rule is only an approximate rule. More precise experiments should demonstrate its violation. We present a simple experiment which has to produce statistical data violating Born's rule. Since the PCSFT-presentation of this experiment may be difficult for experimenters, we reformulate consequences of PCSFT in terms of the conventional wave function. In general, deviation from Born's rule is rather small. We found an experiment amplifying this deviation. We start with a toy example. Then we present a more realistic example based on Gaussian states with very small dispersion.

  17. Space experiments with particle accelerators (SEPAC): Description of instrumentation

    NASA Technical Reports Server (NTRS)

    Taylor, W. W. L.; Roberts, W. T.; Reasoner, D. L.; Chappell, C. R.; Baker, B. B.; Burch, J. L.; Gibson, W. C.; Black, R. K.; Tomlinson, W. M.; Bounds, J. R.

    1987-01-01

    SEPAC (Space Experiments with Particle Accelerators) flew on Spacelab 1 (SL 1) in November and December 1983. SEPAC is a joint U.S.-Japan investigation of the interaction of electron, plasma, and neutral beams with the ionosphere, atmosphere and magnetosphere. It is scheduled to fly again on Atlas 1 in August 1990. On SL 1, SEPAC used an electron accelerator, a plasma accelerator, and neutral gas source as active elements and an array of diagnostics to investigate the interactions. For Atlas 1, the plasma accelerator will be replaced by a plasma contactor and charge collection devices to improve vehicle charging meutralization. This paper describes the SEPAC instrumentation in detail for the SL 1 and Atlas 1 flights and includes a bibliography of SEPAC papers.

  18. Experience of Iranian persons receiving hemodialysis: a descriptive, exploratory study.

    PubMed

    Kazemi, Majid; Nasrabadi, Alireza Nikbakht; Hasanpour, Marzieh; Hassankhani, Hadi; Mills, Jane

    2011-03-01

    Patients living with end-stage renal disease experience different levels of physical and psychological disability that can impact on the type and level of social interaction in which they engage with others. The researchers concurrently collected and thematically analyzed the interview data that were generated from 21 participants who were undergoing hemodialysis in Iran. Four major themes were constructed from the analysis of the transcripts: living with fatigue; changes in self-image; patients' dependency on the device, place, and time of hemodialysis; and hiding the disease. The results from this study showed that the patients who were living with hemodialysis in Iran experienced altered social interactions with others. The culture of Iran resulted in the participants trying to hide their disease from others, which led to social avoidance, thus reducing the participants' social interactions with others. It is recommended that nurses include a comprehensive assessment of the social interactions of persons who are receiving hemodialysis in their overall nursing assessment and that this is reviewed on a regular basis.

  19. WG-MOX Fuel Zr-tube Neutron Spectrum Comparison in ATR and PWR

    SciTech Connect

    Gray S. Chang

    2005-02-01

    An experiment containing WG-MOX fuel has been designed and irradiated from 1998 to 2004 in the Advanced Test Reactor (ATR) at the Idaho National Engineering and Environmental Laboratory (INEEL). Important neutronics parameters were computed using novel Monte Carlo methods. The purpose of this summary is to compare the Weapons-Grade Mixed Oxide fuel (WG-MOX) Zr-tube’s neutron spectrum in ATR and PWR. The results indicate that the Zrtube’s neutron spectrum in ATR are softer than in PWR.

  20. The reversed description-experience gap: Disentangling sources of presentation format effects in risky choice.

    PubMed

    Glöckner, Andreas; Hilbig, Benjamin E; Henninger, Felix; Fiedler, Susann

    2016-04-01

    Previous literature has suggested that risky choice patterns in general--and probability weighting in particular--are strikingly different in experience-based as compared with description-based formats. In 2 reanalyses and 3 new experiments, we investigate differences between experience-based and description-based decisions using a parametric approach based on cumulative prospect theory (CPT). Once controlling for sampling biases, we consistently find a reversal of the typical description-experience gap, that is, a reduced sensitivity to probabilities and increased overweighting of small probabilities in decisions from experience as compared with decisions from descriptions. This finding supports the hypothesis that regression to the mean effects in probability estimation are a crucial source of differences between both presentation formats. Further analyses identified task specific information asymmetry prevalent in gambles involving certainty as a third source of differences. We present a novel conceptualization of multiple independent sources of bias that contribute to the description-experience gap, namely sampling biases and task specific information asymmetry on the one hand, and regression to the mean effects in probability estimation on the other hand. PMID:26974209

  1. The reversed description-experience gap: Disentangling sources of presentation format effects in risky choice.

    PubMed

    Glöckner, Andreas; Hilbig, Benjamin E; Henninger, Felix; Fiedler, Susann

    2016-04-01

    Previous literature has suggested that risky choice patterns in general--and probability weighting in particular--are strikingly different in experience-based as compared with description-based formats. In 2 reanalyses and 3 new experiments, we investigate differences between experience-based and description-based decisions using a parametric approach based on cumulative prospect theory (CPT). Once controlling for sampling biases, we consistently find a reversal of the typical description-experience gap, that is, a reduced sensitivity to probabilities and increased overweighting of small probabilities in decisions from experience as compared with decisions from descriptions. This finding supports the hypothesis that regression to the mean effects in probability estimation are a crucial source of differences between both presentation formats. Further analyses identified task specific information asymmetry prevalent in gambles involving certainty as a third source of differences. We present a novel conceptualization of multiple independent sources of bias that contribute to the description-experience gap, namely sampling biases and task specific information asymmetry on the one hand, and regression to the mean effects in probability estimation on the other hand.

  2. Description and Analysis of Core Samples: The Lunar Experience

    NASA Technical Reports Server (NTRS)

    McKay, David S.; Allton, Judith H.

    1997-01-01

    Although no samples yet have been returned from a comet, extensive experience from sampling another solar system body, the Moon, does exist. While, in overall structure, composition, and physical properties the Moon bears little resemblance to what is expected for a comet, sampling the Moon has provided some basic lessons in how to do things which may be equally applicable to cometary samples. In particular, an extensive series of core samples has been taken on the Moon, and coring is the best way to sample a comet in three dimensions. Data from cores taken at 24 Apollo collection stations and 3 Luna sites have been used to provide insight into the evolution of the lunar regolith. It is now well understood that this regolith is very complex and reflects gardening (stirring of grains by micrometeorites), erosion (from impacts and solar wind sputtering), maturation (exposure on the bare lunar surface to solar winds ions and micrometeorite impacts) and comminution of coarse grains into finer grains, blanket deposition of coarse-grained layers, and other processes. All of these processes have been documented in cores. While a cometary regolith should not be expected to parallel in detail the lunar regolith, it is possible that the upper part of a cometary regolith may include textural, mineralogical, and chemical features which reflect the original accretion of the comet, including a form of gardening. Differences in relative velocities and gravitational attraction no doubt made this accretionary gardening qualitatively much different than the lunar version. Furthermore, at least some comets, depending on their orbits, have been subjected to impacts of the uppermost surface by small projectiles at some time in their history. Consequently, a more recent post-accretional gardening may have occurred. Finally, for comets which approach the sun, large scale erosion may have occurred driven by gas loss. The uppermost material of these comets may reflect some of the features

  3. Experimenting with impacts in a conceptual physics or descriptive astronomy laboratory

    NASA Astrophysics Data System (ADS)

    LoPresto, Michael C.

    2016-07-01

    What follows is a description of the procedure for and results of a simple experiment on the formation of impact craters designed for the laboratory portions of lower mathematical-level general education science courses such as conceptual physics or descriptive astronomy. The experiment provides necessary experience with data collection and analysis as well as practice with quantitative skills such as measurement and calculation in a manner that does not exceed the mathematical scope of the courses while, due to its hands-on nature and interesting topic, remaining engaging.

  4. The Effect of Time Pressure on Risky Financial Decisions from Description and Decisions from Experience

    PubMed Central

    Wegier, Pete; Spaniol, Julia

    2015-01-01

    Time pressure has been found to impact decision making in various ways, but studies on the effects time pressure in risky financial gambles have been largely limited to description-based decision tasks and to the gain domain. We present two experiments that investigated the effect of time pressure on decisions from description and decisions from experience, across both gain and loss domains. In description-based choice, time pressure decreased risk seeking for losses, whereas for gains there was a trend in the opposite direction. In experience-based choice, no impact of time pressure was observed on risk-taking, suggesting that time constraints may not alter attitudes towards risk when outcomes are learned through experience. PMID:25885034

  5. The experience-description gap and the role of the inter decision interval.

    PubMed

    Teoderescu, Kinneret; Amir, Michal; Erev, Ido

    2013-01-01

    Previous research highlights four distinct contributors to the experience-description gap (the observation that people exhibit oversensitivity to rare events in decisions from description and the opposite bias in decisions from experience). These contributors include the nature of small samples, the mere presentation effect, the belief that the environment is dynamic, and overgeneralization from decisions based on estimated risks. This chapter reviews this research and highlights the role of a fifth contributor to the experience-description gap. Three new experiments demonstrate that long deliberation before the decisions increases the weighting of rare events. The increase, however, is not large. People tend to underweight rare events in decisions from experience even after a forced deliberation period of 7.8s. This pattern was documented in pure decisions from experience and when the subjects could rely on both description and experience. In addition, the results show that the existence of inter decisions delay does not increase the weighting of rare events when the subjects are asked to perform a distraction task during the delay. Distraction reduces the weighting of rare events. PMID:23317828

  6. The experience-description gap and the role of the inter decision interval.

    PubMed

    Teoderescu, Kinneret; Amir, Michal; Erev, Ido

    2013-01-01

    Previous research highlights four distinct contributors to the experience-description gap (the observation that people exhibit oversensitivity to rare events in decisions from description and the opposite bias in decisions from experience). These contributors include the nature of small samples, the mere presentation effect, the belief that the environment is dynamic, and overgeneralization from decisions based on estimated risks. This chapter reviews this research and highlights the role of a fifth contributor to the experience-description gap. Three new experiments demonstrate that long deliberation before the decisions increases the weighting of rare events. The increase, however, is not large. People tend to underweight rare events in decisions from experience even after a forced deliberation period of 7.8s. This pattern was documented in pure decisions from experience and when the subjects could rely on both description and experience. In addition, the results show that the existence of inter decisions delay does not increase the weighting of rare events when the subjects are asked to perform a distraction task during the delay. Distraction reduces the weighting of rare events.

  7. Radar derived spatial statistics of summer rain. Volume 1: Experiment description

    NASA Technical Reports Server (NTRS)

    Katz, I.; Arnold, A.; Goldhirsh, J.; Konrad, T. G.; Vann, W. L.; Dobson, E. B.; Rowland, J. R.

    1975-01-01

    An experiment was performed at Wallops Island, Virginia, to obtain a statistical description of summer rainstorms. Its purpose was to obtain information needed for design of earth and space communications systems in which precipitation in the earth's atmosphere scatters or attenuates the radio signal. Rainstorms were monitored with the high resolution SPANDAR radar and the 3-dimensional structures of the storms were recorded on digital tape. The equipment, the experiment, and tabulated data obtained during the experiment are described.

  8. In-core flux sensor evaluations at the ATR critical facility

    SciTech Connect

    Troy Unruh; Benjamin Chase; Joy Rempe; David Nigg; George Imel; Jason Harris; Todd Sherman; Jean-Francois Villard

    2014-09-01

    Flux detector evaluations were completed as part of a joint Idaho State University (ISU) / Idaho National Laboratory (INL) / French Atomic Energy commission (CEA) ATR National Scientific User Facility (ATR NSUF) project to compare the accuracy, response time, and long duration performance of several flux detectors. Special fixturing developed by INL allows real-time flux detectors to be inserted into various ATRC core positions and perform lobe power measurements, axial flux profile measurements, and detector cross-calibrations. Detectors initially evaluated in this program include the French Atomic Energy Commission (CEA)-developed miniature fission chambers; specialized self-powered neutron detectors (SPNDs) developed by the Argentinean National Energy Commission (CNEA); specially developed commercial SPNDs from Argonne National Laboratory. As shown in this article, data obtained from this program provides important insights related to flux detector accuracy and resolution for subsequent ATR and CEA experiments and flux data required for bench-marking models in the ATR V&V Upgrade Initiative.

  9. LWRS ATR Irradiation Testing Readiness Status

    SciTech Connect

    Kristine Barrett

    2012-09-01

    The Light Water Reactor Sustainability (LWRS) Program was established by the U.S. Department of Energy Office of Nuclear Energy (DOE-NE) to develop technologies and other solutions that can improve the reliability, sustain the safety, and extend the life of the current reactors. The LWRS Program is divided into four R&D Pathways: (1) Materials Aging and Degradation; (2) Advanced Light Water Reactor Nuclear Fuels; (3) Advanced Instrumentation, Information and Control Systems; and (4) Risk-Informed Safety Margin Characterization. This report describes an irradiation testing readiness analysis in preparation of LWRS experiments for irradiation testing at the Idaho National Laboratory (INL) Advanced Test Reactor (ATR) under Pathway (2). The focus of the Advanced LWR Nuclear Fuels Pathway is to improve the scientific knowledge basis for understanding and predicting fundamental performance of advanced nuclear fuel and cladding in nuclear power plants during both nominal and off-nominal conditions. This information will be applied in the design and development of high-performance, high burn-up fuels with improved safety, cladding integrity, and improved nuclear fuel cycle economics

  10. AGR-2 Data Qualification Report for ATR Cycle 154B

    SciTech Connect

    Binh Pham; Jeff Einerson

    2014-01-01

    This report provides the data qualification status of Advanced Gas Reactor-2 (AGR-2) fuel irradiation experimental data from Advanced Test Reactor (ATR) Cycle 154B as recorded in the Nuclear Data Management and Analysis System (NDMAS). This is the last cycle of AGR-2 irradiation, as the test train was pulled from the ATR core during the outage portion of ATR Cycle 155A. The AGR-2 data streams addressed in this report include thermocouple (TC) temperatures, sweep gas data (flow rates including new Fission Product Monitoring (FPM) downstream flows from Fission Product Monitoring System (FPMS) detectors, pressure, and moisture content), and FPMS data (release rates and release-to-birth rate ratios [R/Bs]) for each of the six capsules in the AGR-2 experiment. The final data qualification status for these data streams is determined by a Data Review Committee (DRC) comprised of AGR technical leads, Sitewide Quality Assurance (QA), and NDMAS analysts. The Data Review Committee reviewed the data acquisition process, considered whether the data met the requirements for data collection as specified in QA-approved Very High Temperature Reactor (VHTR) data collection plans, examined the results of NDMAS data testing and statistical analyses, and confirmed the qualification status of the data as given in this report.

  11. The description-experience gap in risky choice in nonhuman primates.

    PubMed

    Heilbronner, Sarah R; Hayden, Benjamin Y

    2016-04-01

    Risk attitudes in humans depend on the format used to present the gamble: we are more risk-averse for common gambles in the gains domain whose properties are described to us verbally than for those whose properties we learned about solely through experience. This difference, which constitutes part of the description-experience gap, is important, because it highlights the role of knowledge acquisition in decision-making. The reasons for the gap remain obscure, but could depend upon uniquely human cognitive abilities, such as those associated with language. Thus, the gap may or may not extend to nonhuman animals. For this study, rhesus monkeys performed a novel task in which the properties of some gambles were explicitly cued (described), whereas others were learned through previous choices (experienced). Our monkeys displayed a description-experience gap. Overall, monkeys were more risk-seeking for experienced than for described gambles. This difference was observed for a range of gamble probabilities (from 20% to 80% likelihood of payoff), indicating that it is not limited to low probability events. These results suggest that the description-experience gap does not depend on uniquely human cognitive abilities, such as those associated with language, and support the idea that epistemic influences on risk attitudes are evolutionarily ancient. PMID:26286883

  12. Quantum theory as a description of robust experiments: Derivation of the Pauli equation

    SciTech Connect

    De Raedt, Hans; Katsnelson, Mikhail I.; Donker, Hylke C.; Michielsen, Kristel

    2015-08-15

    It is shown that the Pauli equation and the concept of spin naturally emerge from logical inference applied to experiments on a charged particle under the conditions that (i) space is homogeneous (ii) the observed events are logically independent, and (iii) the observed frequency distributions are robust with respect to small changes in the conditions under which the experiment is carried out. The derivation does not take recourse to concepts of quantum theory and is based on the same principles which have already been shown to lead to e.g. the Schrödinger equation and the probability distributions of pairs of particles in the singlet or triplet state. Application to Stern–Gerlach experiments with chargeless, magnetic particles, provides additional support for the thesis that quantum theory follows from logical inference applied to a well-defined class of experiments. - Highlights: • The Pauli equation is obtained through logical inference applied to robust experiments on a charged particle. • The concept of spin appears as an inference resulting from the treatment of two-valued data. • The same reasoning yields the quantum theoretical description of neutral magnetic particles. • Logical inference provides a framework to establish a bridge between objective knowledge gathered through experiments and their description in terms of concepts.

  13. AFC-1 Fuel Rodlet Fission Power Deposition Validation in ATR

    SciTech Connect

    G. S. Chang; M. A. Lillo; D. J. Utterbeck

    2008-11-01

    One of the viable options of long-term geological disposal of the nuclear power reactors generated spent fuel is to extract plutonium, the minor actinides (MA) and potentially long-lived fission products from the spent fuel and transmute them into short-lived or stable radionuclides in an appropriate reactor for the reduction of the radiological toxicity of the nuclear waste stream. An important component of that technology will be a non-fertile / low-fertile actinide transmutation fuel form containing the plutonium, neptunium, americium (and possibly curium) isotopes to be transmuted. Such advanced fuel forms, especially ones enriched in the long-life minor actinide (LLMA) elements (i.e., Np, Am, Cm), have minimal irradiation performance data available from which to establish a transmutation fuel form design. Recognizing these needs, an Advanced Fuel Cycle test series-1 (AFC-1) irradiation test on a variety of candidate fuel forms is now being conducted in Advanced Test Reactor (ATR) at the Idaho National Laboratory (INL). The first advanced fuel experiment (AFC-1) has been finalized and the test assembly analyzed for insertion and irradiation in ATR. The ATR core consists of a serpentine and rotationally symmetric fuel assembly about the z-axis of the core center. The plan view of the ATR core configuration is shown in Fig. 5, in Ref. 1. A cadmium filter with a 0.178 cm (0.045") thickness and 121.5 cm (48") in length, is currently used in the actinide-fuel capsule design for the East Flux Trap (EFT) position in ATR, to depress the linear heat generation rate (LHGR) lower than the project’s 330 W/cm limit for the experimental fuel rodlets. The LHGR is proportional to the fission power deposited in the fuel rodlets from the neutron fissions. The fraction of the fission power generated from the neutron fission reactions deposited in the fuel rodlet is an important parameter for test assembly thermal analysis, which will be validated in this summary.

  14. Ames Heat Pipe Experiment (AHPE) experiment description document. [performance testing in a vacuum environment

    NASA Technical Reports Server (NTRS)

    Marcus, B. D.

    1972-01-01

    A gas-controlled variable-conductance heat pipe was qualified for flight aboard orbiting astronomical observatory (OAO3). Experiments were conducted to determine the performance and reliability of the pipe in the vacuum environment of space, and to demonstrate in a specific engineering application its effectiveness in providing temperature stability for spacecraft equipment which experiences varying electronic duty cycles and changing thermal boundary conditions. System design and hardware are discussed in detail.

  15. VALIDATION OF IMPROVED 3D ATR MODEL

    SciTech Connect

    Soon Sam Kim; Bruce G. Schnitzler

    2005-11-01

    A full-core Monte Carlo based 3D model of the Advanced Test Reactor (ATR) was previously developed. [1] An improved 3D model has been developed by the International Criticality Safety Benchmark Evaluation Project (ICSBEP) to eliminate homogeneity of fuel plates of the old model, incorporate core changes into the new model, and to validate against a newer, more complicated core configuration. This new 3D model adds capability for fuel loading design and azimuthal power peaking studies of the ATR fuel elements.

  16. Focusing and matching properties of the ATR transfer line

    SciTech Connect

    Tsoupas, N.; Fischer, W.; Kewisch, J.; MacKay, W.W.; Peggs, S.; Pilat, F.; Tepikian, S.; Wei, J.

    1997-07-01

    The AGS to RHIC (AtR) beam transfer line has been constructed and will be used to transfer beam bunches from the AGS machine into the RHIC machine which is presently under construction at BNL. The original design of the AtR line has been modified. This article will present the optics of the various sections of the existing AtR beam line, as well as the matching capabilities of the AtR line to the RHIC machine.

  17. MIR-ATR sensor for process monitoring

    NASA Astrophysics Data System (ADS)

    Geörg, Daniel; Schalk, Robert; Methner, Frank-Jürgen; Beuermann, Thomas

    2015-06-01

    A mid-infrared attenuated total reflectance (MIR-ATR) sensor has been developed for chemical reaction monitoring. The optical setup of the compact and low-priced sensor consists of an IR emitter as light source, a zinc selenide (ZnSe) ATR prism as boundary to the process, and four thermopile detectors, each equipped with an optical bandpass filter. The practical applicability was tested during esterification of ethanol and formic acid to ethyl formate and water as a model reaction with subsequent distillation. For reference analysis, a Fourier transform mid-infrared (FT-MIR) spectrometer with diamond ATR module was applied. On-line measurements using the MIR-ATR sensor and the FT-MIR spectrometer were performed in a bypass loop. The sensor was calibrated by multiple linear regression in order to link the measured absorbance in the four optical channels to the analyte concentrations. The analytical potential of the MIR-ATR sensor was demonstrated by simultaneous real-time monitoring of all four chemical substances involved in the esterification and distillation process. The temporal courses of the sensor signals are in accordance with the concentration values achieved by the commercial FT-MIR spectrometer. The standard error of prediction for ethanol, formic acid, ethyl formate, and water were 0.38 mol L  -  1, 0.48 mol L  -  1, 0.38 mol L  -  1, and 1.12 mol L  -  1, respectively. A procedure based on MIR spectra is presented to simulate the response characteristics of the sensor if the transmission ranges of the filters are varied. Using this tool analyte specific bandpass filters for a particular chemical reaction can be identified. By exchanging the optical filters, the sensor can be adapted to a wide range of processes in the chemical, pharmaceutical, and beverage industries.

  18. The distribution of atrazine (ATR) and ATR metabolites in the Wistar rat following gestational/lactational exposures

    EPA Science Inventory

    Gestational/lactational exposure to ATR is reported to alter reproductive/developmental function, yet our understanding of the transfer of ATR and/or its metabolites from the dam to the fetus/offspring is limited. Previously we examined the lactational transfer of CI4-ATR, but sp...

  19. Simulation Experiment Description Markup Language (SED-ML) Level 1 Version 2.

    PubMed

    Bergmann, Frank T; Cooper, Jonathan; Le Novère, Nicolas; Nickerson, David; Waltemath, Dagmar

    2015-01-01

    The number, size and complexity of computational models of biological systems are growing at an ever increasing pace. It is imperative to build on existing studies by reusing and adapting existing models and parts thereof. The description of the structure of models is not sufficient to enable the reproduction of simulation results. One also needs to describe the procedures the models are subjected to, as recommended by the Minimum Information About a Simulation Experiment (MIASE) guidelines. This document presents Level 1 Version 2 of the Simulation Experiment Description Markup Language (SED-ML), a computer-readable format for encoding simulation and analysis experiments to apply to computational models. SED-ML files are encoded in the Extensible Markup Language (XML) and can be used in conjunction with any XML-based model encoding format, such as CellML or SBML. A SED-ML file includes details of which models to use, how to modify them prior to executing a simulation, which simulation and analysis procedures to apply, which results to extract and how to present them. Level 1 Version 2 extends the format by allowing the encoding of repeated and chained procedures. PMID:26528560

  20. Simulation Experiment Description Markup Language (SED-ML) Level 1 Version 2.

    PubMed

    Bergmann, Frank T; Cooper, Jonathan; Le Novère, Nicolas; Nickerson, David; Waltemath, Dagmar

    2015-09-04

    The number, size and complexity of computational models of biological systems are growing at an ever increasing pace. It is imperative to build on existing studies by reusing and adapting existing models and parts thereof. The description of the structure of models is not sufficient to enable the reproduction of simulation results. One also needs to describe the procedures the models are subjected to, as recommended by the Minimum Information About a Simulation Experiment (MIASE) guidelines. This document presents Level 1 Version 2 of the Simulation Experiment Description Markup Language (SED-ML), a computer-readable format for encoding simulation and analysis experiments to apply to computational models. SED-ML files are encoded in the Extensible Markup Language (XML) and can be used in conjunction with any XML-based model encoding format, such as CellML or SBML. A SED-ML file includes details of which models to use, how to modify them prior to executing a simulation, which simulation and analysis procedures to apply, which results to extract and how to present them. Level 1 Version 2 extends the format by allowing the encoding of repeated and chained procedures.

  1. IN-CORE FLUX SENSOR EVALUATIONS AT THE ATR CRITICAL FACILITY.

    SciTech Connect

    Troy Unruh; Benjamin Chase; Joy Rempe; David Nigg; George Imel; Jason Harris; Todd Sherman; Jean-Francois VIllard

    2014-12-01

    As part of an Idaho State University (ISU)–led Advanced Test Reactor (ATR) National Scientific User Facility (NSUF) collaborative project that includes Idaho National Laboratory (INL) and the French Alternative Energies and Atomic Energy Commission (CEA), flux detector evaluations were completed to compare their accuracy, response time, and longduration performance. Special fixturing, developed by INL, allows real-time flux detectors to be inserted into various Advanced Test Reactor Critical Facility (ATRC) core positions to perform lobe power measurements, axial flux profile measurements, and detector crosscalibrations. Detectors initially evaluated in this program included miniature fission chambers, specialized self-powered neutron detectors (SPNDs), and specially developed commercial SPNDs. Results from this program provide important insights related to flux detector accuracy and resolution for subsequent ATR and CEA experiments and yield new flux data required for benchmarking models in the ATR Life Extension Program (LEP) Modeling Update Project.

  2. A Simplified Shuttle Irradiation Facility for ATR

    SciTech Connect

    A. J. Palmer; S. T. Laflin

    1999-08-01

    During the past fifteen years there has been a steady increase in the demand for radioisotopes in nuclear medicine and a corresponding decline in the number of reactors within the U.S. capable of producing them. The Advanced Test Reactor (ATR) is the largest operating test reactor in the U.S., but its isotope production capabilities have been limited by the lack of an installed isotope shuttle irradiation system. A concept for a simple "low cost" shuttle irradiation facility for ATR has been developed. Cost were reduced (in comparison to previous ATR designs) by using a shielded trough of water installed in an occupiable cubicle as a shielding and contamination control barrier for the send and receive station. This shielding concept also allows all control valves to be operated by hand and thus the need for an automatic control system was eliminated. It was determined that 4-5 ft of water would be adequate to shield the isotopes of interest while shuttles are transferred to a small carrier. An additional feature of the current design is a non-isolatable by-pass line, which provides a minimum coolant flow to the test region regardless of which control valves are opened or closed. This by-pass line allows the shuttle facility to be operated without bringing reactor coolant water into the cubicle except for send and receive operations.

  3. Confidence intervals for ATR performance metrics

    NASA Astrophysics Data System (ADS)

    Ross, Timothy D.

    2001-08-01

    This paper describes confidence interval (CI) estimators (CIEs) for the metrics used to assess sensor exploitation algorithm (or ATR) performance. For the discrete distributions, small sample sizes and extreme outcomes encountered within ATR testing, the commonly used CIEs have limited accuracy. This paper makes available CIEs that are accurate over all conditions of interest to the ATR community. The approach is to search for CIs using an integration of the Bayesian posterior (IBP) to measure alpha (chance of the CI not containing the true value). The CIEs provided include proportion estimates based on Binomial distributions and rate estimates based on Poisson distributions. One or two-sided CIs may be selected. For two-sided CIEs, either minimal length, balanced tail probabilities, or balanced width may be selected. The CIEs' accuracies are reported based on a Monte Carlo validated integration of the posterior probability distribution and compared to the Normal approximation and `exact' (Clopper- Pearson) methods. While the IBP methods are accurate throughout, the conventional methods may realize alphas with substantial error (up to 50%). This translates to 10 to 15% error in the CI widths or to requiring 10 to 15% more samples for a given confidence level.

  4. Function of the ATR N-terminal domain revealed by an ATM/ATR chimera

    SciTech Connect

    Chen Xinping; Zhao Runxiang; Glick, Gloria G.; Cortez, David . E-mail: david.cortez@vanderbilt.edu

    2007-05-01

    The ATM and ATR kinases function at the apex of checkpoint signaling pathways. These kinases share significant sequence similarity, phosphorylate many of the same substrates, and have overlapping roles in initiating cell cycle checkpoints. However, they sense DNA damage through distinct mechanisms. ATR primarily senses single stranded DNA (ssDNA) through its interaction with ATRIP, and ATM senses double strand breaks through its interaction with Nbs1. We determined that the N-terminus of ATR contains a domain that binds ATRIP. Attaching this domain to ATM allowed the fusion protein (ATM*) to bind ATRIP and associate with RPA-coated ssDNA. ATM* also gained the ability to localize efficiently to stalled replication forks as well as double strand breaks. Despite having normal kinase activity when tested in vitro and being phosphorylated on S1981 in vivo, ATM* is defective in checkpoint signaling and does not complement cellular deficiencies in either ATM or ATR. These data indicate that the N-terminus of ATR is sufficient to bind ATRIP and to promote localization to sites of replication stress.

  5. Detailed description of a long-term low-level waste degradation experiment

    SciTech Connect

    Caron, F.; Torok, J.; Haas, M.K.; Manni, G.

    1997-12-31

    This work gives a detailed description of the important aspects of a long-term Low-Level Radioactive Waste (LLRW) degradation experiment, performed at Chalk River Laboratories (CRL). This experiment utilized actual LLRW. The wastes consist of unconditioned compacted refuse (paper, mop heads, paper towels, used clothing, etc.), which represents the bulk of the waste volume intended for near-surface disposal at CRL. Waste material was collected and compacted to make a total of 11 bales for this experiment. Each bale was then placed and sealed in separate steel containers which were connected to sampling lines. After a dry monitoring period, water was added to promote leaching and decomposition of the wastes. The leachate sampled had a composition similar to landfill leachates. Some applications of this experiment, used to support the safety case of near-surface disposal, are briefly discussed in this paper, e.g., the production of colloidal material, the nature and role of dissolved organics of microbial origin, etc.

  6. Targeting ATR in DNA damage response and cancer therapeutics.

    PubMed

    Fokas, Emmanouil; Prevo, Remko; Hammond, Ester M; Brunner, Thomas B; McKenna, W Gillies; Muschel, Ruth J

    2014-02-01

    The ataxia telangiectasia and Rad3-related (ATR) plays an important role in maintaining genome integrity during DNA replication through the phosphorylation and activation of Chk1 and regulation of the DNA damage response. Preclinical studies have shown that disruption of ATR pathway can exacerbate the levels of replication stress in oncogene-driven murine tumors to promote cell killing. Additionally, inhibition of ATR can sensitise tumor cells to radiation or chemotherapy. Accumulating evidence suggests that targeting ATR can selectively sensitize cancer cells but not normal cells to DNA damage. Furthermore, in hypoxic conditions, ATR blockade results in overloading replication stress and DNA damage response causing cell death. Despite the attractiveness of ATR inhibition in the treatment of cancer, specific ATR inhibitors have remained elusive. In the last two years however, selective ATR inhibitors suitable for in vitro and - most recently - in vivo studies have been identified. In this article, we will review the literature on ATR function, its role in DDR and the potential of ATR inhibition to enhance the efficacy of radiation and chemotherapy.

  7. ATR promotes cilia signalling: links to developmental impacts.

    PubMed

    Stiff, Tom; Casar Tena, Teresa; O'Driscoll, Mark; Jeggo, Penny A; Philipp, Melanie

    2016-04-15

    Mutations in ATR(ataxia telangiectasia and RAD3-related) cause Seckel syndrome (ATR-SS), a microcephalic primordial dwarfism disorder. Hitherto, the clinical manifestation of ATR deficiency has been attributed to its canonical role in DNA damage response signalling following replication fork stalling/collapse. Here, we show that ATR regulates cilia-dependent signalling in a manner that can be uncoupled from its function during replication. ATR-depleted or patient-derived ATR-SS cells form cilia of slightly reduced length but are dramatically impaired in cilia-dependent signalling functions, including growth factor and Sonic hedgehog signalling. To better understand the developmental impact of ATR loss of function, we also used zebrafish as a model. Zebrafish embryos depleted of Atr resembled ATR-SS morphology, showed a modest but statistically significant reduction in cilia length and other morphological features indicative of cilia dysfunction. Additionally, they displayed defects in left-right asymmetry including ambiguous expression of southpaw, incorrectly looped hearts and randomized localization of internal organs including the pancreas, features typically conferred by cilia dysfunction. Our findings reveal a novel role for ATR in cilia signalling distinct from its canonical function during replication and strengthen emerging links between cilia function and development. PMID:26908596

  8. ATR promotes cilia signalling: links to developmental impacts

    PubMed Central

    Stiff, Tom; Casar Tena, Teresa; O'Driscoll, Mark; Jeggo, Penny A.; Philipp, Melanie

    2016-01-01

    Mutations in ATR (ataxia telangiectasia and RAD3-related) cause Seckel syndrome (ATR-SS), a microcephalic primordial dwarfism disorder. Hitherto, the clinical manifestation of ATR deficiency has been attributed to its canonical role in DNA damage response signalling following replication fork stalling/collapse. Here, we show that ATR regulates cilia-dependent signalling in a manner that can be uncoupled from its function during replication. ATR-depleted or patient-derived ATR-SS cells form cilia of slightly reduced length but are dramatically impaired in cilia-dependent signalling functions, including growth factor and Sonic hedgehog signalling. To better understand the developmental impact of ATR loss of function, we also used zebrafish as a model. Zebrafish embryos depleted of Atr resembled ATR-SS morphology, showed a modest but statistically significant reduction in cilia length and other morphological features indicative of cilia dysfunction. Additionally, they displayed defects in left-right asymmetry including ambiguous expression of southpaw, incorrectly looped hearts and randomized localization of internal organs including the pancreas, features typically conferred by cilia dysfunction. Our findings reveal a novel role for ATR in cilia signalling distinct from its canonical function during replication and strengthen emerging links between cilia function and development. PMID:26908596

  9. Description of the Large Gap Magnetic Suspension System (LGMSS) ground-based experiment

    NASA Technical Reports Server (NTRS)

    Groom, Nelson J.

    1991-01-01

    A description of the Large Gap Magnetic Suspension System (LGMSS) ground-based experiment is presented. The LGMSS provides five degrees of freedom control of a cylindrical suspended element which is levitated above a floor-mounted array of air core electromagnets. The uncontrolled degree of freedom is rotation about the long axis of the cylinder (roll). Levitation and control forces are produced on a permanent magnet core which is embedded in the cylinder. The cylinder also contains light emitting diodes (LEDs), assorted electrons, and a power supply. The LEDs provide active targets for an optical position measurement system which is being developed in-house at the Langley Research Center. The optical position measurement system will provide six degrees of freedom position information for the LGMSS control system.

  10. 10 CFR 830 Major Modification Determination for Replacement of ATR Primary Coolant Pumps and Motors

    SciTech Connect

    Noel Duckwitz

    2011-05-01

    and having the PCPs also function as ECPs will require significant safety basis changes requiring DOE approval. 2. Evaluation Criteria #4 (Use of new technology). The use of VFD and VFD “pump catcher” technology for the PCPs is not currently in use and has not been previously formally reviewed/approved by DOE for ATR. It is noted that VFD technology has several decades of commercial use and experience. However, the ATR probabilistic risk assessment will have to be updated, reflecting the changes for supplying ECP flows including VFD reliability, to confirm that the proposed activity maintains or reduces the CDF for the ATR. 3. Evaluation Criteria #5 (Create the need for new or revised safety SSCs). It is expected that the proposed activity will result in a revised list of safety-related SSCs. Specifically, as currently proposed, the existing ECPs will be deleted from the list. The PCPs and their associated components, picking up the ECP function, will be classified as safety-related active Seismic Category I.

  11. A Simplified Shuttle Irradiation Facility for ATR

    SciTech Connect

    Palmer, Alma Joseph; Laflin, S. T.

    1999-09-01

    During the past fifteen years there has been a steady increase in the demand for radioisotopes in nuclear medicine and a corresponding decline in the number of reactors within the U.S. capable of producing them. The Advanced Test Reactor (ATR) is the largest operating test reactor in the U.S., but its isotope production capabilities have been limited by the lack of an installed isotope shuttle irradiation system. A concept for a simple “low cost” shuttle irradiation facility for ATR has been developed. Costs were reduced (in comparison to previous ATR designs) by using a shielded trough of water installed in an occupiable cubicle as a shielding and contamination control barrier for the send and receive station. This shielding concept also allows all control valves to be operated by hand and thus the need for an automatic control system was eliminated. It was determined that 4 – 5 ft of water would be adequate to shield the isotopes of interest while shuttles are transferred to a small carrier. An additional feature of the current design is a non-isolatable by-pass line, which provides a minimum coolant flow to the test region regardless of which control valves are opened or closed. This by-pass line allows the shuttle facility to be operated without bringing reactor coolant water into the cubicle except for send and receive operations. The irradiation position selected for this concept is a 1.5 inch “B” hole (B-11). This position provides neutron fluxes of approximately: 1.6 x 1014 (<0.5 eV) and 4.0 x 1013 (>0.8 MeV) n/cm2*sec.

  12. Advanced miniature processing handware for ATR applications

    NASA Technical Reports Server (NTRS)

    Chao, Tien-Hsin (Inventor); Daud, Taher (Inventor); Thakoor, Anikumar (Inventor)

    2003-01-01

    A Hybrid Optoelectronic Neural Object Recognition System (HONORS), is disclosed, comprising two major building blocks: (1) an advanced grayscale optical correlator (OC) and (2) a massively parallel three-dimensional neural-processor. The optical correlator, with its inherent advantages in parallel processing and shift invariance, is used for target of interest (TOI) detection and segmentation. The three-dimensional neural-processor, with its robust neural learning capability, is used for target classification and identification. The hybrid optoelectronic neural object recognition system, with its powerful combination of optical processing and neural networks, enables real-time, large frame, automatic target recognition (ATR).

  13. Description of International Caenorhabditis elegans Experiment first flight (ICE-FIRST)

    NASA Astrophysics Data System (ADS)

    Szewczyk, N. J.; Tillman, J.; Conley, C. A.; Granger, L.; Segalat, L.; Higashitani, A.; Honda, S.; Honda, Y.; Kagawa, H.; Adachi, R.; Higashibata, A.; Fujimoto, N.; Kuriyama, K.; Ishioka, N.; Fukui, K.; Baillie, D.; Rose, A.; Gasset, G.; Eche, B.; Chaput, D.; Viso, M.

    2008-09-01

    Traveling, living and working in space is now a reality. The number of people and length of time in space is increasing. With new horizons for exploration it becomes more important to fully understand and provide countermeasures to the effects of the space environment on the human body. In addition, space provides a unique laboratory to study how life and physiologic functions adapt from the cellular level to that of the entire organism. Caenorhabditis elegans is a genetic model organism used to study physiology on Earth. Here we provide a description of the rationale, design, methods, and space culture validation of the ICE-FIRST payload, which engaged C. elegans researchers from four nations. Here we also show C. elegans growth and development proceeds essentially normally in a chemically defined liquid medium on board the International Space Station (10.9 day round trip). By setting flight constraints first and bringing together established C. elegans researchers second, we were able to use minimal stowage space to successfully return a total of 53 independent samples, each containing more than a hundred individual animals, to investigators within one year of experiment concept. We believe that in the future, bringing together individuals with knowledge of flight experiment operations, flight hardware, space biology, and genetic model organisms should yield similarly successful payloads.

  14. Description of International Caenorhabditis elegans Experiment first flight (ICE-FIRST).

    PubMed

    Szewczyk, N J; Tillman, J; Conley, C A; Granger, L; Segalat, L; Higashitani, A; Honda, S; Honda, Y; Kagawa, H; Adachi, R; Higashibata, A; Fujimoto, N; Kuriyama, K; Ishioka, N; Fukui, K; Baillie, D; Rose, A; Gasset, G; Eche, B; Chaput, D; Viso, M

    2008-09-15

    Traveling, living and working in space is now a reality. The number of people and length of time in space is increasing. With new horizons for exploration it becomes more important to fully understand and provide countermeasures to the effects of the space environment on the human body. In addition, space provides a unique laboratory to study how life and physiologic functions adapt from the cellular level to that of the entire organism. Caenorhabditis elegans is a genetic model organism used to study physiology on Earth. Here we provide a description of the rationale, design, methods, and space culture validation of the ICE-FIRST payload, which engaged C. elegans researchers from four nations. Here we also show C. elegans growth and development proceeds essentially normally in a chemically defined liquid medium on board the International Space Station (10.9 day round trip). By setting flight constraints first and bringing together established C. elegans researchers second, we were able to use minimal stowage space to successfully return a total of 53 independent samples, each containing more than a hundred individual animals, to investigators within one year of experiment concept. We believe that in the future, bringing together individuals with knowledge of flight experiment operations, flight hardware, space biology, and genetic model organisms should yield similarly successful payloads.

  15. NASA Controller Acceptability Study 1(CAS-1) Experiment Description and Initial Observations

    NASA Technical Reports Server (NTRS)

    Chamberlain, James P.; Consiglio, Maria C.; Comstock, James R., Jr.; Ghatas, Rania W.; Munoz, Cesar

    2015-01-01

    This paper describes the Controller Acceptability Study 1 (CAS-1) experiment that was conducted by NASA Langley Research Center personnel from January through March 2014 and presents partial CAS-1 results. CAS-1 employed 14 air traffic controller volunteers as research subjects to assess the viability of simulated future unmanned aircraft systems (UAS) operating alongside manned aircraft in moderate-density, moderate-complexity Class E airspace. These simulated UAS were equipped with a prototype pilot-in-the-loop (PITL) Detect and Avoid (DAA) system, specifically the Self-Separation (SS) function of such a system based on Stratway+ software to replace the see-and-avoid capabilities of manned aircraft pilots. A quantitative CAS-1 objective was to determine horizontal miss distance (HMD) values for SS encounters that were most acceptable to air traffic controllers, specifically HMD values that were assessed as neither unsafely small nor disruptively large. HMD values between 0.5 and 3.0 nautical miles (nmi) were assessed for a wide array of encounter geometries between UAS and manned aircraft. The paper includes brief introductory material about DAA systems and their SS functions, followed by descriptions of the CAS-1 simulation environment, prototype PITL SS capability, and experiment design, and concludes with presentation and discussion of partial CAS-1 data and results.

  16. Description of International Caenorhabditis elegans Experiment first flight (ICE-FIRST)

    PubMed Central

    Szewczyk, N.J.; Tillman, J.; Conley, C.A.; Granger, L.; Segalat, L.; Higashitani, A.; Honda, S.; Honda, Y.; Kagawa, H.; Adachi, R.; Higashibata, A.; Fujimoto, N.; Kuriyama, K.; Ishioka, N.; Fukui, K.; Baillie, D.; Rose, A.; Gasset, G.; Eche, B.; Chaput, D.; Viso, M.

    2008-01-01

    Traveling, living and working in space is now a reality. The number of people and length of time in space is increasing. With new horizons for exploration it becomes more important to fully understand and provide countermeasures to the effects of the space environment on the human body. In addition, space provides a unique laboratory to study how life and physiologic functions adapt from the cellular level to that of the entire organism. Caenorhabditis elegans is a genetic model organism used to study physiology on Earth. Here we provide a description of the rationale, design, methods, and space culture validation of the ICE-FIRST payload, which engaged C. elegans researchers from four nations. Here we also show C. elegans growth and development proceeds essentially normally in a chemically defined liquid medium on board the International Space Station (10.9 day round trip). By setting flight constraints first and bringing together established C. elegans researchers second, we were able to use minimal stowage space to successfully return a total of 53 independent samples, each containing more than a hundred individual animals, to investigators within one year of experiment concept. We believe that in the future, bringing together individuals with knowledge of flight experiment operations, flight hardware, space biology, and genetic model organisms should yield similarly successful payloads. PMID:22146801

  17. Defining ATR solutions using affine transformations on a union of subspaces model

    NASA Astrophysics Data System (ADS)

    Hester, Charles F.; Risko, Kelly K. D.

    2012-05-01

    The ability to recognize a target in an image is an important problem for machine vision, surveillance systems, and military weapons. There are many "solutions" to an automatic target recognition (ATR) problem proposed by practitioners. Often the definition of the problem leads to multiple solutions due to the incompleteness of the definition. Solutions are also made approximate due to resource limitations. Issues concerning "best" solution and solution performance are very open issues, since problem definitions and solutions are ill-defined. Indeed from information based physical measurement theory such as found in the Minimum Description Length (MDL) the exact solution is intractable1. Generating some clarity in defining problems on restricted sets seems an appropriate approach for improving this vagueness in ATR definitions and solutions. Given that a one to one relationship between a physical system and the MDL exists, then this uniqueness allows that a solution can be defined by its description and a norm assigned to that description. Moreover, the solution can be characterized by a set of metrics that are based on the algorithmic information of the physical measurements. The MDL, however, is not a constructive theory, but solutions can be defined by concise problem descriptions. This limits the scope of the problem and we will take this approach here. The paper will start with a definition of an ATR problem followed by our proposal of a descriptive solution using a union of subspaces model of images as described below based on Lu and Do2. This solution uses the concept of informative representations3 implicitly which we review briefly. Then we will present some metrics to be used to characterize the solution(s) which we will demonstrate by a simple example. In the discussions following the example we will suggest how this fits in the context of present and future work.

  18. Signal processing and statistical descriptive reanalysis of steady state chute-flow experiments

    NASA Astrophysics Data System (ADS)

    truong, hoan; eckert, nicolas; keylock, chris; naaim, mohamed; bellot, hervé

    2014-05-01

    An accurate knowledge of snow rheology is needed for the mitigation against avalanche hazard. Indeed snow avalanches have a significant impact on the livelihoods and economies of alpine communities. To do so, 60 small-scale in-situ flow experiments were performed with various slopes, temperatures and flow depths. The investigation of these data previously seemed to show the dense flow of dry snow may be composed of two layers; a sheared basal layer made of single snow grains and a less sheared upper layer made of large aggregates. These outcomes were mainly based on the mean velocity profile of the flow and on interpretation in terms of rheological behavior of granular materials and snow microstructure [Pierre G. Rognon et al., 2007]. Here, the main objective remains the same, but the rheological and physical viewpoints are put aside to extract as much information contained in the data as possible various using signal processing methods and descriptive statistics methods as the maximum overlap discrete wavelet transform (MODWT), transfer entropy (TE) and maximum cross-correlation (MCC). Specifically, we aim at the improving the velocity estimations as function of the depth particularly the velocity fluctuations around the mean profile to better document the behavior of dense dry snow flows during a steady and uniform chute regime. The data are composed of pairs of voltage signals (right and left), which makes that the velocity is known indirectly only. The MCC method is classically used to determine the time lag between both signals. Previously, the MCC method that showed the mean velocity profile may be fitted by a simple bilinear function [Pierre G. Rognon et al., 2007], but no interesting temporal dynamics could be highlighted. Hence, a new process method was developed to provide velocity series with much better temporal resolution. The process is mainly made of a MODWT-based denoising method and the choice of window size for correlation. The results prove to be

  19. Advanced Test Reactor National Scientific User Facility (ATR NSUF) Monthly Report November 2014

    SciTech Connect

    Soelberg, Renae

    2014-11-01

    Advanced Test Reactor National Scientific User Facility (ATR NSUF) Monthly Report November 2014 Highlights Rory Kennedy and Sarah Robertson attended the American Nuclear Society Winter Meeting and Nuclear Technology Expo in Anaheim, California, Nov. 10-13. ATR NSUF exhibited at the technology expo where hundreds of meeting participants had an opportunity to learn more about ATR NSUF. Dr. Kennedy briefed the Nuclear Engineering Department Heads Organization (NEDHO) on the workings of the ATR NSUF. • Rory Kennedy, James Cole and Dan Ogden participated in a reactor instrumentation discussion with Jean-Francois Villard and Christopher Destouches of CEA and several members of the INL staff. • ATR NSUF received approval from the NE-20 office to start planning the annual Users Meeting. The meeting will be held at INL, June 22-25. • Mike Worley, director of the Office of Innovative Nuclear Research (NE-42), visited INL Nov. 4-5. Milestones Completed • Recommendations for the Summer Rapid Turnaround Experiment awards were submitted to DOE-HQ Nov. 12 (Level 2 milestone due Nov. 30). Major Accomplishments/Activities • The University of California, Santa Barbara 2 experiment was unloaded from the GE-2000 at HFEF. The experiment specimen packs will be removed and shipped to ORNL for PIE. • The Terrani experiment, one of three FY 2014 new awards, was completed utilizing the Advanced Photon Source MRCAT beamline. The experiment investigated the chemical state of Ag and Pd in SiC shell of irradiated TRISO particles via X-ray Absorption Fine Structure (XAFS) spectroscopy. Upcoming Meetings/Events • The ATR NSUF program review meeting will be held Dec. 9-10 at L’Enfant Plaza. In addition to NSUF staff and users, NE-4, NE-5 and NE-7 representatives will attend the meeting. Awarded Research Projects Boise State University Rapid Turnaround Experiments (14-485 and 14-486) Nanoindentation and TEM work on the T91, HT9, HCM12A and 9Cr ODS specimens has been completed at

  20. Australian men's long term experiences following prostatectomy: a qualitative descriptive study.

    PubMed

    O'Shaughnessy, Peter 'kevin'; Laws, Tom A

    The experiences of men in the immediate postoperative period following surgery for primary prostate cancer are well reported in the literature. Recognition of the unresolved morbidity encountered by men in the medium term suggests that a more complete understanding of how men cope in the long term is needed. Health professionals are deserving of a more complete literature for the purpose of providing holistic care for this group of men, providing informed advocacy and better support for men living with the diagnosis of prostate cancer. Emerging literature reveals that men's knowledge of the long term problems associated with prostatectomy was inadequate at the time they consented to treatment; the likely outcomes at all phases of recovery should be taken into account when deciding on choice of treatment or no treatment. This qualitative study aims to describe men's long term recovery following prostatectomy for the purpose identifying the effects of unresolved post surgical morbidity. The content analysis of focus group interviews revealed that incontinence and impotence were a major source of emotional tension affecting the men's social interactions and sense of self-worth. The men expressed great regret over the lack of information accessible to them for evaluating the risk and nature of long term problems. The thick description provided in this study identifies the need for empathetic assessment of men with ongoing post surgical issues and alerts the reader to the inadequacies of information provided prior to consent to prostatectomy. PMID:20230176

  1. Volatile decision dynamics: experiments, stochastic description, intermittency control and traffic optimization

    NASA Astrophysics Data System (ADS)

    Helbing, Dirk; Schönhof, Martin; Kern, Daniel

    2002-06-01

    The coordinated and efficient distribution of limited resources by individual decisions is a fundamental, unsolved problem. When individuals compete for road capacities, time, space, money, goods, etc, they normally make decisions based on aggregate rather than complete information, such as TV news or stock market indices. In related experiments, we have observed a volatile decision dynamics and far-from-optimal payoff distributions. We have also identified methods of information presentation that can considerably improve the overall performance of the system. In order to determine optimal strategies of decision guidance by means of user-specific recommendations, a stochastic behavioural description is developed. These strategies manage to increase the adaptibility to changing conditions and to reduce the deviation from the time-dependent user equilibrium, thereby enhancing the average and individual payoffs. Hence, our guidance strategies can increase the performance of all users by reducing overreaction and stabilizing the decision dynamics. These results are highly significant for predicting decision behaviour, for reaching optimal behavioural distributions by decision support systems and for information service providers. One of the promising fields of application is traffic optimization.

  2. ATR FTIR Mapping of Leather Fiber Panels

    NASA Astrophysics Data System (ADS)

    Tondi, G.; Grünewald, T.; Petutschnigg, A.; Schnabel, T.

    2015-01-01

    Leather fiber panels are very promising materials for many applications, not only for the easy availability of the constituents but also for their outstanding fi re-retardant properties. These innovative composite panels can be an excellent material for building insulation, and in recent times, the interest of industries in this composite board has considerably arisen. For this reason the discrimination of the components in the leather fiber panels is becoming fundamental in order to ensure their homogeneous properties. A method to characterize the surface of these materials is then required. An ATR FTIR mapping system for the leather fiber panels has been performed with a Perkin-Elmer microscope coupled with a Frontier FTIR spectrometer. The system has successfully allowed transforming the optical image to a chemical one. This technique can be considered as a right tool for routine controls of the surface quality, especially when the leather shavings cannot be optically distinguished.

  3. Nurses' Learning Experiences with the Kinaesthetics Care Concept Training in a Nursing Home: A Qualitative Descriptive Study

    ERIC Educational Resources Information Center

    Fringer, André; Huth, Martina; Hantikainen, Virpi

    2015-01-01

    In geriatric care, movement support skills of nurses are often limited, resulting in unnecessary functional decline of older adult residents and physical strain of nurses. Kinaesthetics training aims to improve movement competences of nurses and residents. The aim of this qualitative descriptive study is to describe nursing teams' experience with…

  4. The Influence of Visual Experience on the Ability to Form Spatial Mental Models Based on Route and Survey Descriptions

    ERIC Educational Resources Information Center

    Noordzij, Matthijs L.; Zuidhoek, Sander; Postma, Albert

    2006-01-01

    The purpose of the present study is twofold: the first objective is to evaluate the importance of visual experience for the ability to form a spatial representation (spatial mental model) of fairly elaborate spatial descriptions. Secondly, we examine whether blind people exhibit the same preferences (i.e. level of performance on spatial tasks) as…

  5. AGR-3/4 Final Data Qualification Report for ATR Cycles 151A through 155B-1

    SciTech Connect

    Pham, Binh T.

    2015-03-01

    This report provides the qualification status of experimental data for the entire Advanced Gas Reactor 3/4 (AGR 3/4) fuel irradiation. AGR-3/4 is the third in a series of planned irradiation experiments conducted in the Advanced Test Reactor (ATR) at Idaho National Laboratory (INL) for the AGR Fuel Development and Qualification Program, which supports development of the advanced reactor technology under the INL ART Technology Development Office (TDO). The main objective of AGR-3/4 irradiation is to provide a known source of fission products for subsequent transport through compact matrix and structural graphite materials due to the presence of designed-to-fail fuel particles. Full power irradiation of the AGR 3/4 test began on December 14, 2011 (ATR Cycle 151A), and was completed on April 12, 2014 (end of ATR Cycle 155B) after 369.1 effective full power days of irradiation. The AGR-3/4 test was in the reactor core for eight of the ten ATR cycles between 151A and 155B. During the unplanned outage cycle, 153A, the experiment was removed from the ATR northeast flux trap (NEFT) location and stored in the ATR canal. This was to prevent overheating of fuel compacts due to higher than normal ATR power during the subsequent Powered Axial Locator Mechanism cycle, 153B. The AGR 3/4 test was inserted back into the ATR NEFT location during the outage of ATR Cycle 154A on April 26, 2013. Therefore, the AGR-3/4 irradiation data received during these 2 cycles (153A and 153B) are irrelevant and their qualification status isnot included in this report. Additionally, during ATR Cycle 152A the ATR core ran at low power for a short enough duration that the irradiation data are not used for physics and thermal calculations. However, the qualification status of irradiation data for this cycle is still covered in this report. As a result, this report includes data from 8 ATR Cycles: 151A, 151B, 152A, 152B, 154A, 154B, 155A, and 155B, as recorded in the Nuclear Data Management and

  6. RELAP5 Model Description and Validation for the BR2 Loss-of-Flow Experiments

    SciTech Connect

    Licht, J. R.; Dionne, B.; Van den Branden, G.; Sikik, E.; Koonen, E.

    2015-07-01

    This paper presents a description of the RELAP5 model, the calibration method used to obtain the minor loss coefficients from the available hydraulic data and the LOFA simulation results compared to the 1963 experimental tests for HEU fuel.

  7. THz ATR Spectroscopy for Inline Monitoring of Highly Absorbing Liquids

    NASA Astrophysics Data System (ADS)

    Soltani, Amin; Busch, Stefan F.; Plew, Patrick; Balzer, Jan C.; Koch, Martin

    2016-10-01

    We present a THz attenuated total reflection (ATR) setup which allows for inline measurements of highly absorbing liquids. As a proof of principle, we investigate a mixture of water and ground calcium carbonate (GCC) from 5 to 40 wt%. Inline measurements prove that our THz ATR setup allows for the distinction of various concentrations. As an example, we show inline THz ATR measurements for 30 to 40 wt% for GCC watery solution, as this concentration range is of technical relevance. We obtain a sensitivity better than 2 wt%.

  8. ATR-mediated regulation of nuclear and cellular plasticity.

    PubMed

    Kidiyoor, Gururaj Rao; Kumar, Amit; Foiani, Marco

    2016-08-01

    ATR (Ataxia Telangiectasia and Rad3-related) is a member of the Phosphatidylinositol 3-kinase-related kinases (PIKKs) family, amongst six other vertebrate proteins known so far. ATR is indispensable for cell survival and its essential role is in sensing DNA damage and initiating appropriate repair responses. In this review we highlight emerging and recent observations connecting ATR to alternative roles in controlling the nuclear envelope, nucleolus, centrosome and other organelles in response to both internal and external stress conditions. We propose that ATR functions control cell plasticity by sensing structural deformations of different cellular components, including DNA and initiating appropriate repair responses, most of which are yet to be understood completely. PMID:27283761

  9. Infrared ATR: a probe for cellular activation

    NASA Astrophysics Data System (ADS)

    Timlin, Jerilyn A.; Martin, Laura E.; Alam, M. Kathleen; Haaland, David M.; Garrison, Kristen; Lyons, C. Richard; Hjelle, Brian

    2002-02-01

    We employ infrared spectroscopy (IR) with attenuated total reflectance (ATR) as a sampling technique to monitor live and dried RAW cells (a murine macrophage cell line) during activation with g-interferon and lipopolysaccharide. By comparing the spectra of activated cells at various time points to the spectra of healthy control cells, we identify spectral bands associated with nucleic acids that are markers for the cell activation process. These spectral changes are slight and can be complicated with the normal metabolic changes that occur within cells. We will discuss the use of data pretreatment strategies to accurately correct for the contribution of the buffer to the live cell spectra. We find the standard background correction method inadequate for concentrated solutions of cells. Data presented shows the severe effect incorrect background subtraction has on the cell spectra. We report a more accurate correction for phosphate buffer spectral contribution using an interactive subtraction of the buffer spectrum. We will show classification of dried control and activated macrophage cell spectra using partial-least squares analysis with multiplicative scatter correction.

  10. Descriptions of experiments selected for the Space Transportation System (STS) materials processing in space program

    NASA Technical Reports Server (NTRS)

    Naumann, R. J. (Editor)

    1978-01-01

    Summaries are presented for the first group of materials processing experiments planned for a shuttle mission. Outlined are the objectives, the approach, the rationale for the use of space, and the anticipated results for each experiment.

  11. Assessment of COTS IR image simulation tools for ATR development

    NASA Astrophysics Data System (ADS)

    Seidel, Heiko; Stahl, Christoph; Bjerkeli, Frode; Skaaren-Fystro, Paal

    2005-05-01

    Following the tendency of increased use of imaging sensors in military aircraft, future fighter pilots will need onboard artificial intelligence e.g. ATR for aiding them in image interpretation and target designation. The European Aeronautic Defence and Space Company (EADS) in Germany has developed an advanced method for automatic target recognition (ATR) which is based on adaptive neural networks. This ATR method can assist the crew of military aircraft like the Eurofighter in sensor image monitoring and thereby reduce the workload in the cockpit and increase the mission efficiency. The EADS ATR approach can be adapted for imagery of visual, infrared and SAR sensors because of the training-based classifiers of the ATR method. For the optimal adaptation of these classifiers they have to be trained with appropriate and sufficient image data. The training images must show the target objects from different aspect angles, ranges, environmental conditions, etc. Incomplete training sets lead to a degradation of classifier performance. Additionally, ground truth information i.e. scenario conditions like class type and position of targets is necessary for the optimal adaptation of the ATR method. In Summer 2003, EADS started a cooperation with Kongsberg Defence & Aerospace (KDA) from Norway. The EADS/KDA approach is to provide additional image data sets for training-based ATR through IR image simulation. The joint study aims to investigate the benefits of enhancing incomplete training sets for classifier adaptation by simulated synthetic imagery. EADS/KDA identified the requirements of a commercial-off-the-shelf IR simulation tool capable of delivering appropriate synthetic imagery for ATR development. A market study of available IR simulation tools and suppliers was performed. After that the most promising tool was benchmarked according to several criteria e.g. thermal emission model, sensor model, targets model, non-radiometric image features etc., resulting in a

  12. Cancer Cells with Alternative Lengthening of Telomeres Do Not Display a General Hypersensitivity to ATR Inhibition

    PubMed Central

    Deeg, Katharina I.; Chung, Inn; Bauer, Caroline; Rippe, Karsten

    2016-01-01

    Telomere maintenance is a hallmark of cancer as it provides cancer cells with cellular immortality. A significant fraction of tumors uses the alternative lengthening of telomeres (ALT) pathway to elongate their telomeres and to gain an unlimited proliferation potential. Since the ALT pathway is unique to cancer cells, it represents a potentially valuable, currently unexploited target for anti-cancer therapies. Recently, it was proposed that ALT renders cells hypersensitive to ataxia telangiectasia- and RAD3-related (ATR) protein inhibitors (Flynn et al., Science 347, 273). Here, we measured the response of various ALT- or telomerase-positive cell lines to the ATR inhibitor VE-821. In addition, we compared the effect of the inhibitor on cell viability in isogenic cell lines, in which ALT was active or suppressed. In these experiments, a general ATR inhibitor sensitivity of cells with ALT could not be confirmed. We rather propose that the observed variations in sensitivity reflect differences between cell lines that are unrelated to ALT.

  13. Cancer Cells with Alternative Lengthening of Telomeres Do Not Display a General Hypersensitivity to ATR Inhibition.

    PubMed

    Deeg, Katharina I; Chung, Inn; Bauer, Caroline; Rippe, Karsten

    2016-01-01

    Telomere maintenance is a hallmark of cancer as it provides cancer cells with cellular immortality. A significant fraction of tumors uses the alternative lengthening of telomeres (ALT) pathway to elongate their telomeres and to gain an unlimited proliferation potential. Since the ALT pathway is unique to cancer cells, it represents a potentially valuable, currently unexploited target for anti-cancer therapies. Recently, it was proposed that ALT renders cells hypersensitive to ataxia telangiectasia- and RAD3-related (ATR) protein inhibitors (Flynn et al., Science 347, 273). Here, we measured the response of various ALT- or telomerase-positive cell lines to the ATR inhibitor VE-821. In addition, we compared the effect of the inhibitor on cell viability in isogenic cell lines, in which ALT was active or suppressed. In these experiments, a general ATR inhibitor sensitivity of cells with ALT could not be confirmed. We rather propose that the observed variations in sensitivity reflect differences between cell lines that are unrelated to ALT. PMID:27602331

  14. Cancer Cells with Alternative Lengthening of Telomeres Do Not Display a General Hypersensitivity to ATR Inhibition

    PubMed Central

    Deeg, Katharina I.; Chung, Inn; Bauer, Caroline; Rippe, Karsten

    2016-01-01

    Telomere maintenance is a hallmark of cancer as it provides cancer cells with cellular immortality. A significant fraction of tumors uses the alternative lengthening of telomeres (ALT) pathway to elongate their telomeres and to gain an unlimited proliferation potential. Since the ALT pathway is unique to cancer cells, it represents a potentially valuable, currently unexploited target for anti-cancer therapies. Recently, it was proposed that ALT renders cells hypersensitive to ataxia telangiectasia- and RAD3-related (ATR) protein inhibitors (Flynn et al., Science 347, 273). Here, we measured the response of various ALT- or telomerase-positive cell lines to the ATR inhibitor VE-821. In addition, we compared the effect of the inhibitor on cell viability in isogenic cell lines, in which ALT was active or suppressed. In these experiments, a general ATR inhibitor sensitivity of cells with ALT could not be confirmed. We rather propose that the observed variations in sensitivity reflect differences between cell lines that are unrelated to ALT. PMID:27602331

  15. 76 FR 47520 - Airworthiness Directives; ATR-GIE Avions de Transport Régional Model ATR42 and ATR72 Airplanes

    Federal Register 2010, 2011, 2012, 2013, 2014

    2011-08-05

    ... to be jammed. During the post-flight inspection, it was discovered that the LH elevator lower stop... continued.airworthiness@atr.fr ; Internet http://www.aerochain.com . You may review copies of the referenced... amend this proposed AD based on those comments. We will post all comments we receive, without change,...

  16. Moment Tensor Descriptions for Simulated Explosions of the Source Physics Experiment (SPE)

    NASA Astrophysics Data System (ADS)

    Yang, X.; Rougier, E.; Knight, E. E.; Patton, H. J.

    2014-12-01

    In this research we seek to understand damage mechanisms governing the behavior of geo-materials in the explosion source region, and the role they play in seismic-wave generation. Numerical modeling tools can be used to describe these mechanisms through the development and implementation of appropriate material models. Researchers at Los Alamos National Laboratory (LANL) have been working on a novel continuum-based-viscoplastic strain-rate-dependent fracture material model, AZ_Frac, in an effort to improve the description of these damage sources. AZ_Frac has the ability to describe continuum fracture processes, and at the same time, to handle pre-existing anisotropic material characteristics. The introduction of fractures within the material generates further anisotropic behavior that is also accounted for within the model. The material model has been calibrated to a granitic medium and has been applied in a number of modeling efforts under the SPE project. In our modeling, we use a 2D, axisymmetric layered earth model of the SPE site consisting of a weathered layer on top of a half-space. We couple the hydrodynamic simulation code with a seismic simulation code and propagate the signals to distances of up to 2 km. The signals are inverted for time-dependent moment tensors using a modified inversion scheme that accounts for multiple sources at different depths. The inversion scheme is evaluated for its resolving power to determine a centroid depth and a moment tensor description of the damage source. The capabilities of the inversion method to retrieve such information from waveforms recorded on three SPE tests conducted to date are also being assessed.

  17. The Effects of Liking Norms and Descriptive Norms on Vegetable Consumption: A Randomized Experiment.

    PubMed

    Thomas, Jason M; Liu, Jinyu; Robinson, Eric L; Aveyard, Paul; Herman, C Peter; Higgs, Suzanne

    2016-01-01

    There is evidence that social norm messages can be used to promote the selection of fruit and vegetables in low habitual consumers of these foods but it is unclear whether this effect is sustained over time. It is also unclear whether information about others' liking for a food (liking norm) could have the same effect. Using a 2 × 5 × 2 experimental design we investigated the effects of exposure to various messages on later intake from a food buffet and whether any effects were sustained 24 h after exposure in both low and high consumers of vegetables. There were three factors: delay (immediate food selection vs. food selection 24 h after exposure), message type (liking norm, descriptive norm, health message, vegetable variety condition, and neutral control message), and habitual consumption (low vs. high). The buffet consisted of three raw vegetables, three energy-dense foods, and two dips. For vegetables and non-vegetables there were no main effects of message type, nor any main effect of delay. There was a significant message × habitual vegetable consumption interaction for vegetable consumption; however, follow up tests did not yield any significant effects. Examining each food individually, there were no main effects of message type, nor any main effect of delay, for any of the foods; however, there was a message × habitual vegetable consumption interaction for broccoli. Consumption of broccoli in the health message and descriptive norm conditions did not differ from the control neutral condition. However, habitually low consumers of vegetables increased their consumption of broccoli in the vegetable variety and liking norm conditions relative to habitual low vegetable consumers in the neutral control condition (p < 0.05). Further, investigation of the effects of the liking norm and vegetable variety condition on vegetable intake is warranted. This trial is listed as NCT02618174 at clinicaltrials.gov.

  18. The Effects of Liking Norms and Descriptive Norms on Vegetable Consumption: A Randomized Experiment

    PubMed Central

    Thomas, Jason M.; Liu, Jinyu; Robinson, Eric L.; Aveyard, Paul; Herman, C. Peter; Higgs, Suzanne

    2016-01-01

    There is evidence that social norm messages can be used to promote the selection of fruit and vegetables in low habitual consumers of these foods but it is unclear whether this effect is sustained over time. It is also unclear whether information about others' liking for a food (liking norm) could have the same effect. Using a 2 × 5 × 2 experimental design we investigated the effects of exposure to various messages on later intake from a food buffet and whether any effects were sustained 24 h after exposure in both low and high consumers of vegetables. There were three factors: delay (immediate food selection vs. food selection 24 h after exposure), message type (liking norm, descriptive norm, health message, vegetable variety condition, and neutral control message), and habitual consumption (low vs. high). The buffet consisted of three raw vegetables, three energy-dense foods, and two dips. For vegetables and non-vegetables there were no main effects of message type, nor any main effect of delay. There was a significant message × habitual vegetable consumption interaction for vegetable consumption; however, follow up tests did not yield any significant effects. Examining each food individually, there were no main effects of message type, nor any main effect of delay, for any of the foods; however, there was a message × habitual vegetable consumption interaction for broccoli. Consumption of broccoli in the health message and descriptive norm conditions did not differ from the control neutral condition. However, habitually low consumers of vegetables increased their consumption of broccoli in the vegetable variety and liking norm conditions relative to habitual low vegetable consumers in the neutral control condition (p < 0.05). Further, investigation of the effects of the liking norm and vegetable variety condition on vegetable intake is warranted. This trial is listed as NCT02618174 at clinicaltrials.gov. PMID:27065913

  19. The Effects of Liking Norms and Descriptive Norms on Vegetable Consumption: A Randomized Experiment.

    PubMed

    Thomas, Jason M; Liu, Jinyu; Robinson, Eric L; Aveyard, Paul; Herman, C Peter; Higgs, Suzanne

    2016-01-01

    There is evidence that social norm messages can be used to promote the selection of fruit and vegetables in low habitual consumers of these foods but it is unclear whether this effect is sustained over time. It is also unclear whether information about others' liking for a food (liking norm) could have the same effect. Using a 2 × 5 × 2 experimental design we investigated the effects of exposure to various messages on later intake from a food buffet and whether any effects were sustained 24 h after exposure in both low and high consumers of vegetables. There were three factors: delay (immediate food selection vs. food selection 24 h after exposure), message type (liking norm, descriptive norm, health message, vegetable variety condition, and neutral control message), and habitual consumption (low vs. high). The buffet consisted of three raw vegetables, three energy-dense foods, and two dips. For vegetables and non-vegetables there were no main effects of message type, nor any main effect of delay. There was a significant message × habitual vegetable consumption interaction for vegetable consumption; however, follow up tests did not yield any significant effects. Examining each food individually, there were no main effects of message type, nor any main effect of delay, for any of the foods; however, there was a message × habitual vegetable consumption interaction for broccoli. Consumption of broccoli in the health message and descriptive norm conditions did not differ from the control neutral condition. However, habitually low consumers of vegetables increased their consumption of broccoli in the vegetable variety and liking norm conditions relative to habitual low vegetable consumers in the neutral control condition (p < 0.05). Further, investigation of the effects of the liking norm and vegetable variety condition on vegetable intake is warranted. This trial is listed as NCT02618174 at clinicaltrials.gov. PMID:27065913

  20. Neutron irradiation of V-Cr-Ti alloys in the BOR-60 fast reactor: Description of the fusion-1 experiment

    SciTech Connect

    Rowcliffe, A.F.; Tsai, H.C.; Smith, D.L.

    1997-08-01

    The FUSION-1 irradiation capsule was inserted in Row 5 of the BOR-60 fast reactor in June 1995. The capsule contains a collaborative RF/U.S. experiment to investigate the irradiation performance of V-Cr-Ti alloys in the temperature range 310 to 350{degrees}C. This report describes the capsule layout, specimen fabrication history, and the detailed test matrix for the U.S. specimens. A description of the operating history and neutronics will be presented in the next semiannual report.

  1. DSN radio science system description and requirements. [for satellite radio astronomy experiments

    NASA Technical Reports Server (NTRS)

    Mulhall, B. D. L.

    1977-01-01

    The data system created to collect the functions performed by the Deep Space Network in support of spacecraft radio science experiments is described. Some of the major functional requirements presently being considered for the system are delineated.

  2. Homeostatic regulation of meiotic DSB formation by ATM/ATR

    SciTech Connect

    Cooper, Tim J.; Wardell, Kayleigh; Garcia, Valerie; Neale, Matthew J.

    2014-11-15

    Ataxia–telangiectasia mutated (ATM) and RAD3-related (ATR) are widely known as being central players in the mitotic DNA damage response (DDR), mounting responses to DNA double-strand breaks (DSBs) and single-stranded DNA (ssDNA) respectively. The DDR signalling cascade couples cell cycle control to damage-sensing and repair processes in order to prevent untimely cell cycle progression while damage still persists [1]. Both ATM/ATR are, however, also emerging as essential factors in the process of meiosis; a specialised cell cycle programme responsible for the formation of haploid gametes via two sequential nuclear divisions. Central to achieving accurate meiotic chromosome segregation is the introduction of numerous DSBs spread across the genome by the evolutionarily conserved enzyme, Spo11. This review seeks to explore and address how cells utilise ATM/ATR pathways to regulate Spo11-DSB formation, establish DSB homeostasis and ensure meiosis is completed unperturbed.

  3. ATR PDQ and MCWO Fuel Burnup Analysis Codes Evaluation

    SciTech Connect

    G.S. Chang; P. A. Roth; M. A. Lillo

    2009-11-01

    The Advanced Test Reactor (ATR) at the Idaho National Laboratory (INL) is being studied to determine the feasibility of converting it from the highly enriched Uranium (HEU) fuel that is currently uses to low enriched Uranium (LEU) fuel. In order to achieve this goal, it would be best to qualify some different computational methods than those that have been used at ATR for the past 40 years. This paper discusses two methods of calculating the burnup of ATR fuel elements. The existing method, that uses the PDQ code, is compared to a modern method that uses A General Monte Carlo N-Particle Transport Code (MCNP) combined with the Origen2.2 code. This modern method, MCNP with ORIGEN2.2 (MCWO), is found to give excellent agreement with the existing method (PDQ). Both of MCWO and PDQ are also in a very good agreement to the 235U burnup data generated by an analytical method.

  4. ATR NATIONAL SCIENTIFIC USER FACILITY INSTRUMENTATION ENHANCEMENT EFFORTS

    SciTech Connect

    Joy L. Rempe; Mitchell K. Meyer

    2009-04-01

    A key component of the Advanced Test Reactor (ATR) National Scientific User Facility (NSUF) effort is to enhance instrumentation techniques available to users conducting irradiation tests in this unique facility. In particular, development of sensors capable of providing ‘real-time’ measurements of key irradiation parameters is emphasized because of their potential to offer increased fidelity data and reduced post-test examination costs. This paper describes the strategy for identifying new instrumentation needed for ATR irradiations and the program underway to develop and evaluate new sensors to address these needs. Accomplishments from this program are illustrated by describing several new sensors now available to users of the ATR NSUF. In addition, progress is reported on current research efforts to provide users improved in-pile instrumentation.

  5. Description of and preliminary tests results for the Joint Damping Experiment (JDX)

    NASA Technical Reports Server (NTRS)

    Bingham, Jeffrey G.; Folkman, Steven L.

    1995-01-01

    An effort is currently underway to develop an experiment titled joint Damping E_periment (JDX) to fly on the Space Shuttle as Get Away Special Payload G-726. This project is funded by NASA's IN-Space Technology Experiments Program and is scheduled to fly in July 1995 on STS-69. JDX will measure the influence of gravity on the structural damping of a three bay truss having clearance fit pinned joints. Structural damping is an important parameter in the dynamics of space structures. Future space structures will require more precise knowledge of structural damping than is currently available. The mission objectives are to develop a small-scale shuttle flight experiment that allows researchers to: (1) characterize the influence of gravity and joint gaps on structural damping and dynamic behavior of a small-scale truss model, and (2) evaluate the applicability of low-g aircraft test results for predicting on-orbit behavior. Completing the above objectives will allow a better understanding and/or prediction of structural damping occurring in a pin jointed truss. Predicting damping in joints is quite difficult. One of the important variables influencing joint damping is gravity. Previous work has shown that gravity loads can influence damping in a pin jointed truss structure. Flying this experiment as a GAS payload will allow testing in a microgravity environment. The on-orbit data (in micro-gravity) will be compared with ground test results. These data will be used to help develop improved models to predict damping due to pinned joints. Ground and low-g aircraft testing of this experiment has been completed. This paper describes the experiment and presents results of both ground and low-g aircraft tests which demonstrate that damping of the truss is dramatically influenced by gravity.

  6. ATR spectra on boundary with mixture containing organic substances

    NASA Astrophysics Data System (ADS)

    Schelokov, R. V.; Yatsishen, V. V.

    2005-02-01

    The problem of not destroying diagnostics and dosing of radiation at laser therapy is one of important in medicine. Therefore the purpose of our work is development of method ATR for diagnostics and researches in biomedicine. In this work as objects of consideration were: a mixture of nicotine with water, a mixture of an ascorbic acid with water and surface lesions of an eye cornea by a herpes virus. Results of our consideration are the ATR spectra defined at different concentration of organic substances and virions.

  7. A testbed for architecture and fidelity trade studies in the Bayesian decision-level fusion of ATR products

    NASA Astrophysics Data System (ADS)

    Erickson, Kyle J.; Ross, Timothy D.

    2007-04-01

    Decision-level fusion is an appealing extension to automatic/assisted target recognition (ATR) as it is a low-bandwidth technique bolstered by a strong theoretical foundation that requires no modification of the source algorithms. Despite the relative simplicity of decision-level fusion, there are many options for fusion application and fusion algorithm specifications. This paper describes a tool that allows trade studies and optimizations across these many options, by feeding an actual fusion algorithm via models of the system environment. Models and fusion algorithms can be specified and then exercised many times, with accumulated results used to compute performance metrics such as probability of correct identification. Performance differences between the best of the contributing sources and the fused result constitute examples of "gain." The tool, constructed as part of the Fusion for Identifying Targets Experiment (FITE) within the Air Force Research Laboratory (AFRL) Sensors Directorate ATR Thrust, finds its main use in examining the relationships among conditions affecting the target, prior information, fusion algorithm complexity, and fusion gain. ATR as an unsolved problem provides the main challenges to fusion in its high cost and relative scarcity of training data, its variability in application, the inability to produce truly random samples, and its sensitivity to context. This paper summarizes the mathematics underlying decision-level fusion in the ATR domain and describes a MATLAB-based architecture for exploring the trade space thus defined. Specific dimensions within this trade space are delineated, providing the raw material necessary to define experiments suitable for multi-look and multi-sensor ATR systems.

  8. Statistical description of a structured clay soil using dye infiltration experiments

    Technology Transfer Automated Retrieval System (TEKTRAN)

    The spatial variability of preferential pathways in a field soil with native grasses and after a sorghum crop, as visualized through dye infiltration experiments, was studied by applying configuration entropy and correlation functions. After dye infiltration into a 3m x 3m plots located on a soil cl...

  9. A Descriptive Study of Four Principals' Experiences in Leading One High-Impact Minority High School

    ERIC Educational Resources Information Center

    Curtwright, Lewis K.

    2013-01-01

    The purpose of this portraiture study is to describe four African-American principals' experiences, in the context of their principal's role, with the interventions they championed in meeting the needs of their struggling students. This research attempts to answer questions concerning: What role did the four principals play in the targeted school…

  10. The School Counselors Description of Their Experiences of Emotional Exhaustion: A Phenomenological Study

    ERIC Educational Resources Information Center

    Mathews, Telina F.

    2013-01-01

    Burnout is a topic that brings about much debate. Although the literature on burnout has examined its significance to educators and mental health professionals, little school counselor research has focused on the field of school counseling and the individual experiences of school counselors. School counselors are unique participants within the…

  11. ISOTHERMAL AIR INGRESS VALIDATION EXPERIMENTS AT IDAHO NATIONAL LABORATORY: DESCRIPTION AND SUMMARY OF DATA

    SciTech Connect

    Chang H. Oh; Eung S. Kim

    2010-09-01

    Idaho National Laboratory performed air ingress experiments as part of validating computational fluid dynamics code (CFD). An isothermal stratified flow experiment was designed and set to understand stratified flow phenomena in the very high temperature gas cooled reactor (VHTR) and to provide experimental data for validating computer codes. The isothermal experiment focused on three flow characteristics unique in the VHTR air-ingress accident: stratified flow in the horizontal pipe, stratified flow expansion at the pipe and vessel junction, and stratified flow around supporting structures. Brine and sucrose were used as heavy fluids and water was used as light fluids. The density ratios were changed between 0.87 and 0.98. This experiment clearly showed that a stratified flow between heavy and light fluids is generated even for very small density differences. The code was validated by conducting blind CFD simulations and comparing the results to the experimental data. A grid sensitivity study was also performed based on the Richardson extrapolation and the grid convergence index method for modeling confidence. As a result, the calculated current speed showed very good agreement with the experimental data, indicating that the current CFD methods are suitable for predicting density gradient stratified flow phenomena in the air-ingress accident.

  12. A Descriptive Analysis of the Experience Based Training and Development Field.

    ERIC Educational Resources Information Center

    Miner, Todd

    This article describes and analyzes the field of experience-based training and development (EBTD) in an attempt to determine its scope, goals, activities, participants, providers, and philosophical bases. EBTD is a process that uses hands-on challenge or adventure, usually in the outdoors, combined with review and feedback, to improve work place…

  13. Exploring Australian Aboriginal Women’s experiences of menopause: a descriptive study

    PubMed Central

    2014-01-01

    Background Despite extensive literature demonstrating differing experiences in menopause around the world, documentation of the experience of menopause in Australian Aboriginal women is scarce, and thus their menopausal experience is relatively unknown. This study aimed to understand Australian Aboriginal women’s understanding and experience of menopause and its impact on their lives. Methods The study was an exploratory qualitative study. Twenty-five Aboriginal women were recruited from a regional centre in the Mid-West region of Western Australia using opportunistic and snowballing sampling. Interviews and focus group discussions were undertaken from February 2011 to February 2012 using open-ended questioning with a yarning technique. Thematic analysis was undertaken of the transcribed interviews. Results A number of themes were revealed. These related to the language used, meanings and attitudes to menopause, symptoms experienced, the role of men, a lack of understanding, coping mechanisms and the attribution of menopausal changes to something else. The term “change of life” was more widely recognised and signified the process of ageing, and an associated gain of respect in the local community. A fear of menopausal symptoms or uncertainty about their origin was also common. Overall, many women reported insufficient understanding and a lack of available information to assist them and their family to understand the transition. Conclusion There are similarities between Aboriginal and non-Aboriginal experiences of menopause, including similar symptom profiles. The current language used within mainstream health settings may not be appropriate to this population if it fails to recognise the importance of language and reflect the attributed meaning of menopause. The fear of symptoms and uncertainty of their relationship to menopause demonstrated a need for more information which has not adequately been supplied to Australian Aboriginal women through current

  14. MageComet—web application for harmonizing existing large-scale experiment descriptions

    PubMed Central

    Xue, Vincent; Burdett, Tony; Lukk, Margus; Taylor, Julie; Brazma, Alvis; Parkinson, Helen

    2012-01-01

    Motivation: Meta-analysis of large gene expression datasets obtained from public repositories requires consistently annotated data. Curation of such experiments, however, is an expert activity which involves repetitive manipulation of text. Existing tools for automated curation are few, which bottleneck the analysis pipeline. Results: We present MageComet, a web application for biologists and annotators that facilitates the re-annotation of gene expression experiments in MAGE-TAB format. It incorporates data mining, automatic annotation, use of ontologies and data validation to improve the consistency and quality of experimental meta-data from the ArrayExpress Repository. Availability and implementation: Source and tutorials for MageComet are openly available at goo.gl/8LQPR under the GNU GPL v3 licenses. An implementation can be found at goo.gl/IdCuA Contact: parkinson@ebi.ac.uk or xue.vin@gmail.com PMID:22474121

  15. Perceptions and experiences after radical prostatectomy in Turkish men: a descriptive qualitative study.

    PubMed

    Iyigun, Emine; Ayhan, Hatice; Tastan, Sevinc

    2011-05-01

    Radical prostatectomy (RP) can significantly influence men's quality of life. Data from the Ministry of Health's Fight With Cancer Office Directorate in 2003 show that prostate cancer is third among the 10 most common types of cancer in men, with an incidence of 5.97% in the population. The objectives of this study were to define the experiences and perceptions of Turkish men who have undergone RP and to determine the views and suggestions of men who had undergone RP as to their discharge training content. Following the RP, urinary incontinence (UI) and erectile dysfunction (ED) negatively affect the daily life of men. It has been determined that men need support to deal with these problems they met. Being discharged without obtaining information from the health care staff regarding home catheter care and UI and ED management causes men to experience difficulties and find it difficult to cope when faced with these problems. PMID:20974065

  16. A Brief Description of the Two Primate Experiments to Be Carried Out on SL-4

    NASA Technical Reports Server (NTRS)

    Elsea, L.

    1985-01-01

    Two primate experiments to be carried on Spacelab 4 are discussed. One of these investigates thermoregulation of primates during altered gravity. In previous ground-based tests, primate heat distribution was shown to change during centrifugation (a way of subjecting subjects to higher-than-Earth gravity), the inner body cooling off and the skin temperature rising. The adaptive and homeostatic mechanisms triggered by spaceflight are studied. Ways in which to correct any undesirable shifts in the homeostatic capabilities of the thermoregulatory control system are addressed. The other experiment involving primates addressess the changes in fluid distribution and electrolyte content of blood that occur in spaceflight. During previous space missions, fluid shifts from the legs to the chest and head have been noted. Ground-based studies have shown decreases in blood potassium levels and increases in potassium excretion.

  17. The Harvard experiment on OSO-6 - Instrumentation, calibration, operation, and description of observations.

    NASA Technical Reports Server (NTRS)

    Huber, M. C. E.; Dupree, A. K.; Goldberg, L.; Parkinson, W. H.; Reeves, E. M.; Withbroe, G. L.; Noyes, R. W.

    1973-01-01

    The Harvard experiment carried by OSO-6 was an extreme-ultraviolet (EUV) spectrometer-spectroheliometer with a wavelength range of 285 to 1385 A, a spatial and spectral bandwidth of 35 x 35(arc sec) squared and 3 A, respectively. The instrument acquired data that have been deposited with the National Space Science Data Center and World Data Center A at the Goddard Space Flight Center in Greenbelt, Maryland, and are now available in their entirety to the scientific community. Aspects of the experiment that are relevant to potential users of the data are described - namely, instrument configuration and parameters, laboratory and inflight calibrations, as well as operational capabilities and procedures. The observations obtained are reported, and the nature, number, and dates of observation, where relevant, are listed.

  18. Variable Sweep Transition Flight Experiment (VSTFE): Unified Stability System (USS). Description and Users' Manual

    NASA Technical Reports Server (NTRS)

    Rozendaal, Rodger A.; Behbehani, Roxanna

    1990-01-01

    NASA initiated the Variable Sweep Transition Flight Experiment (VSTFE) to establish a boundary layer transition database for laminar flow wing design. For this experiment, full-span upper surface gloves were fitted to a variable sweep F-14 aircraft. The development of an improved laminar boundary layer stability analysis system called the Unified Stability System (USS) is documented and results of its use on the VSTFE flight data are shown. The USS consists of eight computer codes. The theoretical background of the system is described, as is the input, output, and usage hints. The USS is capable of analyzing boundary layer stability over a wide range of disturbance frequencies and orientations, making it possible to use different philosophies in calculating the growth of disturbances on sweptwings.

  19. Experiment on the Vernov satellite: Transient energetic processes in the Earth's atmosphere and magnetosphere. Part I: Description of the experiment

    NASA Astrophysics Data System (ADS)

    Panasyuk, M. I.; Svertilov, S. I.; Bogomolov, V. V.; Garipov, G. K.; Barinova, V. O.; Bogomolov, A. V.; Veden'kin, N. N.; Golovanov, I. A.; Iyudin, A. F.; Kalegaev, V. V.; Klimov, P. A.; Kovtyukh, A. S.; Kuznetsova, E. A.; Morozenko, V. S.; Morozov, O. V.; Myagkova, I. N.; Petrov, V. L.; Prokhorov, A. V.; Rozhkov, G. V.; Sigaeva, E. A.; Khrenov, B. A.; Yashin, I. V.; Klimov, S. I.; Vavilov, D. I.; Grushin, V. A.; Grechko, T. V.; Khartov, V. V.; Kudryashov, V. A.; Bortnikov, S. V.; Mzhel'skiy, P. V.; Papkov, A. P.; Krasnopeev, S. V.; Krug, V. V.; Korepanov, V. E.; Belyaev, S.; Demidov, A.; Ferenz, Ch.; Bodnar, L.; Szegedi, P.; Rotkel, H.; Moravskiy, M.; Park, Il; Jeon, Jin-A.; Kim, Ji-In; Lee, Jik

    2016-07-01

    The program of physical studies on the Vernov satellite launched on July 8, 2014 into a polar (640 × 830 km) solar-synchronous orbit with an inclination of 98.4° is presented. We described the complex of scientific equipment on this satellite in detail, including multidirectional gamma-ray detectors, electron spectrometers, red and ultra-violet detectors, and wave probes. The experiment on the Vernov satellite is mainly aimed at a comprehensive study of the processes of generation of transient phenomena in the optical and gamma-ray ranges in the Earth's atmosphere (such as high-altitude breakdown on runaway relativistic electrons), the study of the action on the atmosphere of electrons precipitated from the radiation belts, and low- and high-frequency electromagnetic waves of both space and atmospheric origin.

  20. Near-surface dynamics of sheared polymer melts using ATR/FTIR

    SciTech Connect

    Wise, G.M.; Denn, M.M.; Bell, A.T. |

    1998-03-01

    Using attenuated total-reflectance infrared spectroscopy (ATR/FTIR), the concentration of deuterated polybutadiene near the surface of a flat zinc selenide crystal was followed as it was replaced by ordinary polybutadiene by flow and diffusion. Experiments were performed in the melt, both below (M {approximately} 1,500) and above (M {approximately} 15,000) the entanglement threshold. The decay profiles agree well with a finite-element simulation of the system. In contrast to previous investigations of C{sub 16}`s, the decay profiles of both unentangled and entangled polybutadienes are consistent with a uniform diffusivity in the near-wall region.

  1. Stochastic description of the light scattered by a polydisperse colloidal suspension: simulation and experiment.

    PubMed

    Roldán-Vargas, Sándalo; Quesada-Pérez, Manuel; Callejas-Fernández, José

    2009-07-21

    In this work, the stochastic properties of the detected signal in dynamic light scattering experiments are examined in light of Doob's theorem. For Markovian observations of the Brownian particle position, we prove from this theorem that the electric field scattered by a polydisperse suspension can be accounted for by a linear combination of Ornstein-Uhlenbeck processes. A new algorithm for generating the fluctuating field scattered by a polydisperse system is proposed from this alternative formalism. The statistics of our synthetic data is compared satisfactorily with that resulting from the experimental signal scattered by a binary suspension of polystyrene microspheres. PMID:19624211

  2. Stochastic description of the light scattered by a polydisperse colloidal suspension: simulation and experiment.

    PubMed

    Roldán-Vargas, Sándalo; Quesada-Pérez, Manuel; Callejas-Fernández, José

    2009-07-21

    In this work, the stochastic properties of the detected signal in dynamic light scattering experiments are examined in light of Doob's theorem. For Markovian observations of the Brownian particle position, we prove from this theorem that the electric field scattered by a polydisperse suspension can be accounted for by a linear combination of Ornstein-Uhlenbeck processes. A new algorithm for generating the fluctuating field scattered by a polydisperse system is proposed from this alternative formalism. The statistics of our synthetic data is compared satisfactorily with that resulting from the experimental signal scattered by a binary suspension of polystyrene microspheres.

  3. Loads Providing Ancillary Services: Review of InternationalExperience-- Technical Appendix: Market Descriptions

    SciTech Connect

    Grayson Heffner, Charles Goldman, Kintner-Meyer, M; Kirby, Brendan

    2007-05-01

    In this study, we examine the arrangements for andexperiences of end-use loads providing ancillary services (AS) in fiveelectricity markets: Australia, the United Kingdom (UK), the Nordicmarket, and the ERCOT and PJM markets in the United States. Our objectivein undertaking this review of international experience was to identifyspecific approaches or market designs that have enabled customer loads toeffectively deliver various ancillary services (AS) products. We hopethat this report will contribute to the ongoing discussion in the U.S.and elsewhere regarding what institutional and technical developments areneeded to ensure that customer loads can meaningfully participate in allwholesale electricity markets.

  4. The breastfeeding experience of women with major difficulties who use the services of a breastfeeding clinic: a descriptive study

    PubMed Central

    Lamontagne, Caroline; Hamelin, Anne-Marie; St-Pierre, Monik

    2008-01-01

    Background Many women experience breastfeeding difficulties. Sometimes these difficulties lead to breastfeeding cessation. Breastfeeding clinics provide support for women facing such problems. This study aims to describe the breastfeeding experience of women, particularly those who use the services of the breastfeeding clinic located in the Greater Quebec City area. Methods This is a descriptive study based on information gathered through telephone questionnaires that were administered in 2006 to a sample of 86 women and semi-structured interviews conducted with 12 of these women. Results Painful nipples/breasts, low milk supply and latching difficulties were the three most frequent major breastfeeding problems identified by women. Their personal characteristics as well as the moral and physical support provided by family and friends and by health professional and clinicians at the breastfeeding clinic were the factors identified most often as having a positive influence on the breastfeeding experience. Conclusion The results suggest that breastfeeding clinics have a critical role to play in improving the breastfeeding experience of women with major difficulties. PMID:18680602

  5. The Experiences of Patients With Advanced Head and Neck Cancer With a Percutaneous Endoscopic Gastrostomy Tube: A Qualitative Descriptive Study.

    PubMed

    Kwong, Janna P Y; Stokes, Edith J; Posluns, Elaine C; Fitch, Margaret I; McAndrew, Alison; Vandenbussche, Katherine A

    2014-05-28

    Background: While the percutaneous endoscopic gastrostomy (PEG) tube has become an established part of the management regimen for patients with head and neck cancer (HNCA) with impaired nutrition and functional status, limited research has explored the impact and experiences of living with a PEG tube from the patient's perspective. This qualitative study serves as a follow-up investigation undertaken to describe the experiences of patients with advanced HNCA living with a PEG tube. Materials and Methods: Eligible patients from convenience sampling were invited to participate until data saturation was reached. In-depth interviews were conducted with consenting participants. Qualitative descriptive design guided the content analysis of the interview transcripts. Results: Of the 49 patients invited, a total of 15 participants' interviews were transcribed and analyzed. Each interview was 15-90 minutes in length. Four of 22 content codes were chosen to describe the overarching ideas of the progressive experience of a patient's journey from the initial decision-making process around tube insertion through to its removal. Difficulty swallowing and weight loss emerged as primary factors for PEG tube insertion, and all participants became accustomed to living with the tube. Resuming a complete oral diet was a gradual transition. All participants recognized the value of the tube, and most acknowledged its necessity for their survival. Conclusions: Results describe the overall PEG tube experience as a dichotomy. While there were issues with the PEG tube, all participants found the tube to be beneficial. This study provides invaluable insight from a practice perspective. PMID:24871492

  6. Identification of descriptive parameters of gradated soils using column experiments and analysis of CT data

    NASA Astrophysics Data System (ADS)

    Binner, Richard; Homberg, Ulrike; Prohaska, Steffen; Kalbe, Ute; Berger, Wolfgang; Witt, Karl Josef

    2010-05-01

    In this contribution, we present a method that combines experimental and micro-tomographic information to derive parameters of the pore structure of gradated soils. High-resolution CT data of samples of gradated soils are acquired. Parameters such as the pore positions and the pore sizes, the pore paths, and the pore constrictions are computed by applying methods of image analysis. Further, specific parameters of the pore and soil structure are determined using column and compacting experiments based on model soils. The grain size and effluent quantity of potentially mobile particles are identified, as well as the characteristics of the supporting skeleton of the model. The results of a comparison of both methods suggest that column experiments in combination with automatic image processing methods can provide suitable geometric parameters of real grain and pore structure for analyzing suffosive erosion phenomena. This visualization allows a better understanding of the various physical processes within the pore structure. But for a qualitative approach these parameters can be incorporated into pore-network models to verify existing transport models. This research is a part of a comprehensive research project on suffosion of soils.

  7. USE OF SILICON CARBIDE MONITORS IN ATR IRRADIATION TESTING

    SciTech Connect

    K. L. Davis; B. Chase; T. Unruh; D. Knudson; J. L. Rempe

    2012-07-01

    In April 2007, the Department of Energy (DOE) designated the Advanced Test Reactor (ATR) a National Scientific User Facility (NSUF) to advance US leadership in nuclear science and technology. By attracting new users from universities, laboratories, and industry, the ATR will support basic and applied nuclear research and development and help address the nation's energy security needs. In support of this new program, the Idaho National Laboratory (INL) has developed in-house capabilities to fabricate, test, and qualify new and enhanced temperature sensors for irradiation testing. Although most efforts emphasize sensors capable of providing real-time data, selected tasks have been completed to enhance sensors provided in irradiation locations where instrumentation leads cannot be included, such as drop-in capsule and Hydraulic Shuttle Irradiation System (HSIS) or 'rabbit' locations. For example, silicon carbide (SiC) monitors are now available to detect peak irradiation temperatures between 200°C and 800°C. Using a resistance measurement approach, specialized equipment installed at INL's High Temperature Test Laboratory (HTTL) and specialized procedures were developed to ensure that accurate peak irradiation temperature measurements are inferred from SiC monitors irradiated at the ATR. Comparison examinations were completed by INL to demonstrate this capability, and several programs currently rely on SiC monitors for peak temperature detection. This paper discusses the use of SiC monitors at the ATR, the process used to evaluate them at the HTTL, and presents representative measurements taken using SiC monitors.

  8. The patient experience of a Peripherally Inserted Central Catheter (PICC): a qualitative descriptive study.

    PubMed

    Sharp, Rebecca; Grech, Carol; Fielder, Andrea; Mikocka-Walus, Antonina; Cummings, Melita; Esterman, Adrian

    2014-07-19

    Abstract Aim: To investigate the patient experience of PICC insertion, the significance of arm choice and the impact of the device on activities of daily living. Background: Arm choice for PICC insertion is often determined by PICC nurses with little input from consumers. There are few studies that have investigated the patient experience of living with a PICC and none that have examined the impact of arm choice from the consumer's perspective. Method: Participants were recruited in a hospital whilst they waited for PICC insertion. A purposeful sampling approach was used to select participants based on diagnosis types. Semistructured telephone interviews were conducted November 2012-August 2013. Transcripts of the interviews were analysed using thematic analysis. Findings: Ten participants were interviewed. Four themes were identified: (i) apprehension/ adaptation/ acceptance, (ii) impact of treatment, (iii) asking questions (trusting doctors) and (iv) freedom. Although initially apprehensive, participants adapted to the PICC and came to accept that the device allowed convenient access for treatment. This allowed them the freedom to receive treatment at home. The use of the dominant or non-dominant arm for PICC insertion had marginal impact on activities of daily living for participants. Auxiliary factors such as the infusion pump had a significant impact for those who received outpatient treatment. For those participants who did not understand the procedure, many did not seek clarification and trusted medical and nursing staff to make decisions for them. Conclusion: Nurses should involve consumers in clinical decision-making and provide individualised information and support that facilitates adaptation for patients living with a PICC.

  9. The patient experience of a Peripherally Inserted Central Catheter (PICC): a qualitative descriptive study.

    PubMed

    Sharp, Rebecca; Grech, Carol; Fielder, Andrea; Mikocka-Walus, Antonina; Cummings, Melita; Esterman, Adrian

    2014-07-19

    Abstract Aim: To investigate the patient experience of PICC insertion, the significance of arm choice and the impact of the device on activities of daily living. Background: Arm choice for PICC insertion is often determined by PICC nurses with little input from consumers. There are few studies that have investigated the patient experience of living with a PICC and none that have examined the impact of arm choice from the consumer's perspective. Method: Participants were recruited in a hospital whilst they waited for PICC insertion. A purposeful sampling approach was used to select participants based on diagnosis types. Semistructured telephone interviews were conducted November 2012-August 2013. Transcripts of the interviews were analysed using thematic analysis. Findings: Ten participants were interviewed. Four themes were identified: (i) apprehension/ adaptation/ acceptance, (ii) impact of treatment, (iii) asking questions (trusting doctors) and (iv) freedom. Although initially apprehensive, participants adapted to the PICC and came to accept that the device allowed convenient access for treatment. This allowed them the freedom to receive treatment at home. The use of the dominant or non-dominant arm for PICC insertion had marginal impact on activities of daily living for participants. Auxiliary factors such as the infusion pump had a significant impact for those who received outpatient treatment. For those participants who did not understand the procedure, many did not seek clarification and trusted medical and nursing staff to make decisions for them. Conclusion: Nurses should involve consumers in clinical decision-making and provide individualised information and support that facilitates adaptation for patients living with a PICC. PMID:25041163

  10. 30 CFR 75.209 - Automated Temporary Roof Support (ATRS) systems.

    Code of Federal Regulations, 2012 CFR

    2012-07-01

    ... 30 Mineral Resources 1 2012-07-01 2012-07-01 false Automated Temporary Roof Support (ATRS) systems... Automated Temporary Roof Support (ATRS) systems. (a) Except in anthracite mines and as specified in paragraphs (b) and (c) of this section, an ATRS system shall be used with roof bolting machines...

  11. 30 CFR 75.209 - Automated Temporary Roof Support (ATRS) systems.

    Code of Federal Regulations, 2013 CFR

    2013-07-01

    ... 30 Mineral Resources 1 2013-07-01 2013-07-01 false Automated Temporary Roof Support (ATRS) systems... Automated Temporary Roof Support (ATRS) systems. (a) Except in anthracite mines and as specified in paragraphs (b) and (c) of this section, an ATRS system shall be used with roof bolting machines...

  12. 30 CFR 75.209 - Automated Temporary Roof Support (ATRS) systems.

    Code of Federal Regulations, 2014 CFR

    2014-07-01

    ... 30 Mineral Resources 1 2014-07-01 2014-07-01 false Automated Temporary Roof Support (ATRS) systems... Automated Temporary Roof Support (ATRS) systems. (a) Except in anthracite mines and as specified in paragraphs (b) and (c) of this section, an ATRS system shall be used with roof bolting machines...

  13. Testing a discrete choice experiment including duration to value health states for large descriptive systems: addressing design and sampling issues.

    PubMed

    Bansback, Nick; Hole, Arne Risa; Mulhern, Brendan; Tsuchiya, Aki

    2014-08-01

    There is interest in the use of discrete choice experiments that include a duration attribute (DCETTO) to generate health utility values, but questions remain on its feasibility in large health state descriptive systems. This study examines the stability of DCETTO to estimate health utility values from the five-level EQ-5D, an instrument with depicts 3125 different health states. Between January and March 2011, we administered 120 DCETTO tasks based on the five-level EQ-5D to a total of 1799 respondents in the UK (each completed 15 DCETTO tasks on-line). We compared models across different sample sizes and different total numbers of observations. We found the DCETTO coefficients were generally consistent, with high agreement between individual ordinal preferences and aggregate cardinal values. Keeping the DCE design and the total number of observations fixed, subsamples consisting of 10 tasks per respondent with an intermediate sized sample, and 15 tasks with a smaller sample provide similar results in comparison to the whole sample model. In conclusion, we find that the DCETTO is a feasible method for developing values for larger descriptive systems such as EQ-5D-5L, and find evidence supporting important design features for future valuation studies that use the DCETTO.

  14. US experiments flown on the Soviet biosatellite Cosmos 2044. Volume 1: Mission description, experiments K-7-01 - K-7-15

    NASA Technical Reports Server (NTRS)

    Connolly, James P. (Editor); Grindeland, Richard E. (Editor); Ballard, Rodney W. (Editor)

    1994-01-01

    Cosmos 2044 was launched on September 15, 1989, containing radiation dosimetry experiments and a biological payload including two young male rhesus monkeys, ten adult male Wistar rats, insects, amphibians, protozoa, cell cultures, worms, plants and fish. The biosatellite was launched from the Plesetsk Cosmodrome in the Soviet Union for a mission duration of 14 days, as planned. The major research objectives were: (1) Study adaptive response mechanisms of mammals during flight; (2) Study physiological mechanisms underlying vestibular, motor system and brain function in primates during early and later adaptation phases; (3) Study the tissue regeneration processes of mammals; (4) Study the development of single-celled organisms, cell cultures and embryos in microgravity; (5) Study radiation characteristics during the mission and investigate doses, fluxes and spectra of cosmic radiation for various types of shielding. American and Soviet specialists jointly conducted 29 experiments on this mission including extensive preflight and post flight studies with rhesus monkeys, and tissue processing and cell culturing post flight. Biosamples and data were subsequently transferred to the United States. The U.S. responsibilities for this flight included development of flight and ground-based hardware, the preparation of rat tissue sample procedures, the verification testing of hardware and experiment procedures, and the post flight analysis of biospecimens and data for the joint experiments. The U.S. investigations included four primate experiments, 24 rat experiments, and one radiation dosimetry experiment. Three scientists investigated tissue repair during flight for a subgroup of rats injured preflight by surgical intervention. A description of the Cosmos 2044 mission is presented in this report including preflight, on-orbit and post flight activities. The flight and ground-based bioinstrumentation which was developed by the U.S. and U.S.S.R. is also described, along with

  15. Validation of HELIOS for ATR Core Follow Analyses

    SciTech Connect

    Bays, Samuel E.; Swain, Emily T.; Crawford, Douglas S.; Nigg, David W.

    2015-03-01

    This work summarizes the validation analyses for the HELIOS code to support core design and safety assurance calculations of the Advanced Test Reactor (ATR). Past and current core safety assurance is performed by the PDQ-7 diffusion code; a state of the art reactor physics simulation tool from the nuclear industry’s earlier days. Over the past twenty years, improvements in computational speed have enabled the use of modern neutron transport methodologies to replace the role of diffusion theory for simulation of complex systems, such as the ATR. More exact methodologies have enabled a paradigm-shift away from highly tuned codes that force compliance with a bounding safety envelope, and towards codes regularly validated against routine measurements. To validate HELIOS, the 16 ATR operational cycles from late-2009 to present were modeled. The computed power distribution was compared against data collected by the ATR’s on-line power surveillance system. It was found that the ATR’s lobe-powers could be determined with ±10% accuracy. Also, the ATR’s cold startup shim configuration for each of these 16 cycles was estimated and compared against the reported critical position from the reactor log-book. HELIOS successfully predicted criticality within the tolerance set by the ATR startup procedure for 13 out of the 16 cycles. This is compared to 12 times for PDQ (without empirical adjustment). These findings, as well as other insights discussed in this report, suggest that HELIOS is highly suited for replacing PDQ for core safety assurance of the ATR. Furthermore, a modern verification and validation framework has been established that allows reactor and fuel performance data to be computed with a known degree of accuracy and stated uncertainty.

  16. The nucleolus stress response is coupled to an ATR-Chk1-mediated G2 arrest.

    PubMed

    Ma, Hanhui; Pederson, Thoru

    2013-05-01

    We report experiments on the connection between nucleolar stress and cell cycle progression, using HeLa cells engineered with the fluorescent ubiquitinylation-based cell cycle indicator. Nucleolar stress elicited by brief exposure of cells to a low concentration of actinomycin D that selectively inhibits rRNA synthesis had no effect on traverse of G1 or S, but stalled cells in very late interphase. Additional experiments revealed that a switch occurs during a specific temporal window during nucleolar stress and that the subsequent cell cycle arrest is not triggered simply by the stress-induced decline in the synthesis of rRNA or by a ribosome starvation phenomenon. Further experiments revealed that this nucleolus stress-induced cell cycle arrest involves the action of a G2 checkpoint mediated by the ataxia telangiectasia and Rad3-related protein (ATR)-checkpoint kinase 1 (Chk1) pathway. Based on analysis of the cell cycle stages at which this nucleolar stress effect is put into action, to become manifest later, our results demonstrate a feedforward mechanism that leads to G2 arrest and identify ATR and Chk1 as molecular agents of the requisite checkpoint.

  17. Occupational Injuries on Thoroughbred Horse Farms: A Description of Latino and Non-Latino Workers’ Experiences

    PubMed Central

    Swanberg, Jennifer E.; Clouser, Jessica M.; Westneat, Susan C.; Marsh, Mary W.; Reed, Deborah B.

    2013-01-01

    Animal production is a dangerous industry and increasingly reliant on a Latino workforce. Within animal production, little is known about the risks or the occupational hazards of working on farms involved in various aspects of thoroughbred horse breeding. Extant research suggests that horse workers are at risk of musculoskeletal and respiratory symptoms, kicks, and other injuries. However, limited known research has examined the experiences of the industry’s workers, including immigrant workers, despite their prominence and increased vulnerability. Using data collected from thoroughbred farm representatives via a phone-administered survey, a 2-hour face-to-face semi-structured interview, and farm injury logs, this article identifies and describes types of injuries experienced by workers (N = 284) and their surrounding circumstances. Results indicate that general injuries and musculoskeletal strains, sprains, and tears account for a majority of injuries among workers on thoroughbred farms. Upper limbs and extremities are most frequently injured, while direct contact with the horse accounted for over half of all injuries. No differences in the diagnoses or distribution of injury were found by ethnicity; however, Latinos were more often struck by or trampled by a horse while non-Latinos were more often injured by an insect or plant. Implications and opportunities for future research are discussed. PMID:24351785

  18. CSU FIRE 2 cirrus field experiment: Description of field deployment phase

    NASA Technical Reports Server (NTRS)

    Cox, S.; Beck, G.; Cornwall, C.; Davis, J.; Hein, P.; Lappen, C.; Song, R.; Withrow, J.; Wood, D.; Alvarez, J.

    1992-01-01

    The Colorado State University (CSU) surface observing systems are described. These systems were deployed at the Parsons, Kansas site during the FIRE 2 Cirrus Special Observing Period (SOP) from 13 Nov. - 7 Dec. 1991. The geographical coordinates of the site containing most of the CSU instrumentation are 37 deg. 18 min N. latitude and 96 deg. 30 min. W. longitude; site elevation was 269 meters. In addition, one surface meteorological and broadband flux observing site was maintained at the Tri City Airport which is approximately 18 miles due west of Parsons (37 deg. 20 min. N. latitude, 95 deg. 30 min. 30 sec. W. longitude). A map of the locations of the CSU deployment sites is presented. At the main Parsons site, the instrumentation was located directly adjacent to and north of a lake. Under most cirrus observing conditions, when the wing had a significant southernly component, the lake was upwind of the observing site. The measurements and observations collected during the experiment are listed. These measurements may be grouped into five categories: surface meteorology; infrared spectral and broadband measurements; solar spectral and broadband measurements; upper air measurements; and cloud measurements. A summary of observations collected at the Parsons site during the SOP are presented. The wind profiler, laser ceilometer, surface meteorology and surface broadband radiation instrumentation were operated on a continuous basis. All other systems were operated on an 'on demand' basis when cloud conditions merited the collection of data.

  19. Description and field performance of the Walker Branch throughfall displacement experiment: 1993--1996

    SciTech Connect

    Hanson, P.J.; Todd, D.E.; Huston, M.A.; Joslin, J.D.; Croker, J.L.; Auge, R.M.

    1998-04-01

    The authors are conducting a large-scale manipulative field experiment in an upland oak forest on the Walker Branch Watershed in eastern Tennessee to identify important ecosystem responses that might result from future precipitation changes. The manipulation of soil water content is being implemented by a gravity-driven transfer of throughfall from one 6400-m{sup 2} treatment plot to another. Throughfall is intercepted in {approx}1850 subcanopy troughs suspended above the forest floor of the dry plot and transferred by gravity flow across an ambient plot for subsequent distribution onto the wet treatment plot. Soil water content is being monitored at two depths with time domain reflectometers at 310 sampling locations across the site. The experimental system is able to produce statistically significant differences in soil water content in years having both dry and wet conditions. Maximum soil water content differentials between wet and dry plots in the 0- to 0.35-m horizon were 8 to 10% during summers with abundant precipitation and 3 to 5% during drought periods. Treatment impacts on soil water potential were restricted to the surface soil layer. Comparisons of pre- and post-installation soil and litter temperature measurements showed the ability of the experimental design to produce changes in soil water content and water potential without creating large artifacts in the forest understory environment.

  20. Occupational injuries on thoroughbred horse farms: a description of Latino and non-Latino workers' experiences.

    PubMed

    Swanberg, Jennifer E; Clouser, Jessica M; Westneat, Susan C; Marsh, Mary W; Reed, Deborah B

    2013-12-01

    Animal production is a dangerous industry and increasingly reliant on a Latino workforce. Within animal production, little is known about the risks or the occupational hazards of working on farms involved in various aspects of thoroughbred horse breeding. Extant research suggests that horse workers are at risk of musculoskeletal and respiratory symptoms, kicks, and other injuries. However, limited known research has examined the experiences of the industry's workers, including immigrant workers, despite their prominence and increased vulnerability. Using data collected from thoroughbred farm representatives via a phone-administered survey, a 2-hour face-to-face semi-structured interview, and farm injury logs, this article identifies and describes types of injuries experienced by workers (N = 284) and their surrounding circumstances. Results indicate that general injuries and musculoskeletal strains, sprains, and tears account for a majority of injuries among workers on thoroughbred farms. Upper limbs and extremities are most frequently injured, while direct contact with the horse accounted for over half of all injuries. No differences in the diagnoses or distribution of injury were found by ethnicity; however, Latinos were more often struck by or trampled by a horse while non-Latinos were more often injured by an insect or plant. Implications and opportunities for future research are discussed. PMID:24351785

  1. Comparison between ATR-IR, Raman, concatenated ATR-IR and Raman spectroscopy for the determination of total antioxidant capacity and total phenolic content of Chinese rice wine.

    PubMed

    Wu, Zhengzong; Xu, Enbo; Long, Jie; Pan, Xiaowei; Xu, Xueming; Jin, Zhengyu; Jiao, Aiquan

    2016-03-01

    The application of attenuated total reflectance infrared spectroscopy (ATR-IR), Raman spectroscopy (RS) and combination of ATR-IR and RS for measurements of total antioxidant capacity (TAC) and total phenolic content (TPC) of Chinese rice wine (CRW) were investigated in this study. Synergy interval partial least-squares (SiPLS), support vector machine (SVM) and principal component analysis (PCA) were applied to process the merged data from two individual instruments. It was observed that the performances of models based on the RS spectra were better than those based on the ATR-IR spectra. In addition, SVM models based on the efficient information extracted from ATR-IR and RS spectra were superior to PLS models based on the same information and PLS models based on ATR-IR or RS spectra. The overall results demonstrated that integrating ATR-IR and RS was possible and could improve the prediction accuracy of TAC and TPC in CRWs.

  2. Two-domain description of solute transport in heterogeneous porous media: Comparison between theoretical predictions and numerical experiments

    NASA Astrophysics Data System (ADS)

    Cherblanc, F.; Ahmadi, A.; Quintard, M.

    2007-05-01

    This paper deals with two-equation models describing solute transport in highly heterogeneous porous systems and more particularly dual permeability structures composed of high- and low-permeability regions. A macroscopic two-equation model has been previously proposed in the literature based on the volume averaging technique [Ahmadi A, Quintard M, Whitaker S. Transport in chemically and mechanically heterogeneous porous media V: two-equation model for solute transport with adsorption, Adv Water Resour 1998;22:59-86; Cherblanc F, Ahmadi A, Quintard M. Two-medium description of dispersion in heterogeneous porous media: calculation of macroscopic properties. Water Resour Res 2003;39(6):1154-73]. Through this theoretical upscaling method, both convection and dispersion mechanisms are taken into account in both regions, allowing one to deal with a large range of heterogeneous systems. In this paper, the numerical tools associated with this model are developed in order to test the theory by comparing macroscopic concentration fields to those obtained by Darcy-scale numerical experiments. The heterogeneous structures considered are made up of low-permeability nodules embedded in a continuous high-permeability region. Several permeability ratios are used, leading to very different macroscopic behaviours. Taking advantage of the Darcy-scale simulations, the role of convection and dispersion in the mass exchange between the two regions is investigated. Large-scale averaged concentration fields and elution curves are extracted from the Darcy-scale numerical experiments and compared to the theoretical predictions given by the two-equation model. Very good agreement is found between experimental and theoretical results. A permeability ratio around 100 presents a behaviour characteristic of "mobile-mobile" systems emphasizing the relevance of this two-equation description. Eventually, the theory is used to set-up a criterion for the existence of local equilibrium conditions

  3. Integrate knowledge acquisition with target recognition through closed-loop ATR

    NASA Astrophysics Data System (ADS)

    Yu, Ssu-Hsin; McLaughlin, Pat; Zatezalo, Aleksandar; Hsiao, Kai-yuh; Boskovic, Jovan

    2015-05-01

    Automatic Target Recognition (ATR) algorithm performance is highly dependent on the sensing conditions under which the input data is collected. Open-loop fly-bys often produce poor results due to less than ideal measurement conditions. In addition, ATR algorithms must be extremely complicated to handle the diverse range of inputs with a resulting reduction in overall performance and increase in complexity. Our approach, closed-loop ATR (CL-ATR), focuses on improving the quality of information input to the ATR algorithms by optimizing motion, sensor settings and team (vehicle-vehicle-human) collaboration to dramatically improve classification accuracy. By managing the data collection guided by predicted ATR performance gain, we increase the information content of the data and thus dramatically improve ATR performance with existing ATR algorithms. CL-ATR has two major functions; first, an ATR utility function, which represents the performance sensitivity of ATR produced classification labels as a function of parameters that correlate to vehicle/sensor states. This utility function is developed off-line and is often available from the original ATR study as a confusion matrix, or it can be derived through simulation without direct access to the inner working of the ATR algorithm. The utility function is inserted into our CLATR framework to autonomously control the vehicle/sensor. Second, an on-board planner maps the utility function into vehicle position and sensor collection plans. Because we only require the utility function on-board, we can activate any ATR algorithm onto a unmanned aerial vehicle (UAV) platform no matter how complex. This pairing of ATR performance profiles with vehicle/sensor controls creates a unique and powerful active perception behavior.

  4. Root discrimination of closely related crop and weed species using FT MIR-ATR spectroscopy.

    PubMed

    Meinen, Catharina; Rauber, Rolf

    2015-01-01

    Root discrimination of species is a pre-condition for studying belowground competition processes between crop and weed species. In this experiment, we tested Fourier transform mid-infrared (FT MIR)-attenuated total reflection (ATR) spectroscopy to discriminate roots of closely related crop and weed species grown in the greenhouse: maize/barnyard grass, barley/wild oat, wheat/blackgrass (Poaceae), and sugar beet/common lambsquarters (Chenopodiaceae). Fresh (moist) and dried root segments as well as ground roots were analyzed by FT MIR-ATR spectroscopy. Root absorption spectra showed species specific peak distribution and peak height. A clear separation according to species was not possible with fresh root segments. Dried root segments (including root basis, middle section, and root tip) of maize/barnyard grass and sugar beet/common lambsquarters formed completely separated species clusters. Wheat and blackgrass separated in species specific clusters when root tips were removed from cluster analysis. A clear separation of dried root segments according to species was not possible in the case of barley and wild oat. Cluster analyses of ground roots revealed a 100% separation of all tested crop and weed species combinations. Spectra grouped in Poaceae and Chenopodiaceae clusters. Within the Poaceae cluster, C3 and C4 species differed significantly in heterogeneity. Thus, root spectra reflected the degree of kinship. To quantify species proportion in root mixtures, a two- and a three-species model for species quantification in root mixtures of maize, barnyard grass, and wild oat was calculated. The models showed low standard errors of prediction (RMSEP) and high residual predictive deviation values in an external test set validation. Hence, FT MIR-ATR spectroscopy seems to be a promising tool for root research even between closely related plant species. PMID:26483799

  5. Root discrimination of closely related crop and weed species using FT MIR-ATR spectroscopy

    PubMed Central

    Meinen, Catharina; Rauber, Rolf

    2015-01-01

    Root discrimination of species is a pre-condition for studying belowground competition processes between crop and weed species. In this experiment, we tested Fourier transform mid-infrared (FT MIR)-attenuated total reflection (ATR) spectroscopy to discriminate roots of closely related crop and weed species grown in the greenhouse: maize/barnyard grass, barley/wild oat, wheat/blackgrass (Poaceae), and sugar beet/common lambsquarters (Chenopodiaceae). Fresh (moist) and dried root segments as well as ground roots were analyzed by FT MIR-ATR spectroscopy. Root absorption spectra showed species specific peak distribution and peak height. A clear separation according to species was not possible with fresh root segments. Dried root segments (including root basis, middle section, and root tip) of maize/barnyard grass and sugar beet/common lambsquarters formed completely separated species clusters. Wheat and blackgrass separated in species specific clusters when root tips were removed from cluster analysis. A clear separation of dried root segments according to species was not possible in the case of barley and wild oat. Cluster analyses of ground roots revealed a 100% separation of all tested crop and weed species combinations. Spectra grouped in Poaceae and Chenopodiaceae clusters. Within the Poaceae cluster, C3 and C4 species differed significantly in heterogeneity. Thus, root spectra reflected the degree of kinship. To quantify species proportion in root mixtures, a two- and a three-species model for species quantification in root mixtures of maize, barnyard grass, and wild oat was calculated. The models showed low standard errors of prediction (RMSEP) and high residual predictive deviation values in an external test set validation. Hence, FT MIR-ATR spectroscopy seems to be a promising tool for root research even between closely related plant species. PMID:26483799

  6. Fundamental SAR ATR performance predictions for design trade-offs

    NASA Astrophysics Data System (ADS)

    Horowitz, Larry L.; Brendel, Gary F.

    1997-07-01

    This paper discusses work toward a fundamental, algorithm- independent view of the ATR performance that can be achieved using SAR data. Such ATR performance predictions are intended to enable evaluation of performance tradeoffs for SAR designs, including both parameter selections and added domains of SAR observation, such as 3D, full polarimetry, multiaspect and/or multifrequency. In the paper we evaluate the classification error for two tactical targets using a Monte Carlo technique. A number of approximations are made and are detailed in the paper. Data on target signatures come from pencil-beam laser data and target photographs, which determine shadowing of the ground clutter. A single aspect angle is used for each target in the initial results. A layer of radar netting is modeled on both targets. This information is used as 'ground truth', to compute the average power that would be seen in each pixel of a SAR image, for each target. SAR image trials are then generated using independent Rayleigh amplitude fades in each pixel. In an optimal Bayesian fashion, the smaller of the probabilities of target (T1) or T2 given the trial image data is the error probability for that trial. An average over the Monte Carlo image trials yields the overall classification error probability. Comments are given on reducing the number of required trials in such a Monte Carlo. THree results of the work are shown. First, a tradeoff is made of ATR performance versus SAR resolution. ATR improves as the resolution is made finer, and physical reasons for this are discussed. Second, the relative ATR utility is determined for those pixels where at least one target has scatterer as compared with those pixels where the targets differ only in the degree to which they shadow the ground clutter. Third, an early analytical result is given for interferometric SAR, showing the physical reason behind the potential of height-sensing SAR to improve ATR - the possibility of canceling the background

  7. Focusing, imaging, and ATR for the Gotcha 2008 wide angle SAR collection

    NASA Astrophysics Data System (ADS)

    Gianelli, Christopher D.; Xu, Luzhou

    2013-05-01

    The following work discusses IAA's approach to tackling the wide angle, circular spotlight, synthetic aperture radar (SAR) problem from the 2008 Gotcha wide angle SAR data set, which is publicly released, with unlimited distribution. This data set comes with a MATLAB image formation routine and attendant graphical user inter- face (GUI). We begin by introducing a simple approach to focusing the collected phase history data that utilizes point targets (quadrahedral targets) present in the scene. Two SAR imaging algorithms are then presented, namely, the data-independent backprojection (BP) algorithm and the data-adaptive sparse learning via itera- tive minimization (SLIM) algorithm. These imaging approaches are compared using the 2008 Gotcha wide angle SAR data to perform both a clutter discrimination experiment, as well as an automatic target recognition (ATR) experiment. The ATR system is composed of a target pose and target center estimation preprocessing system, and includes a novel target feature for the final classification stage. Empirical results obtained by applying the focusing approach and imaging algorithms to the 2008 Gotcha wide angle SAR data set are presented and described. The results presented highlight the benefit of applying the SLIM algorithm over its data-independent counterpart, as well as the utility of the novel target feature.

  8. The SUMO (Small Ubiquitin-like Modifier) Ligase PIAS3 Primes ATR for Checkpoint Activation.

    PubMed

    Wu, Ching-Shyi; Zou, Lee

    2016-01-01

    The maintenance of genomic stability relies on the concerted action of DNA repair and DNA damage signaling pathways. The PIAS (protein inhibitor of activated STAT) family of SUMO (small ubiquitin-like modifier) ligases has been implicated in DNA repair, but whether it plays a role in DNA damage signaling is still unclear. Here, we show that the PIAS3 SUMO ligase is important for activation of the ATR (ataxia telangiectasia and Rad3 related)-regulated DNA damage signaling pathway. PIAS3 is the only member of the PIAS family that is indispensable for ATR activation. In response to different types of DNA damage and replication stress, PIAS3 plays multiple roles in ATR activation. In cells treated with camptothecin (CPT), PIAS3 contributes to formation of DNA double-stranded breaks. In UV (ultraviolet light)- or HU (hydroxyurea)-treated cells, PIAS3 is required for efficient ATR autophosphorylation, one of the earliest events during ATR activation. Although PIAS3 is dispensable for ATRIP (ATR-interacting protein) SUMOylation and the ATR-ATRIP interaction, it is required for maintaining the basal kinase activity of ATR prior to DNA damage. In the absence of PIAS3, ATR fails to display normal kinase activity after DNA damage, which accompanies with reduced phosphorylation of ATR substrates. Together, these results suggest that PIAS3 primes ATR for checkpoint activation by sustaining its basal kinase activity, revealing a new function of the PIAS family in DNA damage signaling. PMID:26565033

  9. Differential Processing of Low and High LET Radiation Induced DNA Damage: Investigation of Switch from ATM to ATR Signaling

    NASA Technical Reports Server (NTRS)

    Saha, Janapriya; Wang, Minli; Hada, Megumi; Cucinotta, Francis A.

    2011-01-01

    majority of RPA-coated ssDNA is generally present only during DNA replication, ATR activation in G1 and G2-phase might still require formation of RPA-coated ssDNA, probably initiated by the MRN-CtIP complex and then extended by the Exo1- or BLM-dependent mechanisms at the sites of DSBs. Evidence accumulates that activation of ATM and ATR are oppositely regulated by the length of single stranded overhangs generated at the break sites by processes mentioned above and these stretches of single stranded overhangs hold the clue for ATM to ATR switch at broken DNA ends. We irradiated 82-6hTERT human fibroblast cells with low LET gamma-rays and high LET Fe and Si particles. Preliminary results with cells exposed to 1Gy gamma-rays show that the kinetics of pChk2-pT68 foci formation is comparable to that of gamma-H2AX although they appear to recede quicker. The number and intensity of observed foci reaches a maximum at 30 min and 60 min post IR for Chk2-pT68 and gamma-H2AX foci respectively and all Chk2-pT68 foci colocalize with gamma-H2AX foci. The kinetics of Chk1-pS345 and ATRIP are being determined. Results of Chk2-pT68 foci kinetics was also corroborated by western blot experiments, although phosphorylation was detected as early as 10 min and started receding 30 min post IR with 2Gy of gamma-rays. On the other hand, level of ATR-pS428 reached its maximum between 60 and 120 min and was maintained until the last measured time point of 4 hours post IR as determined by western blotting. Experiments performed with high LET Fe and Si particles will be reported.

  10. Hydraulic Shuttle Irradiation System (HSIS) Recently Installed in the Advanced Test Reactor (ATR)

    SciTech Connect

    A. Joseph Palmer; Gerry L. McCormick; Shannon J. Corrigan

    2010-06-01

    a Readiness Assessment in November 2009. The HSIS is a key component of the ATR National Scientific User Facility (NSUF) operated by Battelle Energy Alliance, LLC and is available to a wide variety of university researchers for nuclear fuels and materials experiments as well as medical isotope research and production.

  11. Analyzing the ATR-mediated checkpoint using Xenopus egg extracts

    PubMed Central

    Lupardus, Patrick J.; Van, Christopher; Cimprich, Karlene A.

    2009-01-01

    Our knowledge of cell cycle events such as DNA replication and mitosis has been advanced significantly through the use of Xenopus egg extracts as a model system. More recently, Xenopus extracts have been used to investigate the cellular mechanisms that ensure accurate and complete duplication of the genome, processes otherwise known as the DNA damage and replication checkpoints. Here we describe several Xenopus extract methods that have advanced the study of the ATR-mediated checkpoints. These include a protocol for the preparation of nucleoplasmic extract (NPE), which is a soluble extract system useful for studying nuclear events such as DNA replication and checkpoints. In addition, we describe several key assays for studying checkpoint activation as well as methods for using small DNA structures to activate ATR. PMID:17189864

  12. Comparison of HEU and LEU Fuel Neutron Spectrum for ATR Fuel Element and ATR Flux-Trap Positions

    SciTech Connect

    G. S. Chang

    2008-10-01

    The Advanced Test Reactor (ATR) is a high power and high neutron flux research reactor operating in the United States. Powered with highly enriched uranium (HEU), the ATR has a maximum thermal power rating of 250 MWth. Because of the high total core power and high neutron flux, the ATR is an ideal candidate for assessing the feasibility of converting an HEU driven reactor to a low-enriched core. An optimized low-enriched uranium (LEU) (U-10Mo) core conversion case, which can meet the project requirements, has been selected. However, LEU contains a significant quantity of high density U-238 (80.3 wt.%), which will harden the neutron spectrum in the core region. Based on the reference ATR HEU and the optimized LEU full core plate-by-plate (PBP) models, the present work investigates and compares the neutron spectra differences in the fuel element (FE), Northeast flux trap (NEFT), Southeast flux trap (SEFT), and East flux trap (EFT) positions. A detailed PBP MCNP ATR core model was developed and validated for fuel cycle burnup comparison analysis. The current ATR core with HEU U 235 enrichment of 93.0wt.% was used as the reference model. Each HEU fuel element contains 19 fuel plates with a fuel meat thickness of 0.508 mm (20 mil). In this work, an optimized LEU (U-10Mo) core conversion case with a nominal fuel meat thickness of 0.330 mm (13 mil) and the U-235 enrichment of 19.7 wt.% was used to calculate the impact of the neutron spectrum in FE and FT positions. MCNP-calculated results show that the neutron spectrum in the LEU FE is slightly harder than in the HEU FE, as expected. However, when neutrons transport through water coolant and beryllium (Be), the neutrons are thermalized to an equilibrium neutron spectrum as a function of water volume fraction in the investigated FT positions. As a result, the neutron spectrum differences of the HEU and LEU in the NEFT, SEFT, and EFT are negligible. To demonstrate that the LEU core fuel cycle performance can meet the

  13. Recent ATR and fusion algorithm improvements for multiband sonar imagery

    NASA Astrophysics Data System (ADS)

    Aridgides, Tom; Fernández, Manuel

    2009-05-01

    An improved automatic target recognition processing string has been developed. The overall processing string consists of pre-processing, subimage adaptive clutter filtering, normalization, detection, data regularization, feature extraction, optimal subset feature selection, feature orthogonalization and classification processing blocks. The objects that are classified by the 3 distinct ATR strings are fused using the classification confidence values and their expansions as features, and using "summing" or log-likelihood-ratio-test (LLRT) based fusion rules. The utility of the overall processing strings and their fusion was demonstrated with new high-resolution three-frequency band sonar imagery. The ATR processing strings were individually tuned to the corresponding three-frequency band data, making use of the new processing improvement, data regularization; this improvement entails computing the input data mean, clipping the data to a multiple of its mean and scaling it, prior to feature extraction and resulted in a 3:1 reduction in false alarms. Two significant fusion algorithm improvements were made. First, a nonlinear exponential Box-Cox expansion (consisting of raising data to a to-be-determined power) feature LLRT fusion algorithm was developed. Second, a repeated application of a subset Box-Cox feature selection / feature orthogonalization / LLRT fusion block was utilized. It was shown that cascaded Box-Cox feature LLRT fusion of the ATR processing strings outperforms baseline "summing" and single-stage Box-Cox feature LLRT algorithms, yielding significant improvements over the best single ATR processing string results, and providing the capability to correctly call the majority of targets while maintaining a very low false alarm rate.

  14. Polynomial chaos theory for performance evaluation of ATR systems

    NASA Astrophysics Data System (ADS)

    DeVore, Michael D.; Bateman, Alec J.

    2010-04-01

    The development of a more unified theory of automatic target recognition (ATR) has received considerable attention over the last several years from individual researchers, working groups, and workshops. One of the major benefits expected to accrue from such a theory is an ability to analytically derive performance metrics that accurately predict real-world behavior. Numerous sources of uncertainty affect the actual performance of an ATR system, so direct calculation has been limited in practice to a few special cases because of the practical difficulties of manipulating arbitrary probability distributions over high dimensional spaces. This paper introduces an alternative approach for evaluating ATR performance based on a generalization of NorbertWiener's polynomial chaos theory. Through this theory, random quantities are expressed not in terms of joint distribution functions but as convergent orthogonal series over a shared random basis. This form can be used to represent any finite-variance distribution and can greatly simplify the propagation of uncertainties through complex systems and algorithms. The paper presents an overview of the relevant theory and, as an example application, a discussion of how it can be applied to model the distribution of position errors from target tracking algorithms.

  15. Natural convection heat transfer analysis of ATR fuel elements

    SciTech Connect

    Langerman, M.A.

    1992-05-01

    Natural convection air cooling of the Advanced Test Reactor (ATR) fuel assemblies is analyzed to determine the level of decay heat that can be removed without exceeding the melting temperature of the fuel. The study was conducted to assist in the level 2 PRA analysis of a hypothetical ATR water canal draining accident. The heat transfer process is characterized by a very low Rayleigh number (Ra {approx} 10{sup {minus}5}) and a high temperature ratio. Since neither data nor analytical models were available for Ra < 0.1, an analytical approach is presented based upon the integral boundary layer equations. All assumptions and simplifications are presented and assessed and two models are developed from similar foundations. In one model, the well-known Boussinesq approximations are employed, the results from which are used to assess the modeling philosophy through comparison to existing data and published analytical results. In the other model, the Boussinesq approximations are not used, thus making the model more general and applicable to the ATR analysis.

  16. Simulator of IRST system with ATR embedded functions

    NASA Astrophysics Data System (ADS)

    Sozzi, B.; Fossati, E.; Barani, G.; Santini, N.; Ondini, A.; Colombi, G.; Quaranta, C.

    2010-04-01

    This paper presents a soft-real time simulator for IRST (InfraRed Search and Track) systems with ATR (Automatic Target Recognition) embedded functions to test airborne applications performance. The IR camera model includes detector, optics, available Field-of-Regard, etc., and it is integrated with the motion platform local stabilization system to consider all factors impacting IR images. The atmosphere contributions are taken into account by means of a link to ModTran computer program. Sensor simulation allows derivation and assessment of IR Figures of Merit (NEI, NETD, SNR...). IR signatures of targets derive both from data collected in specific trial campaigns and from laboratory built models. The simulation of the scan procedure takes into account different policies (ground points paths or defined angular volume) and different platform motion strategies (continuous or step steering scan). The scan process includes Kalman technique to face unexpected variations of aircraft motion. Track and ATR processors are simulated and run consistently on the output of the sensor model. The simulator functions are developed in MatLab and SIMULINK and then exported in C code to be integrated in soft real-time environment. The use of this simulator supports the definition and design of the IRST systems especially for the evaluation of the most demanding operative requirements. An application of this simulator is for the NEURON UCAV (Unmanned Combat Air Vehicle) technological demonstrator, which accommodates on board both IRST and ATR tasks.

  17. Clamping the Mec1/ATR checkpoint kinase into action.

    PubMed

    Majka, Jerzy; Burgers, Peter M J

    2007-05-15

    The yeast checkpoint protein kinase Mec1, the ortholog of human ATR, is the essential upstream regulator of the cell cycle checkpoint in response to DNA damage and to stalling of DNA replication forks. The activity of Mec1/ATR is not directly regulated by the DNA substrates that signal checkpoint activation. Rather the signal appears to be transduced to Mec1 by factors that interact with the signaling DNA substrates. One of these factors, the DNA damage checkpoint clamp Rad17-Mec3-Ddc1 (human 9-1-1) is loaded onto gapped DNA resulting from the partial repair of DNA damage, and the Ddc1 subunit of this complex activates Mec1. In vertebrate cells, the TopBP1 protein (Cut5 in S. pombe and Dpb11 in S. cervisiae) that is also required for establishment of the replication fork, functions during replication fork dysfunction to activate ATR. Both mechanisms of activation generally upregulate the kinase activity towards all downstream targets. PMID:17495536

  18. AGR-2 Final Data Qualification Report for U.S. Capsules - ATR Cycles 147A Through 154B

    SciTech Connect

    Pham, Binh T.; Einerson, Jeffrey J.

    2014-07-01

    This report provides the data qualification status of AGR-2 fuel irradiation experimental data in four U.S. capsules from all 15 Advanced Test Reactor (ATR) Cycles 147A, 148A, 148B, 149A, 149B, 150A, 150B, 151A, 151B, 152A, 152B, 153A, 153B, 154A, and 154B, as recorded in the Nuclear Data Management and Analysis System (NDMAS). Thus, this report covers data qualification status for the entire AGR-2 irradiation and will replace four previously issued AGR-2 data qualification reports (e.g., INL/EXT-11-22798, INL/EXT-12-26184, INL/EXT-13-29701, and INL/EXT-13-30750). During AGR-2 irradiation, two cycles, 152A and 153A, occurred when the ATR core was briefly at low power, so AGR-2 irradiation data are not used for physics and thermal calculations. Also, two cycles, 150A and 153B, are Power Axial Locator Mechanism (PALM) cycles when the ATR power is higher than during normal cycles. During the first PALM cycle, 150A, the experiment was temporarily moved from the B-12 location to the ATR water canal and during the second PALM cycle, 153B, the experiment was temporarily moved from the B-12 location to the I-24 location to avoid being overheated. During the “Outage” cycle, 153A, seven flow meters were installed downstream from seven Fission Product Monitoring System (FPMS) monitors to measure flows from the monitors and these data are included in the NDMAS database.

  19. Universal method for protein immobilization on chemically functionalized germanium investigated by ATR-FTIR difference spectroscopy.

    PubMed

    Schartner, Jonas; Güldenhaupt, Jörn; Mei, Bastian; Rögner, Matthias; Muhler, Martin; Gerwert, Klaus; Kötting, Carsten

    2013-03-13

    Attenuated total reflection Fourier transform infrared (ATR-FTIR) spectroscopy allows a detailed analysis of surface attached molecules, including their secondary structure, orientation, and interaction with small molecules in the case of proteins. Here, we present a universal immobilization technique on germanium for all oligo-histidine-tagged proteins. For this purpose, new triethoxysilane derivates were developed: we synthesized a linker-silane with a succinimidyl ester as amine-reactive headgroup and a matrix-silane with an unreactive ethylene glycol group. A new methodology for the attachment of triethoxysilanes on germanium was established, and the surface was characterized by ATR-FTIR and X-ray photoelectron spectroscopy. In the next step, the succinimidyl ester was reacted with aminonitrilotriacetic acid. Subsequently, Ni(2+) was coordinated to form Ni-nitrilotriacetic acid for His-tag binding. The capability of the functionalized surface was demonstrated by experiments using the small GTPase Ras and photosystem I (PS I). The native binding of the proteins was proven by difference spectroscopy, which probes protein function. The function of Ras as molecular switch was demonstrated by a beryllium trifluoride anion titration assay, which allows observation of the "on" and "off" switching of Ras at atomic resolution. Furthermore, the activity of immobilized PS I was proven by light-induced difference spectroscopy. Subsequent treatment with imidazole removes attached proteins, enabling repeated binding. This universal technique allows specific attachment of His-tagged proteins and a detailed study of their function at the atomic level using FTIR difference spectroscopy.

  20. IR-ATR spectroscopic determination of the diffusion coefficients of carbohydrates in polymer matrices

    NASA Astrophysics Data System (ADS)

    Rosenberg, E.; Kellner, Robert A.

    1992-03-01

    During the past few years, the importance of membranes in chemical and biotechnological applications, such as separation processes and biosensor construction, has dramatically increased. As a consequence, membrane properties have to be characterized very thoroughly with special respect to diffusivity and selectivity. Whereas most techniques for the determination of diffusion coefficients require sophisticated and often indirect methods for the detection of the analyte diffusing through the membrane, which generally do not allow monitoring of the diffusion process continuously, we present in this work an experimentally simple and straightforward method employing FTIR-ATR spectroscopy. The diffusion of glucose into a PVA membrane is chosen as a model example for the determination of carbohydrates in polymer matrices due to its special relevance in biosensor construction. The method is based on monitoring the time-dependent change in absorption due to the diffusion of the glucose into the polymer membrane. After reaching a steady-state, the normalized absorbance plot (A/A(infinity) ) versus time can be used for numerical evaluation. The diffusion coefficient is determined by comparing the experimental with simulated data using the membrane thickness (iota) and the diffusion coefficient D as simulation parameters. For this reason, the performance of a recursive and two non-recursive models for the description of the diffusion process is examined. Modifications in the second non-recursive algorithm finally resulted in very good agreement with the experimental data. This work marks the first application of IR-ATR spectroscopy for the determination of diffusion coefficients even as large as of the order of 10-6 cm2/sec.

  1. Experimental ATR device for real-time FTIR imaging of living cells using brilliant synchrotron radiation sources.

    PubMed

    Mariangela, Cestelli-Guidi; Seydou, Yao; Diego, Sali; Sabine, Castano; Augusto, Marcelli; Petibois, Cyril

    2013-01-01

    In this contribution we present the design of an original Attenuated Total Reflection (ATR)-based device designed for an IR microscope coupled to a FPA detector and optimized for in-vivo cell imaging. The optical element has been designed to perform real time experiments of cell biochemical processes. The device includes a manually removable Ge-crystal that guarantees an ease manipulation during the cell culture and a large flat surface to support the cell growth and the required change of the culture wells. This layout will allow performing sequential ATR IR imaging with the crystal immersed in the culture wells, minimizing contributions due to water vapors in the optical system. Using existing brilliant synchrotron radiation sources this ATR device may collect images at the surface of the Ge crystal at a sub-cellular spatial resolution with a penetration depth of the evanescent wave inside the sample of ~500 nm within few seconds. A brief summary of the cellular components that should be detected with such optical device is also presented.

  2. A Description of the Full Particle Orbit Following SPIRAL Code for Simulating Fast-ion Experiments in Tokamaks

    SciTech Connect

    Kramer, G.J.; Budny, R.V.; Bortolon, A.; Fredrickson, E.D.; Fu, G.Y.; Heidbrink, W.W.; Nazikian, R.; Valeo, E.; Van Zeeland, M.A.

    2012-07-27

    The numerical methods used in the full particle-orbit following SPIRAL code are described and a number of physics studies performed with the code are presented to illustrate its capabilities. The SPIRAL code is a test-particle code and is a powerful numerical tool to interpret and plan fast-ion experiments in Tokamaks. Gyro-orbit effects are important for fast ions in low-field machines such as NSTX and to a lesser extent in DIII-D. A number of physics studies are interlaced between the description of the code to illustrate its capabilities. Results on heat loads generated by a localized error-field on the DIII-D wall are compared to measurements. The enhanced Triton losses caused by the same localized error-field are calculated and compared to measured neutron signals. MHD activity such as tearing modes and Toroidicity-induced Alfven Eigenmodes (TAEs) have a profound effect on the fast-ion content of Tokamak plasmas and SPIRAL can calculate the effects of MHD activity on the confined and lost fast-ion population as illustrated for a burst of TAE activity in NSTX. The interaction between Ion Cyclotron Range of Frequency (ICRF) heating and fast ions depends solely on the gyro-motion of the fast ions and is captured exactly in the SPIRAL code. A calculation of ICRF absorption on beam ions in ITER is presented. The effects of high harmonic fast wave heating on the beam-ion slowing-down distribution in NSTX is also studied.

  3. A description of the full-particle-orbit-following SPIRAL code for simulating fast-ion experiments in tokamaks

    NASA Astrophysics Data System (ADS)

    Kramer, G. J.; Budny, R. V.; Bortolon, A.; Fredrickson, E. D.; Fu, G. Y.; Heidbrink, W. W.; Nazikian, R.; Valeo, E.; Van Zeeland, M. A.

    2013-02-01

    The numerical methods used in the full particle-orbit following SPIRAL code are described and a number of physics studies performed with the code are presented to illustrate its capabilities. The SPIRAL code is a test-particle code and is a powerful numerical tool to interpret and plan fast-ion experiments in tokamaks. Gyro-orbit effects are important for fast ions in low-field machines such as NSTX and to a lesser extent in DIII-D. A number of physics studies are interlaced between the description of the code to illustrate its capabilities. Results on heat loads generated by a localized error-field on the DIII-D wall are compared with measurements. The enhanced Triton losses caused by the same localized error-field are calculated and compared with measured neutron signals. Magnetohydrodynamic (MHD) activity such as tearing modes and toroidicity-induced Alfvén eigenmodes (TAEs) have a profound effect on the fast-ion content of tokamak plasmas and SPIRAL can calculate the effects of MHD activity on the confined and lost fast-ion population as illustrated for a burst of TAE activity in NSTX. The interaction between ion cyclotron range of frequency (ICRF) heating and fast ions depends solely on the gyro-motion of the fast ions and is captured exactly in the SPIRAL code. A calculation of ICRF absorption on beam ions in ITER is presented. The effects of high harmonic fast wave heating on the beam-ion slowing-down distribution in NSTX is also studied.

  4. Analysis of the ATR fuel element swaging process

    SciTech Connect

    Richins, W.D.; Miller, G.K.

    1995-12-01

    This report documents a detailed evaluation of the swaging process used to connect fuel plates to side plates in Advanced Test Reactor (ATR) fuel elements. The swaging is a mechanical process that begins with fitting a fuel plate into grooves in the side plates. Once a fuel plate is positioned, a lip on each of two side plate grooves is pressed into the fuel plate using swaging wheels to form the joints. Each connection must have a specified strength (measured in terms, of a pullout force capacity) to assure that these joints do not fail during reactor operation. The purpose of this study is to analyze the swaging process and associated procedural controls, and to provide recommendations to assure that the manufacturing process produces swaged connections that meet the minimum strength requirement. The current fuel element manufacturer, Babcock and Wilcox (B&W) of Lynchburg, Virginia, follows established procedures that include quality inspections and process controls in swaging these connections. The procedures have been approved by Lockheed Martin Idaho Technologies and are designed to assure repeatability of the process and structural integrity of each joint. Prior to July 1994, ATR fuel elements were placed in the Hydraulic Test Facility (HTF) at the Idaho National Engineering Laboratory (AGNAIL), Test Reactor Area (TRA) for application of Boehmite (an aluminum oxide) film and for checking structural integrity before placement of the elements into the ATR. The results presented in this report demonstrate that the pullout strength of the swaged connections is assured by the current manufacturing process (with several recommended enhancements) without the need for- testing each element in the HTF.

  5. Single-stranded DNA orchestrates an ATM-to-ATR switch at DNA breaks.

    PubMed

    Shiotani, Bunsyo; Zou, Lee

    2009-03-13

    ATM and ATR are two master checkpoint kinases activated by double-stranded DNA breaks (DSBs). ATM is critical for the initial response and the subsequent ATR activation. Here we show that ATR activation is coupled with loss of ATM activation, an unexpected ATM-to-ATR switch during the biphasic DSB response. ATM is activated by DSBs with blunt ends or short single-stranded overhangs (SSOs). Surprisingly, the activation of ATM in the presence of SSOs, like that of ATR, relies on single- and double-stranded DNA junctions. In a length-dependent manner, SSOs attenuate ATM activation and potentiate ATR activation through a swap of DNA-damage sensors. Progressive resection of DSBs directly promotes the ATM-to-ATR switch in vitro. In cells, the ATM-to-ATR switch is driven by both ATM and the nucleases participating in DSB resection. Thus, single-stranded DNA orchestrates ATM and ATR to function in an orderly and reciprocal manner in two distinct phases of DSB response.

  6. Drosophila ATR in double-strand break repair.

    PubMed

    LaRocque, Jeannine R; Jaklevic, Burnley; Su, Tin Tin; Sekelsky, Jeff

    2007-03-01

    The ability of a cell to sense and respond to DNA damage is essential for genome stability. An important aspect of the response is arrest of the cell cycle, presumably to allow time for repair. Ataxia telangiectasia mutated (ATM) and ATR are essential for such cell-cycle control, but some observations suggest that they also play a direct role in DNA repair. The Drosophila ortholog of ATR, MEI-41, mediates the DNA damage-dependent G2-M checkpoint. We examined the role of MEI-41 in repair of double-strand breaks (DSBs) induced by P-element excision. We found that mei-41 mutants are defective in completing the later steps of homologous recombination repair, but have no defects in end-joining repair. We hypothesized that these repair defects are the result of loss of checkpoint control. To test this, we genetically reduced mitotic cyclin levels and also examined repair in grp (DmChk1) and lok (DmChk2) mutants. Our results suggest that a significant component of the repair defects is due to loss of MEI-41-dependent cell cycle regulation. However, this does not account for all of the defects we observed. We propose a novel role for MEI-41 in DSB repair, independent of the Chk1/Chk2-mediated checkpoint response.

  7. Open source tools for ATR development and performance evaluation

    NASA Astrophysics Data System (ADS)

    Baumann, James M.; Dilsavor, Ronald L.; Stubbles, James; Mossing, John C.

    2002-07-01

    Early in almost every engineering project, a decision must be made about tools; should I buy off-the-shelf tools or should I develop my own. Either choice can involve significant cost and risk. Off-the-shelf tools may be readily available, but they can be expensive to purchase and to maintain licenses, and may not be flexible enough to satisfy all project requirements. On the other hand, developing new tools permits great flexibility, but it can be time- (and budget-) consuming, and the end product still may not work as intended. Open source software has the advantages of both approaches without many of the pitfalls. This paper examines the concept of open source software, including its history, unique culture, and informal yet closely followed conventions. These characteristics influence the quality and quantity of software available, and ultimately its suitability for serious ATR development work. We give an example where Python, an open source scripting language, and OpenEV, a viewing and analysis tool for geospatial data, have been incorporated into ATR performance evaluation projects. While this case highlights the successful use of open source tools, we also offer important insight into risks associated with this approach.

  8. ATR-FTIR Spectroscopy in the Undergraduate Chemistry Laboratory: Part I--Fundamentals and Examples

    ERIC Educational Resources Information Center

    Schuttlefield, Jennifer D.; Grassian, Vicki H.

    2008-01-01

    Attenuated total reflectance-Fourier transform infrared (ATR-FTIR) spectroscopy is a useful technique for measuring the infrared spectra of solids and liquids as well as probing adsorption on particle surfaces. Several examples of the use of FTIR-ATR spectroscopy in different undergraduate chemistry laboratory courses are presented here. These…

  9. Partial duplications of the ATRX gene cause the ATR-X syndrome.

    PubMed

    Thienpont, Bernard; de Ravel, Thomy; Van Esch, Hilde; Van Schoubroeck, Dominique; Moerman, Philippe; Vermeesch, Joris Robert; Fryns, Jean-Pierre; Froyen, Guy; Lacoste, Caroline; Badens, Catherine; Devriendt, Koen

    2007-10-01

    ATR-X syndrome is a rare syndromic X-linked mental retardation disorder. We report that some of the patients suspected of ATR-X carry large intragenic duplications in the ATRX gene, leading to an absence of ATRX mRNA and of the protein. These findings underscore the need for including quantitative analyses to mutation analysis of the ATRX gene.

  10. Safety significance of ATR (Advanced Test Reactor) passive safety response attributes

    SciTech Connect

    Atkinson, S.A.

    1989-01-01

    The Advanced Test Reactor (ATR) at the Idaho National Engineering Laboratory was designed with some passive safety response attributes which contribute to the safety posture of the facility. The three passive safety attributes being evaluated in the paper are: (1) In-core and in-vessel natural convection cooling, (2) a passive heat sink capability of the ATR primary coolant system (PCS) for the transfer of decay power from the uninsulated piping to the confinement, and (3) gravity feed of emergency coolant makeup. The safety significance of the ATR passive safety response attributes is that the reactor can passively respond for most transients, given a reactor scram, to provide adequate decay power removal and a significant time for operator action should the normal active heat removal systems and their backup systems both fail. The ATR Interim Level 1 Probabilistic Risk Assessment (PRA) model ands results were used to evaluate the significance to ATR fuel damage frequency (or probability) of the above three passive response attributes. The results of the evaluation indicate that the first attribute is a major safety characteristic of the ATR. The second attribute has a noticeable but only minor safety significance. The third attribute has no significant influence on the ATR Level 1 PRA because of the diversity and redundancy of the ATR firewater injection system (emergency coolant system). 8 refs., 4 figs., 1 tab.

  11. 30 CFR 75.209 - Automated Temporary Roof Support (ATRS) systems.

    Code of Federal Regulations, 2010 CFR

    2010-07-01

    ... COAL MINE SAFETY AND HEALTH MANDATORY SAFETY STANDARDS-UNDERGROUND COAL MINES Roof Support § 75.209 Automated Temporary Roof Support (ATRS) systems. (a) Except in anthracite mines and as specified in... 30 Mineral Resources 1 2010-07-01 2010-07-01 false Automated Temporary Roof Support (ATRS)...

  12. 78 FR 58967 - Airworthiness Directives; ATR-GIE Avions de Transport Régional Airplanes

    Federal Register 2010, 2011, 2012, 2013, 2014

    2013-09-25

    ... 21 62 21; fax +33 (0) 5 62 21 67 18; email continued.airworthiness@atr.fr ; Internet http://www... Procedures (44 FR 11034, February 26, 1979); 3. Will not affect intrastate aviation in Alaska; and 4. Will...)5 62 21 69 41; email: techdesk@atr.fr . ] (1) If the inspection was done on or after the...

  13. Beyond Sentiment: A Descriptive Case Study of Elementary School Teachers' Experiences Selecting Children's Literature for Read-Alouds

    ERIC Educational Resources Information Center

    Loyd, Stacy M.

    2011-01-01

    The purpose of this study was to examine how and why elementary teachers select books for the read-aloud. A phenomenological approach was used to conduct a fourteen week descriptive study. Three participants were purposefully selected to provide an in-depth examination of teachers' book selection processes. Data was collected through observations,…

  14. Descriptions of Personal Experiences: Effects on Students' Learning and Behavioral Intentions toward Peers with Attention-Deficit/Hyperactivity Disorder

    ERIC Educational Resources Information Center

    Saecker, Lee B.; Skinner, Amy L.; Skinner, Christopher H.; Rowland, Emily; Kirk, Emily

    2010-01-01

    High-school students were shown an educational video designed to dispel 12 common myths regarding Attention-Deficit/Hyperactivity Disorder (ADHD) by describing each myth and then presenting accurate information. The experimental group viewed a video that was supplemented by the speaker acknowledging that he had ADHD and providing descriptions of…

  15. Home Literacy Experiences and Early Childhood Disability: A Descriptive Study Using the National Household Education Surveys (NHES) Program Database

    ERIC Educational Resources Information Center

    Breit-Smith, Allison; Cabell, Sonia Q.; Justice, Laura M.

    2010-01-01

    Purpose: The present article illustrates how the National Household Education Surveys (NHES; U.S. Department of Education, 2009) database might be used to address questions of relevance to researchers who are concerned with literacy development among young children. Following a general description of the NHES database, a study is provided that…

  16. ARF and ATM/ATR cooperate in p53-mediated apoptosis upon oncogenic stress

    SciTech Connect

    Pauklin, Siim . E-mail: spauklin@ut.ee; Kristjuhan, Arnold; Maimets, Toivo; Jaks, Viljar

    2005-08-26

    Induction of apoptosis is pivotal for eliminating cells with damaged DNA or deregulated proliferation. We show that tumor suppressor ARF and ATM/ATR kinase pathways cooperate in the induction of apoptosis in response to elevated expression of c-myc, {beta}-catenin or human papilloma virus E7 oncogenes. Overexpression of oncogenes leads to the formation of phosphorylated H2AX foci, induction of Rad51 protein levels and ATM/ATR-dependent phosphorylation of p53. Inhibition of ATM/ATR kinases abolishes both induction of Rad51 and phosphorylation of p53, and remarkably reduces the level of apoptosis induced by co-expression of oncogenes and ARF. However, the induction of apoptosis is downregulated in p53-/- cells and does not depend on activities of ATM/ATR kinases, indicating that efficient induction of apoptosis by oncogene activation depends on coordinated action of ARF and ATM/ATR pathways in the regulation of p53.

  17. Investigating the dimension of time: findings from a modified grounded theory study about clients' experiences and descriptions of temporality or time within music therapy.

    PubMed

    Daveson, Barbara; O'Callaghan, Clare

    2011-01-01

    Many references to time or temporality are located within music therapy literature, however little research has been completed regarding this phenomenon. Findings from a modified grounded theory study about clients' experiences and descriptions of time within the context of music therapy are presented here. The study was informed by the constructivist-interpretive paradigm and a grounded-descriptive statement finding resulted. A 2-staged research methodology was used, comprising a deductive-inductive content analysis of information from the public domain, followed by data-mining of information from a minimum of 160 clients and analysis of data from at least 43 of these 160 clients. Information regarding memory experiences, the duration of music therapy effects, recall and retrieval, and experiences of time are identified. Implications for practice are emphasized, in particular the following is stressed (a) the importance of time orientation and temporal connectedness in relation to identity development, (b) temporal strategies within music experience to assist integration, recall, and retrieval of information, and (c) the importance of and the elements involved in time modification. New explanations for music therapy phenomena are shared, and areas for research highlighted. Benefits of using time dynamically to aid therapeutic process are proposed, and it is concluded that temporal experience within the context of music therapy is important in relation to both practice and research.

  18. Deep convolutional neural networks for ATR from SAR imagery

    NASA Astrophysics Data System (ADS)

    Morgan, David A. E.

    2015-05-01

    Deep architectures for classification and representation learning have recently attracted significant attention within academia and industry, with many impressive results across a diverse collection of problem sets. In this work we consider the specific application of Automatic Target Recognition (ATR) using Synthetic Aperture Radar (SAR) data from the MSTAR public release data set. The classification performance achieved using a Deep Convolutional Neural Network (CNN) on this data set was found to be competitive with existing methods considered to be state-of-the-art. Unlike most existing algorithms, this approach can learn discriminative feature sets directly from training data instead of requiring pre-specification or pre-selection by a human designer. We show how this property can be exploited to efficiently adapt an existing classifier to recognise a previously unseen target and discuss potential practical applications.

  19. Modern approaches in deep learning for SAR ATR

    NASA Astrophysics Data System (ADS)

    Wilmanski, Michael; Kreucher, Chris; Lauer, Jim

    2016-05-01

    Recent breakthroughs in computational capabilities and optimization algorithms have enabled a new class of signal processing approaches based on deep neural networks (DNNs). These algorithms have been extremely successful in the classification of natural images, audio, and text data. In particular, a special type of DNNs, called convolutional neural networks (CNNs) have recently shown superior performance for object recognition in image processing applications. This paper discusses modern training approaches adopted from the image processing literature and shows how those approaches enable significantly improved performance for synthetic aperture radar (SAR) automatic target recognition (ATR). In particular, we show how a set of novel enhancements to the learning algorithm, based on new stochastic gradient descent approaches, generate significant classification improvement over previously published results on a standard dataset called MSTAR.

  20. End-to end performance of the TESAR ATR system

    NASA Astrophysics Data System (ADS)

    Rosario, Dalton S.

    2000-08-01

    The TESAR [Tactical Endurance Synthetic Aperture Radar (SAR)] system uses four algorithms in its three-stage algorithmic approach to the detection and identification of targets in continuous real-time, 1-ft-resolution, strip SAR image data. The first stage employs a multitarget detector with a built-in natural/cultural false-alarm mitigator. The second stage provides target hypotheses for the candidate targets and refines their angular pose. The third stage, consisting of two template-based algorithms, produces final target-identification decisions. This paper reviews the end- to-end ATR performance achieved by the TESAR system in preparation for a 1998 field demonstration at Aberdeen Proving Ground, Aberdeen, MD. The discussion includes an overview of the algorithm suite, the system's unique capabilities, and its overall performance against eight ground targets.

  1. Tokamak Physics EXperiment (TPX): Toroidal field magnet design, development and manufacture. SDRL 15, System design description. Volume 1

    SciTech Connect

    1995-09-22

    This System Design Description, prepared in accordance with the TPX Project Management Plan provides a summary or TF Magnet System design features at the conclusion of Phase I, Preliminary Design and Manufacturing Research. The document includes the analytical and experimental bases for the design, and plans for implementation in final design, manufacturing, test, and magnet integration into the tokamak. Requirements for operation and maintenance are outlined, and references to sources of additional information are provided.

  2. Wurfelspiel-based training data methods for ATR

    NASA Astrophysics Data System (ADS)

    Peterson, James K.

    2004-09-01

    A data object is constructed from a P by M Wurfelspiel matrix W by choosing an entry from each column to construct a sequence A0A1"AM-1. Each of the PM possibilities are designed to correspond to the same category according to some chosen measure. This matrix could encode many types of data. (1) Musical fragments, all of which evoke sadness; each column entry is a 4 beat sequence with a chosen A0A1A2 thus 16 beats long (W is P by 3). (2) Paintings, all of which evoke happiness; each column entry is a layer and a given A0A1A2 is a painting constructed using these layers (W is P by 3). (3) abstract feature vectors corresponding to action potentials evoked from a biological cell's exposure to a toxin. The action potential is divided into four relevant regions and each column entry represents the feature vector of a region. A given A0A1A2 is then an abstraction of the excitable cell's output (W is P by 4). (4) abstract feature vectors corresponding to an object such as a face or vehicle. The object is divided into four categories each assigned an abstract feature vector with the resulting concatenation an abstract representation of the object (W is P by 4). All of the examples above correspond to one particular measure (sad music, happy paintings, an introduced toxin, an object to recognize)and hence, when a Wurfelspiel matrix is constructed, relevant training information for recognition is encoded that can be used in many algorithms. The focus of this paper is on the application of these ideas to automatic target recognition (ATR). In addition, we discuss a larger biologically based model of temporal cortex polymodal sensor fusion which can use the feature vectors extracted from the ATR Wurfelspiel data.

  3. Identification of ATR-Chk1 pathway inhibitors that selectively target p53-deficient cells without directly suppressing ATR catalytic activity

    PubMed Central

    Kawasumi, Masaoki; Bradner, James E.; Tolliday, Nicola; Thibodeau, Renee; Sloan, Heather; Brummond, Kay M.; Nghiem, Paul

    2014-01-01

    Resistance to DNA-damaging chemotherapy is a barrier to effective treatment that appears to be augmented by p53 functional deficiency in many cancers. In p53-deficient cells where the G1/S checkpoint is compromised, cell viability after DNA damage relies upon intact intra-S and G2/M checkpoints mediated by the ATR and Chk1 kinases. Thus, a logical rationale to sensitize p53-deficient cancers to DNA-damaging chemotherapy is through the use of ATP-competitive inhibitors of ATR or Chk1. To discover small molecules that may act on uncharacterized components of the ATR pathway, we performed a phenotype-based screen of 9,195 compounds for their ability to inhibit hydroxyurea-induced phosphorylation of Ser345 on Chk1, known to be a critical ATR substrate. This effort led to the identification of four small-molecule compounds, three of which were derived from known bioactive library (anthothecol, dihydrocelastryl, and erysolin) and one of which was a novel synthetic compound termed MARPIN. These compounds all inhibited ATR-selective phosphorylation and sensitized p53-deficient cancer cells to DNA-damaging agents in vitro and in vivo. Notably, these compounds did not inhibit ATR catalytic activity in vitro, unlike typical ATP-competitive inhibitors, but acted in a mechanistically distinct manner to disable ATR-Chk1 function. Our results highlight a set of novel molecular probes to further elucidate druggable mechanisms to improve cancer therapeutic responses produced by DNA-damaging drugs. PMID:25336189

  4. The experiences of patients and relatives/significant others of overcrowding in accident and emergency in Ireland: a qualitative descriptive study.

    PubMed

    Coughlan, Michael; Corry, Margarita

    2007-10-01

    Overcrowding in Accident and Emergency Departments (A&E) in Ireland has reached crisis proportions since the dawning of the new millennium. Although this phenomenon is not unique to Ireland and many authors have suggested causes and management strategies to deal with these crises, little appears to have been written regarding the experiences of patients or their families waiting in the A&E. The aim of this qualitative descriptive study was to describe the experiences of patients and/or their relatives/significant others who had spent 12 h or more in A&E awaiting admission to hospital. Four patients and three relatives/significant others volunteered to participate in the study. Participants described the A&E departments as resembling a disaster zone or a hospital scene from a third world country. Descriptions portrayed an environment that was overcrowded, dirty and lacking in resources. Participants were generally positive in their attitudes towards the care they received, but some descriptions appeared to suggest that the quality of care was not always ideal. Recommendations from participants included reduced waiting times with a maximum of 6 h from admission to transfer or discharge; better communications systems with perhaps a liaison person who could advise them about the expected duration of stay in A&E and what was happening regarding their care; and better privacy and security within the departments. PMID:17920270

  5. Cancer-Specific Synthetic Lethality between ATR and CHK1 Kinase Activities.

    PubMed

    Sanjiv, Kumar; Hagenkort, Anna; Calderón-Montaño, José Manuel; Koolmeister, Tobias; Reaper, Philip M; Mortusewicz, Oliver; Jacques, Sylvain A; Kuiper, Raoul V; Schultz, Niklas; Scobie, Martin; Charlton, Peter A; Pollard, John R; Berglund, Ulrika Warpman; Altun, Mikael; Helleday, Thomas

    2016-01-12

    ATR and CHK1 maintain cancer cell survival under replication stress and inhibitors of both kinases are currently undergoing clinical trials. As ATR activity is increased after CHK1 inhibition, we hypothesized that this may indicate an increased reliance on ATR for survival. Indeed, we observe that replication stress induced by the CHK1 inhibitor AZD7762 results in replication catastrophe and apoptosis, when combined with the ATR inhibitor VE-821 specifically in cancer cells. Combined treatment with ATR and CHK1 inhibitors leads to replication fork arrest, ssDNA accumulation, replication collapse, and synergistic cell death in cancer cells in vitro and in vivo. Inhibition of CDK reversed replication stress and synthetic lethality, demonstrating that regulation of origin firing by ATR and CHK1 explains the synthetic lethality. In conclusion, this study exemplifies cancer-specific synthetic lethality between two proteins in the same pathway and raises the prospect of combining ATR and CHK1 inhibitors as promising cancer therapy. PMID:26748709

  6. Differential roles of ATR and ATM in p53, Chk1, and histone H2AX phosphorylation in response to hyperoxia: ATR-dependent ATM activation.

    PubMed

    Kulkarni, Amit; Das, Kumuda C

    2008-05-01

    Elevated level of oxygen (hyperoxia) is widely used in critical care units and in respiratory insufficiencies. In addition, hyperoxia has been implicated in many diseases such as bronchopulmonary dysplasia or acute respiratory distress syndrome. Although hyperoxia is known to cause DNA base modifications and strand breaks, the DNA damage response has not been adequately investigated. We have investigated the effect of hyperoxia on DNA damage signaling and show that hyperoxia is a unique stress that activates the ataxia telangiectasia mutant (ATM)- and Rad3-related protein kinase (ATR)-dependent p53 phosphorylations (Ser6, -15, -37, and -392), phosphorylation of histone H2AX (Ser139), and phosphorylation of checkpoint kinase 1 (Chk1). In addition, we show that phosphorylation of p53 (Ser6) and histone H2AX (Ser139) depend on both ATM and ATR. We demonstrate that ATR activation precedes ATM activation in hyperoxia. Finally, we show that ATR is required for ATM activation in hyperoxia. Taken together, we report that ATR is the major DNA damage signal transducer in hyperoxia that activates ATM.

  7. The Student Teachers' Description of Pivotal Moments during the Process of the Student Teaching Experience: A Grounded Theory Study

    ERIC Educational Resources Information Center

    Barthuly, Lourra L.

    2011-01-01

    Though research exists regarding learning styles, none has been completed specifically on the pivotal moments that occur to teachers while transforming from a student to an educator. Though the student teaching experience has been a practice in many universities, this experience is unchartered territory in the scientific community with regard to…

  8. ATR WG-MOX Fuel Pellet Burnup Measurement by Monte Carlo - Mass Spectrometric Method

    SciTech Connect

    Chang, Gray Sen I

    2002-10-01

    This paper presents a new method for calculating the burnup of nuclear reactor fuel, the MCWO-MS method, and describes its application to an experiment currently in progress to assess the suitability for use in light-water reactors of Mixed-OXide (MOX) fuel that contains plutonium derived from excess nuclear weapons material. To demonstrate that the available experience base with Reactor-Grade Mixed uranium-plutonium OXide (RGMOX) can be applied to Weapons-Grade (WG)-MOX in light water reactors, and to support potential licensing of MOX fuel made from weapons-grade plutonium and depleted uranium for use in United States reactors, an experiment containing WG-MOX fuel is being irradiated in the Advanced Test Reactor (ATR) at the Idaho National Engineering and Environmental Laboratory. Fuel burnup is an important parameter needed for fuel performance evaluation. For the irradiated MOX fuel’s Post-Irradiation Examination, the 148Nd method is used to measure the burnup. The fission product 148Nd is an ideal burnup indicator, when appropriate correction factors are applied. In the ATR test environment, the spectrum-dependent and burnup-dependent correction factors (see Section 5 for detailed discussion) can be substantial in high fuel burnup. The validated Monte Carlo depletion tool (MCWO) used in this study can provide a burnup-dependent correction factor for the reactor parameters, such as capture-to-fission ratios, isotopic concentrations and compositions, fission power, and spectrum in a straightforward fashion. Furthermore, the correlation curve generated by MCWO can be coupled with the 239Pu/Pu ratio measured by a Mass Spectrometer (in the new MCWO-MS method) to obtain a best-estimate MOX fuel burnup. A Monte Carlo - MCWO method can eliminate the generation of few-group cross sections. The MCWO depletion tool can analyze the detailed spatial and spectral self-shielding effects in UO2, WG-MOX, and reactor-grade mixed oxide (RG-MOX) fuel pins. The MCWO-MS tool only

  9. Status Report on the Fabrication of Fuel Cladding Chemical Interaction Test Articles for ATR Irradiations

    SciTech Connect

    Field, Kevin G.; Howard, Richard H.

    2015-09-28

    FeCrAl alloys are a promising new class of alloys for light water reactor (LWR) applications due to their superior oxidation and corrosion resistance in high temperature environments. The current R&D efforts have focused on the alloy composition and processing routes to generate nuclear grade FeCrAl alloys with optimized properties for enhanced accident tolerance while maintaining properties needed for normal operation conditions. Therefore, the composition and processing routes must be optimized to maintain the high temperature steam oxidation (typically achieved by increasing the Cr and Al content) while still exhibiting properties conducive to normal operation in a LWR (such as radiation tolerance where reducing Cr content is favorable). Within this balancing act is the addition of understanding the influence on composition and processing routes on the FeCrAl alloys for fuel-cladding chemical interactions (FCCI). Currently, limited knowledge exists on FCCI for the FeCrAl-UO2 clad-fuel system. To overcome the knowledge gaps on the FCCI for the FeCrAl-UO2 clad-fuel system a series of fueled irradiation tests have been developed for irradiation in the Advanced Test Reactor (ATR) housed at the Idaho National Laboratory (INL). The first series of tests has already been reported. These tests used miniaturized 17x17 PWR fuel geometry rodlets of second-generation FeCrAl alloys fueled with industrial Westinghouse UO2 fuel. These rodlets were encapsulated within a stainless steel housing.To provide high fidelity experiments and more robust testing, a new series of rodlets have been developed deemed the Accident Tolerant Fuel Experiment #1 Oak Ridge National Laboratory FCCI test (ATF-1 ORNL FCCI). The main driving factor, which is discussed in detail, was to provide a radiation environment where prototypical fuel-clad interface temperatures are met while still maintaining constant contact between industrial fuel and the candidate cladding alloys

  10. Drought description

    USGS Publications Warehouse

    Matalas, N.C.

    1991-01-01

    What constitutes a comprehensive description of drought, a description forming a basis for answering why a drought occurred is outlined. The description entails two aspects that are "naturally" coupled, named physical and economic, and treats the set of hydrologic measures of droughts in terms of their multivariate distribution, rather than in terms of a collection of the marginal distributions. ?? 1991 Springer-Verlag.

  11. Correlations between physical properties, formulations, and ATR FTIR spectra of polyurethane foams

    NASA Astrophysics Data System (ADS)

    Caughran, Joel A.; Bhat, Sanmitra A.; de Haseth, James A.

    1994-01-01

    Polyurethane foams of varying surfactant, tin catalyst, and amine catalyst levels were prepared to find formulations that made `good' foams. A good foam is characterized by rise and density. Attenuated Total Reflectance spectra of the foams were collected after the foams were allowed to cure for 24 hours. Because the infrared spectrum shows morphology as well as structure, the ATR spectrum can be used to measure physical properties that are dependent on structure and morphology. The ATR FT-IR spectra were baseline corrected and then normalized by the area in the C-H stretch region to correct for differences in contact area with the ATR crystal. Samples were then taken from the cured foam parallel to the direction of rise to measure tensile strength and air permeability. Correlations were then made between the ATR spectra and the physical properties. Partial least squares (PLS) and principle component regression (PCR) were used to do the correlations.

  12. Transfer of polarized 3He ions in the AtR beam transfer line

    SciTech Connect

    Tsoupas N.; MacKay, W.W.; Meot, F.; Roser, T.; Trbojevic, D.

    2012-05-20

    In addition to collisions of electrons with various unpolarized ion species as well as polarized protons, the proposed electron-hadron collider (eRHIC) will facilitate the collisions of electrons with polarized {sup 3}He ions. The AGS is the last acceleration stage, before injection into one of the RHIC's collider ring for final acceleration. The AtR (AGS to RHIC) transfer line will be utilized to transport the polarized {sup 3}He ions from AGS into one of the RHIC's collider rings. Some of the peculiarities of the AtR line's layout (simultaneous horizontal and vertical bends) may degrade the matching of the stable spin direction of the AtR line with that of RHIC's. In this paper we discuss possible simple modifications of the AtR line to accomplish a perfect matching of the stable spin direction of the injected {sup 3}He beam with the stable spin direction at the injection point of RHIC.

  13. Roles of ATR1 paralogs YMR279c and YOR378w in boron stress tolerance.

    PubMed

    Bozdag, Gonensin Ozan; Uluisik, Irem; Gulculer, Gulce Sila; Karakaya, Huseyin C; Koc, Ahmet

    2011-06-17

    Boron is a necessary nutrient for plants and animals, however excess of it causes toxicity. Previously, Atr1 and Arabidopsis Bor1 homolog were identified as the boron efflux pump in yeast, which lower the cytosolic boron concentration and help cells to survive in the presence of toxic amount of boron. In this study, we analyzed ATR1 paralogs, YMR279c and YOR378w, to understand whether they participate in boron stress tolerance in yeast. Even though these genes share homology with ATR1, neither their deletion rendered cells boron sensitive nor their expression was significantly upregulated by boron treatment. However, expression of YMR279, but not YOR378w, from the constitutive GAPDH promoter on a high copy plasmid provided remarkable boron resistance by decreasing intracellular boron levels. Thus our results suggest the presence of a third boron exporter, YMR279c, which functions similar to ATR1 and provides boron resistance in yeast.

  14. Irradiation Test Plan for the ATR National Scientific User Facility - University of Wisconsin Pilot Project

    SciTech Connect

    Heather J. MacLean; Kumar Sridharan; Timothy A. Hyde

    2008-06-01

    The performance of advanced nuclear systems critically relies on the performance of the materials used for cladding, duct, and other structural components. In many proposed advanced systems, the reactor design pushes the temperature and the total radiation dose higher than typically seen in a light water reactor. Understanding the stability of these materials under radiation is critical. There are a large number of materials or material systems that have been developed for greater high temperature or high dose performance for which little or no information on radiation response exists. The goal of this experiment is to provide initial data on the radiation response of these materials. The objective of the UW experiment is to irradiate materials of interest for advanced reactor applications at a variety of temperatures (nominally 300°C, 400°C, 500°C, and 700°C) and total dose accumulations (nominally 3 dpa and 6 dpa). Insertion of this irradiation test is proposed for September 2008 (ATR Cycle 143A).

  15. MOX and MOX with 237Np/241Am Inert Fission Gas Generation Comparison in ATR

    SciTech Connect

    G. S. Chang; M. Robel; W. J. Carmack; D. J. Utterbeck

    2006-06-01

    The treatment of spent fuel produced in nuclear power generation is one of the most important issues to both the nuclear community and the general public. One of the viable options to long-term geological disposal of spent fuel is to extract plutonium, minor actinides (MA), and potentially long-lived fission products from the spent fuel and transmute them into short-lived or stable radionuclides in currently operating light-water reactors (LWR), thus reducing the radiological toxicity of the nuclear waste stream. One of the challenges is to demonstrate that the burnup-dependent characteristic differences between Reactor-Grade Mixed Oxide (RG-MOX) fuel and RG-MOX fuel with MA Np-237 and Am 241 are minimal, particularly, the inert gas generation rate, such that the commercial MOX fuel experience base is applicable. Under the Advanced Fuel Cycle Initiative (AFCI), developmental fuel specimens in experimental assembly LWR-2 are being tested in the northwest (NW) I-24 irradiation position of the Advanced Test Reactor (ATR). The experiment uses MOX fuel test hardware, and contains capsules with MOX fuel consisting of mixed oxide manufactured fuel using reactor grade plutonium (RG-Pu) and mixed oxide manufactured fuel using RG-Pu with added Np/Am. This study will compare the fuel neutronics depletion characteristics of Case-1 RG-MOX and Case-2 RG-MOX with Np/Am.

  16. Hydrogen-Deuterium exchange monitored by ATR-FTIR spectroscopy

    NASA Astrophysics Data System (ADS)

    Poe, Brent; Del Vecchio, Alessandro; Cestelli Guidi, Mariangela

    2016-04-01

    Measuring the extent of isotopic exchange is a common means for the determination of self-diffusion coefficients in any type of medium (gas, liquid, amorphous solid, crystalline solid). For rapidly diffusing species such as hydrogen in condensed phases, real time methods involving vibrational spectroscopy can be used by taking advantage of the large relative mass difference between 1H and 2H, resulting in large differences in the band positions of their vibrational modes. We demonstrate rapid isotopic exchange between D2O liquid and H2O vapor using ATR (attenuated total reflectance) in a FTIR spectrometer. Over the course of a few minutes several spectra were acquired of a D2O droplet mounted on a diamond crystal. The progressive exchange reaction between the liquid phase and H2O from the atmosphere was monitored by measuring the decreasing absorbance of the D-O-D bending and O-D stretching bands and the increasing absorbance of the D-O-H and H-O-H bending and O-H stretching bands as functions of time. Our results offer some intriguing insights into the structural characteristics of water as inferred by this exchange process.

  17. Rapid discrimination of maggots utilising ATR-FTIR spectroscopy.

    PubMed

    Pickering, Claire L; Hands, James R; Fullwood, Leanne M; Smith, Judith A; Baker, Matthew J

    2015-04-01

    Entomological evidence is used in forensic investigations to indicate time since death. The species and age of maggots or flies that are present at the scene can be used when estimating how much time has passed since death. Current methods that are used to identify species and developmental stage of larvae and fly samples are highly subjective, costly and often time consuming processes and require the expertise of an entomologist or species identification via DNA analysis. The use of vibrational spectroscopy, as an alternative identification method, would allow for a quicker, cheaper and less subjective technique and would allow entomological evidence to be used more commonly in the forensic process. This proof of principle study shows the potential for using attenuated total reflection-Fourier transform infrared spectroscopy (ATR-FTIR) as a rapid tool for differentiating between various species of larvae, such as those commonly found at crime scenes. The proposed regime would provide a rapid and valuable tool resulting in reduced time for both species identification and life cycle determination, particularly in forensic situations.

  18. Experimental active control of sound in the ATR 42

    NASA Astrophysics Data System (ADS)

    Paonessa, A.; Sollo, A.; Paxton, M.; Purver, M.; Ross, C. F.

    Passenger comfort is becoming day by day an important issue for the market of the regional turboprop aircraft and also for the future high speed propeller driven aircraft. In these aircraft the main contribution to the passenger annoyance is due to the propeller noise blade passing frequency (BPF) and its harmonics. In the recent past a detailed theoretical and experimental work has been done by Alenia Aeronautica in order to reduce the noise level in the ATR aircraft passenger cabin by means of conventional passive treatments: synchrophasing of propellers, dynamic vibration absorbers, structural reinforcements, damping materials. The application of these treatments has been introduced on production aircraft with a remarkable improvement of noise comfort but with a significant weight increase. For these reasons, a major technology step is required for reaching passenger comfort comparable to that of jet aircraft with the minimum weight increase. The most suitable approach to this problem has been envisaged in the active noise control which consists in generating an anti-sound field in the passenger cabin to reduce the noise at propeller BPF and its harmonics. The attenuation is reached by means of a control system which acquires information about the cabin noise distribution and the propeller speed during flight and simultaneously generates the signals to drive the speakers.

  19. Ontology Language to Support Description of Experiment Control System Semantics, Collaborative Knowledge-Base Design and Ontology Reuse

    SciTech Connect

    Vardan Gyurjyan, D Abbott, G Heyes, E Jastrzembski, B Moffit, C Timmer, E Wolin

    2009-10-01

    In this paper we discuss the control domain specific ontology that is built on top of the domain-neutral Resource Definition Framework (RDF). Specifically, we will discuss the relevant set of ontology concepts along with the relationships among them in order to describe experiment control components and generic event-based state machines. Control Oriented Ontology Language (COOL) is a meta-data modeling language that provides generic means for representation of physics experiment control processes and components, and their relationships, rules and axioms. It provides a semantic reference frame that is useful for automating the communication of information for configuration, deployment and operation. COOL has been successfully used to develop a complete and dynamic knowledge-base for experiment control systems, developed using the AFECS framework.

  20. Neutron dosimetry and damage calculations for the ATR-A1 irradiation

    SciTech Connect

    Greenwood, L.R.; Ratner, R.T.

    1998-09-01

    Neutron fluence measurements and radiation damage calculations are reported for the collaborative US/Japan ATR-A1 irradiation in the Advanced Test Reactor (ATR) at Idaho National Engineering Laboratory (INEL). The maximum total neutron fluence at midplane was 9.4 {times} 10{sup 21} n/cm{sup 2} (5.5 {times} 10{sup 21} n/cm{sup 2} above 0.1 MeV), resulting in about 4.6 dpa in vanadium.

  1. Late High School Dropouts: Characteristics, Experiences, and Changes Across Cohorts. Descriptive Analysis Report. NCES 2009-307

    ERIC Educational Resources Information Center

    Dalton, Ben; Glennie, Elizabeth; Ingels, Steven J.

    2009-01-01

    This report presents information about selected characteristics and experiences of high school sophomores in 2002 who subsequently dropped out of school. It also presents comparative data about late high school dropouts in the years 1982, 1992, and 2004. Three data sources provide the information for the report: the High School and Beyond…

  2. AGR-3/4 Data Qualification Report for ATR Cycles 151A, 151B, 152A, 152B, 154A, and 154B

    SciTech Connect

    Binh T. Pham

    2014-02-01

    This data report provides the qualification status of Advanced Gas Reactor-3/4 (AGR-3/4) fuel irradiation experimental data from Advanced Test Reactor (ATR) Cycles 151A, 151B, 152A, 152B, 154A, and 154B, as recorded in the Nuclear Data Management and Analysis System (NDMAS). Of these cycles, ATR Cycle 152A is a low power cycle that occurred when the ATR core was briefly at low power. The irradiation data are not used for physics and thermal calculation, but the qualification status of these cycle data is still covered in this report. On the other hand, during ATR Cycles 153A (unplanned Outage cycle) and 153B (Power Axial Locator Mechanism [PALM] cycle), the AGR-3/4 was pulled out from the ATR core and stored in the canal to avoid being overheated. Therefore, qualification of the AGR-3/4 irradiation data from these 2 cycles was excluded in this report. By the end of ATR Cycle 154B, AGR-3/4 was irradiated for a total of 264.1 effective full power days. The AGR-3/4 data streams addressed in this report include thermocouple (TC) temperatures, sweep gas data (flow rates, pressure, and moisture content), and Fission Product Monitoring System (FPMS) data (release rates and release-to-birth rate ratios [R/Bs]) for each of the twelve capsules in the AGR-3/4 experiment. The final data qualification status for these data streams is determined by a Data Review Committee (DRC) composed of AGR technical leads, Sitewide Quality Assurance (QA), and NDMAS analysts. The DRC convened on February 12, 2014, reviewed the data acquisition process, and considered whether the data met the requirements for data collection as specified in QA-approved Very High Temperature Reactor (VHTR) Technology Development Office (TDO) data collection plans. The DRC also examined the results of NDMAS data testing and statistical analyses, and confirmed the qualification status of the data as given in this report.

  3. Cancer-Specific Synthetic Lethality between ATR and CHK1 Kinase Activities

    PubMed Central

    Sanjiv, Kumar; Hagenkort, Anna; Calderón-Montaño, José Manuel; Koolmeister, Tobias; Reaper, Philip M.; Mortusewicz, Oliver; Jacques, Sylvain A.; Kuiper, Raoul V.; Schultz, Niklas; Scobie, Martin; Charlton, Peter A.; Pollard, John R.; Berglund, Ulrika Warpman; Altun, Mikael; Helleday, Thomas

    2015-01-01

    Summary ATR and CHK1 maintain cancer cell survival under replication stress and inhibitors of both kinases are currently undergoing clinical trials. As ATR activity is increased after CHK1 inhibition, we hypothesized that this may indicate an increased reliance on ATR for survival. Indeed, we observe that replication stress induced by the CHK1 inhibitor AZD7762 results in replication catastrophe and apoptosis, when combined with the ATR inhibitor VE-821 specifically in cancer cells. Combined treatment with ATR and CHK1 inhibitors leads to replication fork arrest, ssDNA accumulation, replication collapse, and synergistic cell death in cancer cells in vitro and in vivo. Inhibition of CDK reversed replication stress and synthetic lethality, demonstrating that regulation of origin firing by ATR and CHK1 explains the synthetic lethality. In conclusion, this study exemplifies cancer-specific synthetic lethality between two proteins in the same pathway and raises the prospect of combining ATR and CHK1 inhibitors as promising cancer therapy. PMID:26748709

  4. Achilles Tendon Reflex (ATR) in response to short exposures of microgravity and hypergravity

    NASA Technical Reports Server (NTRS)

    Fujii, M.; Jaweed, M.

    1992-01-01

    Previous studies indicate that latency and amplitude of the Achilles tendon reflex (ATR) are reduced after exposure to microgravity for 28 days. The objective of this study was to quantitatively measure the latency of ATR during brief (20 sec) exposure to microgravity in KC-135 parabolic flights. Methods: The ATR was elicited in ten men during parabolic flight with the ankle held neutrally, planarflexed, and dorsiflexed. During flight, the ATR was elicited during the zero G and 1.8 G phases. Postflight testing was performed flying back to the airfield. Latencies to onset of the ATR were calculated and analyses of variance were performed to determine the effect of gravity and ankle position on latency. Result: The mean latencies for zero-G, 1.8-G and postflight with the ankle in the neutral position were 32.7 plus or minus 0.5 ms, and 33.1 plus or minus 0.7 ms respectively, which were not significantly different. There was a trend toward prolongation of latencies postflight. The mean latency for those who were motion sick was 32.1 plus or minus 0.1 ms compared to 34.0 plus or minus 0.3 ms for those who were not sick. Conclusions: These studies indicate that neither the level of gravity nor ankle position significantly affected the latency of the ATR.

  5. Roles of ATR1 paralogs YMR279c and YOR378w in boron stress tolerance

    SciTech Connect

    Bozdag, Gonensin Ozan; Uluisik, Irem; Gulculer, Gulce Sila; Karakaya, Huseyin C.; Koc, Ahmet

    2011-06-17

    Highlights: {yields} ATR1 paralog YMR279c plays role in boron detoxification. {yields} YMR279c overexpression lowers cytoplasmic boron levels. {yields} ATR1 paralog YOR378w has no roles in boron stress response. -- Abstract: Boron is a necessary nutrient for plants and animals, however excess of it causes toxicity. Previously, Atr1 and Arabidopsis Bor1 homolog were identified as the boron efflux pump in yeast, which lower the cytosolic boron concentration and help cells to survive in the presence of toxic amount of boron. In this study, we analyzed ATR1 paralogs, YMR279c and YOR378w, to understand whether they participate in boron stress tolerance in yeast. Even though these genes share homology with ATR1, neither their deletion rendered cells boron sensitive nor their expression was significantly upregulated by boron treatment. However, expression of YMR279, but not YOR378w, from the constitutive GAPDH promoter on a high copy plasmid provided remarkable boron resistance by decreasing intracellular boron levels. Thus our results suggest the presence of a third boron exporter, YMR279c, which functions similar to ATR1 and provides boron resistance in yeast.

  6. A job description for the effective self-management of a long-term condition: experiences of living with difficult asthma.

    PubMed

    Deacon, Maureen; Rickards, Emma

    2013-04-01

    This paper concerns a study exploring the salience of a 'job description' for the effective self-management of a long-term condition to the experiences of a group of women living with difficult asthma. This is a life-threatening disease. It has been claimed that sufferers are a marginalised, misunderstood, mistreated and vulnerable group. The method involved secondary analysis of focus group data. The job description has been developed as a tool to enable nurses to facilitate and support effective self-management. This study was designed to examine the application of this tool to a particular case. Long-term conditions are a growing feature of the developed world and are strongly implicated in health inequalities. They are more prevalent in socially and economically disadvantaged populations and therefore add further burden to already vulnerable people. Effective self-management is critical to adapting and adjusting to the experience of a long-term condition and nurses have a responsibility to promote this process.

  7. Identifying the mechanisms of drug release from amorphous solid dispersions using MRI and ATR-FTIR spectroscopic imaging.

    PubMed

    Punčochová, Kateřina; Ewing, Andrew V; Gajdošová, Michaela; Sarvašová, Nina; Kazarian, Sergei G; Beránek, Josef; Štěpánek, František

    2015-04-10

    The dissolution mechanism of a poorly aqueous soluble drug from amorphous solid dispersions was investigated using a combination of two imaging methods: attenuated total reflection-Fourier transform infrared (ATR-FTIR) spectroscopic imaging and magnetic resonance imaging (MRI). The rates of elementary processes such as water penetration, polymer swelling, growth and erosion of gel layer, and the diffusion, release and in some cases precipitation of drug were evaluated by image analysis. The results from the imaging methods were compared with drug release profiles obtained by classical dissolution tests. The study was conducted using three polymeric excipients (soluplus, polyvinylpyrrolidone - PVP K30, hydroxypropylmethyl cellulose - HPMC 100M) alone and in combination with a poorly soluble drug, aprepitant. The imaging methods were complementary: ATR-FTIR imaging enabled a qualitative observation of all three components during the dissolution experiments, water, polymer and drug, including identifying structural changes from the amorphous form of drug to the crystalline form. The comparison of quantitative MRI data with drug release profiles enabled the different processes during dissolution to be established and the rate-limiting step to be identified, which - for the drug-polymer combinations investigated in this work - was the drug diffusion through the gel layer rather than water penetration into the tablet. PMID:25686660

  8. Progress Report on Disassembly and Post-Irradiation Experiments for UCSB ATR-2 Experiment

    SciTech Connect

    Nanstad, Randy K; Odette, G. R.; Robertson, Janet Pawel; Yamamoto, T

    2015-09-01

    The reactor pressure vessel (RPV) in a light-water reactor (LWR) represents the first line of defense against a release of radiation in case of an accident. Thus, regulations that govern the operation of commercial nuclear power plants require conservative margins of fracture toughness, both during normal operation and under accident scenarios. In the unirradiated condition, the RPV has sufficient fracture toughness such that failure is implausible under any postulated condition, including pressurized thermal shock (PTS) in pressurized water reactors (PWR). In the irradiated condition, however, the fracture toughness of the RPV may be severely degraded, with the degree of toughness loss dependent on the radiation sensitivity of the materials. As stated in previous progress reports, the available embrittlement predictive models, e.g. [1], and our present understanding of radiation damage are not fully quantitative, and do not treat all potentially significant variables and issues, particularly considering extension of operation to 80y.

  9. ATR National Scientific User Facility 2013 Annual Report

    SciTech Connect

    Ulrich, Julie A.; Robertson, Sarah

    2015-03-01

    This is the 2013 Annual Report for the Advanced Test Reactor National Scientific User Facility. This report includes information on university-run research projects along with a description of the program and the capabilities offered researchers.

  10. ‘Is Going through Clinical Test a Headache?’ An HRV Study and Descriptive Report of Subjective Experience of Undergoing EEG Testing

    PubMed Central

    Kathrotia, Rajesh; Singh, Yogesh; Goel, Arun; Patil, Prashant

    2016-01-01

    To explore the heart rate variability (HRV) changes and subjective perception of undergoing electroencephalography (EEG). We conducted a study on 35 healthy male volunteers. The intervention consisted of placing 23 disc-type EEG electrodes of 5-7 mm diameter with long flexible lead according to international 10-20 system for the duration of 30 min, in a sitting position, on the scalp. The outcome measures were time and frequency domain parameters of HRV analysis and descriptive report of subjective experiences on a 3-point Likert scale. The perception of undergoing EEG ranged from pleasant to uneasy. For 13 (37%) participants it was soothing and relaxing, for 11 (31.5%) it was neutral and for the rest 11 (31.5%) it was uneasy and restrictive in nature. However, HRV analysis of the pre and post EEG, showed no statistically significant difference. In our study, the mixed subjective experience of undergoing EEG may be due to individual variation in the perception of the intervention. No difference in HRV parameters may be because of 2 possibilities. The first possibility is varied experiences of procedure with temporal progression. Same participants may have experienced 2 opposite extremes of experiences over and over again, which may have cancelled out sympathetic and parasympathetic responses. The second possibility may be that no stress is generated during clinical test. PMID:27536017

  11. Advanced Test Reactor National Scientific User Facility (ATR NSUF) Monthly Report October 2014

    SciTech Connect

    Dan Ogden

    2014-10-01

    Advanced Test Reactor National Scientific User Facility (ATR NSUF) Monthly Report October 2014 Highlights • Rory Kennedy, Dan Ogden and Brenden Heidrich traveled to Germantown October 6-7, for a review of the Infrastructure Management mission with Shane Johnson, Mike Worley, Bradley Williams and Alison Hahn from NE-4 and Mary McCune from NE-3. Heidrich briefed the group on the project progress from July to October 2014 as well as the planned path forward for FY15. • Jim Cole gave two invited university seminars at Ohio State University and University of Florida, providing an overview of NSUF including available capabilities and the process for accessing facilities through the peer reviewed proposal process. • Jim Cole and Rory Kennedy co-chaired the NuMat meeting with Todd Allen. The meeting, sponsored by Elsevier publishing, was held in Clearwater, Florida, and is considered one of the premier nuclear fuels and materials conferences. Over 340 delegates attended with 160 oral and over 200 posters presented over 4 days. • Thirty-one pre-applications were submitted for NSUF access through the NE-4 Combined Innovative Nuclear Research Funding Opportunity Announcement. • Fourteen proposals were received for the NSUF Rapid Turnaround Experiment Summer 2014 call. Proposal evaluations are underway. • John Jackson and Rory Kennedy attended the Nuclear Fuels Industry Research meeting. Jackson presented an overview of ongoing NSUF industry research.

  12. Advanced Test Reactor National Scientific User Facility (ATR NSUF) Monthly ReportJanuary 2015

    SciTech Connect

    Soelberg, Renae

    2015-01-01

    Highlights; Mike Worley and Shane Johnson visited INL Jan. 22 for an NSUF strategy discussion; Rory Kennedy attended a NSLS-2 Beamline Advisory Team meeting at Brookhaven; Provided a final cost estimate to the NSUF Program Office in support of the NEET/NSUF proposal, “Metal-ceramic and metal-metal composites for extreme radiation and temperature environment: An in situ interface stability and mechanical behavior study by high energy x-ray diffraction with a synchrotron probe.”; Assisted in the development of conceptual designs and performed a preliminary thermal hydraulic analysis for two NEET/NSUF proposals. The challenge for both experiments is to provide high (>1000 C and up to 1600 C)) specimen temperatures in a small space (0.5" diameter ATR Outboard A-position) without overheating the coolant. Several designs were analyzed and found to be feasible, although detailed design and analysis will be required after the projects are awarded; and A single USU TEM specimen is packaged and awaiting shipment from MFC to CAES. Once at CAES, SEM, TEM and LEAP analysis will be performed. Professor Ban has requested additional sub-samples to be made to take back to his laboratory at USU for thermal diffusivity studies.

  13. User's Guide for ERB 7 Matrix. Volume 1: Experiment Description and Quality Control Report for Year 1

    NASA Technical Reports Server (NTRS)

    Tighe, R. J.; Shen, M. Y. H.

    1984-01-01

    The Nimbus 7 ERB MATRIX Tape is a computer program in which radiances and irradiances are converted into fluxes which are used to compute the basic scientific output parameters, emitted flux, albedo, and net radiation. They are spatially averaged and presented as time averages over one-day, six-day, and monthly periods. MATRIX data for the period November 16, 1978 through October 31, 1979 are presented. Described are the Earth Radiation Budget experiment, the Science Quality Control Report, Items checked by the MATRIX Science Quality Control Program, and Science Quality Control Data Analysis Report. Additional material from the detailed scientific quality control of the tapes which may be very useful to a user of the MATRIX tapes is included. Known errors and data problems and some suggestions on how to use the data for further climatologic and atmospheric physics studies are also discussed.

  14. Description of the Plasma Potential Control (PPC) System on the Tandem Mirror Experiment-Upgrade (TMX-U)

    NASA Astrophysics Data System (ADS)

    Surrena, P. S.; Underwood, R. H.

    1985-11-01

    A set of 18 separately controlled plates have been added to each end of the Tandem Mirror Experiment Upgrade (TMX-U) vessel to allow measurement of end-wall currents and to provide a means of plasma potential control (PPC). These plates are shaped to form elliptical rings separated into quadrants. Each plate can be individually grounded, float at plasma potentials, or be actively biased to control the plasma. Voltage and current monitoring are provided for each of the plates, and the control and monitoring functions are controlled by the PPC system computer. The details of the field line mapping and the plate shapes are discussed, and the control architecture and performance are presented.

  15. Epileptic seizures as a manifestation of cow's milk allergy: a studied relationship and description of our pediatric experience.

    PubMed

    Falsaperla, Raffaele; Pavone, Piero; Miceli Sopo, Stefano; Mahmood, Fahad; Scalia, Ferdinando; Corsello, Giovanni; Lubrano, Riccardo; Vitaliti, Giovanna

    2014-12-01

    Adverse reactions after ingestion of cow's milk proteins can occur at any age, from birth and even amongst exclusively breast-fed infants, although not all of these are hypersensitivity reactions. The most common presentations related to cow's milk protein allergy are skin reactions, failure to thrive, anaphylaxis as well as gastrointestinal and respiratory disorders. In addition, several cases of cow's milk protein allergy in the literature have documented neurological involvement, manifesting with convulsive seizures in children. This may be due to CNS spread of a peripheral inflammatory response. Furthermore, there is evidence that pro-inflammatory cytokines are responsible for disrupting the blood-brain barrier, causing focal CNS inflammation thereby triggering seizures, although further studies are needed to clarify the pathogenic relationship between atopy and its neurological manifestations. This review aims to analyze current published data on the link between cow's milk protein allergy and epileptic events, highlighting scientific evidence for any potential pathogenic mechanism and describing our clinical experience in pediatrics. PMID:25394911

  16. EXOS-B/Siple station VLF wave-particle interaction experiments. I - General description and wave-particle correlations

    NASA Technical Reports Server (NTRS)

    Kimura, I.; Hashimoto, K.; Matsumoto, H.; Mukai, T.; Bell, T. F.; Inan, U. S.; Helliwell, R. A.; Katsufrakis, J. P.

    1983-01-01

    The EXOS-B/Siple Station joint experiment on the triggering of VLF emissions by man-made signals causing some form of wave-particle interactions in the magnetosphere is presented, and results concerning wave-particle correlations are reported. In situ measurements of both energetic electron flux and VLF waves were made near the meridian connecting Siple Station, Antarctica with Roberval, Quebec, Canada in campaigns during July through September, 1979 and December 1979 through January 1980 at times of VLF transmission from Siple. Strong observed signals were found to be well correlated with a pancake pitch angle distribution of 0.3 to 6.9-keV electrons, and to exhibit a positive linear growth rate. Artificially stimulated emissions were observed to be accompanied by large electron fluxes in all energy channels in the equatorial interaction region, although the measured pitch angle distribution was not highly anisotropic. Results may be interpreted by the amplification of Siple signals by the cyclotron instability due to high pitch angle anisotropy (pancake distribution) and the triggering of emissions in the presence of high electron fluxes with some anisotropy and a sufficiently strong signal.

  17. Experiment Description and Results for Arrival Operations Using Interval Management with Spacing to Parallel Dependent Runways (IMSPiDR)

    NASA Technical Reports Server (NTRS)

    Baxley, Brian T.; Murdoch, Jennifer L.; Swieringa, Kurt A.; Barmore, Bryan E.; Capron, William R.; Hubbs, Clay E.; Shay, Richard F.; Abbott, Terence S.

    2013-01-01

    The predicted increase in the number of commercial aircraft operations creates a need for improved operational efficiency. Two areas believed to offer increases in aircraft efficiency are optimized profile descents and dependent parallel runway operations. Using Flight deck Interval Management (FIM) software and procedures during these operations, flight crews can achieve by the runway threshold an interval assigned by air traffic control (ATC) behind the preceding aircraft that maximizes runway throughput while minimizing additional fuel consumption and pilot workload. This document describes an experiment where 24 pilots flew arrivals into the Dallas Fort-Worth terminal environment using one of three simulators at NASA?s Langley Research Center. Results indicate that pilots delivered their aircraft to the runway threshold within +/- 3.5 seconds of their assigned time interval, and reported low workload levels. In general, pilots found the FIM concept, procedures, speeds, and interface acceptable. Analysis of the time error and FIM speed changes as a function of arrival stream position suggest the spacing algorithm generates stable behavior while in the presence of continuous (wind) or impulse (offset) error. Concerns reported included multiple speed changes within a short time period, and an airspeed increase followed shortly by an airspeed decrease.

  18. Drosophila ATM and ATR have distinct activities in the regulation of meiotic DNA damage and repair

    PubMed Central

    Joyce, Eric F.; Pedersen, Michael; Tiong, Stanley; White-Brown, Sanese K.; Paul, Anshu; Campbell, Shelagh D.

    2011-01-01

    Ataxia telangiectasia–mutated (ATM) and ataxia telangiectasia–related (ATR) kinases are conserved regulators of cellular responses to double strand breaks (DSBs). During meiosis, however, the functions of these kinases in DSB repair and the deoxyribonucleic acid (DNA) damage checkpoint are unclear. In this paper, we show that ATM and ATR have unique roles in the repair of meiotic DSBs in Drosophila melanogaster. ATR mutant analysis indicated that it is required for checkpoint activity, whereas ATM may not be. Both kinases phosphorylate H2AV (γ-H2AV), and, using this as a reporter for ATM/ATR activity, we found that the DSB repair response is surprisingly dynamic at the site of DNA damage. γ-H2AV is continuously exchanged, requiring new phosphorylation at the break site until repair is completed. However, most surprising is that the number of γ-H2AV foci is dramatically increased in the absence of ATM, but not ATR, suggesting that the number of DSBs is increased. Thus, we conclude that ATM is primarily required for the meiotic DSB repair response, which includes functions in DNA damage repair and negative feedback control over the level of programmed DSBs during meiosis. PMID:22024169

  19. HORMAD2 is essential for synapsis surveillance during meiotic prophase via the recruitment of ATR activity.

    PubMed

    Kogo, Hiroshi; Tsutsumi, Makiko; Inagaki, Hidehito; Ohye, Tamae; Kiyonari, Hiroshi; Kurahashi, Hiroki

    2012-11-01

    Meiotic chromosome segregation requires homologous pairing, synapsis and crossover recombination during meiotic prophase. The checkpoint kinase ATR has been proposed to be involved in the quality surveillance of these processes, although the underlying mechanisms remain largely unknown. In our present study, we generated mice lacking HORMAD2, a protein that localizes to unsynapsed meiotic chromosomes. We show that this Hormad2 deficiency hampers the proper recruitment of ATR activity to unsynapsed chromosomes. Male Hormad2-deficient mice are infertile due to spermatocyte loss as a result of characteristic impairment of sex body formation; an ATR- and γH2AX-enriched repressive chromatin domain is formed, but is partially dissociated from the elongated sex chromosome axes. In contrast to males, Hormad2-deficient females are fertile. However, our analysis of Hormad2/Spo11 double-mutant females shows that the oocyte number is negatively correlated with the frequency of pseudo-sex body formation in a Hormad2 gene dosage-dependent manner. This result suggests that the elimination of Spo11-deficient asynaptic oocytes is associated with the HORMAD2-dependent pseudo-sex body formation that is likely initiated by local concentration of ATR activity in the absence of double-strand breaks. Our results thus show a HORMAD2-dependent quality control mechanism that recognizes unsynapsis and recruits ATR activity during mammalian meiosis. PMID:23039116

  20. AGC-3 Experiment Irradiation Monitoring Data Qualification Final Report

    SciTech Connect

    Hull, Laurence C.

    2014-08-01

    The Graphite Technology Development Program will run a series of six experiments to quantify the effects of irradiation on nuclear-grade graphite. The third experiment, Advanced Graphite Creep 3 (AGC-3), began with Advanced Test Reactor (ATR) Cycle 152B on November 27, 2012, and ended with ATR Cycle 155B on April 23, 2014. This report documents qualification of AGC-3 experiment irradiation monitoring data for use by the Very High Temperature Reactor (VHTR) Technology Development Office (TDO) Program for research and development activities required to design and license the first VHTR nuclear plant. Qualified data meet the requirements for data collection and use as described in the experiment planning and quality assurance documents. Failed data do not meet the requirements. Trend data may not meet the requirements, but may still provide some useable information. The report documents qualification of AGC-3 experiment irradiation monitoring data following MCP-2691. This report also documents whether AGC-3 experiment irradiation monitoring data meet the requirements for data collection as specified in technical and functional requirements documents and quality assurance (QA) plans. Data handling is described showing how data are passed from the data collection experiment to the Nuclear Data Management and Analysis System (NDMAS) team. The data structure is described, including data batches, components, attributes, and response variables. The description of the approach to data qualification includes the steps taken to qualify the data and the specific tests used to verify that the data meet requirements. Finally, the current status of the data received by NDMAS from the AGC-3 experiment is presented with summarized information on test results and resolutions. This report addresses all of the irradiation monitoring data collected during the AGC-3 experiment.

  1. Modeling the attenuated total reflectance infrared (ATR-FTIR) spectrum of apatite

    NASA Astrophysics Data System (ADS)

    Aufort, Julie; Ségalen, Loïc; Gervais, Christel; Brouder, Christian; Balan, Etienne

    2016-06-01

    Attenuated total reflectance (ATR) infrared spectra were measured on a synthetic and a natural fluorapatite sample. A modeling approach based on the computation of the Fresnel reflection coefficient between the ATR crystal and the powder sample was used to analyze the line shape of the spectra. The dielectric properties of the samples were related to those of pure fluorapatite using an effective medium approach, based on Maxwell-Garnett and Bruggeman models. The Bruggeman effective medium model leads to a very good agreement with the experimental data recorded on the synthetic fluorapatite sample. The poorer agreement observed on the natural sample suggests a more significant heterogeneity of the sample at a characteristic length scale larger than the mid-infrared characteristic wavelength, i.e., about 10 micrometers. The results demonstrate the prominent role of macroscopic electrostatic effects over fine details of the microscopic structure in determining the line shape of strong ATR bands.

  2. Modeling the attenuated total reflectance infrared (ATR-FTIR) spectrum of apatite

    NASA Astrophysics Data System (ADS)

    Aufort, Julie; Ségalen, Loïc; Gervais, Christel; Brouder, Christian; Balan, Etienne

    2016-10-01

    Attenuated total reflectance (ATR) infrared spectra were measured on a synthetic and a natural fluorapatite sample. A modeling approach based on the computation of the Fresnel reflection coefficient between the ATR crystal and the powder sample was used to analyze the line shape of the spectra. The dielectric properties of the samples were related to those of pure fluorapatite using an effective medium approach, based on Maxwell-Garnett and Bruggeman models. The Bruggeman effective medium model leads to a very good agreement with the experimental data recorded on the synthetic fluorapatite sample. The poorer agreement observed on the natural sample suggests a more significant heterogeneity of the sample at a characteristic length scale larger than the mid-infrared characteristic wavelength, i.e., about 10 micrometers. The results demonstrate the prominent role of macroscopic electrostatic effects over fine details of the microscopic structure in determining the line shape of strong ATR bands.

  3. Exploring the experience of sleep and fatigue in male and female adults over the 2 years following traumatic brain injury: a qualitative descriptive study

    PubMed Central

    Theadom, Alice; Rowland, Vickie; Levack, William; Starkey, Nicola; Wilkinson-Meyers, Laura; McPherson, Kathryn

    2016-01-01

    Objectives To explore the experience of fatigue and sleep difficulties over the first 2 years after traumatic brain injury (TBI). Design Longitudinal qualitative descriptive analysis of interviews completed as part of a larger longitudinal study of recovery following TBI. Data relating to the experience of fatigue and/or sleep were extracted and coded by two independent researchers. Setting Community-based study in the Hamilton and Auckland regions of New Zealand. Participants 30 adult participants who had experienced mild, moderate or severe brain injury within the past 6 months (>16 years of age). 15 participants also nominated significant others to take part. Interviews were completed at 6, 12 and 24 months postinjury. Results Participants described feeling unprepared for the intensity, impact and persistent nature of fatigue and sleep difficulties after injury. They struggled to learn how to manage their difficulties by themselves and to adapt strategies in response to changing circumstances over time. Four themes were identified: (1) Making sense of fatigue and sleep after TBI; (2) accepting the need for rest; (3) learning how to rest and; (4) need for rest impacts on ability to engage in life. Conclusions Targeted support to understand, accept and manage the sleep and fatigue difficulties experienced may be crucial to improve recovery and facilitate engagement in everyday life. Advice needs to be timely and revised for relevance over the course of recovery. PMID:27059468

  4. Experiment Design and Analysis Guide - Neutronics & Physics

    SciTech Connect

    Misti A Lillo

    2014-06-01

    The purpose of this guide is to provide a consistent, standardized approach to performing neutronics/physics analysis for experiments inserted into the Advanced Test Reactor (ATR). This document provides neutronics/physics analysis guidance to support experiment design and analysis needs for experiments irradiated in the ATR. This guide addresses neutronics/physics analysis in support of experiment design, experiment safety, and experiment program objectives and goals. The intent of this guide is to provide a standardized approach for performing typical neutronics/physics analyses. Deviation from this guide is allowed provided that neutronics/physics analysis details are properly documented in an analysis report.

  5. ATR and transmission analysis of pigments by means of far infrared spectroscopy.

    PubMed

    Kendix, Elsebeth L; Prati, Silvia; Joseph, Edith; Sciutto, Giorgia; Mazzeo, Rocco

    2009-06-01

    In the field of FTIR spectroscopy, the far infrared (FIR) spectral region has been so far less investigated than the mid-infrared (MIR), even though it presents great advantages in the characterization of those inorganic compounds, which are inactive in the MIR, such as some art pigments, corrosion products, etc. Furthermore, FIR spectroscopy is complementary to Raman spectroscopy if the fluorescence effects caused by the latter analytical technique are considered. In this paper, ATR in the FIR region is proposed as an alternative method to transmission for the analyses of pigments. This methodology was selected in order to reduce the sample amount needed for analysis, which is a must when examining cultural heritage materials. A selection of pigments have been analyzed in both ATR and transmission mode, and the resulting spectra were compared with each other. To better perform this comparison, an evaluation of the possible effect induced by the thermal treatment needed for the preparation of the polyethylene pellets on the transmission spectra of the samples has been carried out. Therefore, pigments have been analyzed in ATR mode before and after heating them at the same temperature employed for the polyethylene pellet preparation. The results showed that while the heating treatment causes only small changes in the intensity of some bands, the ATR spectra were characterized by differences in both intensity and band shifts towards lower frequencies if compared with those recorded in transmission mode. All pigments' transmission and ATR spectra are presented and discussed, and the ATR method was validated on a real case study.

  6. Increased Rrm2 gene dosage reduces fragile site breakage and prolongs survival of ATR mutant mice

    PubMed Central

    Specks, Julia; Barlow, Jacqueline H.; Ambrogio, Chiara; Desler, Claus; Vikingsson, Svante; Rodrigo-Perez, Sara; Green, Henrik; Rasmussen, Lene Juel; Murga, Matilde; Nussenzweig, André

    2015-01-01

    In Saccharomyces cerevisiae, absence of the checkpoint kinase Mec1 (ATR) is viable upon mutations that increase the activity of the ribonucleotide reductase (RNR) complex. Whether this pathway is conserved in mammals remains unknown. Here we show that cells from mice carrying extra alleles of the RNR regulatory subunit RRM2 (Rrm2TG) present supraphysiological RNR activity and reduced chromosomal breakage at fragile sites. Moreover, increased Rrm2 gene dosage significantly extends the life span of ATR mutant mice. Our study reveals the first genetic condition in mammals that reduces fragile site expression and alleviates the severity of a progeroid disease by increasing RNR activity. PMID:25838540

  7. 10 CFR 830 Major Modification Determination for the ATR Diesel Bus (E-3) and Switchgear Replacement

    SciTech Connect

    Noel Duckwtiz

    2011-05-01

    Near term replacement of aging and obsolescent original ATR equipment has become important to ensure ATR capability in support of NE’s long term national missions. To that end, a mission needs statement has been prepared for a non-major system acquisition which is comprised of three interdependent subprojects. The first project, subject of this determination, will replace the existent diesel-electrical bus (E-3) and associated switchgear. More specifically, INL proposes transitioning ATR to 100% commercial power with appropriate emergency backup to include: • Provide commercial power as the normal source of power to the ATR loads currently supplied by diesel-electric power. • Provide backup power to the critical ATR loads in the event of a loss of commercial power. • Replace obsolescent critical ATR power distribution equipment, e.g., switchgear, transformers, motor control centers, distribution panels. Completion of this and two other age-related projects (primary coolant pump and motor replacement and emergency firewater injection system replacement) will resolve major age related operational issues plus make a significant contribution in sustaining the ATR safety and reliability profile. The major modification criteria evaluation of the project pre-conceptual design identified several issues make the project a major modification: 1. Evaluation Criteria #2 (Footprint change). The addition of a new PC-4 structure to the ATR Facility to house safety-related SSCs requires careful attention to maintaining adherence to applicable engineering and nuclear safety design criteria (e.g., structural qualification, fire suppression) to ensure no adverse impacts to the safety-related functions of the housed equipment. 2. Evaluation Criteria #3 (Change of existing process). The change to the strategy for providing continuous reliable power to the safety-related emergency coolant pumps requires careful attention and analysis to ensure it meets a project primary object

  8. The Zunis: Experiences and Descriptions.

    ERIC Educational Resources Information Center

    Hart, E. Richards; And Others

    Designed to use in schools, the booklet provides brief information on Zuni prehistory and a chronology of events occurring between 1539 and 1973 (e.g., Francisco Vasquez Coronado's occupation of one of the six Zuni villages in 1540, Juan de Onate's visit to Hawikuh in 1598, the establishment of the first Catholic mission at Halona:wa, the war…

  9. Effects of atrazine (ATR), deisopropylatrazine (DIA), Diaminochlorotriazine (DACT) on the hypothalamic-pituitary-adrenal (HPA) axis in female rats

    EPA Science Inventory

    We previously reported that a single dose of the herbicide ATR stimulated the HPA axis in the male rat while equimolar doses of its primary metabolite, DACT, had a minimal effect. In this study, we evaluated the effects of one or four daily doses of ATR, DACT, and an intermediat...

  10. EFFECTS OF ATRAZINE (ATR), DEISOPROPYLATRAZINE (DIA), AND DIAMINOCHLOROTRIAZINE (DACT) ON THE HYPOTHALAMIC-PITUITARY-ADRENAL (HPA) AXIS IN FEMALE RATS

    EPA Science Inventory

    Previously we reported that a single dose of ATR herbicide stimulated HPA axis activation in the male rat while its primary metabolite, DACT, did so to a lesser extent. In this study, we evaluated the effects of ATR, DACT, and an intermediate metabolite, DIA, on adrenocorticotrop...

  11. A Feasibility and Optimization Study to Design a Nondestructive ATR Fuel Permanent Scanning System to Determine Fuel Burnup

    NASA Astrophysics Data System (ADS)

    Navarro, J.; Ring, T. A.; Nigg, D. W.

    2014-04-01

    The goal of this project was to develop the best available non-destructive technique to determine burnup of the Advanced Test Reactor (ATR) fuels at Idaho National Laboratory, as well as to make a recommendation regarding the feasibility of implementing a permanent fuel scanning system at the ATR canal. The study determined that useful spectra for validation and fuel burnup predictions can be obtained in-situ at the ATR canal using three different detectors. In addition, the study established that calibration curves can be created to predict ATR fuel burnup onsite. The study also established that in order to design a rugged system that can stand the daily operations at the ATR canal a LaBr3 scintillator can be used effectively if deconvolution process is applied to increase the spectra resolution.

  12. Formation of Assemblies Comprising Ru–Polypyridine Complexes and CdSe Nanocrystals Studied by ATR-FTIR Spectroscopy and DFT Modeling

    SciTech Connect

    Koposov, Alexey Y.; Cardolaccia, Thomas; Albert, Victor; Badaeva, Ekaterina; Kilina, Svetlana; Meyer, Thomas J.; Tretiak, Sergei; Sykora, Milan

    2011-07-05

    The interaction between CdSe nanocrystals (NCs) passivated with trioctylphosphine oxide (TOPO) ligands and a series of Ru–polypyridine complexes was studied by attenuated total reflectance FTIR (ATR-FTIR) and modeled using density functional theory (DFT). The results of DFT modeling are consistent with the experiment, showing that for the deprotonated carboxylic acid group the coupling to two Cd atoms via a bridging mode is the energetically most favorable mode of attachment for all nonequivalent NC surface sites and that the attachment of the protonated carboxylic acid is thermodynamically significantly less favorable.

  13. ATR-FTIR Spectroscopic Evidence for Biomolecular Phosphorus and Carboxyl Groups Facilitating Bacterial Adhesion to Iron Oxides

    PubMed Central

    Parikh, Sanjai J.; Mukome, Fungai N.D.; Zhang, Xiaoming

    2014-01-01

    Attenuated total reflectance (ATR) Fourier transform infrared (FTIR) spectroscopy has been used to probe the binding of bacteria to hematite (α-Fe2O3) and goethite (α-FeOOH). In situ ATR-FTIR experiments with bacteria (Pseudomonas putida, P. aeruginosa, Escherichia coli), mixed amino acids, polypeptide extracts, deoxyribonucleic acid (DNA), and a suite of model compounds were conducted. These compounds represent carboxyl, catecholate, amide, and phosphate groups present in siderophores, amino acids, polysaccharides, phospholipids, and DNA. Due in part to the ubiquitous presence of carboxyl groups in biomolecules, numerous IR peaks corresponding to outer-sphere or unbound (1400 cm−1) and inner-sphere (1310-1320 cm−1) coordinated carboxyl groups are noted following reaction of bacteria and biomolecules with α-Fe2O3 and α-FeOOH. However, the data also reveal that the presence of low-level amounts (i.e., 0.45-0.79%) of biomolecular phosphorous groups result in strong IR bands at ~1043 cm−1, corresponding to inner-sphere Fe-O-P bonds, underscoring the importance of bacteria associated P-containing groups in biomolecule and cell adhesion. Spectral comparisons also reveal slightly greater P-O-Fe contributions for bacteria (Pseudomonad, E. coli) deposited on α-FeOOH, as compared to α-Fe2O3. This data demonstrates that slight differences in bacterial adhesion to Fe oxides can be attributed to bacterial species and Fe-oxide minerals. However, more importantly, the strong binding affinity of phosphate in all bacteria samples to both Fe-oxides results in the formation of inner-sphere Fe-O-P bonds, signifying the critical role of biomolecular P in the initiation of bacterial adhesion. PMID:24859052

  14. Progress towards a realistic theoretical description of C60 photoelectron-momentum imaging experiments using time-dependent density-functional theory

    NASA Astrophysics Data System (ADS)

    Wopperer, P.; Gao, C. Z.; Barillot, T.; Cauchy, C.; Marciniak, A.; Despré, V.; Loriot, V.; Celep, G.; Bordas, C.; Lépine, F.; Dinh, P. M.; Suraud, E.; Reinhard, P.-G.

    2015-04-01

    We have studied theoretical photoelectron-momentum distributions of C60 using time-dependent density functional theory (TDDFT) in real time and including a self-interaction correction. Our calculations furthermore account for a proper orientation averaging allowing a direct comparison with experimental results. To illustrate the capabilities of this direct (microscopic and time-dependent) approach, two very different photo-excitation conditions are considered: excitation with a high-frequency XUV light at 20 eV and with a low-frequency IR femtosecond pulse at 1.55 eV. The interaction with the XUV light leads to one-photon transitions and a linear ionization regime. In that situation, the spectrum of occupied single-electron states in C60 is directly mapped to the photoelectron spectrum. On the contrary, the IR pulse leads to multiphoton ionization in which only the two least-bound states contribute to the process. In both dynamical regimes (mono- and multiphoton), calculated and experimental angle-resolved photoelectron spectra compare reasonably well. The observed discrepancies can be understood by the theoretical underestimation of higher-order many-body interaction processes such as electron-electron scattering and by the fact that experiments are performed at finite temperature. These results pave the way to a multiscale description of the C60 ionization mechanisms that is required to render justice to the variety of processes observed experimentally for fullerene molecules.

  15. MATERNAL ATRAZINE (ATR) ALTERS HYPOTHALAMIC DOPAMINE (HYP-DA) AND SERUM PROLACTIN (SPRL) IN MALE PUPS

    EPA Science Inventory

    Maternal Atrazine (ATR) alters hypothalamic dopamine (HYP-DA) and serum prolactin (sPRL) in male pups. 1Christopher Langdale, 2Tammy Stoker and 2Ralph Cooper. 1 Dept. of Cell Biology, North Carolina State University College of Veterinary Medicine, Raleigh, NC. 2 Endocrinology ...

  16. U-shaped fiber-optic ATR sensor enhanced by silver nanoparticles for continuous glucose monitoring.

    PubMed

    Li, Dachao; Yu, Songlin; Sun, Changyue; Zou, Chongwei; Yu, Haixia; Xu, Kexin

    2015-10-15

    An implantable U-shaped fiber ATR sensor enhanced by silver nanoparticles on cylindrical surface was presented for continuous glucose monitoring to overcome the drawbacks of traditional glucose sensing technique based on enzyme electrodes. A U-shaped structure was addressed to increase effective optical length at limited implantable space to enhance the sensitivity of fiber ATR sensor. A novel method to fabricate silver nanoparticles on cylindrical surface of U-shaped fiber ATR sensor based on chemical reduction of its silver halide material directly without any preliminary nanoparticles synthesis and following covalent bond or self-assembly was proposed. Five glucose absorption wavelengths in the mid-infrared band were employed for specific glucose monitoring. The experimental results indicate that the sensitivity and resolution of the silver-nanoparticle-enhanced U-shaped fiber-optic ATR sensor are approximately three times those of a conventional one. The high sensitivity and low-noise performance makes it promising for in vivo glucose monitoring in the future clinical applications.

  17. Multivariate analysis of ATR-FTIR spectra for assessment of oil shale organic geochemical properties

    USGS Publications Warehouse

    Washburn, Kathryn E.; Birdwell, Justin E.

    2013-01-01

    In this study, attenuated total reflectance (ATR) Fourier transform infrared spectroscopy (FTIR) was coupled with partial least squares regression (PLSR) analysis to relate spectral data to parameters from total organic carbon (TOC) analysis and programmed pyrolysis to assess the feasibility of developing predictive models to estimate important organic geochemical parameters. The advantage of ATR-FTIR over traditional analytical methods is that source rocks can be analyzed in the laboratory or field in seconds, facilitating more rapid and thorough screening than would be possible using other tools. ATR-FTIR spectra, TOC concentrations and Rock–Eval parameters were measured for a set of oil shales from deposits around the world and several pyrolyzed oil shale samples. PLSR models were developed to predict the measured geochemical parameters from infrared spectra. Application of the resulting models to a set of test spectra excluded from the training set generated accurate predictions of TOC and most Rock–Eval parameters. The critical region of the infrared spectrum for assessing S1, S2, Hydrogen Index and TOC consisted of aliphatic organic moieties (2800–3000 cm−1) and the models generated a better correlation with measured values of TOC and S2 than did integrated aliphatic peak areas. The results suggest that combining ATR-FTIR with PLSR is a reliable approach for estimating useful geochemical parameters of oil shales that is faster and requires less sample preparation than current screening methods.

  18. ATR LEU Monolithic Foil-Type Fuel with Integral Cladding Burnable Absorber – Neutronics Performance Evaluation

    SciTech Connect

    Gray Chang

    2012-03-01

    The Advanced Test Reactor (ATR), currently operating in the United States, is used for material testing at very high neutron fluxes. Powered with highly enriched uranium (HEU), the ATR has a maximum thermal power rating of 250 MWth. Because of the large test volumes located in high flux areas, the ATR is an ideal candidate for assessing the feasibility of converting HEU driven reactor cores to low-enriched uranium (LEU) cores. The burnable absorber - 10B, was added in the inner and outer plates to reduce the initial excess reactivity, and to improve the peak ratio of the inner/outer heat flux. The present work investigates the LEU Monolithic foil-type fuel with 10B Integral Cladding Burnable Absorber (ICBA) design and evaluates the subsequent neutronics operating effects of this proposed fuel designs. The proposed LEU fuel specification in this work is directly related to both the RERTR LEU Development Program and the Advanced Test Reactor (ATR) LEU Conversion Project at Idaho National Laboratory (INL).

  19. Nanocrystalline diamond sensor targeted for selective CRP detection: an ATR-FTIR spectroscopy study.

    PubMed

    Andersson, Per Ola; Viberg, Pernilla; Forsberg, Pontus; Nikolajeff, Fredrik; Österlund, Lars; Karlsson, Mikael

    2016-05-01

    Protein immobilization on functionalized fluorine-terminated nanocrystalline (NCD) films was studied by attenuated total reflection Fourier transform infrared (ATR-FTIR) spectroscopy using an immobilization protocol developed to specifically bind C-reactive protein (CRP). Using an ATR-FTIR spectroscopy method employing a force-controlled anvil-type configuration, three critical steps of the ex situ CRP immobilization were analyzed. First, the NCD surface was passivated by deposition of a copolymer layer consisting of polyethylene oxide and polypropylene oxide. Second, a synthetic modified polypeptide binder with high affinity to CRP was covalently attached to the polymeric film. Third, CRP dissolved in aqueous buffer in concentrations of 10-20 μg/mL was added on the functionalized NCD surface. Both the amide I and II bands, due to the polypeptide binder and CRP, were clearly observed in ATR-FTIR spectra. CRP amide I bands were extracted from difference spectra and yielded bands that agreed well with the reported amide I band of free (non-bonded) CRP in solution. Thus, our results show that CRP retains its secondary structure when it is attached to the polypeptide binders. Compared to previous IR studies of CRP in solution, about 200 times lower concentration was applied in the present study. Graphical Abstract Direct non-destructive ATR-FTIR analysis of C-reactive protein (CRP) selectively bound to functionalized nanocrystalline diamond (NCD) sensor surface.

  20. 30 CFR 75.209 - Automated Temporary Roof Support (ATRS) systems.

    Code of Federal Regulations, 2011 CFR

    2011-07-01

    ... paragraphs (b) and (c) of this section, an ATRS system shall be used with roof bolting machines and continuous-mining machines with integral roof bolters operated in a working section. The requirements of this paragraph shall be met according to the following schedule: (1) All new machines ordered after March...

  1. 78 FR 65183 - Airworthiness Directives; ATR-GIE Avions de Transport Régional Airplanes

    Federal Register 2010, 2011, 2012, 2013, 2014

    2013-10-31

    ... FR 42898). The NPRM proposed to correct an unsafe condition for the specified products. The European... installing a fuel quantity indicator (FQI) equipped with a locking adaptor on the electrical connector. We...@atr.fr ; Internet http://www.aerochain.com . You may review this referenced service information at...

  2. 78 FR 42898 - Airworthiness Directives; ATR-GIE Avions de Transport Régional Airplanes

    Federal Register 2010, 2011, 2012, 2013, 2014

    2013-07-18

    ... require installing a fuel quantity indicator (FQI) equipped with a locking adaptor on the electrical....airworthiness@atr.fr ; Internet http://www.aerochain.com . You may review copies of the referenced service... contains this proposed AD, the regulatory evaluation, any comments received, and other information....

  3. ATM/ATR-mediated phosphorylation of PALB2 promotes RAD51 function.

    PubMed

    Ahlskog, Johanna K; Larsen, Brian D; Achanta, Kavya; Sørensen, Claus S

    2016-05-01

    DNA damage activates the ATM and ATR kinases that coordinate checkpoint and DNA repair pathways. An essential step in homology-directed repair (HDR) of DNA breaks is the formation of RAD51 nucleofilaments mediated by PALB2-BRCA2; however, roles of ATM and ATR in this critical step of HDR are poorly understood. Here, we show that PALB2 is markedly phosphorylated in response to genotoxic stresses such as ionizing radiation and hydroxyurea. This response is mediated by the ATM and ATR kinases through three N-terminal S/Q-sites in PALB2, the consensus target sites for ATM and ATR Importantly, a phospho-deficient PALB2 mutant is unable to support proper RAD51 foci formation, a key PALB2 regulated repair event, whereas a phospho-mimicking PALB2 version supports RAD51 foci formation. Moreover, phospho-deficient PALB2 is less potent in HDR than wild-type PALB2. Further, this mutation reveals a separation in PALB2 function, as the PALB2-dependent checkpoint response is normal in cells expressing the phospho-deficient PALB2 mutant. Collectively, our findings highlight a critical importance of PALB2 phosphorylation as a novel regulatory step in genome maintenance after genotoxic stress. PMID:27113759

  4. Anaphoric Descriptions

    ERIC Educational Resources Information Center

    Beller, Charley

    2013-01-01

    The study of definite descriptions has been a central part of research in linguistics and philosophy of language since Russell's seminal work "On Denoting" (Russell 1905). In that work Russell quickly dispatches analyses of denoting expressions with forms like "no man," "some man," "a man," and "every…

  5. ATR-Fourier-transform mid-infrared spectroscopy for determination of trans fatty acids in ground cereal products without oil extraction

    Technology Transfer Automated Retrieval System (TEKTRAN)

    ATR-FTIR spectroscopy was investigated as a method for analysis of trans fatty acids (FA) in cereal products without oil extraction. Spectra were obtained with an ATR-FTIR spectrometer using ground samples pressed onto the diamond ATR surface and trans FA measured by a modification of AOAC Method 9...

  6. Detection of lipid phase coexistence and lipid interactions in sphingomyelin/cholesterol membranes by ATR-FTIR spectroscopy.

    PubMed

    Arsov, Zoran; Quaroni, Luca

    2008-04-01

    The phase behavior of binary mixtures of egg sphingomyelin and cholesterol has been inspected by attenuated total reflection Fourier transform infrared (ATR-FTIR) spectroscopy in the amide I' band region of the spectrum. Because cholesterol does not have any major absorption bands in this region, effects seen in the spectra of mixtures of sphingomyelin and cholesterol can be attributed to the change in the lipid phase and to the interaction with cholesterol. It is shown that the temperature dependence of the overall bandwidth of the amide I' band displays a phase-specific behavior. In addition, it is observed that the amide I' band for a sample exhibiting phase coexistence can be described by a linear combination of the spectra of the individual lipid phases. Description of changes in the amide I' band shape and by that the study of possible hydrogen bonding interactions of sphingomyelin with cholesterol was assisted by the use of curve fitting. It turns out that the presence of hydrogen bonding between hydroxyl group of cholesterol and carbonyl group of sphingomyelin is obscured by the complexity of different possible hydrogen bonding and coupling between the N-H (N-D) and the CO group vibrations. PMID:18191633

  7. Acute Transfusion Reactions (ATRs) in Intensive Care Unit (ICU): A Retrospective Study

    PubMed Central

    Kumar, Rajesh; Gupta, Manvi; Gupta, Varun; Kaur, Amarjit; Gupta, Sonia

    2014-01-01

    Background: Blood transfusion is a frequent and integral part of critical care. Although life saving, it can occasionally be unsafe and result in a spectrum of adverse events. Acute transfusion reactions (ATRs) are probably under diagnosed in critically ill patients due to confusion of the symptoms with the underlying disease. Aim: To analyze the incidence and spectrum of ATRs occuring in critically ill patients. Materials and Methods: This was a retrospective review conducted from 1st April 2011 till 31st March 2013. The ATRs related to the administration of blood components in the patients admitted in various Intensive Care Units (ICUs) were recorded, analyzed and classified on the basis of their clinical features and laboratory tests. Results: During the study period 98651 blood components were issued. Out of these 21971 were issued to various ICUs. A total of 225 transfusion reactions were reported from the various critical care departments during this period. The most frequent were Febrile Non Hemolytic Transfusion Reactions (FNHTR) 136 (60.4%), allergic reactions 70 (31.2%), hemolytic reactions 1(0.4%) and non specific reactions 18 (8%). The incidence of ATRs in our study was found to be 1.09% in adult ICUs and 0.36% in pediatric ICUs. Conclusions: Blood transfusion is a vital therapeutic procedure with a potential risk to already critical patients. So a strict vigilance has to be kept and each transfusion has to be monitored carefully with prompt recognition and treatment of ATRs. A rational use of these products considering their deleterious effects can decrease transfusion related morbidity and mortality in the critically ill patients. PMID:24701502

  8. ATR and MKP1 play distinct roles in response to UV-B stress in Arabidopsis.

    PubMed

    González Besteiro, Marina A; Ulm, Roman

    2013-03-01

    Ultraviolet-B (UV-B) stress activates MAP kinases (MAPKs) MPK3 and MPK6 in Arabidopsis. MAPK activity must be tightly controlled in order to ensure an appropriate cellular outcome. MAPK phosphatases (MKPs) effectively control MAPKs by dephosphorylation of phosphothreonine and phosphotyrosine in their activation loops. Arabidopsis MKP1 is an important regulator of MPK3 and MPK6, and mkp1 knockout mutants are hypersensitive to UV-B stress, which is associated with reduced inactivation of MPK3 and MPK6. Here, we demonstrate that MPK3 and MPK6 are hyperactivated in response to UV-B in plants that are deficient in photorepair, suggesting that UV-damaged DNA is a trigger of MAPK signaling. This is not due to a block in replication, as, in contrast to atr, the mkp1 mutant is not hypersensitive to the replication-inhibiting drug hydroxyurea, hydroxyurea does not activate MPK3 and MPK6, and atr is not impaired in MPK3 and MPK6 activation in response to UV-B. We further show that mkp1 leaves and roots are UV-B hypersensitive, whereas atr is mainly affected at the root level. Tolerance to UV-B stress has been previously associated with stem cell removal and CYCB1;1 accumulation. Although UV-B-induced stem cell death and CYCB1;1 expression are not altered in mkp1 roots, CYCB1;1 expression is reduced in mkp1 leaves. We conclude that the MKP1 and ATR pathways operate in parallel, with primary roles for ATR in roots and MKP1 in leaves.

  9. Protein phosphatase 5 is necessary for ATR-mediated DNA repair

    SciTech Connect

    Kang, Yoonsung; Cheong, Hyang-Min; Lee, Jung-Hee; Song, Peter I.; Lee, Kwang-Ho; Kim, Sang-Yong; Jun, Jae Yeoul; You, Ho Jin

    2011-01-07

    Research highlights: {yields} Serine/threonine protein phosphatase 5 (PP5) has been shown to participate in ataxia telangiectasia-mutated (ATM)- and ATR (ATM- and Rad3-related)-mediated checkpoint pathways, which plays an important role in the DNA damage response and maintenance of genomic stability. {yields} However, it is not clear exactly how PP5 participates in this process. {yields} Our results indicate that PP5 is more closely related with ATR-mediated pathway than ATM-mediated pathway in DNA damage repair. -- Abstract: Several recent studies have shown that protein phosphatase 5 (PP5) participates in cell cycle arrest after DNA damage, but its roles in DNA repair have not yet been fully characterized. We investigated the roles of PP5 in the repair of ultraviolet (UV)- and neocarzinostatin (NCS)-induced DNA damage. The results of comet assays revealed different repair patterns in UV- and NCS-exposed U2OS-PS cells. PP5 is only essential for Rad3-related (ATR)-mediated DNA repair. Furthermore, the phosphorylation of 53BP1 and BRCA1, important mediators of DNA damage repair, and substrates of ATR and ATM decreased in U2OS-PS cells exposed to UV radiation. In contrast, the cell cycle arrest proteins p53, CHK1, and CHK2 were normally phosphorylated in U2OS and U2OS-PS cells exposed to UV radiation or treated with NCS. In view of these results, we suggest that PP5 plays a crucial role in ATR-mediated repair of UV-induced DNA damage.

  10. AGR-2 Data Qualification Report for ATR Cycles 147A, 148A, 148B, and 149A

    SciTech Connect

    Michael L. Abbott; Keith A. Daum

    2011-08-01

    This report presents the data qualification status of fuel irradiation data from the first four reactor cycles (147A, 148A, 148B, and 149A) of the on-going second Advanced Gas Reactor (AGR-2) experiment as recorded in the NGNP Data Management and Analysis System (NDMAS). This includes data received by NDMAS from the period June 22, 2010 through May 21, 2011. AGR-2 is the second in a series of eight planned irradiation experiments for the AGR Fuel Development and Qualification Program, which supports development of the very high temperature gas-cooled reactor (VHTR) under the Next Generation Nuclear Plant (NGNP) Project. Irradiation of the AGR-2 test train is being performed at the Advanced Test Reactor (ATR) at the Idaho National Laboratory (INL) and is planned for 600 effective full power days (approximately 2.75 calendar years) (PLN-3798). The experiment is intended to demonstrate the performance of UCO (uranium oxycarbide) and UO2 (uranium dioxide) fuel produced in a large coater. Data qualification status of the AGR-1 experiment was reported in INL/EXT-10-17943 (Abbott et al. 2010).

  11. On some characteristic properties of ATR liquid light conductors

    NASA Astrophysics Data System (ADS)

    Saydov, G. V.; Aleinik, A. I.

    2003-07-01

    Electronic spectra of aqueous solutions of the malachite green dye have been measured by liquid and solid spectroscopy. Particular characteristics of the light conductor itself have been shown to have no considerable effect on the results of the experiment.

  12. The ABC transporter ATR1 is necessary for efflux of the toxin cercosporin in the fungus Cercospora nicotianae.

    PubMed

    Amnuaykanjanasin, Alongkorn; Daub, Margaret E

    2009-02-01

    The Cercospora nicotianae mutant deficient for the CRG1 transcription factor has marked reductions in both resistance and biosynthesis of the toxin cercosporin. We cloned and sequenced full-length copies of two genes, ATR1 and CnCFP, previously identified from a subtractive library between the wild type (WT) and a crg1 mutant. ATR1 is an ABC transporter gene and has an open reading frame (ORF) of 4368bp with one intron. CnCFP encodes a MFS transporter with homology to Cercospora kikuchii CFP, previously implicated in cercosporin export, and has an ORF of 1975bp with three introns. Disruption of ATR1 indicated atr1-null mutants had dramatic reductions in cercosporin production (25% and 20% of WT levels) in solid and liquid cultures, respectively. The ATR1 disruptants also showed moderately higher sensitivity to cercosporin. Constitutive expression of ATR1 in the crg1 mutant restored cercosporin biosynthesis and moderately increased resistance. In contrast, CnCFP overexpression in the mutant did not restore toxin production, however, it moderately enhanced toxin resistance. The results together indicate ATR1 acts as a cercosporin efflux pump in this fungus and plays a partial role in resistance.

  13. A description of the reformatted spring small grains labeling procedure used in test 2, part 2 of the US/Canada wheat and barley exploratory experiment

    NASA Technical Reports Server (NTRS)

    Palmer, W. F.; Magness, E. R. (Principal Investigator)

    1981-01-01

    The reformatted spring small grains labeling procedure is designed to be used for assigning crop identification labels to a predetermined and selected number of dots. The development and description of this procedure is presented.

  14. Anisotropy in Hydrogenated Amorphous Silicon Films as Observed Using Polarized FTIR-ATR Spectroscopy

    SciTech Connect

    Webb, J. D.; Gedvilas, L. M.; Crandall, R. S.; Iwaniczko, E.; Nelson, B. P.; Mahan, A. H.; Reedy, R.; Matson, R. J.

    1999-05-14

    We used polarized attenuated total reflection (ATR) measurements together with Fourier transform infrared (FTIR) spectroscopy to investigate the vibrational spectra of hydrogenated amorphous silicon (a-SiH{sub x}) films 0.5-1.0 microns in thickness. We deposited the films using hot-wire or plasma-enhanced chemical vapor deposition methods (HWCVD or PECVD, respectively) on crystalline silicon and cadmium telluride substrates. Our ATR technique gave a spectral range from 2100-400 cm{sup -1}, although the Si-H wagging mode absorption band at 640 cm{sup -1} was somewhat distorted in the a-SiHx/Si samples by impurity and lattice absorption in the silicon ATR substrates. We report the identification of a Si-O-C impurity band with maximum intensity at 1240-1230 cm{sup -1}. The assignment of this band to a Si-O-C vibration is supported by secondary-ion mass spectrometry (SIMS) measurements. Our polarized FTIR-ATR spectra of HWCVD and PECVD a-SiH{sub x} films on <111> Si ATR substrates show that the impurity dipoles ar e oriented strongly parallel to the film growth direction. The wagging mode absorbance band is more intense in the film plane. This trend is less pronounced for the Si-H stretching vibrations. These observations are consistent with some degree of anisotropy or medium-range order in the films. The anisotropy in the Si-H bands may be related to residual stress in the films. Our scanning electron microscopy (SEM) analyses of the samples offer additional evidence of bulk structural anisotropy in the a-SiH{sub x}/Si films. However, the Si-O-C impurity band was not observed in the polarized ATR-FTIR spectra of the a-SiH{sub x}/CdTe samples, thus indicating that the Si substrates influence formation of the impurity in the a-SiH{sub x}/Si films.

  15. Anisotropy in hydrogenated amorphous silicon films as observed using polarized FTIR-ATR spectroscopy

    SciTech Connect

    Webb, J.D.; Gedvilas, L.M.; Crandall, R.S.; Iwaniczko, E.; Nelson, B.P.; Mahan, A.H.; Reedy, R.; Matson, R.J.

    1999-07-01

    The authors used polarized attenuated total reflection (ATR) measurements together with Fourier transform infrared (FTIR) spectroscopy to investigate the vibrational spectra of hydrogenated amorphous silicon (a-SiH{sub x}) films 0.5--1.0 microns in thickness. They deposited the films using hot-wire or plasma-enhanced chemical vapor deposition methods (HWCVD or PECVD, respectively) on crystalline silicon and cadmium telluride substrates. The ATR technique gave a spectral range from 2,100--400 cm{sup {minus}1}, although the Si-H wagging mode absorption band at 640 cm{sup {minus}1} was somewhat distorted in the a-SiH{sub x}/Si samples by impurity and lattice absorption in the silicon ATR substrates. They report the identification of a Si-O-C impurity band with maximum intensity at 1,240--1,230 cm{sup {minus}1}. The assignment of this band to a Si-O-C vibration is supported by secondary-ion mass spectrometry (SIMS) measurements. The polarized FTIR-ATR spectra of HWCVD and PECVD a-SiH{sub x} films on <111> Si ATR substrates show that the impurity dipoles are oriented strongly parallel to the film growth direction. The wagging mode absorbance band is more intense in the film plane. This trend is less pronounced for the Si-H stretching vibrations. These observations are consistent with some degree of anisotropy or medium-range order in the films. The anisotropy in the Si-H bands may be related to residual stress in the films. The scanning electron microscopy (SEM) analyses of the samples offer additional evidence of bulk structural anisotropy in the a-SiH{sub x}/Si films. However, the Si-O-C impurity band was not observed in the polarized ATR-FTIR spectra of the a-SiH{sub x}/CdTe samples, thus indicating that the Si substrates influence formation of the impurity in the a-SiH{sub x}/Si films.

  16. Approximating the detection limit of an infrared spectroscopic imaging microscope operating in an attenuated total reflection (ATR) modality: theoretical and empirical results for an instrument using a linear array detector and a 1.5 millimeter germanium hemisphere internal reflection element.

    PubMed

    Lanzarotta, Adam

    2015-01-01

    Theoretical and empirical detection limits have been estimated for aripiprazole (analyte) in alpha lactose monohydrate (matrix model pharmaceutical formulation) using a micro-attenuated total reflection Fourier transform infrared (ATR FT-IR) spectroscopic imaging instrument equipped with a linear array detector and a 1.5 mm germanium hemisphere internal reflection element (IRE). The instrument yielded a theoretical detection limit of 0.0035% (35 parts per million (ppm)) when operating under diffraction-limited conditions, which was 49 times lower than what was achieved with a traditional macro-ATR instrument operating under practical conditions (0.17%, 1700 ppm). However, these results may not be achievable for most analyses because the detection limits will be particle size limited, rather than diffraction limited, for mixtures with average particle diameters greater than 8.3 μm (most pharmaceutical samples). For example, a theoretical detection limit of 0.028% (280 ppm) was calculated for an experiment operating under particle size-limited conditions where the average particle size was 23.4 μm. These conditions yielded a detection limit of 0.022% (220 ppm) when measured empirically, which was close to the theoretical value and only eight times lower than that of a faster, more simplistic macro-ATR instrument. Considering the longer data acquisition and processing times characteristic of the micro-ATR imaging approach (minutes or even hours versus seconds), the cost-benefit ratio may not often be favorable for the analysis of analytes in matrices that exhibit only a few overlapping absorptions (low-interfering matrices such as alpha lactose monohydrate) using this technique compared to what can be achieved using macro-ATR. However, the advantage was significant for detecting analytes in more complex matrices (those that exhibited several overlapping absorptions with the analyte) because the detection limit of the macro-ATR approach was highly formulation

  17. Approximating the detection limit of an infrared spectroscopic imaging microscope operating in an attenuated total reflection (ATR) modality: theoretical and empirical results for an instrument using a linear array detector and a 1.5 millimeter germanium hemisphere internal reflection element.

    PubMed

    Lanzarotta, Adam

    2015-01-01

    Theoretical and empirical detection limits have been estimated for aripiprazole (analyte) in alpha lactose monohydrate (matrix model pharmaceutical formulation) using a micro-attenuated total reflection Fourier transform infrared (ATR FT-IR) spectroscopic imaging instrument equipped with a linear array detector and a 1.5 mm germanium hemisphere internal reflection element (IRE). The instrument yielded a theoretical detection limit of 0.0035% (35 parts per million (ppm)) when operating under diffraction-limited conditions, which was 49 times lower than what was achieved with a traditional macro-ATR instrument operating under practical conditions (0.17%, 1700 ppm). However, these results may not be achievable for most analyses because the detection limits will be particle size limited, rather than diffraction limited, for mixtures with average particle diameters greater than 8.3 μm (most pharmaceutical samples). For example, a theoretical detection limit of 0.028% (280 ppm) was calculated for an experiment operating under particle size-limited conditions where the average particle size was 23.4 μm. These conditions yielded a detection limit of 0.022% (220 ppm) when measured empirically, which was close to the theoretical value and only eight times lower than that of a faster, more simplistic macro-ATR instrument. Considering the longer data acquisition and processing times characteristic of the micro-ATR imaging approach (minutes or even hours versus seconds), the cost-benefit ratio may not often be favorable for the analysis of analytes in matrices that exhibit only a few overlapping absorptions (low-interfering matrices such as alpha lactose monohydrate) using this technique compared to what can be achieved using macro-ATR. However, the advantage was significant for detecting analytes in more complex matrices (those that exhibited several overlapping absorptions with the analyte) because the detection limit of the macro-ATR approach was highly formulation

  18. Application of FTIR-ATR spectroscopy to the quantification of sugar in honey.

    PubMed

    Anjos, Ofélia; Campos, Maria Graça; Ruiz, Pablo Contreras; Antunes, Paulo

    2015-02-15

    A Fourier transform infrared spectroscopic method with attenuated total reflectance (FTIR-ATR) and partial least squares (PLS) regression model for the prediction of sugar content in honey samples was calculated. Standards of trehalose, glucose, fructose, sucrose, melezitose, turanose and maltose were used to identify and quantify the individual sugar components in 63 honey samples by HPAEC-IPAD. Fructose and glucose are the highest sugars in honey with an average value of 36% and 26%, respectively. The 1stDer spectra with MSC or SLS in the wave number range from 1500 to 750cm(-1) provide the best calibration model with a r(2) of 86.60 and 86.01 with RPD of 2.6 and 2.55, respectively for fructose and glucose. For turanose and melezitose good models were also found. The FTIR-ATR showed to be a good methodology to quantify the main sugar content in honey and easily adapted to routine analysis.

  19. A novel role of the checkpoint kinase ATR in leptin signaling.

    PubMed

    Ericson, Elke; Wennberg Huldt, Charlotte; Strömstedt, Maria; Brodin, Peter

    2015-09-01

    In a world with increasing incidences of obesity, it becomes critical to understand the detailed regulation of appetite. To identify novel regulators of the signaling mediated by one of the key hormones of energy homeostasis, leptin, we screened a set of compounds for their effect on the downstream Signal Transducer and Activator of Transcription 3 (STAT3) signaling. Interestingly, cells exposed to inhibitors of the Ataxia Telangiectasia and RAD3-related protein ATR increased their leptin dependent STAT3 activity. This was due to failure of the cells to induce the negative feedback mediator Suppressor of Cytokine Signaling 3 (SOCS3), suggesting that ATR has a previously unknown role in the negative feedback regulation of leptin signaling. This is an important finding not only because it sheds light on additional genes involved in leptin signaling, but also because it brings forward a new potential therapeutic intervention point for increasing leptin signaling in obese individuals.

  20. Phylogeny of cultivated and wild wheat species using ATR-FTIR spectroscopy

    NASA Astrophysics Data System (ADS)

    Demir, Pinar; Onde, Sertac; Severcan, Feride

    2015-01-01

    Within the last decade, an increasing amount of genetic data has been used to clarify the problems inherent in wheat taxonomy. The techniques for obtaining and analyzing these data are not only cumbersome, but also expensive and technically demanding. In the present study, we introduce infrared spectroscopy as a method for a sensitive, rapid and low cost phylogenetic analysis tool for wheat seed samples. For this purpose, 12 Triticum and Aegilops species were studied by Attenuated Total Reflection-Fourier Transform Infrared (ATR-FTIR) spectroscopy. Hierarchical cluster analysis and principal component analysis clearly revealed that the lignin band (1525-1505 cm-1) discriminated the species at the genus level. However, the species were clustered according to their genome commonalities when the whole spectra were used (4000-650 cm-1). The successful differentiation of Triticum and its closely related genus Aegilops clearly demonstrated the power of ATR-FTIR spectroscopy as a suitable tool for phylogenetic research.

  1. Orientation of molecular groups of fibers in nonoriented samples determined by polarized ATR-FTIR spectroscopy.

    PubMed

    Belbachir, Karima; Lecomte, Sophie; Ta, Ha-Phuong; Petibois, Cyril; Desbat, Bernard

    2011-12-01

    A method based on polarized attenuated total reflection Fourier transform infrared (ATR-FTIR) spectroscopy is proposed for determining the infrared dichroic absorption ratio of a single fiber from a sample deposited flat on a germanium crystal without the requirement of fiber orientation. The method shows its efficiency on cellulose fibers of paper and has been applied to protein fibers (type I collagen and β-amyloid) and polysaccharide fibers (cellulose and starch). The method gives access to the dichroic ratio of strong absorptions bands, which is not easily accessible with conventional absorption techniques. Then, the orientation of the molecular groups of organic fibers can be easily determined by polarized ATR-FTIR spectroscopy. By extension, this method will be useful to determine the molecular orientation of fibers in structured complex samples, such as biological tissues and plants. Spatially resolved information on the organization of the fiber network will be easily extracted by utilizing a focal plane array detector for imaging measurements.

  2. Discrimination of single-porin Escherichia (E.) coli mutants by ATR and transmission mode FTIR spectroscopy.

    PubMed

    Saraiva, Raúl G; Lopes, João Almeida; Machado, Jorge; Gameiro, Paula; Feio, Maria J

    2014-06-01

    Vibrational spectroscopy has long been used in bacterial identification with different levels of taxonomic discrimination but its true potential for intra-species differentiation remains poorly explored. Herein, both transmission Fourier-transform infrared (FTIR) and attenuated total reflectance (ATR)-FTIR spectroscopy are used to analyse E. coli strains that differ solely in their porin expression profile. In this previously unreported approach, the applicability of both FTIR-spectroscopy techniques is compared with the same collection of unique strains. ATR-FTIR spectroscopy proved to reliably distinguish between several E. coli porin mutants with an accuracy not replicated by FTIR in transmission mode (using previously optimized procedures). Further studies should allow the identification of the individual contribution of the single porin channel to the overall bacterial infrared spectrum and of molecular predictive patterns of porin alterations.

  3. Optimization of a Multi-Stage ATR System for Small Target Identification

    NASA Technical Reports Server (NTRS)

    Lin, Tsung-Han; Lu, Thomas; Braun, Henry; Edens, Western; Zhang, Yuhan; Chao, Tien- Hsin; Assad, Christopher; Huntsberger, Terrance

    2010-01-01

    An Automated Target Recognition system (ATR) was developed to locate and target small object in images and videos. The data is preprocessed and sent to a grayscale optical correlator (GOC) filter to identify possible regionsof- interest (ROIs). Next, features are extracted from ROIs based on Principal Component Analysis (PCA) and sent to neural network (NN) to be classified. The features are analyzed by the NN classifier indicating if each ROI contains the desired target or not. The ATR system was found useful in identifying small boats in open sea. However, due to "noisy background," such as weather conditions, background buildings, or water wakes, some false targets are mis-classified. Feedforward backpropagation and Radial Basis neural networks are optimized for generalization of representative features to reduce false-alarm rate. The neural networks are compared for their performance in classification accuracy, classifying time, and training time.

  4. Optimization of Adaboost Algorithm for Sonar Target Detection in a Multi-Stage ATR System

    NASA Technical Reports Server (NTRS)

    Lin, Tsung Han (Hank)

    2011-01-01

    JPL has developed a multi-stage Automated Target Recognition (ATR) system to locate objects in images. First, input images are preprocessed and sent to a Grayscale Optical Correlator (GOC) filter to identify possible regions-of-interest (ROIs). Second, feature extraction operations are performed using Texton filters and Principal Component Analysis (PCA). Finally, the features are fed to a classifier, to identify ROIs that contain the targets. Previous work used the Feed-forward Back-propagation Neural Network for classification. In this project we investigate a version of Adaboost as a classifier for comparison. The version we used is known as GentleBoost. We used the boosted decision tree as the weak classifier. We have tested our ATR system against real-world sonar images using the Adaboost approach. Results indicate an improvement in performance over a single Neural Network design.

  5. [Exploration of the broken parts of a brake hose by ATR-FTIR and SEM].

    PubMed

    Wang, Yuan-Feng; Wang, Lian-Ming; Li, Bing

    2011-04-01

    ATR-FTIR and SEM were respectively utilized to analyze the chemical components and to observe the micromorphology of a broken brake hose from a traffic case, which could be a supplementary for the traditional microscopic examination. The instrumental analysis results indicated that the rubber from the brake hose had already aged; the rubber from external side had experienced brittle fracture and there were original hollows in the rubber from internal side. The breaking of the brake hose resulted from all these reasons. The experimental results also demonstrated that the fact could be reflected efficiently, accurately and objectively by the application of ATR-FTIR and SEM to the physical evidence from a case. Therefore, it could be an effective complement for traditional traffic trace examination.

  6. The life and death of ATR/sensor fusion and the hope for resurrection

    NASA Astrophysics Data System (ADS)

    Rogers, Steven K.; Sadowski, Charles; Bauer, Kenneth W.; Oxley, Mark E.; Kabrisky, Matthew; Rogers, Adam; Mott, Stephen D.

    2008-04-01

    For over half a century, scientists and engineers have worked diligently to advance computational intelligence. One application of interest is how computational intelligence can bring value to our war fighters. Automatic Target Recognition (ATR) and sensor fusion efforts have fallen far short of the desired capabilities. In this article we review the capabilities requested by war fighters. When compared to our current capabilities, it is easy to conclude current Combat Identification (CID) as a Family of Systems (FoS) does a lousy job. The war fighter needed capable, operationalized ATR and sensor fusion systems ten years ago but it did not happen. The article reviews the war fighter needs and the current state of the art. The article then concludes by looking forward to where we are headed to provide the capabilities required.

  7. ATR, BRCA1 and gammaH2AX localize to unsynapsed chromosomes at the pachytene stage in human oocytes.

    PubMed

    Garcia-Cruz, R; Roig, I; Robles, P; Scherthan, H; Garcia Caldés, M

    2009-01-01

    Asynapsis of homologous chromosomes at the pachytene stage has been associated with gametogenic failure and infertility, but the cellular mechanisms involved are currently unknown in human meiocytes. In mice, the protein encoded by the breast-cancer susceptibility gene Brca1 has been described to direct kinase ATR (ataxia telangiectasia and Rad3 related) to any unpaired DNA at the pachytene stage, where ATR triggers H2AX phosphorylation, resulting in the silencing of those chromosomes. In this study, the distribution of ATR, BRCA1 and the phosphorylated histone gammaH2AX is assessed by immunofluorescence in human oocytes and it is found that they localize at unpaired chromosomes at the pachytene stage. Evidence is shown to propose that BRCA1, ATR and gammaH2AX in the human may be part of a system such as the one previously described in mouse, which signals unsynapsed chromosomes at pachytene and may lead to their silencing. PMID:19146767

  8. The Conference Proceedings of the 2003 Air Transport Research Society (ATRS) World Conference, Volume 3

    NASA Technical Reports Server (NTRS)

    Bowen, Brent (Editor); Gudmundsson, Sveinn (Editor); Oum, Tae (Editor)

    2003-01-01

    Volume 3 of the 2003 Air Transport Reserch Society (ATRS) World Conference includes papers on topics relevant to airline operations worldwide. Specific topics include: European Union and civil aviation regimens;simulating decision making in airline operations, passenger points of view on convenient airports; route monopolies and nonlinear pricing; cooperation among airports in Europe; fleet modernizaiton in Brazil;the effects of deregulation on the growth of air transportation in Europe and the United States.

  9. ATR-FTIR spectroscopy and chemometrics: An interesting tool to discriminate and characterize counterfeit medicines.

    PubMed

    Custers, D; Cauwenbergh, T; Bothy, J L; Courselle, P; De Beer, J O; Apers, S; Deconinck, E

    2015-08-10

    Counterfeit medicines pose a huge threat to public health worldwide. High amounts of counterfeit pharmaceuticals enter the European market and therefore detection of these products is essential. Attenuated Total Reflection Fourier-Transform infrared spectroscopy (ATR-FTIR) might be useful for the screening of counterfeit medicines since it is easy to use and little sample preparation is required. Furthermore, this approach might be helpful to customs to obtain a first evaluation of suspected samples. This study proposes a combination of ATR-FTIR and chemometrics to discriminate and classify counterfeit medicines. A sample set, containing 209 samples in total, was analyzed using ATR-FTIR and the obtained spectra were used as fingerprints in the chemometric data-analysis which included Principal Component Analysis (PCA), k-Nearest Neighbours (k-NN), Classification and Regression Trees (CART) and Soft Independent Modelling of Class Analogy (SIMCA). First it was verified whether the mentioned techniques are capable to distinguish samples containing different active pharmaceutical ingredients (APIs). PCA showed a clear tendency of discrimination based on the API present; k-NN, CART and SIMCA were capable to create suitable prediction models based on the presence of different APIs. However k-NN performs the least while SIMCA performs the best. Secondly, it was tested whether these three models could be expanded to discriminate between genuine and counterfeit samples as well. k-NN was not able to make the desired discrimination and therefore it was not useful. CART performed better but also this model was less suited. SIMCA, on the other hand, resulted in a model with a 100% correct discrimination between genuine and counterfeit drugs. This study shows that chemometric analysis of ATR-FTIR fingerprints is a valuable tool to discriminate genuine from counterfeit samples and to classify counterfeit medicines.

  10. Surface processes occurring on Rh/alumina during chiral modification by cinchonidine: an ATR-IR spectroscopy study.

    PubMed

    Schmidt, Erik; Ferri, Davide; Baiker, Alfons

    2007-07-17

    Cinchona alkaloids are frequently used for chiral modification of supported noble metal catalysts employed in heterogeneous enantioselective hydrogenation. In order to gain molecular insight into the surface processes occurring at the metal/liquid interface, cinchonidine (CD) adsorption on vapor-deposited Rh/Al2O3 films has been studied in the presence of solvent and hydrogen by means of attenuated total reflection infrared (ATR-IR) spectroscopy. The spectrum of CD adsorbed on Rh exhibited two dominant signals at 1593 and 1511 cm(-1), which are characteristic of a surface species having a quinoline ring tilted with respect to the metal. Interestingly, no adsorbed modifier in the flat geometry (quinoline parallel to the metal plane) was observed. During desorption, these signals vanished, and a new prominent signal appeared at 1601 cm(-1) which belongs to a species with the quinoline ring hydrogenated on the heteroaromatic side. Concentration-dependent experiments and the reversibility of the observed phenomenon indicate that CD was readily hydrogenated to 1',2',3',4',10,11-hexahydrocinchonidine (CDH(6)) on Rh. The ATR-IR spectra also reveal that the flat species was indeed immediately hydrogenated when CD was provided from solution, and the only visible adsorbed species was the tilted species, which displaced the hydrogenation product from the metal surface. In the absence of dissolved CD, during desorption, the tilted species was converted to the flat species and rapidly hydrogenated. The hydrogenation product was stable on the metal surface only in the absence of CD. Therefore, the adsorption strength of the different species is as follows: flat > tilted > CDH(6). Evidence for the formation of the flat species and its role as an intermediate to the hydrogenation product is given by an experiment in which CD was adsorbed in the absence of dissolved hydrogen after surface cleaning. The adsorption and hydrogenation of CD on Rh deviate significantly from that

  11. Identification and evaluation of a potent novel ATR inhibitor, NU6027, in breast and ovarian cancer cell lines

    PubMed Central

    Peasland, A; Wang, L-Z; Rowling, E; Kyle, S; Chen, T; Hopkins, A; Cliby, W A; Sarkaria, J; Beale, G; Edmondson, R J; Curtin, N J

    2011-01-01

    Background: The ataxia telangiectasia mutated and Rad3-related kinase (ATR) has a key role in the signalling of stalled replication forks and DNA damage to cell cycle checkpoints and DNA repair. It has long been recognised as an important target for cancer therapy but inhibitors have proved elusive. As NU6027, originally developed as a CDK2 inhibitor, potentiated cisplatin in a CDK2-independent manner we postulated that it may inhibit ATR. Methods: Cellular ATR kinase activity was determined by CHK1 phosphorylation in human fibroblasts with inducible dominant-negative ATR-kinase dead expression and human breast cancer MCF7 cells. Cell cycle effects and chemo- and radiopotentiation by NU6027 were determined in MCF7 cells and the role of mismatch repair and p53 was determined in isogenically matched ovarian cancer A2780 cells. Results: NU6027 is a potent inhibitor of cellular ATR activity (IC50=6.7 μ) and enhanced hydroxyurea and cisplatin cytotoxicity in an ATR-dependent manner. NU6027 attenuated G2/M arrest following DNA damage, inhibited RAD51 focus formation and increased the cytotoxicity of the major classes of DNA-damaging anticancer cytotoxic therapy but not the antimitotic, paclitaxel. In A2780 cells sensitisation to cisplatin was greatest in cells with functional p53 and mismatch repair (MMR) and sensitisation to temozolomide was greatest in p53 mutant cells with functional MMR. Importantly, NU6027 was synthetically lethal when DNA single-strand break repair is impaired either through poly(ADP-ribose) polymerase (PARP) inhibition or defects in XRCC1. Conclusion: NU6027 inhibits ATR, impairing G2/M arrest and homologous recombination thus increasing sensitivity to DNA-damaging agents and PARP inhibitors. It provides proof of concept data for clinical development of ATR inhibitors. PMID:21730979

  12. Prediction of starch pasting properties in barley flour using ATR-MIR spectroscopy.

    PubMed

    Cozzolino, D; Roumeliotis, S; Eglinton, J

    2013-06-01

    The objective of this study was to evaluate the feasibility of using attenuated total reflectance (ATR) mid infrared (MIR) spectroscopy to predict starch pasting properties in barley flour samples. A total of 180 barley flour samples sourced from the University of Adelaide germplasm collection, harvested over three seasons (2009, 2010 and 2011) were analysed using both ATR-MIR and the rapid visco analyser (RVA) techniques. Calibrations (n=100) were developed using partial least squares (PLS1) regression and full cross validation. The coefficient of determination (R(2)) and the standard error in cross validation (SECV) were 0.74 (SECV=875 RVU) for peak viscosity (PV), 0.63 (SECV=561 RVU) for trough (THR), 0.80 (SECV=173 RVU) for breakdown (BRK), 0.74 (SECV=126 RVU) for setback (STB), 0.77 (SECV=679 RVU) for final viscosity (FV), and 0.73 (SECV=0.57 s) for time to peak (TTP). The RPD values (SD/SEP) from the validation indicated that only BRK can be accurately predicted (RPD=4). We have demonstrated that ATR-MIR spectroscopy has the potential to significantly reduce analytical time and cost during the analysis of barley flour for starch pasting properties. PMID:23618301

  13. A subset of ATM- and ATR-dependent phosphorylation events requires the BRCA1 protein

    PubMed Central

    Foray, Nicolas; Marot, Didier; Gabriel, Anastasia; Randrianarison, Voahangy; Carr, Antony M.; Perricaudet, Michel; Ashworth, Alan; Jeggo, Penny

    2003-01-01

    BRCA1 is a central component of the DNA damage response mechanism and defects in BRCA1 confer sensitivity to a broad range of DNA damaging agents. BRCA1 is required for homologous recombination and DNA damage-induced S and G2/M phase arrest. We show here that BRCA1 is required for ATM- and ATR-dependent phosphorylation of p53, c-Jun, Nbs1 and Chk2 following exposure to ionizing or ultraviolet radiation, respectively, and is also required for ATM phosphorylation of CtIP. In contrast, DNA damage-induced phosphorylation of the histone variant H2AX is independent of BRCA1. We also show that the presence of BRCA1 is dispensable for DNA damage-induced phosphorylation of Rad9, Hus1 and Rad17, and for the relocalization of Rad9 and Hus1. We propose that BRCA1 facilitates the ability of ATM and ATR to phosphorylate downstream substrates that directly influence cell cycle checkpoint arrest and apoptosis, but that BRCA1 is dispensable for the phosphorylation of DNA-associated ATM and ATR substrates. PMID:12773400

  14. Phenotypic analysis of separation-of-function alleles of MEI-41, Drosophila ATM/ATR.

    PubMed Central

    Laurençon, Anne; Purdy, Amanda; Sekelsky, Jeff; Hawley, R Scott; Su, Tin Tin

    2003-01-01

    ATM/ATR kinases act as signal transducers in eukaryotic DNA damage and replication checkpoints. Mutations in ATM/ATR homologs have pleiotropic effects that range from sterility to increased killing by genotoxins in humans, mice, and Drosophila. Here we report the generation of a null allele of mei-41, Drosophila ATM/ATR homolog, and the use of it to document a semidominant effect on a larval mitotic checkpoint and methyl methanesulfonate (MMS) sensitivity. We also tested the role of mei-41 in a recently characterized checkpoint that delays metaphase/anaphase transition after DNA damage in cellular embryos. We then compare five existing mei-41 alleles to the null with respect to known phenotypes (female sterility, cell cycle checkpoints, and MMS resistance). We find that not all phenotypes are affected equally by each allele, i.e., the functions of MEI-41 in ensuring fertility, cell cycle regulation, and resistance to genotoxins are genetically separable. We propose that MEI-41 acts not in a single rigid signal transduction pathway, but in multiple molecular contexts to carry out its many functions. Sequence analysis identified mutations, which, for most alleles, fall in the poorly characterized region outside the kinase domain; this allowed us to tentatively identify additional functional domains of MEI-41 that could be subjected to future structure-function studies of this key molecule. PMID:12807779

  15. ATR-FTIR as a thickness measurement technique for hydrated polymer-on-polymer coatings.

    PubMed

    Kane, Sheryl R; Ashby, Paul D; Pruitt, Lisa A

    2009-11-01

    Hydrated polymer coatings on polymer substrates are common for many biomedical applications, such as tissue engineering constructs, contact lenses, and catheters. The thickness of the coatings can affect the mechanical behavior of the systems and the cellular response, but measuring the coating thickness can be quite challenging using conventional methods. We propose a new method, that is, attenuated total reflection Fourier transform infrared spectroscopy (ATR-FTIR) to determine the relative thickness, combined with atomic force microscopy to calibrate the ATR-FTIR measurements. This technique was successfully employed to determine the hydrated thickness of a series of crosslinked tetraglyme coatings on ultrahigh molecular weight polyethylene substrates intended to reduce wear of acetabular cups in total hip replacements. The hydrated coatings ranged from 30 to 200 nm thick and were accurately measured despite the relatively high root-mean-square (RMS) roughness of the substrates, 20-35 nm (peak-to-peak roughness 55-100 nm). The calibrated ATR-FTIR technique is a promising new method for measuring the thickness of many other polymer-on-polymer and hydrated coatings.

  16. The detection and discrimination of human body fluids using ATR FT-IR spectroscopy.

    PubMed

    Orphanou, Charlotte-Maria; Walton-Williams, Laura; Mountain, Harry; Cassella, John

    2015-07-01

    Blood, saliva, semen and vaginal secretions are the main human body fluids encountered at crime scenes. Currently presumptive tests are routinely utilised to indicate the presence of body fluids, although these are often subject to false positives and limited to particular body fluids. Over the last decade more sensitive and specific body fluid identification methods have been explored, such as mRNA analysis and proteomics, although these are not yet appropriate for routine application. This research investigated the application of ATR FT-IR spectroscopy for the detection and discrimination of human blood, saliva, semen and vaginal secretions. The results demonstrated that ATR FT-IR spectroscopy can detect and distinguish between these body fluids based on the unique spectral pattern, combination of peaks and peak frequencies corresponding to the macromolecule groups common within biological material. Comparisons with known abundant proteins relevant to each body fluid were also analysed to enable specific peaks to be attributed to the relevant protein components, which further reinforced the discrimination and identification of each body fluid. Overall, this preliminary research has demonstrated the potential for ATR FT-IR spectroscopy to be utilised in the routine confirmatory screening of biological evidence due to its quick and robust application within forensic science.

  17. ATR-IR Investigation of Solvent Interactions with Surface-Bound Polymers

    PubMed Central

    2016-01-01

    Solvent interactions with bulk and surface-bound polymer brushes are crucial for functionalities such as controlled friction and thermoresponsive adhesion. To study such interactions, the temperature-induced solvent-quality changes and the effect of surface tethering on the mechanical and tribological properties of poly(dodecyl methacrylate) (P12MA) brushes have been investigated by means of attenuated total reflection infrared spectroscopy (ATR-IR), as well as atomic force microscopy (AFM) and lateral force microscopy (LFM). These results have been compared with temperature-dependent UV–visible spectrophotometry (UV–vis) data for the corresponding bulk polymer solutions. The ATR-IR results clearly show that increasing temperature enhances ethanol uptake in P12MA, which results in film swelling. This is accompanied by a marked increase in both adhesion and friction. We have also shown that a combination of solvents, such as toluene and ethanol, can lead to a temperature-dependent solvent partitioning within the polymer brush. To our knowledge this is the first time preferential solvent uptake in a grafted-from brush has been monitored via in situ ATR-IR. Moreover, we have observed remarkably different behavior for polymer chains in solution compared to the behavior of similar chains bound to a surface. The presented findings on the temperature-dependent solvent interactions of surface-grafted P12MA reveal previously unknown solvation phenomena and open up a range of possible applications in the area of stimuli-responsive materials. PMID:27397856

  18. ATR-16 due to a de novo complex rearrangement of chromosome 16.

    PubMed

    Gallego, Marta S; Zelaya, Gabriela; Feliu, Aurora S; Rossetti, Liliana; Shaffer, Lisa G; Bailey, Kristen A; Bacino, Carlos A; Barreiro, Cristina Z

    2005-01-01

    We describe a child with ATR-16 [alpha-thalassemia (thal)/mental retardation], who was referred for genetic evaluation because of minor anomalies and developmental delay. Cytogenetic analysis demonstrated a de novo complex rearrangement of chromosome 16. Fluorescence in situ hybridization (FISH) analysis, using chromosome 16 subtelomeric probes, showed that this patient had a deletion of the distal short arm of chromosome 16 that contains the alpha-globin genes and a duplication of 16q. Analysis of the alpha-globin locus by Southern blot showed a half normal dose of the alpha-globin gene. Microsatellite marker studies revealed that the duplicated 16q region was maternal in origin. Hematological studies revealed anemia, hypochromia and occasional cells with Hb H inclusion bodies. A hematological screening for alpha-thal should be considered in patients with mild developmental delay and a suggestive phenotype of ATR-16 with microcytic hypochromic anemia and normal iron status. The stellate pattern of the iris, a new finding in our patient, may contribute to a better clinical delineation of both syndromes, ATR-16 and/or duplication of 16qter.

  19. A Genome-wide CRISPR Screen Identifies CDC25A as a Determinant of Sensitivity to ATR Inhibitors.

    PubMed

    Ruiz, Sergio; Mayor-Ruiz, Cristina; Lafarga, Vanesa; Murga, Matilde; Vega-Sendino, Maria; Ortega, Sagrario; Fernandez-Capetillo, Oscar

    2016-04-21

    One recurring theme in drug development is to exploit synthetic lethal properties as means to preferentially damage the DNA of cancer cells. We and others have previously developed inhibitors of the ATR kinase, shown to be particularly genotoxic for cells expressing certain oncogenes. In contrast, the mechanisms of resistance to ATR inhibitors remain unexplored. We report here on a genome-wide CRISPR-Cas9 screen that identified CDC25A as a major determinant of sensitivity to ATR inhibition. CDC25A-deficient cells resist high doses of ATR inhibitors, which we show is due to their failure to prematurely enter mitosis in response to the drugs. Forcing mitotic entry with WEE1 inhibitors restores the toxicity of ATR inhibitors in CDC25A-deficient cells. With ATR inhibitors now entering the clinic, our work provides a better understanding of the mechanisms by which these compounds kill cells and reveals genetic interactions that could be used for their rational use. PMID:27067599

  20. ATR-Chk1 signaling inhibition as a therapeutic strategy to enhance cisplatin chemosensitivity in urothelial bladder cancer.

    PubMed

    Li, Ching-Chia; Yang, Juan-Cheng; Lu, Mei-Chin; Lee, Chia-Lin; Peng, Chieh-Yu; Hsu, Wei-Yu; Dai, Yun-Hao; Chang, Fang-Rong; Zhang, Da-Yong; Wu, Wen-Jeng; Wu, Yang-Chang

    2016-01-12

    DNA damage responses contribute to cisplatin resistance; however, therapeutic strategies to overcome cisplatin resistance have not yet been established. Here, we demonstrate that inhibition of ATR-Chk1 pathway with the potent inhibitor WYC0209 sensitizes bladder cancer cells to cisplatin. In the clinical microarray profile, high ATR expression is associated with poor prognosis in bladder cancer patients who receive chemotherapy. We show that pharmacological and genetic suppressing of ATR sensitized cells to cisplatin. Treatment with WYC0209 or siATR increased levels of cisplatin-DNA adducts, concomitant with decreased levels of p-glycoprotein expression. Additionally, Combinations of cisplatin and WYC0209 show synergistic activity against bladder cancer. Ultimately, WYC0209 enhanced the anti-tumor effects of cisplatin and suppressed p-glycoprotein expression in bladder cancer xenografts. These results indicate that inhibiting ATR-Chk1 activation with WYC0209 suppresses p-glycoprotein expression and increases cisplatin activity in bladder cancer. Our findings collectively suggest that ATR-Chk1 is a target for improving the efficacy of cisplatin in bladder cancer. PMID:26657501

  1. Analyses of requirements for computer control and data processing experiment subsystems: Image data processing system (IDAPS) software description (7094 version), volume 2

    NASA Technical Reports Server (NTRS)

    1973-01-01

    A description of each of the software modules of the Image Data Processing System (IDAPS) is presented. The changes in the software modules are the result of additions to the application software of the system and an upgrade of the IBM 7094 Mod(1) computer to a 1301 disk storage configuration. Necessary information about IDAPS sofware is supplied to the computer programmer who desires to make changes in the software system or who desires to use portions of the software outside of the IDAPS system. Each software module is documented with: module name, purpose, usage, common block(s) description, method (algorithm of subroutine) flow diagram (if needed), subroutines called, and storage requirements.

  2. Validation of ATR Fission Power Deposition Fraction in HEU and LEU Fuel Plates

    SciTech Connect

    G. S. Chang

    2008-09-01

    The Advanced Test Reactor (ATR) is a high power (250 MW), high neutron flux research reactor operating in the United States. Powered with highly enriched uranium (HEU), the ATR has a maximum unperturbed thermal neutron flux rating of 1.0 x 1015 n/cm2–s. Because of its high power and large test volumes located in high flux areas, the ATR is an ideal candidate for assessing the feasibility of converting an HEU driven reactor to a low-enriched core. A detailed plate-by-plate MCNP ATR full core model has been developed and validated for the low-enriched uranium (LEU) fuel conversion feasibility study. Using this model, an analysis has been performed to determine the LEU density and U-235 enrichment required in the fuel meat to yield equivalent K-eff versus effective full power days (EFPDs) between the HEU and LEU cores. This model has also been used to optimize U-235 content of the LEU core, minimizing the differences in K-eff and heat flux profile between the HEU and LEU cores at 115 MW total core power for 125 EFPDs. The LEU core conversion feasibility study evaluated foil type (U-10Mo) fuel with the LEU reference design of 19.7 wt% U-235 enrichment. The LEU reference design has a fixed fuel meat thickness of 0.330 mm and can sustain the same operating cycle length as the HEU fuel. Heat flux and fission power density are parameters that are proportional to the fraction of fission power deposited in fuel. Thus, the accurate determination of the fraction of fission power deposited in the fuel is important to ATR nuclear safety. In this work, a new approach was developed and validated, the Tally Fuel Cells Only (TFCO) method. This method calculates and compares the fission power deposition fraction between HEU and LEU fuel plates. Due to the high density of the U-10Mo LEU fuel, the fission ?-energy deposition fraction is 37.12%, which is larger than the HEU’s ?-energy deposition fraction of 19.7%. As a result, the fuel decay heat cooling will need to be improved

  3. ATR LEU Fuel and Burnable Absorber Neutronics Performance Optimization by Fuel Meat Thickness Variation

    SciTech Connect

    G. S. Chang

    2007-09-01

    The Advanced Test Reactor (ATR) is a high power density and high neutron flux research reactor operating in the United States. Powered with highly enriched uranium (HEU), the ATR has a maximum thermal power rating of 250 MWth. Because of the large test volumes located in high flux areas, the ATR is an ideal candidate for assessing the feasibility of converting an HEU driven reactor to a low-enriched core. The present work investigates the necessary modifications and evaluates the subsequent operating effects of this conversion. A detailed plate-by-plate MCNP ATR 1/8th core model was developed and validated for a fuel cycle burnup comparison analysis. Using the current HEU U 235 enrichment of 93.0 % as a baseline, an analysis can be performed to determine the low-enriched uranium (LEU) density and U-235 enrichment required in the fuel meat to yield an equivalent K-eff between the HEU core and the LEU core versus effective full power days (EFPD). The MCNP ATR 1/8th core model will be used to optimize the U-235 loading in the LEU core, such that the differences in K-eff and heat flux profile between the HEU and LEU core can be minimized. The depletion methodology MCWO was used to calculate K-eff versus EFPDs in this paper. The MCWO-calculated results for the LEU cases with foil (U-10Mo) types demonstrated adequate excess reactivity such that the K-eff versus EFPDs plot is similar to the reference ATR HEU case. Each HEU fuel element contains 19 fuel plates with a fuel meat thickness of 0.508 mm. In this work, the proposed LEU (U-10Mo) core conversion case with a nominal fuel meat thickness of 0.508 mm and the same U-235 enrichment (15.5 wt%) can be used to optimize the radial heat flux profile by varying the fuel plate thickness from 0.254 to 0.457 mm at the inner 4 fuel plates (1-4) and outer 4 fuel plates (16-19). In addition, a 0.7g of burnable absorber Boron-10 was added in the inner and outer plates to reduce the initial excess reactivity, and the inner/outer heat

  4. ATR LEU fuel and burnable absorber neutronics performance optimization by fuel meat thickness variation

    SciTech Connect

    Chang, G.S.

    2008-07-15

    The Advanced Test Reactor (ATR) is a high power density and high neutron flux research reactor operating in the United States. Powered with highly enriched uranium (HEU), the ATR has a maximum thermal power rating of 250 MWth. Because of the large test volumes located in high flux areas, the ATR is an ideal candidate for assessing the feasibility of converting an HEU driven reactor to a low-enriched core. The present work investigates the necessary modifications and evaluates the subsequent operating effects of this conversion. A detailed plate-by-plate MCNP ATR 1/8th core model was developed and validated for a fuel cycle burnup comparison analysis. Using the current HEU U-235 enrichment of 93.0 % as a baseline, an analysis can be performed to determine the low-enriched uranium (LEU) density and U-235 enrichment required in the fuel meat to yield an equivalent K-eff between the HEU core th and the LEU core versus effective full power days (EFPD). The MCNP ATR 1/8th core model will be used to optimize the U-235 loading in the LEU core, such that the differences in K-eff and heat flux profile between the HEU and LEU core can be minimized. The depletion methodology MCWO was used to calculate K-eff versus EFPDs in this paper. The MCWO-calculated results for the LEU cases with foil (U-10Mo) types demonstrated adequate excess reactivity such that the K-eff versus EFPDs plot is similar to the reference ATR HEU case. Each HEU fuel element contains 19 fuel plates with a fuel meat thickness of 0.508 mm. In this work, the proposed LEU (U-10Mo) core conversion case with a nominal fuel meat thickness of 0.381 mm and the same U-235 enrichment (19.7 wt%) can be used to optimize the radial heat flux profile by varying the fuel meat thickness from 0.191 mm (7.5 mil) to 0.343 mm (13.5 mil) at the inner 4 fuel plates (1-4) and outer 4 fuel plates (16-19). In addition, 0.8g of a burnable absorber, Boron-10, was added in the inner and outer plates to reduce the initial excess

  5. Descriptive thermodynamics

    NASA Astrophysics Data System (ADS)

    Ford, David; Huntsman, Steven

    2006-06-01

    Thermodynamics (in concert with its sister discipline, statistical physics) can be regarded as a data reduction scheme based on partitioning a total system into a subsystem and a bath that weakly interact with each other. Whereas conventionally, the systems investigated require this form of data reduction in order to facilitate prediction, a different problem also occurs, in the context of communication networks, markets, etc. Such “empirically accessible” systems typically overwhelm observers with the sort of information that in the case of (say) a gas is effectively unobtainable. What is required for such complex interacting systems is not prediction (this may be impossible when humans besides the observer are responsible for the interactions) but rather, description as a route to understanding. Still, the need for a thermodynamical data reduction scheme remains. In this paper, we show how an empirical temperature can be computed for finite, empirically accessible systems, and further outline how this construction allows the age-old science of thermodynamics to be fruitfully applied to them.

  6. Validation of the combined ATR-FTIR/tape stripping technique for monitoring the distribution of surfactants in the stratum corneum.

    PubMed

    Hoppel, Magdalena; Baurecht, Dieter; Holper, Evelyn; Mahrhauser, Denise; Valenta, Claudia

    2014-09-10

    The physical presence of surfactants in the skin is linked to their skin irritation potential. Combined ATR-FTIR spectroscopy and tape stripping experiments in vitro on porcine ear skin were used to investigate the spatial distribution of sodium lauryl ether sulfate (SLES) in the stratum corneum and to assess its effects on conformational order of stratum corneum intercellular lipids, secondary structure of keratin and skin hydration. It was possible to monitor the spatial distribution of SLES in the stratum corneum for the first time by subtracting spectra of untreated from treated skin samples and without the need of a perdeuterated form. This method of analysis was evaluated by addressing potential error sources such as differences in removed amounts of corneocytes and intra-individual changes in stratum corneum composition as a function of depth. The obtained results indicate a penetration of SLES into deep layers of the stratum corneum. Furthermore, SLES treatment led to significantly decreased skin hydration levels, whereas the secondary structure of keratin remained nearly unaffected. The reliability of this semi-quantitative method of analysis was confirmed by receiving a coefficient of determination of 0.9963 after making a correlation of deep depended absorbances of two different characteristic bands with different absorption coefficients.

  7. The effect of solvent on permeant diffusion through membranes studied using ATR-FTIR and chemometric data analysis.

    PubMed

    Dias, M; Hadgraft, J; Raghavan, S L; Tetteh, J

    2004-01-01

    One method of improving the bioavailability of a topical formulation is to add an appropriate solvent that will act as a solubilizer for the permeant and, at the same time, modify the barrier properties of the stratum corneum. It has proved very difficult to determine the precise mechanisms of action involved; this is complicated by the concurrent diffusion of the solvent and the permeant into the skin. Under these circumstances the barrier function may well be changing as a function of time as the solvent disrupts it. We have observed this phenomenon in a model silicone membrane system that we have chosen to study initially to avoid the complexity of the heterogeneous nature of skin and its inherent biological variability. Diffusion experiments were conducted using an established ATR-FTIR approach but the data interpreted using sophisticated chemometric approaches that allowed us to deconvolve the IR signals from the permeant, the solvent, and the membrane. Data are presented that show the concurrent diffusion of benzoic acid (permeant), octanol (solvent), and how the octanol modifies the characteristics of the silicone membrane. Initial data are then presented using human skin to show the power of the diffusion approach coupled to the data deconvolution technique.

  8. The effect of solvent on permeant diffusion through membranes studied using ATR-FTIR and chemometric data analysis.

    PubMed

    Dias, M; Hadgraft, J; Raghavan, S L; Tetteh, J

    2004-01-01

    One method of improving the bioavailability of a topical formulation is to add an appropriate solvent that will act as a solubilizer for the permeant and, at the same time, modify the barrier properties of the stratum corneum. It has proved very difficult to determine the precise mechanisms of action involved; this is complicated by the concurrent diffusion of the solvent and the permeant into the skin. Under these circumstances the barrier function may well be changing as a function of time as the solvent disrupts it. We have observed this phenomenon in a model silicone membrane system that we have chosen to study initially to avoid the complexity of the heterogeneous nature of skin and its inherent biological variability. Diffusion experiments were conducted using an established ATR-FTIR approach but the data interpreted using sophisticated chemometric approaches that allowed us to deconvolve the IR signals from the permeant, the solvent, and the membrane. Data are presented that show the concurrent diffusion of benzoic acid (permeant), octanol (solvent), and how the octanol modifies the characteristics of the silicone membrane. Initial data are then presented using human skin to show the power of the diffusion approach coupled to the data deconvolution technique. PMID:14648648

  9. Molecular cloning of AtRS4, a seed specific multifunctional RFO synthase/galactosylhydrolase in Arabidopsis thaliana.

    PubMed

    Gangl, Roman; Behmüller, Robert; Tenhaken, Raimund

    2015-01-01

    Stachyose is among the raffinose family oligosaccharides (RFOs) one of the major water-soluble carbohydrates next to sucrose in seeds of a number of plant species. Especially in leguminous seeds, e.g. chickpea, stachyose is reported as the major component. In contrast to their ambiguous potential as essential source of carbon for germination, RFOs are indigestible for humans and can contribute to diverse abdominal disorders. In the genome of Arabidopsis thaliana, six putative raffinose synthase genes are reported, whereas little is known about these putative raffinose synthases and their biochemical characteristics or their contribution to the RFO physiology in A. thaliana. In this paper, we report on the molecular cloning, functional expression in Escherichia coli and purification of recombinant AtRS4 from A. thaliana and the biochemical characterisation of the putative stachyose synthase (AtSTS, At4g01970) as a raffinose and high affinity stachyose synthase (Km for raffinose 259.2 ± 21.15 μM) as well as stachyose and galactinol specific galactosylhydrolase. A T-DNA insertional mutant in the AtRS4 gene was isolated. Only semi-quantitative PCR from WT siliques showed a specific transcriptional AtRS4 PCR product. Metabolite measurements in seeds of ΔAtRS4 mutant plants revealed a total loss of stachyose in ΔAtRS4 mutant seeds. We conclude that AtRS4 is the only stachyose synthase in the genome of A. thaliana that AtRS4 represents a key regulation mechanism in the RFO physiology of A. thaliana due to its multifunctional enzyme activity and that AtRS4 is possibly the second seed specific raffinose synthase beside AtRS5, which is responsible for Raf accumulation under abiotic stress. PMID:26483807

  10. Molecular cloning of AtRS4, a seed specific multifunctional RFO synthase/galactosylhydrolase in Arabidopsis thaliana

    PubMed Central

    Gangl, Roman; Behmüller, Robert; Tenhaken, Raimund

    2015-01-01

    Stachyose is among the raffinose family oligosaccharides (RFOs) one of the major water-soluble carbohydrates next to sucrose in seeds of a number of plant species. Especially in leguminous seeds, e.g. chickpea, stachyose is reported as the major component. In contrast to their ambiguous potential as essential source of carbon for germination, RFOs are indigestible for humans and can contribute to diverse abdominal disorders. In the genome of Arabidopsis thaliana, six putative raffinose synthase genes are reported, whereas little is known about these putative raffinose synthases and their biochemical characteristics or their contribution to the RFO physiology in A. thaliana. In this paper, we report on the molecular cloning, functional expression in Escherichia coli and purification of recombinant AtRS4 from A. thaliana and the biochemical characterisation of the putative stachyose synthase (AtSTS, At4g01970) as a raffinose and high affinity stachyose synthase (Km for raffinose 259.2 ± 21.15 μM) as well as stachyose and galactinol specific galactosylhydrolase. A T-DNA insertional mutant in the AtRS4 gene was isolated. Only semi-quantitative PCR from WT siliques showed a specific transcriptional AtRS4 PCR product. Metabolite measurements in seeds of ΔAtRS4 mutant plants revealed a total loss of stachyose in ΔAtRS4 mutant seeds. We conclude that AtRS4 is the only stachyose synthase in the genome of A. thaliana that AtRS4 represents a key regulation mechanism in the RFO physiology of A. thaliana due to its multifunctional enzyme activity and that AtRS4 is possibly the second seed specific raffinose synthase beside AtRS5, which is responsible for Raf accumulation under abiotic stress. PMID:26483807

  11. ATR- and ATM-Mediated DNA Damage Response Is Dependent on Excision Repair Assembly during G1 but Not in S Phase of Cell Cycle

    PubMed Central

    Ray, Alo; Blevins, Chessica; Wani, Gulzar; Wani, Altaf A.

    2016-01-01

    Cell cycle checkpoint is mediated by ATR and ATM kinases, as a prompt early response to a variety of DNA insults, and culminates in a highly orchestrated signal transduction cascade. Previously, we defined the regulatory role of nucleotide excision repair (NER) factors, DDB2 and XPC, in checkpoint and ATR/ATM-dependent repair pathway via ATR and ATM phosphorylation and recruitment to ultraviolet radiation (UVR)-induced damage sites. Here, we have dissected the molecular mechanisms of DDB2- and XPC- mediated regulation of ATR and ATM recruitment and activation upon UVR exposures. We show that the ATR and ATM activation and accumulation to UVR-induced damage not only depends on DDB2 and XPC, but also on the NER protein XPA, suggesting that the assembly of an active NER complex is essential for ATR and ATM recruitment. ATR and ATM localization and H2AX phosphorylation at the lesion sites occur as early as ten minutes in asynchronous as well as G1 arrested cells, showing that repair and checkpoint-mediated by ATR and ATM starts early upon UV irradiation. Moreover, our results demonstrated that ATR and ATM recruitment and H2AX phosphorylation are dependent on NER proteins in G1 phase, but not in S phase. We reasoned that in G1 the UVR-induced ssDNA gaps or processed ssDNA, and the bound NER complex promote ATR and ATM recruitment. In S phase, when the UV lesions result in stalled replication forks with long single-stranded DNA, ATR and ATM recruitment to these sites is regulated by different sets of proteins. Taken together, these results provide evidence that UVR-induced ATR and ATM recruitment and activation differ in G1 and S phases due to the existence of distinct types of DNA lesions, which promote assembly of different proteins involved in the process of DNA repair and checkpoint activation. PMID:27442013

  12. ATR- and ATM-Mediated DNA Damage Response Is Dependent on Excision Repair Assembly during G1 but Not in S Phase of Cell Cycle.

    PubMed

    Ray, Alo; Blevins, Chessica; Wani, Gulzar; Wani, Altaf A

    2016-01-01

    Cell cycle checkpoint is mediated by ATR and ATM kinases, as a prompt early response to a variety of DNA insults, and culminates in a highly orchestrated signal transduction cascade. Previously, we defined the regulatory role of nucleotide excision repair (NER) factors, DDB2 and XPC, in checkpoint and ATR/ATM-dependent repair pathway via ATR and ATM phosphorylation and recruitment to ultraviolet radiation (UVR)-induced damage sites. Here, we have dissected the molecular mechanisms of DDB2- and XPC- mediated regulation of ATR and ATM recruitment and activation upon UVR exposures. We show that the ATR and ATM activation and accumulation to UVR-induced damage not only depends on DDB2 and XPC, but also on the NER protein XPA, suggesting that the assembly of an active NER complex is essential for ATR and ATM recruitment. ATR and ATM localization and H2AX phosphorylation at the lesion sites occur as early as ten minutes in asynchronous as well as G1 arrested cells, showing that repair and checkpoint-mediated by ATR and ATM starts early upon UV irradiation. Moreover, our results demonstrated that ATR and ATM recruitment and H2AX phosphorylation are dependent on NER proteins in G1 phase, but not in S phase. We reasoned that in G1 the UVR-induced ssDNA gaps or processed ssDNA, and the bound NER complex promote ATR and ATM recruitment. In S phase, when the UV lesions result in stalled replication forks with long single-stranded DNA, ATR and ATM recruitment to these sites is regulated by different sets of proteins. Taken together, these results provide evidence that UVR-induced ATR and ATM recruitment and activation differ in G1 and S phases due to the existence of distinct types of DNA lesions, which promote assembly of different proteins involved in the process of DNA repair and checkpoint activation. PMID:27442013

  13. ATR LEU Monothlic and Dispersed with 10B Loading Minimization Design – Neutronics Performance Analysis

    SciTech Connect

    G. S. Chang

    2001-10-01

    The Advanced Test Reactor (ATR), currently operating in the United States, is used for material testing at very high neutron fluxes. Powered with highly enriched uranium (HEU), the ATR has a maximum thermal power rating of 250 MWth. Because of the large test volumes located in high flux areas, the ATR is an ideal candidate for assessing the feasibility of converting HEU driven reactor cores to low-enriched uranium (LEU) cores. The present work investigates the optimized LEU Monolithic and Dispersed fuel with 10B loading minimization design and evaluates the subsequent neutronics operating effects of these optimized fuel designs. The MCNP ATR 1/8th core model was used to optimize the 235U and minimize the 10B loading in the LEU core, such that the differences in K-eff and heat flux profiles between the HEU and LEU cores were minimized. The fuel depletion methodology MCWO was used to calculate K eff versus effective full power days (EFPD) in this paper. The MCWO-calculated results for the optimized LEU Monolithic and Dispersed fuel cases demonstrated adequate excess reactivity such that the K-eff versus EFPD plot is similar to the ATR reference HEU case study. Each HEU fuel element contains 19 fuel plates with a fuel meat thickness of 0.508 mm (20 mil). In this work, the proposed LEU Monolithic (U-10Mo) core conversion case with nominal fuel meat thickness of 0.330 mm (13 mil) and 235U enrichment of 19.7 wt% is used to optimize the radial heat flux profile by varying the fuel meat thickness. The proposed LEU fuel meat varies from 0.203 mm (8.0 mil) to 0.254 mm (10.0 mil) at the inner four fuel plates (1-4) and outer four fuel plates (16-19). In addition, an optimized LEU dispersed (U7Mo) case with all the fuel meat thickness of 0.635 mm (25 mil) was also proposed. Then, for both Monolithic and dispersed cases, a burnable absorber – 10B, was added in the inner and outer plates to reduce the initial excess reactivity, and the higher to average ratio of the inner

  14. STAT3 interrupts ATR-Chk1 signaling to allow oncovirus-mediated cell proliferation.

    PubMed

    Koganti, Siva; Hui-Yuen, Joyce; McAllister, Shane; Gardner, Benjamin; Grasser, Friedrich; Palendira, Umaimainthan; Tangye, Stuart G; Freeman, Alexandra F; Bhaduri-McIntosh, Sumita

    2014-04-01

    DNA damage response (DDR) is a signaling network that senses DNA damage and activates response pathways to coordinate cell-cycle progression and DNA repair. Thus, DDR is critical for maintenance of genome stability, and presents a powerful defense against tumorigenesis. Therefore, to drive cell-proliferation and transformation, viral and cellular oncogenes need to circumvent DDR-induced cell-cycle checkpoints. Unlike in hereditary cancers, mechanisms that attenuate DDR and disrupt cell-cycle checkpoints in sporadic cancers are not well understood. Using Epstein-Barr virus (EBV) as a source of oncogenes, we have previously shown that EBV-driven cell proliferation requires the cellular transcription factor STAT3. EBV infection is rapidly followed by activation and increased expression of STAT3, which mediates relaxation of the intra-S phase cell-cycle checkpoint; this facilitates viral oncogene-driven cell proliferation. We now show that replication stress-associated DNA damage, which results from EBV infection, is detected by DDR. However, signaling downstream of ATR is impaired by STAT3, leading to relaxation of the intra-S phase checkpoint. We find that STAT3 interrupts ATR-to-Chk1 signaling by promoting loss of Claspin, a protein that assists ATR to phosphorylate Chk1. This loss of Claspin which ultimately facilitates cell proliferation is mediated by caspase 7, a protein that typically promotes cell death. Our findings demonstrate how STAT3, which is constitutively active in many human cancers, suppresses DDR, fundamental to tumorigenesis. This newly recognized role for STAT3 in attenuation of DDR, discovered in the context of EBV infection, is of broad interest as the biology of cell proliferation is central to both health and disease.

  15. Cadmium Depletion Impacts on Hardening Neutron6 Spectrum for Advanced Fuel Testing in ATR

    SciTech Connect

    Gray S. Chang

    2011-05-01

    For transmuting long-lived isotopes contained in spent nuclear fuel into shorter-lived fission products effectively is in a fast neutron spectrum reactor. In the absence of a fast spectrum test reactor in the United States of America (USA), initial irradiation testing of candidate fuels can be performed in a thermal test reactor that has been modified to produce a test region with a hardened neutron spectrum. A test region is achieved with a Cadmium (Cd) filter which can harden the neutron spectrum to a spectrum similar (although still somewhat softer) to that of the liquid metal fast breeder reactor (LMFBR). A fuel test loop with a Cd-filter has been installed within the East Flux Trap (EFT) of the Advanced Test Reactor (ATR) at the Idaho National Laboratory (INL). A detailed comparison analyses between the cadmium (Cd) filter hardened neutron spectrum in the ATR and the LMFBR fast neutron spectrum have been performed using MCWO. MCWO is a set of scripting tools that are used to couple the Monte Carlo transport code MCNP with the isotope depletion and buildup code ORIGEN-2.2. The MCWO-calculated results indicate that the Cd-filter can effectively flatten the Rim-Effect and reduce the linear heat rate (LHGR) to meet the advanced fuel testing project requirements at the beginning of irradiation (BOI). However, the filtering characteristics of Cd as a strong absorber quickly depletes over time, and the Cd-filter must be replaced for every two typical operating cycles within the EFT of the ATR. The designed Cd-filter can effectively depress the LHGR in experimental fuels and harden the neutron spectrum enough to adequately flatten the Rim Effect in the test region.

  16. ATR-FTIR spectroscopy: a chemometric approach for studying the lipid organisation of the stratum corneum.

    PubMed

    Laugel, C; Yagoubi, N; Baillet, A

    2005-05-01

    The barrier function of skin resides in the lipid components of the stratum corneum, particularly their spatial organisation. FTIR spectroscopy has already been used as a relevant tool to study this lipid organisation: IR vibration band shifts have been attributed to the variations in lipid organisation induced by temperature. Our study included a stratum corneum model, composed of the three main lipids: palmitic acid as an example of fatty acids, cholesterol and ceramide III as an example of ceramide. Different films with various ratios of these lipids were studied. In our analytical strategy, the interest of using a chemometric analysis of global data obtained from ATR-FTIR spectra to highlight the main interactions involved in the molecular organisation of lipids has been demonstrated. Two kinds of interaction between the three main lipids have been shown: a non polar interaction between the long hydrocarbon chains and a polar interaction as the hydrogen bonding between polar functional groups. By varying the lipid ratio, we have shown first that the relative importance of each interaction was modified, second, that the induced modification of organisation can be detected by chemometric analysis of the ATR-FTIR spectra. The role of each kind of lipid in the organisation has been discussed. In conclusion, associating the ATR-FTIR with chemometric treatment is a promising tool: firstly, to understand the consequence of lipid relative compositions on the structural organisation of the stratum corneum, secondly, to show the relationship between lipid organisation and percutaneous penetration data. Indeed, this methodology will be transposed to in vivo studies with IR measurements through a probe. PMID:15854625

  17. Modelling mercury accumulation in minerogenic peat combining FTIR-ATR spectroscopy and partial least squares (PLS)

    NASA Astrophysics Data System (ADS)

    Pérez-Rodríguez, Marta; Horák-Terra, Ingrid; Rodríguez-Lado, Luis; Martínez Cortizas, Antonio

    2016-11-01

    Despite its potential, infrared spectroscopy combined with multivariate statistics has been seldom used to model peat properties with environmental value, such us the concentration of potentially toxic metals. In this research, we applied attenuated total reflectance (ATR) Fourier-Transform Infrared (FTIR) spectroscopy to evaluate the ability of the technique to predict mercury concentrations in late-Pleistocene/Holocene peat from a minerogenic peatland from Minas Gerais (Brazil). Mercury concentrations were analysed using a Milestone DMA-80 analyzer and attenuated total reflectance FTIR-ATR was performed using a Gladi-ATR (Pike Technologies) in the mid IR spectrum (4000-400 cm- 1). Concentrations were modelled using principal components (PCR) and partial least squares regression (PLS). The performance of the models varied between moderate and very good (R2 0.67-0.90), with low RMSD values (0.35-1.06). A PLS model based on three latent vectors (LV1 to LV3) provided the best (R2 0.90, RMSD 0.35) results. LV1 reflected total organic matter content versus mineral matter (mainly quartz from local fluxes), LV2 was related to dust deposition from regional sources, and LV3 reflected peat organic matter decomposition. Compared to a previous investigation based on geochemical data, the spectroscopy-based PLS model performed better, but it has to be complemented with additional data (as δ13 C ratios) to reliably reproduce the changes of the factors controlling mercury accumulation over time. This, time- and cost-effective, methodology may help to develop multi-core approaches to study the within and between mire (of a similar type and area) variability in mercury accumulation, and probably also other peat properties.

  18. Polarized ATR-FTIR spectroscopy of the membrane-embedded domains of the particulate methane monooxygenase.

    PubMed

    Vinchurkar, Madhuri S; Chen, Kelvin H-C; Yu, Steve S-F; Kuo, Shan-Jen; Chiu, Hui-Chi; Chien, Shu-Hua; Chan, Sunney I

    2004-10-26

    The particulate methane monooxygenase (pMMO) of Methylococcus capsulatus (Bath) is an integral membrane protein that catalyzes the conversion of methane to methanol. To gain some insight into the structure-reactivity pattern of this protein, we have applied attenuated total reflection Fourier transform infrared (ATR-FTIR) spectroscopy to investigate the secondary structure of the pMMO. The results showed that ca. 60% of the amino acid residues were structured as alpha-helices. About 80% of the peptide residues were estimated to be protected from the amide (1)H/(2)H exchange during a 21 h exposure to (2)H(2)O. In addition, a significant portion of the protein was shown to be sequestered within the bilayer membrane, protected from trypsin proteolysis. The ATR-FTIR difference spectrum between the intact and the proteolyzed pMMO-enriched membranes revealed absorption peaks only in the spectral regions characteristic for unordered and beta-structures. These observations were corroborated by amino acid sequence analysis of the pMMO subunits using the program TransMembrane topology with a Hidden Markov Model: 15 putative transmembrane alpha-helices were predicted. Finally, an attempt was also made to model the three-dimensional folding of the protein subunits from the sequence using the Protein Fold Recognition Server based on the 3D Position Specific Scoring Matrix Method. The C-terminal solvent-exposed sequence (N255-M414) of the pMMO 45 kDa subunit was shown to match the beta-sheet structure of the multidomain cupredoxins. We conclude on the basis of this ATR-FTIR study that pMMO is an alpha-helical bundle with ca. 15 transmembrane alpha-helices embedded in the bilayer membrane, together with a water-exposed domain comprised mostly of beta-sheet structures similar to the cupredoxins.

  19. Product operator descriptions of the 2D DEPT J-resolved NMR experiment for weakly coupled ISn (I=\\frac{1}{2}, S=\\frac{3}{2}; n=1, 2, 3) spin systems

    NASA Astrophysics Data System (ADS)

    Tokatlı, Ahmet; Bahçeli, Semiha

    2010-02-01

    There are a variety of multi-pulse nuclear magnetic resonance (NMR) experiments for spectral assignment of complex molecules in a solution. The two-dimensional (2D) distortionless enhancement by polarization transfer (DEPT) J-resolved NMR experiment is a 13C-detected, spectral editing polarization transfer technique. The product operator theory is widely used for an analytical description of the multi-pulse NMR experiment for weakly coupled spin systems. In this study, analytical descriptions of the 2D DEPT J-resolved NMR experiment for weakly coupled ISn (I=\\textstyle{\\frac{1}{2}}, S=\\textstyle{\\frac{3}{2}} ; n=1, 2, 3) spin systems using the product operator theory have been introduced for the first time. The calculated intensities and positions of the observable signals are simulated for molecules containing [13C (I=\\textstyle{\\frac{1}{2}}) , 81Br (S=\\textstyle{\\frac{3}{2}})] nuclei by using a MAPLE program on a computer. Finally, we present a theoretical discussion and experimental suggestions.

  20. Characterisation Of Polysacharides And Lipids From Selected Green Algae Species By FTIR-ATR Spectroscopy

    NASA Astrophysics Data System (ADS)

    Bartošová, Alica; Blinová, Lenka; Gerulová, Kristína

    2015-06-01

    Fourier transform infrared (FTIR) spectroscopy was used in this study to identify and determine spectral features of Chromochloris zofingiensis (Dönz) Fucíková et L.A. Lewis (SAG 211-14, Gottingen, Germany), Acutodesmus obliguus (Turpin) Hegewald (SAG 276-1, Gottingen, Germany) and Chlorella sorokiniana (K. Brandt) Pröschold et Darienko (SAG 211-40c, Gottingen, Germany). Polysaccharides and lipids from these three algae species were determined using Fourier Transformed Infrared Spectroscopy (FTIR) with ATR accessory with diamante crystal in spectral range from 400 - 4000 cm-1 and resolution 4.

  1. Structure-Activity Relations In Enzymes: An Application Of IR-ATR Modulation Spectroscopy

    NASA Astrophysics Data System (ADS)

    Fringeli, Urs P.; Ahlstrom, Peter; Vincenz, Claudius; Fringeli, Marianna

    1985-12-01

    Relations between structure and specific activity in immobilized acetylcholinesterase (ACNE) have been studied by means of pH- and Ca++-modulation technique combined with attenuated total reflection (ATR) infrared (IR) spectroscopy and enzyme activity measurement. Periodic modulation of pH and Ca++-concentration enabled a periodic on-off switching of about 40% of the total enzyme activity. It was found that about 0.5 to 1% of the amino acids were involved in this process. These 15 to 30 amino acids assumed antiparallel pleated sheet structure in the inhibited state and random and/or helical structure in the activated state.

  2. [Analysis of FT-IR-ATR spectra of serum proteins adsorbed on carbonaceous materials].

    PubMed

    Li, Bogang; Na, Juanjuan; Yin, Jie; Yin, Guangfu

    2006-10-01

    To clarify the reason causing difference of serum proteins adsorbability on different carbonaceous materials, FT-IR-ATR spectra of human serum albumin (HSA) and human serum fibrinogen(HFG) before and after adsorbing on diamond like carbon film (DLC),diamond film (DF) and graphite were analyzed. It has been shown that there are hydrogen bond because of -NH at the interfaces of HSA-DLC, HFG-DF and HFG-graphite. Based on the results, earlier research conclusion that the adsorbability of HSA on DLC higher than that on DF and graphite, but on DF and graphite the adsorption of HFG takes precedence can be explained rationally.

  3. Registration of heavy metal ions and pesticides with ATR planar waveguide enzyme sensors

    NASA Astrophysics Data System (ADS)

    Nabok, Alexei; Haron, Saharudin; Ray, Asim

    2004-11-01

    The proposed novel type of enzyme optical sensors is based on a combination of SiO2/Si3N4/SiO2 planar waveguide ATR (attenuated total reflection) transducer, fabricated by standard silicon planar technology, with the composite polyelectrolyte self-assembled coating containing both organic chromophores and enzyme molecules. Such devices were deployed to monitor typical industrial and agricultural water pollutants, such as heavy metal ions and pesticides, acting as inhibitors of enzyme reactions. The sensitivity of registration of these pollutants in the range of 1 ppb was achieved. The use of different enzymes in the sensitive membrane provides a background for pattern recognition of the above pollutants.

  4. Identification of herbarium whole-leaf samples of Epilobium species by ATR-IR spectroscopy.

    PubMed

    Strgulc Krajsek, Simona; Buh, Primoz; Zega, Anamarija; Kreft, Samo

    2008-02-01

    A simple, high-accuracy FT-IR method based on attenuated total reflection (ATR) was developed for the rapid determination of leaf samples of Epilobium species. The method is superior to other analytical techniques, since there is no need of laborious sample preparation such as grinding or extraction and solvent removal. A total of 70 herbarium specimens, belonging to all 13 Epilobium and to 2 Chamerion species growing in Slovenia, were analyzed. With the 100 most-informative wavenumbers in the range 700-1800 cm(-1), we obtained over 90% accuracy of species identification, with discriminant multivariate statistical analysis on the measurements made on whole dried leaves. PMID:18293444

  5. AGR-2 Data Qualification Report for ATR Cycles 149B, 150A, 150B, 151A, and 151B

    SciTech Connect

    Michael L. Abbott; Binh T. Pham

    2012-06-01

    This report provides the data qualification status of AGR-2 fuel irradiation experimental data from Advanced Test Reactor (ATR) cycles 149B, 150A, 150B, 151A, and 151B), as recorded in the Nuclear Data Management and Analysis System (NDMAS). The AGR-2 data streams addressed include thermocouple temperatures, sweep gas data (flow rate, pressure, and moisture content), and fission product monitoring system (FPMS) data for each of the six capsules in the experiment. A total of 3,307,500 5-minute thermocouple and sweep gas data records were received and processed by NDMAS for this period. There are no AGR-2 data for cycle 150A because the experiment was removed from the reactor. Of these data, 82.2% were determined to be Qualified based on NDMAS accuracy testing and data validity assessment. There were 450,557 Failed temperature records due to thermocouple failures, and 138,528 Failed gas flow records due to gas flow cross-talk and leakage problems that occurred in the capsules after cycle 150A. For FPMS data, NDMAS received and processed preliminary release rate and release-to-birth rate ratio (R/B) data for the first three reactor cycles (cycles 149B, 150B, and 151B). This data consists of 45,983 release rate records and 45,235 R/B records for the 12 radionuclides reported. The qualification status of these FPMS data has been set to In Process until receipt of QA-approved data generator reports. All of the above data have been processed and tested using a SAS®-based enterprise application software system, stored in a secure Structured Query Language database, and made available on the NDMAS Web portal (http://ndmas.inl.gov) for both internal and external VHTR project participants.

  6. Investigation on the adsorption characteristics of sodium benzoate and taurine on gold nanoparticle film by ATR-FTIR spectroscopy

    NASA Astrophysics Data System (ADS)

    Kumar, Naveen; Thomas, S.; Tokas, R. B.; Kshirsagar, R. J.

    2014-01-01

    Fourier transform infrared (FTIR) spectroscopic studies of sodium benzoate and taurine adsorbed on gold nanoparticle (AuNp) film on silanised glass slides have been studied by attenuated total reflection technique (ATR). The surface morphology of the AuNp films has been measured by Atomic Force Microscopy. The ATR spectra of sodium benzoate and taurine deposited on AuNp film are compared with ATR spectra of their powdered bulk samples. A new red-shifted band appeared along with the symmetric and asymmetric stretches of carboxylate group of sodium benzoate leading to a broadening of the above peaks. Similar behavior is also seen in the case of symmetric and asymmetric stretches of sulphonate group of taurine. The results indicate presence of both chemisorbed and physisorbed layers of both sodium benzoate and taurine on the AuNp film with bottom layer chemically bound to AuNp through carboxylate and sulphonate groups respectively.

  7. Molecular orientation of molybdate ions adsorbed on goethite nanoparticles revealed by polarized in situ ATR-IR spectroscopy

    NASA Astrophysics Data System (ADS)

    Davantès, Athénaïs; Lefèvre, Grégory

    2016-11-01

    The speciation of species adsorbed on nanoparticles is a major concern for several fields, as environmental pollution and remediation, surface functionalization, or catalysis. Attenuated total reflectance infrared spectroscopy (ATR-IR) was amongst the rare methods able to give in situ information about the geometry of surface complexes on nanoparticles. A new possibility using this technique is illustrated here with the MoO42 -/goethite system. Using deuterated goethite to avoid spectral interferences, adsorption of molybdate ions on a spontaneous oriented film of nanoparticles has been followed using a polarized infrared beam. From the decomposition of spectra in the x, y and z directions, a monodentate surface complex on the {101} faces has been found as the most probable geometry. This result demonstrates that polarized ATR-IR allows to characterize in more details adsorption mode at the atomic scale, in comparison with usual ATR-IR spectroscopy.

  8. Attenuated total reflection Fourier transform infrared (ATR-FTIR) spectroscopic analysis of regenerated bone

    NASA Astrophysics Data System (ADS)

    Benetti, Carolina; Kazarain, Sergei G.; Alves, Marco A. V.; Blay, Alberto; Correa, Luciana; Zezell, Denise M.

    2014-03-01

    The cutting of bone is routinely required in medical procedures, especially in dental applications. In such cases, bone regeneration and new bone quality can determine the success of the treatment. This study investigated the main spectral differences of undamaged and healed bone using the ATR-FTIR spectroscopy technique. Three rabbits were submitted to a surgical procedure; a small piece of bone (3x3 mm2) was removed from both sides of their jaws using a high speed drill. After 15 days, the rabbits were euthanized and the jaws were removed. A bone slice was cut from each side of the jaw containing regions of undamaged and newly formed bone, resulting in six samples which were polished for spectroscopic comparison. The samples were analyzed by FTIR spectroscopy using a diamond ATR accessory. Spectral characteristics were compared and particular attention was paid to the proportion of phosphate to amide I bands and the width of the phosphate band. The results show that the ratio of phosphate to amide I is smaller in new bone tissue than in the undamaged bone, indicating a higher organic content in the newly formed bone. The analysis of the width of the phosphate band suggests a crystallinity difference between both tissues, since the width was higher in the new bone than in the natural bone. These results suggest that the differences observed in bone aging processes by FTIR spectroscopic can be applied to the study of healing processes.

  9. Evaluation of a mutation screening strategy for sporadic cases of ATR-X syndrome

    PubMed Central

    Villard, L.; Bonino, M.; Abidi, F.; Ragusa, A.; Belougne, J.; Lossi, A.; Seaver, L.; Bonnefont, J.; Romano, C.; Fichera, M.; Lacombe, D.; Hanauer, A.; Philip, N.; Schwartz, C.; Fontes, M.

    1999-01-01

    We report on the evaluation of a strategy for screening for XNP/ATR-X mutations in males with mental retardation and associated dysmorphology. Because nearly half of the mutations in this gene reported to date fall into a short 300 bp region of the transcript, we decided to focus in this region and to extend the mutation analysis to cases with a negative family history. This study includes 21 mentally retarded male patients selected because they had severe mental retardation and a typical facial appearance. The presence of haemoglobin H or urogenital abnormalities was not considered critical for inclusion in this study. We have identified six mutations which represents a mutation detection rate of 28%. This figure is high enough for us to propose this strategy as a valid first level of screening in a selected subset of males with mental retardation. This approach is simple, does not require RNA preparation, does not involve time consuming mutation detection methods, and can thus be applied to a large number of patients at a low cost in any given laboratory.


Keywords: mental retardation; ATR-X; mutation; zinc finger PMID:10204841

  10. ATR-FTIR measurements of albumin and fibrinogen adsorption: Inert versus calcium phosphate ceramics.

    PubMed

    Boix, Marcel; Eslava, Salvador; Costa Machado, Gil; Gosselin, Emmanuel; Ni, Na; Saiz, Eduardo; De Coninck, Joël

    2015-11-01

    Arthritis, bone fracture, bone tumors and other musculoskeletal diseases affect millions of people across the world. Nowadays, inert and bioactive ceramics are used as bone substitutes or for bone regeneration. Their bioactivity is very much dictated by the way proteins adsorb on their surface. In this work, we compared the adsorption of albumin and fibrinogen on inert and calcium phosphates ceramics (CaPs) using attenuated total reflection Fourier transform infrared spectroscopy (ATR-FTIR) to follow in situ protein adsorption on these materials. To this effect, we developed a sol-gel technique to control the surface chemistry of an ATR-FTIR detector. Hydroxyapatite adsorbed more albumin and β-tricalcium phosphate adsorbed more fibrinogen. Biphasic calcium phosphate presented the lowest adsorption among CaP for both proteins, illustrating the effect of surface heterogeneities. Inert ceramics adsorbed a lower amount of both proteins compared with bioactive ceramics. A significant change was observed in the conformation of the adsorbed protein versus the surface chemistry. Hydroxyapatite produced a larger loss of α-helix structure on albumin and biphasic calcium phosphate reduced β-sheet percentage on fibrinogen. Inert ceramics produced large α-helix loss on albumin and presented weak interaction with fibrinogen. Zirconia did not adsorb albumin and titanium dioxide promoted huge denaturalization of fibrinogen.

  11. New automated terrain and feature extraction approach for the Predator UAV TESAR ATR system

    NASA Astrophysics Data System (ADS)

    Rosario, Dalton S.

    1999-08-01

    This paper describes a technique recently developed for target detection and false alarm reduction for the Predator unmanned aerial vehicle (UAV) tactical endurance synthetic aperture radar (TESAR) automatic target recognition (ATR) system. The approach does not attempt to label various objects in the SAR image (i.e., buildings, trees, roads); instead, it finds target-like characteristics in the image and compares their statistical/spatial relationship to larger structures in the scene. To do this, the approach merges the output of multiple CFAR (constant false alarm ratio) surfaces through a sequence of mathematical morphology tests. The output is further tested by a 'smart' clustering procedure, which performs an object- size test. With the use of these CFAR surfaces, a methodical sequence of morphological tests will find and retain large structures in the scene and eliminate cues that fall within these structures. The presence of supporting shadow downrange from the sensor is also used to eliminate objects with heights not typical to those of targets. Finally, a fast procedure performs a size test on elongated streaks. This procedure allows long objects to be smartly clustered as a single object while ensuring target proximity scenarios have no performance degradation. Application of this false alarm mitigator/detector to the Predator's SAR ATR algorithm suite produced a stunning reduction of one order of magnitude in the number of cues yielded by its baseline detector. This performance was consistent in scenes having natural and/or cultural clutter.

  12. Diesel fuel processor for PEM fuel cells: Two possible alternatives (ATR versus SR)

    NASA Astrophysics Data System (ADS)

    Cutillo, A.; Specchia, S.; Antonini, M.; Saracco, G.; Specchia, V.

    There are large efforts in exploring the on-board reforming technologies, which would avoid the actual lack of hydrogen infrastructure and related safety issues. From this view point, the present work deals with the comparison between two different 10 kW e fuel processors (FP) systems for the production of hydrogen-rich fuel gas starting from diesel oil, based respectively on autothermal (ATR) and steam-reforming (SR) process and related CO clean-up technologies; the obtained hydrogen rich gas is fed to the PEMFC stack of an auxiliary power unit (APU). Based on a series of simulations with Matlab/Simulink, the two systems were compared in terms of FP and APU efficiency, hydrogen concentration fed to the FC, water balance and process scheme complexity. Notwithstanding a slightly higher process scheme complexity and a slightly more difficult water recovery, the FP based on the SR scheme, as compared to the ATR one, shows higher efficiency and larger hydrogen concentration for the stream fed to the PEMFC anode, which represent key issues for auxiliary power generation based on FCs as compared, e.g. to alternators.

  13. In vivo interstitial glucose characterization and monitoring in the skin by ATR-FTIR spectroscopy

    NASA Astrophysics Data System (ADS)

    Skrebova Eikje, Natalja

    2011-03-01

    Successful development of real-time non-invasive glucose monitoring would represent a major advancement not only in the treatment and management of patients with diabetes mellitus and carbohydrate metabolism disorders, but also for understanding in those biochemical, metabolic and (patho-)physiological processes of glucose at the molecular level in vivo. Here, ATR-FTIR spectroscopy technique has been challenged not only for in vivo measurement of interstitial glucose levels, but also for their non-invasive molecular qualitative and quantitative comparative characterization in the skin tissue. The results, based on calculated mean values of determined 5 glucose-specific peaks in the glucose-related 1000-1160 cm-1 region, showed intra- and inter-subject differences in interstitial glucose activity levels with their changes at different times and doses of OGTT, while raising questions about the relationships between interstitial and blood glucose levels. In conclusion, the introduction of ATR-FTIR spectroscopy technique has opened up an access to the interstitial fluid space in the skin tissue for interstitial glucose characterization and monitoring in vivo. Though interstitial versus blood glucose monitoring has different characteristics, it can be argued that accurate and precise measurements of interstitial glucose levels may be more important clinically.

  14. In-column ATR-FTIR spectroscopy to monitor affinity chromatography purification of monoclonal antibodies

    PubMed Central

    Boulet-Audet, Maxime; Kazarian, Sergei G.; Byrne, Bernadette

    2016-01-01

    In recent years many monoclonal antibodies (mAb) have entered the biotherapeutics market, offering new treatments for chronic and life-threatening diseases. Protein A resin captures monoclonal antibody (mAb) effectively, but the binding capacity decays over repeated purification cycles. On an industrial scale, replacing fouled Protein A affinity chromatography resin accounts for a large proportion of the raw material cost. Cleaning-in-place (CIP) procedures were developed to extend Protein A resin lifespan, but chromatograms cannot reliably quantify any remaining contaminants over repeated cycles. To study resin fouling in situ, we coupled affinity chromatography and Fourier transform infrared (FTIR) spectroscopy for the first time, by embedding an attenuated total reflection (ATR) sensor inside a micro-scale column while measuring the UV 280 nm and conductivity. Our approach quantified the in-column protein concentration in the resin bed and determined protein conformation. Our results show that Protein A ligand leached during CIP. We also found that host cell proteins bound to the Protein A resin even more strongly than mAbs and that typical CIP conditions do not remove all fouling contaminants. The insights derived from in-column ATR-FTIR spectroscopic monitoring could contribute to mAb purification quality assurance as well as guide the development of more effective CIP conditions to optimise resin lifespan. PMID:27470880

  15. Independent Review of AFC 2A, 2B, and 2E ATR Irradiation Tests

    SciTech Connect

    M. Cappiello; R. Hobbins; K. Penny; L. Walters

    2014-01-01

    As part of the Department of Energy Advanced Fuel Cycle program, a series of fuels development irradiation tests have been performed in the Advanced Test Reactor (ATR) at the Idaho National Laboratory. These tests are providing excellent data for advanced fuels development. The program is focused on the transmutation of higher actinides which best can be accomplished in a sodium-cooled fast reactor. Because a fast test reactor is no longer available in the US, a special test vehicle is used to achieve near-prototypic fast reactor conditions (neutron spectra and temperature) for use in ATR (a water-cooled thermal reactor). As part of the testing program, there were many successful tests of advanced fuels including metals and ceramics. Recently however, there have been three experimental campaigns using metal fuels that experienced failure during irradiation. At the request of the program, an independent review committee was convened to review the post-test analyses performed by the fuels development team, to assess the conclusions of the team for the cause of the failures, to assess the adequacy and completeness of the analyses, to identify issues that were missed, and to make recommendations for improvements in the design and operation of future tests. Although there is some difference of opinion, the review committee largely agreed with the conclusions of the fuel development team regarding the cause of the failures. For the most part, the analyses that support the conclusions are sufficient.

  16. Analytical characterization of polymers used in conservation and restoration by ATR-FTIR spectroscopy.

    PubMed

    Chércoles Asensio, Ruth; San Andrés Moya, Margarita; de la Roja, José Manuel; Gómez, Marisa

    2009-12-01

    In the last few decades many new polymers have been synthesized that are now being used in cultural heritage conservation. The physical and chemical properties and the long-term behaviors of these new polymers are determined by the chemical composition of the starting materials used in their synthesis along with the nature of the substances added to facilitate their production. The practical applications of these polymers depend on their composition and form (foam, film, sheets, pressure-sensitive adhesives, heat-seal adhesives, etc.). Some materials are used in restoration works and others for the exhibition, storage and transport of works of art. In all cases, it is absolutely necessary to know their compositions. Furthermore, many different materials that are manufactured for other objectives are also used for conservation and restoration. The technical information about the materials provided by the manufacturer is usually incomplete, so it is necessary to analytically characterize such materials. FTIR spectrometry is widely used for polymer identification, and, more recently, ATR-FTIR has been shown to give excellent results. This paper reports the ATR-FTIR analysis of samples of polymeric materials used in the conservation of artworks. These samples were examined directly in the solid material without sample preparation.

  17. IKK and NF-kappaB-mediated regulation of Claspin impacts on ATR checkpoint function.

    PubMed

    Kenneth, Niall Steven; Mudie, Sharon; Rocha, Sonia

    2010-09-01

    In response to replication stress, Claspin mediates the phosphorylation and activation of Chk1 by ATR. Claspin is not only necessary for the propagation of the DNA-damage signal, but its destruction by the ubiquitin-proteosome pathway is required to allow the cell to continue the cell cycle allowing checkpoint recovery. Here, we demonstrate that both the NF-kappaB family of transcription factors and their upstream kinase IKK can regulate Claspin levels by controlling its mRNA expression. Furthermore, we show that c-Rel directly controls Claspin gene transcription. Disruption of IKK and specific NF-kappaB members impairs ATR-mediated checkpoint function following DNA damage. Importantly, hyperactivation of IKK results in a failure to inactivate Chk1 and impairs the recovery from the DNA checkpoint. These results uncover a novel function for IKK and NF-kappaB modulating the DNA-damage checkpoint response, allowing the cell to integrate different signalling pathways with the DNA-damage response.

  18. ATR-FTIR microscopy in mapping mode for the study of verdigris and its secondary products

    NASA Astrophysics Data System (ADS)

    Prati, S.; Bonacini, I.; Sciutto, G.; Genty-Vincent, A.; Cotte, M.; Eveno, M.; Menu, M.; Mazzeo, R.

    2016-01-01

    To study degradation processes occurring on painting materials, the use of high-resolution micro-analytical techniques is highly requested since it provides a detailed identification and localisation of both the original and deteriorated ingredients. Among the various pigments recently studied, the characterisation of verdigris has received a major interest. This pigment has not a unique chemical formula, but its composition depends on the recipe employed for its manufacturing. Moreover, verdigris paints are not stable and are subject to a colour change from blue-green to green, which occurs in the first few months after the application. In this paper, we focused our attention on the use of ATR-FTIR mapping as a useful method to identify verdigris secondary products and pathways. Several mock-ups and real samples have been analysed, and the correlation among the detected compounds and their spatial location, obtained by the application of ATR-FTIR microscopy in mapping mode, allowed formulating some hypotheses on the degradation pattern of verdigris, which may feed the discussion on the transformation and stability of this pigment. From an analytical point of view, we showed how FTIR mapping approaches may be extremely useful both for the identification of compounds in complex matrix in which single spectra may limit the exhaustive characterisations due to bands overlapping and for the study of degradation pathways by taking into consideration the relative distribution of degradation products.

  19. In-column ATR-FTIR spectroscopy to monitor affinity chromatography purification of monoclonal antibodies.

    PubMed

    Boulet-Audet, Maxime; Kazarian, Sergei G; Byrne, Bernadette

    2016-01-01

    In recent years many monoclonal antibodies (mAb) have entered the biotherapeutics market, offering new treatments for chronic and life-threatening diseases. Protein A resin captures monoclonal antibody (mAb) effectively, but the binding capacity decays over repeated purification cycles. On an industrial scale, replacing fouled Protein A affinity chromatography resin accounts for a large proportion of the raw material cost. Cleaning-in-place (CIP) procedures were developed to extend Protein A resin lifespan, but chromatograms cannot reliably quantify any remaining contaminants over repeated cycles. To study resin fouling in situ, we coupled affinity chromatography and Fourier transform infrared (FTIR) spectroscopy for the first time, by embedding an attenuated total reflection (ATR) sensor inside a micro-scale column while measuring the UV 280 nm and conductivity. Our approach quantified the in-column protein concentration in the resin bed and determined protein conformation. Our results show that Protein A ligand leached during CIP. We also found that host cell proteins bound to the Protein A resin even more strongly than mAbs and that typical CIP conditions do not remove all fouling contaminants. The insights derived from in-column ATR-FTIR spectroscopic monitoring could contribute to mAb purification quality assurance as well as guide the development of more effective CIP conditions to optimise resin lifespan. PMID:27470880

  20. In-column ATR-FTIR spectroscopy to monitor affinity chromatography purification of monoclonal antibodies

    NASA Astrophysics Data System (ADS)

    Boulet-Audet, Maxime; Kazarian, Sergei G.; Byrne, Bernadette

    2016-07-01

    In recent years many monoclonal antibodies (mAb) have entered the biotherapeutics market, offering new treatments for chronic and life-threatening diseases. Protein A resin captures monoclonal antibody (mAb) effectively, but the binding capacity decays over repeated purification cycles. On an industrial scale, replacing fouled Protein A affinity chromatography resin accounts for a large proportion of the raw material cost. Cleaning-in-place (CIP) procedures were developed to extend Protein A resin lifespan, but chromatograms cannot reliably quantify any remaining contaminants over repeated cycles. To study resin fouling in situ, we coupled affinity chromatography and Fourier transform infrared (FTIR) spectroscopy for the first time, by embedding an attenuated total reflection (ATR) sensor inside a micro-scale column while measuring the UV 280 nm and conductivity. Our approach quantified the in-column protein concentration in the resin bed and determined protein conformation. Our results show that Protein A ligand leached during CIP. We also found that host cell proteins bound to the Protein A resin even more strongly than mAbs and that typical CIP conditions do not remove all fouling contaminants. The insights derived from in-column ATR-FTIR spectroscopic monitoring could contribute to mAb purification quality assurance as well as guide the development of more effective CIP conditions to optimise resin lifespan.

  1. Advanced Test Reactor Testing Experience: Past, Present and Future

    SciTech Connect

    Frances M. Marshall

    2005-04-01

    The Advanced Test Reactor (ATR), at the Idaho National Laboratory (INL), is one of the world’s premier test reactors for providing the capability for studying the effects of intense neutron and gamma radiation on reactor materials and fuels. The physical configuration of the ATR, a 4-leaf clover shape, allows the reactor to be operated at different power levels in the corner “lobes” to allow for different testing conditions for multiple simultaneous experiments. The combination of high flux (maximum thermal neutron fluxes of 1E15 neutrons per square centimeter per second and maximum fast [E>1.0 MeV] neutron fluxes of 5E14 neutrons per square centimeter per second) and large test volumes (up to 48" long and 5.0" diameter) provide unique testing opportunities. The current experiments in the ATR are for a variety of test sponsors -- US government, foreign governments, private researchers, and commercial companies needing neutron irradiation services. There are three basic types of test configurations in the ATR. The simplest configuration is the sealed static capsule, wherein the target material is placed in a capsule, or plate form, and the capsule is in direct contact with the primary coolant. The next level of complexity of an experiment is an instrumented lead experiment, which allows for active monitoring and control of experiment conditions during the irradiation. The highest level of complexity of experiment is the pressurized water loop experiment, in which the test sample can be subjected to the exact environment of a pressurized water reactor. For future research, some ATR modifications and enhancements are currently planned. This paper provides more details on some of the ATR capabilities, key design features, experiments, and future plans.

  2. Image Data Processing System (IDAPS) user manual, S-056 experiment. Volume 1: System description. Volume 2: Batch IDAPS. Volume 3: Interactive IDAPS

    NASA Technical Reports Server (NTRS)

    1975-01-01

    Image data processing system (IDAPS) developed to satisfy the image processing requirements of the Skylab S-056 experiment is described. The S-056 experiment was designed to obtain high-resolution photographs of the sun in the far ultraviolet, or soft X-ray, portion of the electromagnetic spectrum. Thirty-five thousand photographs were obtained by the three flights of the program; and, faced with such a massive volume of imagery, the designers of the experiment decided to develop a computer-based system which would reduce the image processing workload. The purpose of the IDAPS User Manual is to give the IDAPS user the necessary information and instructions to effectively utilize the system.

  3. XPS, SIMS and FTIR-ATR characterization of boronized graphite from the thermonuclear plasma device RFX-mod

    NASA Astrophysics Data System (ADS)

    Ghezzi, F.; Laguardia, L.; Caniello, R.; Canton, A.; Dal Bello, S.; Rais, B.; Anderle, M.

    2015-11-01

    In this paper the characterization of a thin (tens of nanometers) boron layer on fine grain polycrystalline graphite substrate is presented. The boron film is used as conditioning technique for the full graphite wall of the Reversed Field eXperiment-modified (RFX-mod) experiment, a device for the magnetic confinement of plasmas of thermonuclear interest. Aim of the present analysis is to enlighten the chemical structure of the film, the trapping mechanism that makes it a getter for oxygen and hydrogen and the reason of its loss of effectiveness after exposure to about 100 s of hydrogen plasma. X-ray Photoelectron Spectroscopy (XPS), Secondary Ions Mass Spectrometry (SIMS) and Fourier Transform Infra Red spectroscopy in combination with the Attenuated Total Reflectance (FTIR-ATR) were used to obtain the structure and the chemical composition of graphitic samples as coated or coated and subsequently exposed to hydrogen plasma after boron deposition. The boron layers on the only coated samples were found to be amorphous hydrogenated boron carbide plus a variety of bonds like B-B, B-H, B-O, B-OH, C-C, C-H, C-O, C-OH. Both the thickness and the homogeneity of the layers were found to depend on the distance of the sample from the anode during the deposition. The samples contained oxygen along the layer thickness, at level of 5%, bound to boron. The gettering action of the boron is therefore already active during the deposition itself. The exposure to plasma caused erosion of the boron film and higher content of H and O bound to boron throughout the whole thickness. The interaction of the B layer with plasma is therefore a bulk phenomenon.

  4. The Experience of Mothers and Teachers of Attention Deficit/Hyperactivity Disorder Children, and Their Management Practices for the Behaviors of the Child a Descriptive Phenomenological Study

    ERIC Educational Resources Information Center

    Harazni, Lubna; Alkaissi, Aidah

    2016-01-01

    ADHD (attention deficit hyperactivity disorder) is a childhood disorder affecting children worldwide and has a major burden on the child, family and other caregivers. Aim: The aim of this study is to investigate and describe the experience of the adults that interact on a daily basis with school-aged children with Attention Deficit Hyperactivity…

  5. Assessment of XM-19 as a Substitute for AISI 348 in ATR Service

    SciTech Connect

    F. A. Garner; L. R. Greenwood; R. E. Mizia; C. R. Tyler

    2007-11-01

    It has been proposed that XM-19 alloy be considered as a possible replacement steel for AISI 348 in the construction of Advanced Test Reactor (ATR) capsules. AISI 348 works well, but is currently very difficult to obtain commercially. The superior and desirable mechanical properties of XM-19 alloy have been proven in non-nuclear applications, but no data are available regarding its use in radiation environments. While most 300 series alloys will meet the conditions required in ATR , it cannot be confidently assumed that XM-19 can be substituted without prior qualification in a radiation test. Compared to AISI 348, XM-19 will have an enhanced tendency for phase instabilities due to its higher levels of Ni and, especially, Si. However, transmutation of important elemental components in the highly thermalized ATR spectrum may have a very pronounced effect on its performance during irradiation. Not only will strong transmutation of Mn to Fe reduce the ductility and strength advantages provided by the higher initial Mn content of XM-19, but the extensive loss of Mn will also release from solution much of the N upon which the higher strength of XM-19 depends. In addition, the combined influence of transmutation and Inverse Kirkendall processes may lead to gas-bubble-covered grain boundaries, producing a very fragile alloy after significant irradiation has accumulated. At present, there are no radiation data available to substantiate this possible scenario. An alternate proposal is therefore advanced. Since the response of AISI 348 and 347 to radiation are expected to be relatively indistinguishable, the AISI 347 might serve as an acceptable replacement. While AISI 348 is usually chosen for nuclear service in order to reduce the overall radioactivity arising from relatively small amounts of highly transmutable elements such as cobalt, these elements have very little effect on the radiation performance of the steel. In the proposed application, however, the activity

  6. Formation of assemblies comprising Ru-polypyridine complexes and CdSe nanocrystals studied by ATR-FTIR spectroscopy and DFT modeling.

    PubMed

    Koposov, Alexey Y; Cardolaccia, Thomas; Albert, Victor; Badaeva, Ekaterina; Kilina, Svetlana; Meyer, Thomas J; Tretiak, Sergei; Sykora, Milan

    2011-07-01

    The interaction between CdSe nanocrystals (NCs) passivated with trioctylphosphine oxide (TOPO) ligands and a series of Ru-polypyridine complexes-[Ru(bpy)(3)](PF(6))(2) (1), [Ru(bpy)(2)(mcb)](PF(6))(2) (2), [Ru(bpy)(mcb)(2)](BarF)(2) (3), and [Ru(tpby)(2)(dcb)](PF(6))(2) (4) (where bpy = 2,2'-bipyridine, mcb = 4-carboxy-4'-methyl-2,2'-bipyridine, tbpy = 4,4'-di-tert-butyl-2,2'-bipyridine; dcb = 4,4'-dicarboxy-2,2'-bipyridine, and BarF = tetrakis[3,5-bis(trifluoromethyl)phenyl]borate)-was studied by attenuated total reflectance FTIR (ATR-FTIR) and modeled using density functional theory (DFT). ATR-FTIR studies reveal that when the solid film of NCs is exposed to an acetonitrile solution of 2, 3, or 4, the complexes chemically bind to the NC surface through their carboxylic acid groups, replacing TOPO ligands. The corresponding spectral changes are observed on a time scale of minutes. In the case of 2, the FTIR spectral changes clearly show that the complex adsorption is associated with a loss of proton from the carboxylic acid group. In the case of 3 and 4, deprotonation of the anchoring group is also detected, while the second, "spectrator" carboxylic acid group remains protonated. The observed energy difference between the symmetric, ν(s), and asymmetric, ν(as), stretch of the deprotonated carboxylic acid group suggests that the complexes are bound to the NC surface via a bridging mode. The results of DFT modeling are consistent with the experiment, showing that for the deprotonated carboxylic acid group the coupling to two Cd atoms via a bridging mode is the energetically most favorable mode of attachment for all nonequivalent NC surface sites and that the attachment of the protonated carboxylic acid is thermodynamically significantly less favorable. PMID:21627143

  7. Depolarization measurements on the ATS-6 20 GHz downlink A description of the VPI&SU experiment and some initial results. [meteorological precipitation effects

    NASA Technical Reports Server (NTRS)

    Bostian, C. W.; Stutzman, W. L.; Manus, E. A.; Wiley, P. H.; Marshall, R. E.

    1975-01-01

    The experiment considered is mainly concerned with the depolarizing effects of precipitation at millimeter wavelengths. Excessive depolarization introduces cross talk into communication systems which employ orthogonal polarization for frequency reuse. An understanding of atmospheric depolarization phenomena is, therefore, required for the design of future earth-satellite communications systems. Attenuation and cross polarization ratio data obtained under various meteorological conditions, including rain and a snowstorm, are presented.

  8. Photoinduced Graft-Polymerization of Acrylic Acid on Polyethylene and Polypropylene Surfaces: Comparative Study Using IR-ATR Spectroscopy

    NASA Astrophysics Data System (ADS)

    Gorbachev, A. A.; Tretinnikov, O. N.; Shkrabatovskaya, L. V.; Prikhodchenko, L. K.

    2014-11-01

    Photoinduced graft-polymerization of acrylic acid on the surface of polyethylene and polypropylene films containing a photoinitiator pre-adsorbed from a thin layer of non-de-aerated aqueous monomer solution was investigated. Data about the monomer conversion and grafting depth as functions of the UV irradiation time and polymer nature were obtained using IR-ATR spectroscopy.

  9. Stability of indomethacin with relevance to the release from amorphous solid dispersions studied with ATR-FTIR spectroscopic imaging.

    PubMed

    Ewing, Andrew V; Clarke, Graham S; Kazarian, Sergei G

    2014-08-18

    This work presents the use of attenuated total reflection Fourier transform infrared (ATR-FTIR) spectroscopy and spectroscopic imaging to study the stability and dissolution behaviour of amorphous solid dispersions (ASDs). ASDs are employed to improve the bioavailability of drugs which are poorly soluble in aqueous solutions. Selecting the appropriate polymeric excipients for use in pharmaceutical tablets is crucial to control drug stability and subsequent release. In this study, indomethacin was used as a model poorly-aqueous soluble drug since the amorphous-form has improved dissolution properties over its crystalline forms. ASDs of indomethacin/polyethylene glycol (PEG) and indomethacin/hydroxypropyl methylcellulose (HPMC) in a 1:3 wt ratio were compared. Firstly, ATR-FTIR spectroscopy was employed to monitor the stability of indomethacin in the ASDs over 96 h. While the indomethacin/HPMC ASD showed the ability to maintain the amorphous indomethacin form for longer periods of time, ATR-FTIR spectra revealed that indomethacin in the drug/PEG ASD crystallised to the stable γ-form, via the α-form. Secondly, ATR-FTIR spectroscopic imaging was used to study the dissolution of ASD tablets in a phosphate buffer (pH 7.5). Crystallisation of amorphous indomethacin was characterised in the spectra collected during the dissolution of the indomethacin/PEG ASD which consequently hindered release into the surrounding solution. In contrast, release of amorphous indomethacin was more effective from HPMC.

  10. The ATR-mediated S phase checkpoint prevents rereplication in mammalian cells when licensing control is disrupted.

    PubMed

    Liu, Enbo; Lee, Alan Yueh-Luen; Chiba, Takuya; Olson, Erin; Sun, Peiqing; Wu, Xiaohua

    2007-11-19

    DNA replication in eukaryotic cells is tightly controlled by a licensing mechanism, ensuring that each origin fires once and only once per cell cycle. We demonstrate that the ataxia telangiectasia and Rad3 related (ATR)-mediated S phase checkpoint acts as a surveillance mechanism to prevent rereplication. Thus, disruption of licensing control will not induce significant rereplication in mammalian cells when the ATR checkpoint is intact. We also demonstrate that single-stranded DNA (ssDNA) is the initial signal that activates the checkpoint when licensing control is compromised in mammalian cells. We demonstrate that uncontrolled DNA unwinding by minichromosome maintenance proteins upon Cdt1 overexpression is an important mechanism that leads to ssDNA accumulation and checkpoint activation. Furthermore, we show that replication protein A 2 and retinoblastoma protein are both downstream targets for ATR that are important for the inhibition of DNA rereplication. We reveal the molecular mechanisms by which the ATR-mediated S phase checkpoint pathway prevents DNA rereplication and thus significantly improve our understanding of how rereplication is prevented in mammalian cells. PMID:18025301

  11. Interaction of two different types of membrane proteins with model membranes investigated by FTIR ATR spectroscopy

    NASA Astrophysics Data System (ADS)

    Siam, M.; Reiter, G.; Schwarzott, M.; Baurecht, D.; Fringeli, U. P.

    1998-06-01

    Polarized FTIR ATR spectroscopy was used to investigate the interaction of mitochondrial creatine kinase (Mi-CK) and intestinal alkaline phosphatase (AP) with model membrane assemblies. Mi-CK was immobilized by adsorption to the negatively charged cardiolipin (CL) leaflet of a supported CL/DPPA bilayer. H-D-exchange of the enzyme and the stability under flowthrough conditions of the protein/membrane assembly were examined. AP, however, was bound to a DPPA Langmuir-Blodgett layer (LBL), followed by the completion of a bilayer-like structure by adsorption of POPC molecules from a vesicular solution. It turned out that the POPC adsorbate exhibited decreased molecular order compared to the POPC molecules on a supported POPC/DPPA bilayer. Enzymatic activity of immobilized AP was determined with p-nitrophenyl phosphate (p-NPP) as substrate and remained unchanged for at least 2 days.

  12. Direct interaction between cholesterol and phosphatidylcholines in hydrated membranes revealed by ATR-FTIR spectroscopy.

    PubMed

    Arsov, Zoran; Quaroni, Luca

    2007-11-01

    By using attenuated total reflection Fourier transform infrared (ATR-FTIR) spectroscopy and curve fitting we have examined temperature dependence and composition dependence of the shape of the carbonyl band in phosphatidylcholine/cholesterol model membranes. Membranes were hydrated either in excess water or in excess deuterated water. The studied binary mixtures exhibit different lipid phases at appropriate temperature and amount of cholesterol, among them also the so-called liquid-ordered phase. The results confirm that cholesterol has a significant indirect influence on the carbonyl band through conformational and hydration effects. This influence was interpreted in view of the known temperature composition phase diagrams for inspected binary mixtures. In addition, direct interaction was observed, which could point to the presence of hydrogen bond between cholesterol and carbonyl group. This direct interaction, though weak, might play at least a partial role in the stabilization of cholesterol-rich lipid domains in model and biological membranes. PMID:17662974

  13. Mobility and surfactant migration in EA/MAA latex films; ATR FT-IR spectroscopic study

    SciTech Connect

    Thorstenson, T.A.; Tebelius, L.K.; Urban, M.W.

    1993-12-31

    Although numerous factors such as compatibility, mechanical deformation, and the nature of the substrate have been addressed with respect to surfactant migration and distribution within latex films, latex suspension stability and the effects of particle flocculation are also key issues. In this paper, surfactant behavior in an ethyl acrylate/methacrylic acid/sodium dioctyl sulfosuccinate (EA/MAA/SDOSS) latex system is monitored as a function of stability of the liquid latex suspensions. Particle size data obtained using light scattering reveals an appreciable degree of flocculation over the period of study. It is found that flocculation is paralleled by a significantly increased degree of interfacial surfactant enrichment, a monitored by attenuated total reflectance Fourier transform infrared spectroscopy (ATR FT-IR). It is concluded that the enhanced surfactant exudation observed for flocculated latexes is due to displacement of adsorbed surfactant during the course of flocculation.

  14. FTIR-ATR evaluation of topical skin protectants useful for sulfur mustard and related compounds

    NASA Astrophysics Data System (ADS)

    Braue, Ernest H., Jr.; Litchfield, Marty R.; Bangledorf, Catherine R.; Rieder, Robert G.

    1992-03-01

    The US Army has a need to develop topical protectants that can decrease the effects of cutaneous exposure to chemical warfare (CW) agents. Such materials would enhance a soldier's ability to carry out the mission in a chemically hostile environment, would lessen the burden on medical personnel, and may allow the casualties to return to duty in a shorter period of time than might otherwise be possible. In a preliminary report (E. H. Braue, Jr. and M. G. Pannella, Applied Spectrosc., 44, 1061 (1990)), we described a unique analytical method using FT-IR spectroscopy and the horizontal attenuated total reflectance (ATR) accessory for evaluating the effectiveness of topical skin protectants (TSPs) against penetration by chemical agents. We now describe the application of this method to the chemical warfare agent sulfur mustard (HD).

  15. ATR and a Chk1-Aurora B pathway coordinate postmitotic genome surveillance with cytokinetic abscission

    PubMed Central

    Mackay, Douglas R.; Ullman, Katharine S.

    2015-01-01

    Aurora B regulates cytokinesis timing and plays a central role in the abscission checkpoint. Cellular events monitored by this checkpoint are beginning to be elucidated, yet signaling pathways upstream of Aurora B in this context remain poorly understood. Here we reveal a new connection between postmitotic genome surveillance and cytokinetic abscission. Underreplicated DNA lesions are known to be transmitted through mitosis and protected in newly formed nuclei by recruitment of 53BP1 and other proteins until repair takes place. We find that this genome surveillance initiates before completion of cytokinesis. Elevating replication stress increases this postmitotic process and delays cytokinetic abscission by keeping the abscission checkpoint active. We further find that ATR activity in midbody-stage cells links postmitotic genome surveillance to abscission timing and that Chk1 integrates this and other signals upstream of Aurora B to regulate when the final step in the physical separation of daughter cells occurs. PMID:25904336

  16. Analysis of H2O in silicate glass using attenuated total reflectance (ATR) micro-FTIR spectroscopy

    USGS Publications Warehouse

    Lowenstern, Jacob B.; Pitcher, Bradley W.

    2013-01-01

    We present a calibration for attenuated total reflectance (ATR) micro-FTIR for analysis of H2O in hydrous glass. A Ge ATR accessory was used to measure evanescent wave absorption by H2O within hydrous rhyolite and other standards. Absorbance at 3450 cm−1 (representing total H2O or H2Ot) and 1630 cm−1 (molecular H2O or H2Om) showed high correlation with measured H2O in the glasses as determined by transmission FTIR spectroscopy and manometry. For rhyolite, wt%H2O=245(±9)×A3450-0.22(±0.03) and wt%H2Om=235(±11)×A1630-0.20(±0.03) where A3450 and A1630 represent the ATR absorption at the relevant infrared wavelengths. The calibration permits determination of volatiles in singly polished glass samples with spot size down to ~5 μm (for H2O-rich samples) and detection limits of ~0.1 wt% H2O. Basaltic, basaltic andesite and dacitic glasses of known H2O concentrations fall along a density-adjusted calibration, indicating that ATR is relatively insensitive to glass composition, at least for calc-alkaline glasses. The following equation allows quantification of H2O in silicate glasses that range in composition from basalt to rhyolite: wt%H2O=(ω×A3450/ρ)+b where ω = 550 ± 21, b = −0.19 ± 0.03, ρ = density, in g/cm3, and A3450 is the ATR absorbance at 3450 cm−1. The ATR micro-FTIR technique is less sensitive than transmission FTIR, but requires only a singly polished sample for quantitative results, thus minimizing time for sample preparation. Compared with specular reflectance, it is more sensitive and better suited for imaging of H2O variations in heterogeneous samples such as melt inclusions. One drawback is that the technique can damage fragile samples and we therefore recommend mounting of unknowns in epoxy prior to polishing. Our calibration should hold for any Ge ATR crystals with the same incident angle (31°). Use of a different crystal type or geometry would require measurement of several H2O-bearing standards to provide a crystal

  17. Rapid detection of NBOME's and other NPS on blotter papers by direct ATR-FTIR spectrometry.

    PubMed

    Coelho Neto, José

    2015-07-01

    Blotter paper is among the most common forms of consumption of new psychotropic substances (NPS), formerly referred as designer drugs. In many cases, users are misled to believe they are taking LSD when, in fact, they are taking newer and less known drugs like the NBOMEs or other substituted phenethylamines. We report our findings in quick testing of blotter papers for illicit substances like NBOMEs and other NPS by taking ATR-FTIR spectra directly from blotters seized on the streets, without any sample preparation. Both sides (front and back) of each blotter were tested. Collected data were analyzed by single- and multi-component spectral matching and submitted to chemometric discriminant analysis. Our results showed that, on 66.7% of the cases analyzed, seized blotters contained one or more types of NBOMEs, confirming the growing presence of this novel substances on the market. Matching IR signals were detected on both or just one side of the blotters and showed variable strength. Although no quantitative analysis was made, detection of these substances by the proposed approach serves as indication of variable and possibly higher dosages per blotter when compared to LSD, which showed to be below the detection limit of the applied method. Blotters containing a mescaline-like compound, later confirmed by GC-MS and LC-MS to be MAL (methallylescaline), a substance very similar to mescaline, were detected among the samples tested. Validity of direct ATR-FTIR testing was confirmed by checking the obtained results against independent GC-MS or LC-MS results for the same cases/samples.

  18. Study of consumer fireworks post-blast residues by ATR-FTIR.

    PubMed

    Martín-Alberca, Carlos; Zapata, Félix; Carrascosa, Héctor; Ortega-Ojeda, Fernando E; García-Ruiz, Carmen

    2016-03-01

    Specific analytical procedures are requested for the forensic analysis of pre- and post-blast consumer firework samples, which present significant challenges. Up to date, vibrational spectroscopic techniques such as Fourier transform infrared spectroscopy (FTIR) have not been tested for the analysis of post-blast residues in spite of their interesting strengths for the forensic field. Therefore, this work proposes a simple and fast procedure for the sampling and analysis of consumer firework post-blast residues by a portable FTIR instrument with an Attenuated Total Reflection (ATR) accessory. In addition, the post-blast residues spectra of several consumer fireworks were studied in order to achieve the identification of their original chemical compositions. Hence, this work analysed 22 standard reagents usually employed to make consumer fireworks, or because they are related to their combustion products. Then, 5 different consumer fireworks were exploded, and their residues were sampled with dry cotton swabs and directly analysed by ATR-FTIR. In addition, their pre-blast fuses and charges were also analysed in order to stablish a proper comparison. As a result, the identification of the original chemical compositions of the post-blast samples was obtained. Some of the compounds found were potassium chlorate, barium nitrate, potassium nitrate, potassium perchlorate or charcoal. An additional study involving chemometric tools found that the results might greatly depend on the swab head type used for the sampling, and its sampling efficiency. The proposed procedure could be used as a complementary technique for the analysis of consumer fireworks post-blast residues.

  19. Cutaneous approach towards clinical and pathophysiological aspects of hyperglycemia by ATR FTIR spectroscopy

    NASA Astrophysics Data System (ADS)

    Eikje, Natalja Skrebova; Sota, Takayuki; Aizawa, Katsuo

    2007-07-01

    Attempts were made to non-invasively detect glucose-specific spectral signals in the skin by ATR-FTIR spectroscopy. In vivo spectra were collected from the inner wrists of healthy, prediabetes and diabetes subjects in the 750-4000 cm -1 region, with a closer assessment of the glucose-related region between 1000 and 1180 cm -1. Spectra in vivo showed glucose-specific peaks at 1030, 1080, 1118 and 1151 cm -1, as a variety of glucose solutions are found in vitro. Based on the differences of intensities at 1030 and 1118 cm -1 two spectral patterns were seen: I 1118 > I 1030 for a diabetes and I 1030> I 1118 for non-diabetes subjects. The peak at 1030 cm -1 was used to assess glucose concentrations in the skin due to its good correlation with glucose concentrations in vitro. Calculated mean values of the peak at 1030 cm -1 showed evidence of correlation with blood glucose levels when grouped as <= 140, 140-200 and >= 200 mg/dL, though there was no constant correlation between them when compared before/after OGTT or at the fasting/postprandial states. Absorbances at 1030 cm -1 were not only increased in a dose-dependent manner in a diabetes patient, but were also generally higher than in non-diabetes subjects at 30 min OGTT assessment. Also we could monitor absorbances at 1030 cm -1 and determine their changes in the skin tissue at different times of OGTT. We assume that our approach to in vivo measurement and monitoring of glucose concentrations at 1030 cm -1 may be one of the indicators to assess glucose activity level and its changes in the skin tissue, and has further implications in the study of clinical and pathophysiological aspects of hyperglycemia in diabetes and non-diabetes subjects by ATR-FTIR spectroscopy.

  20. Study of consumer fireworks post-blast residues by ATR-FTIR.

    PubMed

    Martín-Alberca, Carlos; Zapata, Félix; Carrascosa, Héctor; Ortega-Ojeda, Fernando E; García-Ruiz, Carmen

    2016-03-01

    Specific analytical procedures are requested for the forensic analysis of pre- and post-blast consumer firework samples, which present significant challenges. Up to date, vibrational spectroscopic techniques such as Fourier transform infrared spectroscopy (FTIR) have not been tested for the analysis of post-blast residues in spite of their interesting strengths for the forensic field. Therefore, this work proposes a simple and fast procedure for the sampling and analysis of consumer firework post-blast residues by a portable FTIR instrument with an Attenuated Total Reflection (ATR) accessory. In addition, the post-blast residues spectra of several consumer fireworks were studied in order to achieve the identification of their original chemical compositions. Hence, this work analysed 22 standard reagents usually employed to make consumer fireworks, or because they are related to their combustion products. Then, 5 different consumer fireworks were exploded, and their residues were sampled with dry cotton swabs and directly analysed by ATR-FTIR. In addition, their pre-blast fuses and charges were also analysed in order to stablish a proper comparison. As a result, the identification of the original chemical compositions of the post-blast samples was obtained. Some of the compounds found were potassium chlorate, barium nitrate, potassium nitrate, potassium perchlorate or charcoal. An additional study involving chemometric tools found that the results might greatly depend on the swab head type used for the sampling, and its sampling efficiency. The proposed procedure could be used as a complementary technique for the analysis of consumer fireworks post-blast residues. PMID:26717839

  1. A Novel Device for True Lumen Re-Entry After Subintimal Recanalization of Superficial Femoral Arteries: First-in-Man Experience and Technical Description

    SciTech Connect

    Airoldi, Flavio Faglia, Ezio Losa, Sergio Tavano, Davide; Latib, Azeem; Mantero, Manuela Lanza, Gaetano Clerici, Giacomo

    2011-02-15

    Subintimal angioplasty (SAP) is frequently performed for the treatment of critical limb ischemia (CLI) and has been recognized as an effective technique for these patients. Nevertheless, this approach is limited by the lack of controlled re-entry into the true lumen of the target vessel. We describe a novel device for true lumen re-entry after subintimal recanalization of superficial femoral arteries (SFA). We report our experience with six patients treated between April 2009 and January 2010 with a novel system designed to facilitate true lumen re-entry. The device was advanced by ipsilateral antegrade approach through a 6-French sheath. Successful reaccess into the true lumen was obtained in five of six patients without complications. The patient in whom the reaccess to the true lumen was not possible underwent successful bypass surgery. At 30 days follow-up, the SFA was patent in all patients according to echo-Doppler examination. Our preliminary experience indicates that this novel re-entry device increases the success rate of percutaneous revascularization of chronically occluded SFA.

  2. Small dispersion limit of the Korteweg-de Vries equation with periodic initial conditions and analytical description of the Zabusky-Kruskal experiment

    NASA Astrophysics Data System (ADS)

    Deng, Guo; Biondini, Gino; Trillo, Stefano

    2016-10-01

    We study the small dispersion limit of the Korteweg-de Vries (KdV) equation with periodic boundary conditions and we apply the results to the Zabusky-Kruskal experiment. In particular, we employ a WKB approximation for the solution of the scattering problem for the KdV equation [i.e., the time-independent Schrödinger equation] to obtain an asymptotic expression for the trace of the monodromy matrix and thereby of the spectrum of the problem. We then perform a detailed analysis of the structure of said spectrum (i.e., band widths, gap widths and relative band widths) as a function of the dispersion smallness parameter ɛ. We then formulate explicit approximations for the number of solitons and corresponding soliton amplitudes as a function of ɛ. Finally, by performing an appropriate rescaling, we compare our results to those in the famous Zabusky and Kruskal's paper, showing very good agreement with the numerical results.

  3. Defining the Contribution of MC1R Physiological Ligands to ATR Phosphorylation at Ser435, a Predictor of DNA Repair in Melanocytes.

    PubMed

    Jarrett, Stuart G; Wolf Horrell, Erin M; Boulanger, Mary C; D'Orazio, John A

    2015-12-01

    The melanocortin 1 receptor (MC1R), a GS-coupled receptor that signals through cAMP and protein kinase A (PKA), regulates pigmentation, adaptive tanning, and melanoma resistance. MC1R-cAMP signaling promotes PKA-mediated phosphorylation of ataxia telangiectasia and rad3-related (ATR) at Ser435 (ATR-pS435), a modification that enhances nucleotide excision repair (NER) by facilitating recruitment of the XPA protein to sites of UV-induced DNA damage. High-throughput methods were developed to quantify ATR-pS435, measure XPA-photodamage interactions, and assess NER function. We report that melanocyte-stimulating hormone (α-MSH) or ACTH induce ATR-pS435, enhance XPA's association with UV-damaged DNA and optimize melanocytic NER. In contrast, MC1R antagonists agouti signaling protein (ASIP) or human β-defensin 3 (HBD3) interfere with ATR-pS435 generation, impair the XPA-DNA interaction, and reduce DNA repair. Although ASIP and HBD3 each blocked α-MSH-mediated induction of the signaling pathway, only ASIP depleted basal ATR-pS435. Our findings confirm that ASIP diminishes agonist-independent MC1R basal signaling whereas HBD3 is a neutral MC1R antagonist that blocks activation by melanocortins. Furthermore, our data suggest that ATR-pS435 may be a useful biomarker for the DNA repair-deficient MC1R phenotype. PMID:26168232

  4. Defining the contribution of MC1R physiological ligands to ATR phosphorylation at Ser435, a predictor of DNA repair in melanocytes

    PubMed Central

    Jarrett, Stuart G.; Wolf Horrell, Erin M.; Boulanger, Mary C.; D’Orazio, John A.

    2015-01-01

    The melanocortin 1 receptor (MC1R), a GS-coupled receptor that signals through cAMP and PKA, regulates pigmentation, adaptive tanning, and melanoma resistance. MC1R-cAMP signaling promotes PKA-mediated phosphorylation of ataxia telangiectasia and rad3-related (ATR) at Ser435 (ATR-pS435), a modification that enhances nucleotide excision repair (NER) by facilitating recruitment of the XPA protein to sites of UV-induced DNA damage. High-throughput methods were developed to quantify ATR-pS435, measure XPA-photodamage interactions and assess NER function. We report that melanocyte stimulating hormone (α-MSH) or adrenocorticotropic hormone (ACTH) induce ATR-pS435, enhance XPA’s association with UV-damaged DNA and optimize melanocytic NER. In contrast, MC1R antagonists agouti signaling protein (ASIP) or human β-defensin 3 (HBD3) interfere with ATR-pS435 generation, impair the XPA-DNA interaction and reduce DNA repair. Although ASIP and HBD3 each blocked α-MSH-mediated induction of the signaling pathway, only ASIP depleted basal ATR-pS435. Our findings confirm that ASIP diminishes agonist-independent MC1R basal signaling whereas HBD3 is a neutral MC1R antagonist that blocks activation by melanocortins. Furthermore, our data suggest that ATR-pS435 may be a useful biomarker for the DNA repair-deficient MC1R phenotype. PMID:26168232

  5. Microgravity Environment Description Handbook

    NASA Technical Reports Server (NTRS)

    DeLombard, Richard; McPherson, Kevin; Hrovat, Kenneth; Moskowitz, Milton; Rogers, Melissa J. B.; Reckart, Timothy

    1997-01-01

    The Microgravity Measurement and Analysis Project (MMAP) at the NASA Lewis Research Center (LeRC) manages the Space Acceleration Measurement System (SAMS) and the Orbital Acceleration Research Experiment (OARE) instruments to measure the microgravity environment on orbiting space laboratories. These laboratories include the Spacelab payloads on the shuttle, the SPACEHAB module on the shuttle, the middeck area of the shuttle, and Russia's Mir space station. Experiments are performed in these laboratories to investigate scientific principles in the near-absence of gravity. The microgravity environment desired for most experiments would have zero acceleration across all frequency bands or a true weightless condition. This is not possible due to the nature of spaceflight where there are numerous factors which introduce accelerations to the environment. This handbook presents an overview of the major microgravity environment disturbances of these laboratories. These disturbances are characterized by their source (where known), their magnitude, frequency and duration, and their effect on the microgravity environment. Each disturbance is characterized on a single page for ease in understanding the effect of a particular disturbance. The handbook also contains a brief description of each laboratory.

  6. [Description of assessment processes at the Medical School of the Pontificia Universidad Católica de Chile: a ten year experience].

    PubMed

    Sánchez D, Ignacio; Riquelme P, Arnoldo; Moreno B, Rodrigo; Salas I, Sofía; Pertuzé R, Julio; García C, Patricia

    2010-08-01

    Globalization of health care seems to be irreversible and beyond cultural differences and local realities; consequently, medical education needs to have a common set of core principles or standards that may be applied worldwide. The aim of participating in assessment processes is to guarantee that medical education takes place in a sufficiently rich environment to promote extensive academic purposes. The Medical School of the Pontificia Universidad Católica de Chile (PUC) participated in three assessment processes that included three stages: internal assessment, external assessment, and accreditation judgment. Two of these assessments were voluntarily carried out following the standards set by the Liaison Committee on Medical Education-LCME, and they took place in 1997 and 2007. The other assessment was based on standards set by the Chilean accrediting organism, the National Committee for Undergraduate Program Accreditation (Comité Nacional de Acreditación de Pregrado-CNAP) and took place in the year 2001. In all three experiences, internal assessment was the most enriching stage, stimulating refections among students and teachers in order to recognize areas of strengths and weaknesses. External assessment processes, especially those based on international standards, are very important for the institutional and program development of Medical Schools. The PUC Medical School on its whole learnt how to carry out an assessment process and was able to improve several weaknesses without pressure, moving from quality assurance to quality enhancement. The present paper analyzes the major challenges involved in an external assessment process.

  7. Application of the Price-Volume Approach in Cases of Innovative Drugs Where Value-Based Pricing is Inadequate: Description of Real Experiences in Italy.

    PubMed

    Messori, Andrea

    2016-08-01

    Several cases of expensive drugs designed for large patient populations (e.g. sofosbuvir) have raised a complex question in terms of drug pricing. Even assuming value-based pricing, the treatment with these drugs of all eligible patients would have an immense budgetary impact, which is unsustainable also for the richest countries. This raises the need to reduce the prices of these agents in comparison with those suggested by the value-based approach and to devise new pricing methods that can achieve this goal. The present study discusses in detail the following two methods: (i) The approach based on setting nation-wide budget thresholds for individual innovative agents in which a fixed proportion of the historical pharmaceutical expenditure represents the maximum budget attributable to an innovative treatment; (ii) The approach based on nation-wide price-volume agreements in which drug prices are progressively reduced as more patients receive the treatment. The first approach has been developed in the USA by the Institute for Clinical and Economic Review and has been applied to PCSK9 inhibitors (alirocumab and evolocumab). The second approach has been designed for the Italian market and has found a systematic application to manage the price of ranibizumab, sofosbuvir, and PCSK9 inhibitors. While, in the past, price-volume agreements have been applied only on an empirical basis (i.e. in the absence of any quantitative theoretical rule), more recently some explicit mathematical models have been described. The performance of these models is now being evaluated on the basis of the real-world experiences conducted in some European countries, especially Italy. PMID:27216427

  8. Application of the Price-Volume Approach in Cases of Innovative Drugs Where Value-Based Pricing is Inadequate: Description of Real Experiences in Italy.

    PubMed

    Messori, Andrea

    2016-08-01

    Several cases of expensive drugs designed for large patient populations (e.g. sofosbuvir) have raised a complex question in terms of drug pricing. Even assuming value-based pricing, the treatment with these drugs of all eligible patients would have an immense budgetary impact, which is unsustainable also for the richest countries. This raises the need to reduce the prices of these agents in comparison with those suggested by the value-based approach and to devise new pricing methods that can achieve this goal. The present study discusses in detail the following two methods: (i) The approach based on setting nation-wide budget thresholds for individual innovative agents in which a fixed proportion of the historical pharmaceutical expenditure represents the maximum budget attributable to an innovative treatment; (ii) The approach based on nation-wide price-volume agreements in which drug prices are progressively reduced as more patients receive the treatment. The first approach has been developed in the USA by the Institute for Clinical and Economic Review and has been applied to PCSK9 inhibitors (alirocumab and evolocumab). The second approach has been designed for the Italian market and has found a systematic application to manage the price of ranibizumab, sofosbuvir, and PCSK9 inhibitors. While, in the past, price-volume agreements have been applied only on an empirical basis (i.e. in the absence of any quantitative theoretical rule), more recently some explicit mathematical models have been described. The performance of these models is now being evaluated on the basis of the real-world experiences conducted in some European countries, especially Italy.

  9. Report for borehole explosion data acquired in the 1999 Los Angeles Region Seismic Experiment (LARSE II), Southern California: Part I, description of the survey

    USGS Publications Warehouse

    Fuis, Gary S.; Murphy, Janice M.; Okaya, David A.; Clayton, Robert W.; Davis, Paul M.; Thygesen, Kristina; Baher, Shirley A.; Ryberg, Trond; Benthien, Mark L.; Simila, Gerry; Perron, J. Taylor; Yong, Alan K.; Reusser, Luke; Lutter, William J.; Kaip, Galen; Fort, Michael D.; Asudeh, Isa; Sell, Russell; Van Schaack, John R.; Criley, Edward E.; Kaderabek, Ronald; Kohler, Will M.; Magnuski, Nickolas H.

    2001-01-01

    The Los Angeles Region Seismic Experiment (LARSE) is a joint project of the U.S. Geological Survey (USGS) and the Southern California Earthquake Center (SCEC). The purpose of this project is to produce seismic images of the subsurface of the Los Angeles region down to the depths at which earthquakes occur, and deeper, in order to remedy a deficit in our knowledge of the deep structure of this region. This deficit in knowledge has persisted despite over a century of oil exploration and nearly 70 years of recording earthquakes in southern California. Understanding the deep crustal structure and tectonics of southern California is important to earthquake hazard assessment. Specific imaging targets of LARSE include (a) faults, especially blind thrust faults, which cannot be reliably detected any other way; and (b) the depths and configurations of sedimentary basins. Imaging of faults is important in both earthquake hazard assessment but also in modeling earthquake occurrence. Earthquake occurrence cannot be understood unless the earthquake-producing "machinery" (tectonics) is known (Fuis and others, 2001). Imaging the depths and configurations of sedimentary basins is important because earthquake shaking at the surface is enhanced by basin depth and by the presence of sharp basin edges (Wald and Graves, 1998, Working Group on California Earthquake Probabilities, 1995; Field and others, 2001). (Sedimentary basins are large former valleys now filled with sediment eroded from nearby mountains.) Sedimentary basins in the Los Angeles region that have been investigated by LARSE include the Los Angeles, San Gabriel Valley, San Fernando Valley, and Santa Clarita Valley basins. The seismic imaging surveys of LARSE include recording of earthquakes (both local and distant earthquakes) along several corridors (or transects) through the Los Angeles region and also recording of man-made sources along these same corridors. Man-made sources have included airguns offshore and borehole

  10. A three-dimensional model of atmospheric CO2 transport based on observed winds: 2. Model description and simulated tracer experiments

    NASA Astrophysics Data System (ADS)

    Heimann, Martin; Keeling, Charles D.

    The three-dimensional atmospheric transport model developed at the Goddard Institute of Space Sciences (GISS) has been modified in its coarse-grid version (7.83° × 10.00° horizontal resolution, 9 layers in vertical direction) by replacing the original model-generated wind fields with observed winds of the Global Weather Experiment, covering the period December 1978 through November 1979. The parameterization of subgridscale vertical convection was retained from the earlier model version, except that all intensities were reduced by 50 percent. To simulate atmospheric CO2 and its 13C/12C ratio, sources and sinks of carbon at the earth's surface were prescribed. The net primary productivity of the terrestrial biosphere was computed from vegetation index (NDVI) data representing the greenness of the land as recorded by the AVHRR instrument flown on satellites of the U.S. National Oceanic and Atmospheric Administration. The productivity for a given greenness was assumed to be proportional to the amount of photosynthetically active radiation reaching the plant canopy as computed from estimates of solar insolation under clear sky conditions with an allowance for attenuation caused by the presence of clouds. Estimates of cloud cover were based on satellite data of daily albedo. The respiration of terrestrial plant detritus and soils was assumed to be dependent on temperature but was globally adjusted to achieve an optimal fit of the model prediction of the seasonal cycle of atmospheric CO2 to that observed at four northern hemisphere stations. The oceanic exchange of CO2 was prescribed from rough estimates of the CO2 partial pressure of sea water, assuming a constant air-sea exchange rate. The mean annual partial pressure field was afterwards adjusted to achieve an optimal fit with respect to broad geographic features of the observed mean annual atmospheric CO2 field. The seasonal variation in partial pressure was assumed to depend on sea-surface temperature, but the

  11. Acquisition of teleological descriptions

    NASA Astrophysics Data System (ADS)

    Franke, David W.

    1992-03-01

    Teleology descriptions capture the purpose of an entity, mechanism, or activity with which they are associated. These descriptions can be used in explanation, diagnosis, and design reuse. We describe a technique for acquiring teleological descriptions expressed in the teleology language TeD. Acquisition occurs during design by observing design modifications and design verification. We demonstrate the acquisition technique in an electronic circuit design.

  12. Writing job descriptions.

    PubMed

    Schaffner, M

    1990-01-01

    The skill of writing job descriptions begins with an understanding of the advantages, as well as the basic elements, of a well written description. The end result should be approved and updated as needed. Having a better understanding of this process makes writing the job description a challenge rather than a chore.

  13. Historical perspective and modern applications of Attenuated Total Reflectance-Fourier Transform Infrared Spectroscopy (ATR-FTIR).

    PubMed

    Blum, Marc-Michael; John, Harald

    2012-01-01

    Vibrational spectroscopy has a long history as an important spectroscopic method in chemical and pharmaceutical analysis. Instrumentation for infrared (IR) spectroscopy was revolutionized by the introduction of Fourier Transform Infrared (FTIR) spectrometers. In addition, easier sampling combined with better sample-to-sample reproducibility and user-to-user spectral variation became available with attenuated total reflectance (ATR) probes and their application for in situ IR spectroscopy. These innovations allow many new applications in chemical and pharmaceutical analysis, such as the use of IR spectroscopy in Process Analytical Chemistry (PAC), the quantitation of drugs in complex matrix formulations, the analysis of protein binding and function and in combination with IR microscopy to the emergence of IR imaging technologies. The use of ATR-FTIR instruments in forensics and first response to 'white powder' incidents is also discussed. A short overview is given in this perspective article with the aim to renew and intensify interest in IR spectroscopy.

  14. ATR-FT-IR spectroscopy in the region of 500-230 cm -1 for identification of inorganic red pigments

    NASA Astrophysics Data System (ADS)

    Vahur, Signe; Knuutinen, Ulla; Leito, Ivo

    2009-08-01

    It is demonstrated that micro-ATR-FT-IR in the low wave number range (500-230 cm -1) can be well used for identification of pigments in paint samples thereby markedly extending the possibilities of pigment identification by ATR-IR spectroscopy into the realm of pigments having no absorptions in the mid-IR region. Reference spectra of pigments can be conveniently obtained by mixing them with linseed oil in approximately 1:1 mass ratio. Vermilion (or cinnabar), read lead, different red iron oxide pigments and cadmium red can be identified. In some cases the method can be used alone for pigment identification and in many cases it provides useful additional evidence for pigment identification using other instrumental techniques (electron microprobe analysis, XRF, optical microscopy).

  15. Blood glucose measurement in vivo using hollow-fiber based, mid-infrared ATR probe with multi-reflection prism

    NASA Astrophysics Data System (ADS)

    Kino, Saiko; Omori, Suguru; Matsuura, Yuji

    2016-03-01

    An attenuated-total-reflection (ATR), mid-infrared spectroscopy system that consists of hollow optical fibers, a trapezoidal multi-reflection ATR prism, and a conventional FT-IR spectrometer has been developed to measure blood glucose levels. Owing to the low transmission loss and high flexibility of the hollow-optical fiber, the system can measure any sites of the human body where blood capillaries are close to the surface of mucosa, such as inner lips. Using a multi-reflection prism brought about higher sensitivity, and the flat and wide contact surface of the prism resulted in higher measurement reproducibility. The results of in-vivo measurement of human inner lips showed the feasibility of the proposed system, and the measurement errors were within 20%.

  16. Design Studies for a Multiple Application Thermal Reactor for Irradiation Experiments (MATRIX)

    SciTech Connect

    Pope, Michael A.; Gougar, Hans D.; Ryskamp, J. M.

    2015-03-01

    The Advanced Test Reactor (ATR) is a high power density test reactor specializing in fuel and materials irradiation. For more than 45 years, the ATR has provided irradiations of materials and fuels testing along with radioisotope production. Should unforeseen circumstances lead to the decommissioning of ATR, the U.S. Government would be left without a large-scale materials irradiation capability to meet the needs of its nuclear energy and naval reactor missions. In anticipation of this possibility, work was performed under the Laboratory Directed Research and Development (LDRD) program to investigate test reactor concepts that could satisfy the current missions of the ATR along with an expanded set of secondary missions. A survey was conducted in order to catalogue the anticipated needs of potential customers. Then, concepts were evaluated to fill the role for this reactor, dubbed the Multi-Application Thermal Reactor Irradiation eXperiments (MATRIX). The baseline MATRIX design is expected to be capable of longer cycle lengths than ATR given a particular batch scheme. The volume of test space in In-Pile-Tubes (IPTs) is larger in MATRIX than in ATR with comparable magnitude of neutron flux. Furthermore, MATRIX has more locations of greater volume having high fast neutron flux than ATR. From the analyses performed in this work, it appears that the lead MATRIX design can be designed to meet the anticipated needs of the ATR replacement reactor. However, this design is quite immature, and therefore any requirements currently met must be re-evaluated as the design is developed further.

  17. Determination of drug content in semisolid formulations by non-invasive spectroscopic methods: FTIR - ATR, - PAS, - Raman and PDS

    NASA Astrophysics Data System (ADS)

    Gotter, B.; Faubel, W.; Heißler, St.; Hein, J.; Neubert, R. H. H.

    2010-03-01

    This study elucidates the potential use of photothermal deflection spectroscopy (PDS), FTIR photoacoustic (FTIR-PAS), FT Raman, and FTIR-attenuated total reflection (FTIR-ATR) spectroscopy as analytical tools for investigating the drug content in semisolid formulations. Regarding the analytical parameters, this study demonstrates the photothermal beam deflection to be definitely comparable to well established spectroscopic methods for this purpose. The correlation coefficients range from 0.990 to 0.999. Likewise, repeatability and limit of detection are comparable.

  18. On-line reaction monitoring of lithiation of halogen substituted acetanilides via in situ calorimetry, ATR spectroscopy, and endoscopy.

    PubMed

    Godany, Tamas A; Neuhold, Yorck-Michael; Hungerbühler, Konrad

    2011-01-01

    Lithiation of N-(4-chlorophenyl)-pivalamide (NCP) and two additional substituted acetanilides: 4-fluoroacetanilide (4-F) and 4-chloroacetanilide (4-Cl) has been monitored by means of calorimetry, on-line ATR-IR and UV/vis spectroscopy and endoscopy. The combined on-line monitoring revealed the differences between the reaction paths of the chosen substrates. Thus the product structure and the reaction times for the individual reaction steps can be determined in situ.

  19. Azide functional monolayers grafted to a germanium surface: model substrates for ATR-IR studies of interfacial click reactions.

    PubMed

    Zhang, Shuo; Koberstein, Jeffrey T

    2012-01-10

    High-quality azide-functional substrates are prepared by a low temperature reaction of 11-bromoundecyltrichlorosilane with UV-ozone-treated germanium ATR-IR plates followed by nucleophilic substitution of the terminal bromine by addition of sodium azide. The resulting monolayer films are characterized by atomic force microscopy (AFM), contact angle analysis, X-ray photoelectron spectroscopy (XPS), attenuated total reflectance infrared spectroscopy (ATR-IR), and ellipsometry. XPS and ellipsometric thickness data correspond well to the results of molecular model calculations confirming the formation of a densely packed azide-functional monolayer. These azide-functional substrates enable interfacial "click" reactions with complementary alkyne-functional molecules to be studied in situ by ATR-IR. To illustrate their potential utility for kinetic studies we show that, in the presence of copper(I) catalyst, the azide-modified surfaces react rapidly and quantitatively with 5-chloro-pentyne to form triazoles via a 1,3-dipolar cycloaddition reaction. Time-resolved ATR-IR measurements indicate that the interfacial click reaction is initially first order in azide concentration as expected from the reaction mechanism, with a rate constant of 0.034 min(-1), and then transitions to apparent second order dependence, with a rate constant of 0.017 min(-1)/(chains/nm(2)), when the surface azide and triazole concentrations become similar, as predicted by Oyama et al. The reaction achieves an ultimate conversion of 50% consistent with the limit expected due to steric hindrance of the 5-chloro-pentyne reactant at the surface. PMID:22081885

  20. Influence of mineral characteristics on the retention of low molecular weight organic compounds: a batch sorption-desorption and ATR-FTIR study.

    PubMed

    Yeasmin, Sabina; Singh, Balwant; Kookana, Rai S; Farrell, Mark; Sparks, Donald L; Johnston, Cliff T

    2014-10-15

    Batch experiments were conducted to evaluate the sorption-desorption behaviour of (14)C-labelled carboxylic acids (citric and oxalic) and amino acids (glutamic, alanine, phenylalanine and lysine) on pure minerals (kaolinite, illite, montmorillonite, ferrihydrite and goethite). The sorption experiments were complemented by ATR-FTIR spectroscopy to gain possible mechanistic insight into the organic acids-mineral interactions. In terms of charge, the organic solutes ranged from strongly negative (i.e., citric) to positively charged solutes (i.e., lysine); similarly the mineral phases also ranged from positively to negatively charged surfaces. In general, sorption of anionic carboxylic and glutamic acids was higher compared to the other compounds (except lysine). Cationic lysine showed a stronger affinity to permanently charged phyllosilicates than Fe oxides. The sorption of alanine and phenylalanine was consistently low for all minerals, with relatively higher sorption and lower desorption of phenylalanine than alanine. Overall, the role of carboxylic functional groups for the sorption and retention of these carboxylic and amino acids on Fe oxides (and kaolinite) and of amino group on 2:1 phyllosilicates was noticeable. Mineral properties (surface chemistry, specific surface area), chemistry of the organic compounds (pKa value, functional groups) and the equilibrium pH of the system together controlled the differences in sorption-desorption patterns. The results of this study aid to understand the effects of mineralogical and chemical factors that affect naturally occurring low molecular weight organic compounds sorption under field conditions. PMID:25086719

  1. Rapid approach to analyze biochemical variation in rat organs by ATR FTIR spectroscopy.

    PubMed

    Staniszewska, Emilia; Malek, Kamilla; Baranska, Malgorzata

    2014-01-24

    ATR FTIR spectra were collected from rat tissue homogenates (myocardium, brain, liver, lung, intestine, and kidney) to analyze their biochemical content. Based on the second derivative of an average spectral profile it was possible to assign bands e.g. to triglycerides and cholesterol esters, proteins, phosphate macromolecules (DNA, RNA, phospholipids, phosphorylated proteins) and others (glycogen, lactate). Peaks in the region of 1600-1700 cm(-1) related to amide I mode revealed the secondary structure of proteins. The collected spectra do not characterize morphological structure of the investigated tissues but show their different composition. The comparison of spectral information gathered from FTIR spectra of the homogenates and those obtained previously from FTIR imaging of the tissue sections implicates that the presented here approach can be successfully employed in the investigations of biochemical variation in animal tissues. Moreover, it can be used in the pharmacological and pharmacokinetic studies to correlate the overall biochemical status of the tissue with the pathological changes it has undergone.

  2. A parametric study of a gas-generator airturbo ramjet (ATR)

    NASA Technical Reports Server (NTRS)

    Snyder, Christopher A.

    1986-01-01

    Parametric engine performance calculations were carried out for an airturbo ramjet (ATR). A LOX-LH2 rocket powered turbine powered the compressor. The engine was flown over a typical flight path up to Mach 5 to show the effect of engine off design operation. The compressor design efficiency, compressor pressure ratio, rocket turbine efficiency, rocket turbine inlet temperature, and rocket chamber pressure were varied to show their effect on engine net thrust and specific impulse at Mach 5 cruise. Estimates of engine weights as a function of the ratio of compressor air to rocket propellant flow and rocket chamber pressure are also included. In general, the Mach 5 results indicate that increasing the amount of rocket gas produced increased thrust but decreased the specific impulse. The engine performance was fairly sensitive to rocket chamber pressure, especially at higher compressor pressure ratios. At higher compressor pressure ratios, the engine thrust was sensitive to turbine inlet temperature. At all compressor pressure ratios, the engine performance was not sensitive to compressor or turbine efficiency.

  3. A parametric study of a gas-generator airturbo ramjet (ATR)

    NASA Technical Reports Server (NTRS)

    Snyder, C. A.

    1986-01-01

    Parametric engine performance calculations were carried out for an airturbo ramjet (ATR). A LOX-LH2 rocket powered turbine powered the compressor. The engine was flown over a typical flight path up to Mach 5 to show the effect of engine off design operation. The compressor design efficiency, compressor pressure ratio, rocket turbine efficiency, rocket turbine inlet temperature, and rocket chamber pressure were varied to show their effect on engine net thrust and specific impulse at Mach 5 cruise. Estimates of engine weights as a fucntion of the ratio of compressor air to rocket propellant flow and rocket champer pressure are also included. In general, the Mach 5 results indicate that increasing the amount of rocket gas produced increased thrust but decreased the specific impulse. The engine performance was fairly sensitive to rocket chamber pressure, especially at higher compressor pressure ratios. At higher compressor pressure ratios, the engine thrust was sensitive to turbine inlet temperature. At all compressor pressure ratios, the engine performance was not sensitive to compressor or turbine efficiency.

  4. The degradation potential of PET bottles in the marine environment: An ATR-FTIR based approach

    PubMed Central

    Ioakeimidis, C.; Fotopoulou, K. N.; Karapanagioti, H. K.; Geraga, M.; Zeri, C.; Papathanassiou, E.; Galgani, F.; Papatheodorou, G.

    2016-01-01

    The dominance and persistence of plastic debris in the marine environment are well documented. No information exists in respect to their lifespan in the marine environment. Nevertheless, the degradation potential of plastic litter items remains a critical issue for marine litter research. In the present study, polyethylene terephthalate bottles (PETs) collected from the submarine environment were characterized using ATR-FTIR in respect to their degradation potential attributed to environmental conditions. A temporal indication was used as indicative to the years of presence of the PETs in the environment as debris. PETs seem to remain robust for approximately fifteen years. Afterwards, a significant decrease of the native functional groups was recorded; some even disappear; or new-not typical for PETs-are created. At a later stage, using the PET time series collected from the Saronikos Gulf (Aegean Sea–E. Mediterranean), it was possible to date bottles that were collected from the bottom of the Ionian Sea (W. Greece). It is the first time that such a study has been conducted with samples that were actually degraded in the marine environment. PMID:27000994

  5. Long-Range Lipid-Water Interaction as Observed by ATR-FTIR Spectroscopy.

    PubMed

    Arsov, Zoran

    2015-01-01

    It is commonly assumed that the structure of water at a lipid-water interface is influenced mostly in the first hydration layer. However, recent results from different experimental methods show that perturbation extends through several hydration layers. Due to its low light penetration depth, attenuated total reflection Fourier transform infrared (ATR-FTIR) spectroscopy is specifically suited to study interlamellar water structure in multibilayers. Results obtained by this technique confirm the long-range water structure disturbance. Consequently, in confined membrane environments nearly all water molecules can be perturbed. It is important to note that the behavior of confined water molecules differs significantly in samples prepared in excess water and in partially hydrated samples. We show in what manner the interlamellar water perturbation is influenced by the hydration level and how it is sequentially modified with a step-by-step dehydration of samples either by water evaporation or by osmotic pressure. Our results also indicate that besides different levels of hydration the lipid-water interaction is modulated by different lipid headgroups and different lipid phases as well. Therefore, modification of interlamellar water properties may clarify the role of water-mediated effects in biological processes. PMID:26438264

  6. The degradation potential of PET bottles in the marine environment: An ATR-FTIR based approach.

    PubMed

    Ioakeimidis, C; Fotopoulou, K N; Karapanagioti, H K; Geraga, M; Zeri, C; Papathanassiou, E; Galgani, F; Papatheodorou, G

    2016-01-01

    The dominance and persistence of plastic debris in the marine environment are well documented. No information exists in respect to their lifespan in the marine environment. Nevertheless, the degradation potential of plastic litter items remains a critical issue for marine litter research. In the present study, polyethylene terephthalate bottles (PETs) collected from the submarine environment were characterized using ATR-FTIR in respect to their degradation potential attributed to environmental conditions. A temporal indication was used as indicative to the years of presence of the PETs in the environment as debris. PETs seem to remain robust for approximately fifteen years. Afterwards, a significant decrease of the native functional groups was recorded; some even disappear; or new-not typical for PETs-are created. At a later stage, using the PET time series collected from the Saronikos Gulf (Aegean Sea-E. Mediterranean), it was possible to date bottles that were collected from the bottom of the Ionian Sea (W. Greece). It is the first time that such a study has been conducted with samples that were actually degraded in the marine environment. PMID:27000994

  7. ATR-FTIR spectroscopic studies of boric acid adsorption on hydrous ferric oxide

    NASA Astrophysics Data System (ADS)

    Peak, Derek; Luther, George W.; Sparks, Donald L.

    2003-07-01

    Boron is an important micronutrient for plants, but high B levels in soils are often responsible for toxicity effects in plants. It is therefore important to understand reactions that may affect B availability in soils. In this study, Attenuated Total Reflectance Fourier transform Infrared (ATR-FTIR) spectroscopy was employed to investigate mechanisms of boric acid (B(OH) 3) and borate (B(OH) 4-) adsorption on hydrous ferric oxide (HFO). On the HFO surface, boric acid adsorbs via both physical adsorption (outer-sphere) and ligand exchange (inner-sphere) reactions. Both trigonal (boric acid) and tetrahedral (borate) boron are complexed on the HFO surface, and a mechanism where trigonal boric acid in solution reacts to form either trigonal or tetrahedral surface complexes is proposed based upon the spectroscopic results. The presence of outer-sphere boric acid complexes can be explained based on the Lewis acidity of the B metal center, and this complex has important implications for boron transport and availability. Outer-sphere boric acid is more likely to leach downward in soils in response to water flow. Outer-sphere boron would also be expected to be more available for plant uptake than more strongly bound boron complexes, and may more readily return to the soil solution when solution concentrations decrease.

  8. The Conference Proceedings of the 2003 Air Transport Research Society (ATRS) World Conference, Volume 5

    NASA Technical Reports Server (NTRS)

    Bowen, Brent (Editor); Gudmundsson, Sveinn (Editor); Oum, Tae (Editor)

    2003-01-01

    The UNO Aviation Institute Monograph Series began in 1994 as a key component of the education outreach and information transfer missions of the Aviation Institute and the NASA Nebraska Space Grant & EPSCoR Programs. The series is an outlet for aviation materials to be indexed and disseminated through an efficient medium. Publications are welcome in all aspects of aviation. Publication formats may include, but are not limited to, conference proceedings, bibliographies, research reports, manuals, technical reports, and other documents that should be archived and indexed for future reference by the aviation and world wide communities. The Conference proceedings of the 2003 Air Transport Research Society (ATRS) world conference, volume 5 is presented. The topics include: 1) The Temporal Configuration of Airline Networks in Europe; 2) Determination and Applications of Environmental Costs at Different Sized Airports-Aircraft Noise and Engine Emissions; 3) Cost Effective Measures to Reduce CO2 Emissions in the Air Freight Sector; 4) An Assessment of the Sustainability of Air Transport System: Quantification of Indicators; 5) Regulation, Competition and Network Evolution in Aviation; 6) Regulation in the Air: Price and Frequency Cap; 7) Industry Consolidation and Future Airline Network Structures in Europe; 8) Application of Core Theory to the U.S. Airline Industry; 9) Air Freight Transshipment Route Choice Analysis; 10) A Fuzzy Approach of the Competition on Air Transport Market; and 11) Developing Passenger Demand Models for International Aviation from/to Egypt: A Case Study of Cairo Airport and Egyptair.

  9. In situ ATR-FTIR study of the early stages of fly ash geopolymer gel formation.

    PubMed

    Rees, Catherine A; Provis, John L; Lukey, Grant C; van Deventer, Jannie S J

    2007-08-14

    The kinetics of geopolymer formation are monitored using a novel in situ attenuated total reflectance Fourier transform infrared (ATR-FTIR) spectroscopic technique. Reaction rates are determined from the intensity variation of the bands related to the geopolymer gel network and the unreacted fly ash particles. Comparison with deuterated geopolymer samples provides critical information regarding peak assignments. An initial induction (lag) period is observed to occur for hydroxide-activated geopolymers, followed by gel evolution according to an approximately linear reaction profile. The length of the lag period is reduced by increasing the concentration of NaOH. An increase in the rate of network formation also occurs with increasing NaOH concentration up to a maximum point, beyond which an increased NaOH concentration leads to a reduced rate of network formation. This trend is attributed to the competing effects of increased alkalinity and stronger ion pairing with an increase in NaOH concentration. In situ analysis also shows that the rate of fly ash dissolution is similar for all moderate- to high-alkali geopolymer slurries, which is attributed to the very highly water-deficient nature of these systems and is contrary to predictions from classical glass dissolution chemistry. This provides for the first time detailed kinetic information describing fly ash geopolymer formation kinetics.

  10. Rapid approach to analyze biochemical variation in rat organs by ATR FTIR spectroscopy

    NASA Astrophysics Data System (ADS)

    Staniszewska, Emilia; Malek, Kamilla; Baranska, Malgorzata

    2014-01-01

    ATR FTIR spectra were collected from rat tissue homogenates (myocardium, brain, liver, lung, intestine, and kidney) to analyze their biochemical content. Based on the second derivative of an average spectral profile it was possible to assign bands e.g. to triglycerides and cholesterol esters, proteins, phosphate macromolecules (DNA, RNA, phospholipids, phosphorylated proteins) and others (glycogen, lactate). Peaks in the region of 1600-1700 cm-1 related to amide I mode revealed the secondary structure of proteins. The collected spectra do not characterize morphological structure of the investigated tissues but show their different composition. The comparison of spectral information gathered from FTIR spectra of the homogenates and those obtained previously from FTIR imaging of the tissue sections implicates that the presented here approach can be successfully employed in the investigations of biochemical variation in animal tissues. Moreover, it can be used in the pharmacological and pharmacokinetic studies to correlate the overall biochemical status of the tissue with the pathological changes it has undergone.

  11. Dissolution of tablet-in-tablet formulations studied with ATR-FTIR spectroscopic imaging.

    PubMed

    Wray, Patrick S; Clarke, Graham S; Kazarian, Sergei G

    2013-03-12

    This work uses ATR-FTIR spectroscopic imaging to study the dissolution of delayed release and pH resistant compressed coating pharmaceutical tablets. Tablets with an inner core and outer shell were constructed using a custom designed compaction cell. The core of the delayed release tablets consisted of hydroxypropyl methylcellulose (HPMC) and caffeine. The shell consisted of microcrystalline cellulose (MCC) and glucose. The core of the pH resistant formulations was an ibuprofen and PEG melt and the shell was constructed from HPMC and a basic buffer. UV/vis spectroscopy was used to monitor the lag-time of drug release and visible optical video imaging was used as a complementary imaging technique with a larger field of view. Two delayed release mechanisms were established. For tablets with soluble shell sections, lag-time was dependent upon rapid shell dissolution. For tablets with less soluble shells, the lag-time was controlled by the rate of dissolution medium ingress through the shell and the subsequent expansion of the wet HPMC core. The pH resistant formulations prevented crystallization of the ibuprofen in the core during dissolution despite an acidic dissolution medium. FTIR imaging produced important information about the physical and chemical processes occurring at the interface between tablet sections during dissolution. PMID:23291036

  12. ATR-FTIR spectroscopic characterization of coexisting carbonate surface complexes on hematite

    USGS Publications Warehouse

    Bargar, J.R.; Kubicki, J.D.; Reitmeyer, R.; Davis, J.A.

    2005-01-01

    The speciation of carbonate adsorbed to hematite in air-equilibrated aqueous solutions has been studied using ATR-FTIR spectroscopy. Samples were measured over a range of pH conditions, at 0.1 M NaCl and at low ionic strength, and in H2O and D2O solutions to permit a multispecies analysis of the data. Second-derivative analyses and fits to the spectra indicate the presence of two major and two minor surface-bound carbonate species. The two major complexes coexist at near-neutral pH and low ionic strength. One of these two complexes is relatively sensitive to ionic strength, being displaced at 0.1 M NaCl, whereas the other is not. Comparison of experimental to DFT/MO-calculated frequencies suggest these two major species to be (a) a monodentate binuclear inner-sphere carbonate surface complex, and (b) a fully or partially solvated carbonate (CO32-) species that is symmetry broken and appears to reside in the structured vicinal water layers at the hematite-water interface, retained by hydrogen bonding and/or other forces. Minor carbonate complexes include diffuse layer CO32- and an unidentified inner-sphere species. Both of the dominant species observed here are likely to be significant controls of the surface charge and sorptive properties of Fe-oxides. Copyright ?? 2005 Elsevier Ltd.

  13. ATR-mediated phosphorylation of FANCI regulates dormant origin firing in response to replication stress

    PubMed Central

    Chen, Yu-Hung; Jones, Mathew J. K.; Yin, Yandong; Crist, Sarah B.; Colnaghi, Luca; Sims, Robert J.; Rothenberg, Eli; Jallepalli, Prasad V.; Huang, Tony T.

    2015-01-01

    SUMMARY Excess dormant origins bound by the minichromosome maintenance (MCM) replicative helicase complex play a critical role in preventing replication stress, chromosome instability and tumorigenesis. In response to DNA damage, replicating cells must coordinate DNA repair and dormant origin firing to ensure complete and timely replication of the genome; how cells regulate this process remains elusive. Herein, we identify a member of the Fanconi Anemia (FA) DNA repair pathway, FANCI, as a key effector of dormant origin firing in response to replication stress. Cells lacking FANCI have reduced number of origins, increased inter-origin distances and slowed proliferation rates. Intriguingly, ATR-mediated FANCI phosphorylation inhibits dormant origin firing while promoting replication fork restart/DNA repair. Using super-resolution microscopy, we show that FANCI co-localizes with MCM-bound chromatin in response to replication stress. These data reveal a unique role for FANCI as a modulator of dormant origin firing and links timely genome replication to DNA repair. PMID:25843623

  14. The degradation potential of PET bottles in the marine environment: An ATR-FTIR based approach

    NASA Astrophysics Data System (ADS)

    Ioakeimidis, C.; Fotopoulou, K. N.; Karapanagioti, H. K.; Geraga, M.; Zeri, C.; Papathanassiou, E.; Galgani, F.; Papatheodorou, G.

    2016-03-01

    The dominance and persistence of plastic debris in the marine environment are well documented. No information exists in respect to their lifespan in the marine environment. Nevertheless, the degradation potential of plastic litter items remains a critical issue for marine litter research. In the present study, polyethylene terephthalate bottles (PETs) collected from the submarine environment were characterized using ATR-FTIR in respect to their degradation potential attributed to environmental conditions. A temporal indication was used as indicative to the years of presence of the PETs in the environment as debris. PETs seem to remain robust for approximately fifteen years. Afterwards, a significant decrease of the native functional groups was recorded; some even disappear; or new-not typical for PETs-are created. At a later stage, using the PET time series collected from the Saronikos Gulf (Aegean Sea–E. Mediterranean), it was possible to date bottles that were collected from the bottom of the Ionian Sea (W. Greece). It is the first time that such a study has been conducted with samples that were actually degraded in the marine environment.

  15. Attenuated total reflection (ATR) Fourier transform infrared spectroscopy of dimyristoyl phosphatidylserine-cholesterol mixtures.

    PubMed

    Bach, D; Miller, I R

    2001-10-01

    Mixtures of cholesterol with dimyristoyl phosphatidylserine or deuterated dimyristoyl phosphatidylserine were investigated by polarized and non polarized attenuated total reflection (ATR) Fourier transform infrared (FTIR) Spectroscopy. From polarized spectra the dichroic ratios of various vibrations as a function of cholesterol were calculated. Dichroic ratios of methylene vibration (CH(2)) 2934 cm(-1) of cholesterol decreases with increase of cholesterol concentration leveling off in the region where cholesterol phase separation takes place. The orientation of deuterated methylene (CD(2)) symmetric and asymmetric bands of the deuterated dimyristoyl phosphatidylserine is influenced little by cholesterol. In the polar region of dimyristoyl phosphatidylserine no effect of cholesterol on the dichroic ratios of carbonyl (C==O) and asymmetric phosphate (PO(2)(-)) vibrations were detected. For nonpolarized spectra the broad bands in the polar region of the phospholipid were deconvoluted. The carbonyl band (C==O) in pure dimyristoyl phosphatidylserine is composed of five bands; in the presence of increasing concentrations of cholesterol conformational change of these vibrations takes place evolving into one predominant band. Similar conformational change takes place in the presence of 75 molecules water/molecule DMPS. For the asymmetric phosphate band very small shifts due to interaction with cholesterol were detected.

  16. ATR-FTIR spectroscopy and quantitative multivariate analysis of paints and coating materials

    NASA Astrophysics Data System (ADS)

    Hayes, Philippa Alice; Vahur, Signe; Leito, Ivo

    2014-12-01

    The applicability of ATR-FTIR spectroscopy with partial least squares (PLS) data analysis was evaluated for quantifying the components of mixtures of paint binding media and pigments, and alkyd resins. PLS methods were created using a number of standard mixtures. Validation and measurement uncertainty estimation was carried out. Binary, ternary and quaternary mixtures of several common binding media and pigments were quantified, with standard measurement uncertainties in most cases below 3 g/100 g. Classes of components - aromatic anhydrides and alcohols - used in alkyd resin synthesis were also successfully quantified, with standard uncertainties in the range of 2-3 g/100 g. This is a more demanding application because in alkyd resins aromatic anhydrides and alcohols have reacted to form a polyester, and are not present in their original forms. Once a PLS method has been calibrated, analysis time and cost are significantly reduced from typical quantitative methods such as GC/MS. This is beneficial in the case of routine analysis where the components are known.

  17. ATR-FTIR spectroscopy and quantitative multivariate analysis of paints and coating materials.

    PubMed

    Hayes, Philippa Alice; Vahur, Signe; Leito, Ivo

    2014-12-10

    The applicability of ATR-FTIR spectroscopy with partial least squares (PLS) data analysis was evaluated for quantifying the components of mixtures of paint binding media and pigments, and alkyd resins. PLS methods were created using a number of standard mixtures. Validation and measurement uncertainty estimation was carried out. Binary, ternary and quaternary mixtures of several common binding media and pigments were quantified, with standard measurement uncertainties in most cases below 3g/100g. Classes of components - aromatic anhydrides and alcohols - used in alkyd resin synthesis were also successfully quantified, with standard uncertainties in the range of 2-3g/100g. This is a more demanding application because in alkyd resins aromatic anhydrides and alcohols have reacted to form a polyester, and are not present in their original forms. Once a PLS method has been calibrated, analysis time and cost are significantly reduced from typical quantitative methods such as GC/MS. This is beneficial in the case of routine analysis where the components are known. PMID:24945861

  18. The degradation potential of PET bottles in the marine environment: An ATR-FTIR based approach.

    PubMed

    Ioakeimidis, C; Fotopoulou, K N; Karapanagioti, H K; Geraga, M; Zeri, C; Papathanassiou, E; Galgani, F; Papatheodorou, G

    2016-03-22

    The dominance and persistence of plastic debris in the marine environment are well documented. No information exists in respect to their lifespan in the marine environment. Nevertheless, the degradation potential of plastic litter items remains a critical issue for marine litter research. In the present study, polyethylene terephthalate bottles (PETs) collected from the submarine environment were characterized using ATR-FTIR in respect to their degradation potential attributed to environmental conditions. A temporal indication was used as indicative to the years of presence of the PETs in the environment as debris. PETs seem to remain robust for approximately fifteen years. Afterwards, a significant decrease of the native functional groups was recorded; some even disappear; or new-not typical for PETs-are created. At a later stage, using the PET time series collected from the Saronikos Gulf (Aegean Sea-E. Mediterranean), it was possible to date bottles that were collected from the bottom of the Ionian Sea (W. Greece). It is the first time that such a study has been conducted with samples that were actually degraded in the marine environment.

  19. ATR SEIR study of anions and water adsorbed on platinum electrode

    NASA Astrophysics Data System (ADS)

    Futamata, Masayuki; Luo, Liqiang; Nishihara, Chizuko

    2005-10-01

    Adsorbed species on bare Pt, and UPD-Pb or UPD-Cu/Pt electrodes were characterized in HClO 4 or H 2SO 4 solutions at various potentials using attenuated total reflection (ATR)-surface enhanced infrared absorption (SEIRA) spectroscopy. On the bare Pt electrode, ClO4- anions were observed at 1120-1095 cm -1 at +0.0 < E < +0.6 V, solvated by water molecules with OH stretching absorption at 3600 cm -1 and HOH bending mode at 1610-1620 cm -1. In addition to the S-OH totally symmetric mode at 950 cm -1, adsorbed sulfate species gave two bands at 1230-1100 cm -1 between 0.0 V < E < +0.8 V that are assigned to ν3 (symmetric stretch of S-O in SO 3) of HSO4- ions with different coordination based on the peak shift by isotope substitution. At more negative potential, solely water molecules adsorb on the bare Pt surfaces. In contrast, it was found that electrolyte anions such as bisulfate and ClO4- with hydrating water molecules adsorb onto the UPD-Pb/Pt and UPD-Cu/Pt electrodes even at much negative potentials, e.g. -0.2 V for UPD-Pb.

  20. ATR-SEIRAs characterization of surface redox processes in G. sulfurreducens.

    PubMed

    Busalmen, Juan Pablo; Esteve-Nuñez, Abraham; Berná, Antonio; Feliu, Juan Miguel

    2010-04-01

    In this work we report on the occurrence of at least two different redox pairs on the cell surface of the electrogenic bacteria Geobacter sulfurreducens adsorbed on gold that are expressed in response to the polarization potential. As previously reported on graphite (Environ. Sci. Technol. 42 (2008) 2445) a typical low potential redox pair is found centered at around -0.06 V when cells are polarized for a few hours at 0.2 V, while a new pair centered at around 0.38 V is expressed upon polarization at 0.6 V. Reversible changes in the IR band pattern of whole cells where obtained by Attenuated Total Reflection-Surface Enhanced Infrared Absorption Spectroscopy (ATR-SEIRAS) upon potential cycling around both redox pairs. Changes clearly resemble the electrochemical turnover of oxidized/reduced states in c-type cytochromes, thus evidencing the nature of the involved molecules. The expression of external cytochromes in response to the potential of the electron acceptor suggests the existence of alternative pathways of electron transport with different energy yield, though it remains to be demonstrated. PMID:19482561

  1. Forensic Hair Differentiation Using Attenuated Total Reflection Fourier Transform Infrared (ATR FT-IR) Spectroscopy.

    PubMed

    Manheim, Jeremy; Doty, Kyle C; McLaughlin, Gregory; Lednev, Igor K

    2016-07-01

    Hair and fibers are common forms of trace evidence found at crime scenes. The current methodology of microscopic examination of potential hair evidence is absent of statistical measures of performance, and examiner results for identification can be subjective. Here, attenuated total reflection (ATR) Fourier transform-infrared (FT-IR) spectroscopy was used to analyze synthetic fibers and natural hairs of human, cat, and dog origin. Chemometric analysis was used to differentiate hair spectra from the three different species, and to predict unknown hairs to their proper species class, with a high degree of certainty. A species-specific partial least squares discriminant analysis (PLSDA) model was constructed to discriminate human hair from cat and dog hairs. This model was successful in distinguishing between the three classes and, more importantly, all human samples were correctly predicted as human. An external validation resulted in zero false positive and false negative assignments for the human class. From a forensic perspective, this technique would be complementary to microscopic hair examination, and in no way replace it. As such, this methodology is able to provide a statistical measure of confidence to the identification of a sample of human, cat, and dog hair, which was called for in the 2009 National Academy of Sciences report. More importantly, this approach is non-destructive, rapid, can provide reliable results, and requires no sample preparation, making it of ample importance to the field of forensic science. PMID:27412186

  2. Confirmation of the assignment of vibrations of goethite: an ATR and IES study of goethite structure.

    PubMed

    Liu, Haibo; Chen, Tianhu; Qing, Chengsong; Xie, Qiaoqin; Frost, Ray L

    2013-12-01

    Transmission electron microscopy (TEM), field emission scanning electron microscopy (FE-SEM/EDS) and X-ray diffraction (XRD) were used to characterize the morphology of synthetic goethite. The behavior of the hydroxyl/water molecular units of goethite and its thermally treated products were characterized using Fourier transform-infrared emission spectroscopy (FT-IES) and attenuated total reflectance-Fourier transform infrared (ATR-FTIR) spectroscopy. The results showed that all the expected vibrational bands between 4000 and 650 cm(-1) including the resolved bands (3800-2200 cm(-1)) were confirmed. A band attributed to a new type of hydroxyl unit was found at 3708 cm(-1) and assigned to the FeO-H stretching vibration without hydrogen bonding. This hydroxyl unit was retained up to the thermal treatment temperature of 500 °C. On the whole, seven kinds of hydroxyl units, involving three surface hydroxyls, a bulk hydroxyl, a FeO-H without hydrogen bonding, a nonstoichiometric hydroxyl and a reversed hydroxyl were observed, and three kinds of adsorbed water were found in/on goethite.

  3. Computer analysis of ATR-FTIR spectra of paint samples for forensic purposes

    NASA Astrophysics Data System (ADS)

    Szafarska, Małgorzata; Woźniakiewicz, Michał; Pilch, Mariusz; Zięba-Palus, Janina; Kościelniak, Paweł

    2009-04-01

    A method of subtraction and normalization of IR spectra (MSN-IR) was developed and successfully applied to extract mathematically the pure paint spectrum from the spectrum of paint coat on different bases, both acquired by the Attenuated Total Reflectance Fourier Transform Infrared (ATR-FTIR) technique. The method consists of several stages encompassing several normalization and subtraction processes. The similarity of the spectrum obtained with the reference spectrum was estimated by means of the normalized Manhattan distance. The utility and performance of the method proposed were tested by examination of five different paints sprayed on plastic (polyester) foil and on fabric materials (cotton). It was found that the numerical algorithm applied is able - in contrast to other mathematical approaches conventionally used for the same aim - to reconstruct a pure paint IR spectrum effectively without a loss of chemical information provided. The approach allows the physical separation of a paint from a base to be avoided, hence a time and work-load of analysis to be considerably reduced. The results obtained prove that the method can be considered as a useful tool which can be applied to forensic purposes.

  4. FTIR-ATR analysis of brewed coffee: effect of roasting conditions.

    PubMed

    Lyman, Donald J; Benck, Robert; Dell, Stacy; Merle, Scott; Murray-Wijelath, Jacqueline

    2003-05-21

    FTIR-ATR was used to study the effect of roasting conditions on the flavor of brewed coffee using Guatemala Antigua coffee beans. The 1800-1680 cm(-1) carbonyl region for vinyl esters/lactones, esters, aldehydes, ketones, and acids was found to provide a flavor-print of the brewed coffee. A study of light, medium, and dark roasts indicated that when the rate of heating to the onset of the first and second cracks was kept constant, the types of carbonyl compounds formed were similar, varying only in their concentration. This difference in concentration is apparently due to the additional heating of the coffee bean beyond the second crack. When the heating rate to the onset of the first and second crack was varied, both the types and concentration of the carbonyl compounds formed during roasting were affected. Thus, heating rates of green coffee beans to the onset of the first and second cracks are important determinants of the basic taste and aroma of brewed coffee.

  5. Dogfish egg case structural studies by ATR FT-IR and FT-Raman spectroscopy.

    PubMed

    Iconomidou, Vassiliki A; Georgaka, Martha E; Chryssikos, Georgios D; Gionis, Vassilis; Megalofonou, Persefoni; Hamodrakas, Stavros J

    2007-06-01

    The dogfish egg case is a composite structure that combines mechanical tensile strength, toughness and elasticity with high permeability to small molecules and ions. Presumably, it provides both a protective and a filtering role for the egg/embryo contained within it. In this work, we performed structural studies of the Galeus melastomus egg case at two different stages of the hardening process, utilizing ATR FT-IR and FT-Raman spectroscopy. Based on these data we deduce that: (a) The G. melastomus egg case, in close analogy to that of the related species Scyliorhinus cunicula, is a complex, composite structure which consists mainly of an analogue of collagen IV. This network forming protein appears to have common secondary structural characteristics in the entire egg case. (b) The outermost layer of the non-sclerotized egg case is especially rich in tyrosine, while the innermost layer is rich in polysaccharides, presumably glycosaminoglycans, and lipids. These differences are diminished upon hardening. (c) Disulfide bonds do not appear to play a significant role in cross-linking. However, cross-links involving tyrosine residues appear to sclerotize the egg case. It is proposed that the intensity of the Raman band at ca. 1615 cm(-1), which is due to ring stretching vibrations of Tyr, might be a useful indicator of the sclerotization status of a certain proteinaceous tissue, when tyrosines are involved in sclerotization mechanisms. PMID:17292464

  6. Probing the Mec1ATR Checkpoint Activation Mechanism with Small Peptides.

    PubMed

    Wanrooij, Paulina H; Tannous, Elias; Kumar, Sandeep; Navadgi-Patil, Vasundhara M; Burgers, Peter M

    2016-01-01

    Yeast Mec1, the ortholog of human ATR, is the apical protein kinase that initiates the cell cycle checkpoint in response to DNA damage and replication stress. The basal activity of Mec1 kinase is activated by cell cycle phase-specific activators. Three distinct activators stimulate Mec1 kinase using an intrinsically disordered domain of the protein. These are the Ddc1 subunit of the 9-1-1 checkpoint clamp (ortholog of human and Schizosaccharomyces pombe Rad9), the replication initiator Dpb11 (ortholog of human TopBP1 and S. pombe Cut5), and the multifunctional nuclease/helicase Dna2. Here, we use small peptides to determine the requirements for Mec1 activation. For Ddc1, we identify two essential aromatic amino acids in a hydrophobic environment that when fused together are proficient activators. Using this increased insight, we have been able to identify homologous motifs in S. pombe Rad9 that can activate Mec1. Furthermore, we show that a 9-amino acid Dna2-based peptide is sufficient for Mec1 activation. Studies with mutant activators suggest that binding of an activator to Mec1 is a two-step process, the first step involving the obligatory binding of essential aromatic amino acids to Mec1, followed by an enhancement in binding energy through interactions with neighboring sequences.

  7. Drying process of sodium alginate films studied by two-dimensional correlation ATR-FTIR spectroscopy.

    PubMed

    Xiao, Qian; Gu, Xiaohong; Tan, Suo

    2014-12-01

    Drying process of aqueous sodium alginate solutions at 50°C was investigated by ATR-FTIR spectroscopy and two-dimensional correlation infrared spectroscopy. Two-dimensional asynchronous spectrum at 1,800-1,350 cm(-1) wavenumber could be resolved into five separate bands, which were assigned to O-H bending vibrations in water (around 1,645 cm(-1)), antisymmetric and symmetric stretching vibrations of free and hydrogen-bonded COO(-) groups of alginate (around 1,595, 1,412, 1,572 and 1,390 cm(-1), respectively). As the drying process progressed, absorbance bands at around 1,127 and 1,035 cm(-1) significantly shifted to lower wavenumbers (1120 and 1027cm(-1), respectively). Suggesting that oxygen atoms at the 2th and 3th position in the pyranose ring might have hydrogen bonded with water or alginate chains. Further analysis using 2D asynchronous correlation spectroscopy between 1800-1500 and 1200-960 cm(-1) wavenumber regions revealed the sequence of spectral changes during the drying process.

  8. Influence of DMPS on the water retention capacity of electroporated stratum corneum: ATR-FTIR study.

    PubMed

    Sckolnick, Maria; Hui, Sek-Wen; Sen, Arindam

    2008-02-28

    Anionic lipids like phosphatidylserine are known to significantly enhance electroporation mediated transepidermal transport of polar solutes of molecular weights up to 10kDa. The underlying mechanism of the effect of anionic lipids on transdermal transport is not fully understood. The main barrier to transdermal transport lies within the intercellular lipid matrix (ILM) of the stratum corneum (SC) and our previous studies indicate that dimyristoyl phosphatidylserine (DMPS) can perturb the packing of this lipid matrix. Here we report on our investigation on water retention in the SC following electroporation in the presence and the absence of DMPS. The water content in the outer most layers of the SC of full thickness porcine skin was determined using ATR-FTIR-spectroscopy. The results show that in the presence of DMPS, the SC remains in a state of enhanced hydration for longer periods after electroporation. This increase in water retention in the SC by DMPS is likely to play an important role in trans-epidermal transport, since improved hydration of the skin barrier can be expected to increase the partitioning of polar solutes and possibly the permeability.

  9. Src Family Kinases Promote Silencing of ATR-Chk1 Signaling in Termination of DNA Damage Checkpoint*

    PubMed Central

    Fukumoto, Yasunori; Morii, Mariko; Miura, Takahito; Kubota, Sho; Ishibashi, Kenichi; Honda, Takuya; Okamoto, Aya; Yamaguchi, Noritaka; Iwama, Atsushi; Nakayama, Yuji; Yamaguchi, Naoto

    2014-01-01

    The DNA damage checkpoint arrests cell cycle progression to allow time for repair. Once DNA repair is completed, checkpoint signaling is terminated. Currently little is known about the mechanism by which checkpoint signaling is terminated, and the disappearance of DNA lesions is considered to induce the end of checkpoint signaling; however, here we show that the termination of checkpoint signaling is an active process promoted by Src family tyrosine kinases. Inhibition of Src activity delays recovery from the G2 phase DNA damage checkpoint following DNA repair. Src activity is required for the termination of checkpoint signaling, and inhibition of Src activity induces persistent activation of ataxia telangiectasia mutated (ATM)- and Rad3-related (ATR) and Chk1 kinases. Src-dependent nuclear protein tyrosine phosphorylation and v-Src expression suppress the ATR-mediated Chk1 and Rad17 phosphorylation induced by DNA double strand breaks or DNA replication stress. Thus, Src family kinases promote checkpoint recovery through termination of ATR- and Chk1-dependent G2 DNA damage checkpoint. These results suggest a model according to which Src family kinases send a termination signal between the completion of DNA repair and the initiation of checkpoint termination. PMID:24634213

  10. Targeting the kinase activities of ATR and ATM exhibits antitumoral activity in mouse models of MLL-rearranged AML.

    PubMed

    Morgado-Palacin, Isabel; Day, Amanda; Murga, Matilde; Lafarga, Vanesa; Anton, Marta Elena; Tubbs, Anthony; Chen, Hua-Tang; Ergan, Aysegul; Anderson, Rhonda; Bhandoola, Avinash; Pike, Kurt G; Barlaam, Bernard; Cadogan, Elaine; Wang, Xi; Pierce, Andrew J; Hubbard, Chad; Armstrong, Scott A; Nussenzweig, André; Fernandez-Capetillo, Oscar

    2016-01-01

    Among the various subtypes of acute myeloid leukemia (AML), those with chromosomal rearrangements of the MLL oncogene (AML-MLL) have a poor prognosis. AML-MLL tumor cells are resistant to current genotoxic therapies because of an attenuated response by p53, a protein that induces cell cycle arrest and apoptosis in response to DNA damage. In addition to chemicals that damage DNA, efforts have focused on targeting DNA repair enzymes as a general chemotherapeutic approach to cancer treatment. Here, we found that inhibition of the kinase ATR, which is the primary sensor of DNA replication stress, induced chromosomal breakage and death of mouse AML(MLL) cells (with an MLL-ENL fusion and a constitutively active N-RAS independently of p53. Moreover, ATR inhibition as a single agent exhibited antitumoral activity, both reducing tumor burden after establishment and preventing tumors from growing, in an immunocompetent allograft mouse model of AML(MLL) and in xenografts of a human AML-MLL cell line. We also found that inhibition of ATM, a kinase that senses DNA double-strand breaks, also promoted the survival of the AML(MLL) mice. Collectively, these data indicated that ATR or ATM inhibition represent potential therapeutic strategies for the treatment of AML, especially MLL-driven leukemias. PMID:27625305

  11. Common cancer-associated imbalances in the DNA damage response confer sensitivity to single agent ATR inhibition

    PubMed Central

    Middleton, Fiona K.; Patterson, Miranda J.; Elstob, Claire J.; Fordham, Sarah; Herriott, Ashleigh; Wade, Mark A.; McCormick, Aiste; Edmondson, Richard; May, Felicity E.B.; Allan, James M.; Pollard, John R.; Curtin, Nicola J.

    2015-01-01

    ATRis an attractive target in cancer therapy because it signals replication stress and DNA lesions for repair and to S/G2 checkpoints. Cancer-specific defects in the DNA damage response (DDR) may render cancer cells vulnerable to ATR inhibition alone. We determined the cytotoxicity of the ATR inhibitor VE-821 in isogenically matched cells with DDR imbalance. Cell cycle arrest, DNA damage accumulation and repair were determined following VE-821 exposure. Defectsin homologous recombination repair (HRR: ATM, BRCA2 and XRCC3) and baseexcision repair (BER: XRCC1) conferred sensitivity to VE-821. Surprisingly, the loss of different components of the trimeric non-homologous end-joining (NHEJ) protein DNA-PK had opposing effects. Loss of the DNA-binding component, Ku80, caused hypersensitivity to VE-821, but loss of its partner catalytic subunit, DNA-PKcs, did not. Unexpectedly, VE-821 was particularly cytotoxic to human and hamster cells expressing high levels of DNA-PKcs. High DNA-PKcs was associated with replicative stress and activation of the DDR. VE-821 suppressed HRR, determined by RAD51 focus formation, to a greater extent in cells with high DNA-PKcs. Defects in HRR and BER and high DNA-PKcs expression, that are common in cancer, confer sensitivity to ATR inhibitor monotherapy and may be developed as predictive biomarkers for personalised medicine. PMID:26486089

  12. ATR-FTIR Spectroscopy Highlights the Problem of Distinguishing Between Exophiala dermatitidis and E. phaeomuriformis Using MALDI-TOF MS.

    PubMed

    Ergin, Çağrı; Gök, Yaşar; Bayğu, Yasemin; Gümral, Ramazan; Özhak-Baysan, Betil; Döğen, Aylin; Öğünç, Dilara; Ilkit, Macit; Seyedmousavi, Seyedmojtaba

    2016-02-01

    The present study compared two chemical-based methods, namely, matrix-assisted laser desorption/ionization-time-of-flight mass spectrometry (MALDI-TOF MS) and attenuated total reflectance-Fourier transform infrared (ATR-FTIR) spectroscopy, to understand the misidentification of Exophiala dermatitidis and Exophiala phaeomuriformis. The study utilized 44 E. dermatitidis and 26 E. phaeomuriformis strains, which were partially treated with strong acids and bases for further evaluation. MALDI-TOF MS and ATR-FTIR spectroscopy data of the two Exophiala species were compared. Data groupings were observed for the chromic acid- and nitric acid-treated species when the black yeast sources were categorized as creosoted-oak sleepers, concrete sleepers, or dishwasher isolates. The MALDI-TOF MS data for the metalloenzyme-containing regions were consistent with the ATR-FTIR spectroscopy data. These results indicated that environmental isolates might contain metals not found in human isolates and might interfere with chemical-based identification methods. Therefore, MALDI-TOF MS reference libraries should be created for clinical strains and should exclude petroleum-associated environmental isolates. PMID:26373644

  13. Atrésie intestinale iléale: diagnostic anténatale et prise en charge

    PubMed Central

    Dhibou, Hanane; Bassir, Ahlam; Sami, Nadia; Boukhanni, Lahcen; Fakhir, Bouchra; Asmouki, Hamid; Soummani, Abderraouf

    2016-01-01

    L’atrésie iléale est une malformation congénitale rare, elle constitue une faible part avec une incidence de 1 pour 5000 cas. Elle peut être suspectée et diagnostiqué échographiquement à la fin du deuxième et troisième trimestre. La concertation obstétrico-chirurgicale constitue ici la clé du succès. Eliminer une maladie générale à mauvais pronostic, lutter contre la prématurité et confier l’enfant immédiatement au chirurgien sont les objectifs principaux à réaliser. L'intervention chirurgicale va préciser le type de l'atrésie, son siège, son caractère unique ou multiple et sa longueur dont l’acte chirurgical dépend de l’étiologie. Il nous a paru intéressant de vous documenter un cas clinique d’atrésie iléale de diagnostic anténatal. PMID:27800095

  14. Tel2 structure and function in the Hsp90-dependent maturation of mTOR and ATR complexes

    SciTech Connect

    Takai, Hiroyuki; Xie, Yihu; de Lange, Titia; Pavletich, Nikola P.

    2010-09-20

    We reported previously that the stability of all mammalian phosphatidylinositol 3-kinase-related protein kinases (PIKKs) depends on their interaction with Tel2, the ortholog of yeast Tel2 and Caenorhabditis elegans Clk-2. Here we provide evidence that Tel2 acts with Hsp90 in the maturation of PIKK complexes. Quantitative immunoblotting showed that the abundance of Tel2 is low compared with the PIKKs, and Tel2 preferentially bound newly synthesized ATM, ATR, mTOR, and DNA-PKcs. Tel2 complexes contained, in addition to Tti1-Tti2, the Hsp90 chaperone, and inhibition of Hsp90 interfered with the interaction of Tel2 with the PIKKs. Analysis of in vivo labeled nascent protein complexes showed that Tel2 and Hsp90 mediate the formation of the mTOR TORC1 and TORC2 complexes and the association of ATR with ATRIP. The structure of yeast Tel2, reported here, shows that Tel2 consists of HEAT-like helical repeats that assemble into two separate {alpha}-solenoids. Through mutagenesis, we identify a surface patch of conserved residues involved in binding to the Tti1-Tti2 complex in vitro. In vivo, mutation of this conserved patch affects cell growth, levels of PIKKs, and ATM/ATR-mediated checkpoint signaling, highlighting the importance of Tti1-Tti2 binding to the function of Tel2. Taken together, our data suggest that the Tel2-Tti1-Tti2 complex is a PIKK-specific cochaperone for Hsp90.

  15. Differential roles for Chk1 and FANCD2 in ATR-mediated signalling for psoralen photoactivation-induced senescence.

    PubMed

    Hovest, Miriam G; Krieg, Thomas; Herrmann, Gernot

    2011-11-01

    Cellular senescence is a stress-inducible, naturally irreversible cell cycle arrest, which is likely linked with ageing. Premature ageing of the skin is a prominent side effect of psoralen photoactivation, which is used for the treatment of various skin disorders. Previously, we have shown that DNA interstrand crosslink formation by photoactivated psoralens induces a senescent phenotype in primary fibroblasts that is mediated by Ataxia telangiectasia-mutated and Rad3-related (ATR) kinase. Checkpoint kinase 1 (Chk1) initiates cell cycle checkpoints, and FANCD2 is known to be involved in DNA damage-induced S-phase arrest and crosslink repair. In this study, we examined a role for Chk1 and FANCD2 as downstream effectors of ATR in senescence signalling. We demonstrate that Chk1 and FANCD2 are long-lastingly activated after psoralen photoactivation. Separate and combined reduction in Chk1 and FANCD2 expression by small interfering RNA (siRNA) preceding irradiation partly prevented the initiation of the senescence-like phenotype, whereas siRNA (Chk1 and FANCD2) transfection of senesced fibroblasts released cells from growth arrest. We observed that Chk1 and FANCD2 signal equally and additively for senescence induction, while Chk1 is predominantly responsible for maintaining persistent cell cycle arrest. In conclusion, Chk1 and FANCD2 function downstream of ATR in a non-redundant manner for the establishment and maintenance of psoralen photoactivation-induced senescence.

  16. Dual inhibition of ATR and ATM potentiates the activity of trabectedin and lurbinectedin by perturbing the DNA damage response and homologous recombination repair

    PubMed Central

    Soares, Daniele G.; Selle, Frédéric; Morel, Claire; Galmarini, Carlos M.; Henriques, João A. P.; Larsen, Annette K.; Escargueil, Alexandre E.

    2016-01-01

    Trabectedin (Yondelis®, ecteinascidin-743, ET-743) is a marine-derived natural product approved for treatment of advanced soft tissue sarcoma and relapsed platinum-sensitive ovarian cancer. Lurbinectedin is a novel anticancer agent structurally related to trabectedin. Both ecteinascidins generate DNA double-strand breaks that are processed through homologous recombination repair (HRR), thereby rendering HRR-deficient cells particularly sensitive. We here characterize the DNA damage response (DDR) to trabectedin and lurbinectedin in HeLa cells. Our results show that both compounds activate the ATM/Chk2 (ataxia-telangiectasia mutated/checkpoint kinase 2) and ATR/Chk1 (ATM and RAD3-related/checkpoint kinase 1) pathways. Interestingly, pharmacological inhibition of Chk1/2, ATR or ATM is not accompanied by any significant improvement of the cytotoxic activity of the ecteinascidins while dual inhibition of ATM and ATR strongly potentiates it. Accordingly, concomitant inhibition of both ATR and ATM is an absolute requirement to efficiently block the formation of γ-H2AX, MDC1, BRCA1 and Rad51 foci following exposure to the ecteinascidins. These results are not restricted to HeLa cells, but are shared by cisplatin-sensitive and -resistant ovarian carcinoma cells. Together, our data identify ATR and ATM as central coordinators of the DDR to ecteinascidins and provide a mechanistic rationale for combining these compounds with ATR and ATM inhibitors. PMID:27029031

  17. R_transport_matrices of the Fast Extraction Beam (FEB) of the AGS, and Beam Parameters at the Starting point of the AtR Line

    SciTech Connect

    Tsoupas,N.; MacKay, W.W.; Satogata, T.; Glenn, W.; Ahrens, L.; Brown, K.; Gardner, C.; Tanaka, S.

    2008-01-01

    As part of the task to improve and further automate the 'AtR BPM Application' we provide the theoretically calculated R-transport-matrices for the following beam line sections, which are shown schematically in Figure 1: (a) the Fast Extraction Beam section (FEB) of the AGS synchrotron. The FEB section starts at the middle of the GlO-kicker and ends at the middle of the H1 0{_}septum. (b) the Drift Extraction Channel (DEC) section of the AGS synchrotron. The DEC section starts at the middle of the H10{_}septum, continues along the fringe field region of the H11,H12, and H13 AGS main magnets, and ends at the starting point of the AtR line. The knowledge of these R-transport-matrices are needed in order to calculate the beam parameters at the beginning of the AtR line, which in turn, are required to calculate the magnet settings of the U{_}line, that match the U{_}line into the W{_}line. Also by incorporating these R{_}matrices into the model of the AtR line, the G10 kicker and the H10 septum are included in the AtR model therefore one can investigate any 'jitter' of either the GlO{_}kicker or HlO{_}septum by looking at the trajectory of the beam in the AtR line.

  18. Image-based ATR utilizing adaptive clutter filter detection, LLRT classification, and Volterra fusion with application to side-looking sonar

    NASA Astrophysics Data System (ADS)

    Aridgides, Tom; Fernández, Manuel

    2010-04-01

    An improved automatic target recognition (ATR) processing string has been developed. The overall processing string consists of pre-processing, subimage adaptive clutter filtering, detection, feature extraction, optimal subset feature selection, feature orthogonalization and classification processing blocks. The objects that are classified by three distinct ATR strings are fused using the classification confidence values and their expansions as features, and using "summing" or log-likelihood-ratio-test (LLRT) based fusion rules. These three ATR processing strings were individually developed and tuned by researchers from different companies. The utility of the overall processing strings and their fusion was demonstrated with an extensive side-looking sonar dataset. In this paper we describe a new processing improvement: six additional classification features are extracted, using primarily target shadow information and a feature extraction window whose length is now made variable as a function of range. This new ATR processing improvement resulted in a 3:1 reduction in false alarms. Two advanced fusion algorithms are subsequently applied: First, a nonlinear Volterra expansion (2nd order) feature-LLRT fusion algorithm is employed. Second, a repeated application of a subset Volterra feature selection / feature orthogonalization / LLRT fusion block is utilized. It is shown that cascaded Volterra feature- LLRT fusion of the ATR processing strings outperforms baseline "summing" and single-stage Volterra feature-LLRT fusion algorithms, yielding significant improvements over the best single ATR processing string results, and providing the capability to correctly call the majority of targets while maintaining a very low false alarm rate.

  19. Neutron flux and spectrum variation in a MOX fuel experiment

    SciTech Connect

    Chang, G.S.; Rogers, J.W.; Ryskamp, J.M.

    1999-07-01

    In support of potential licensing of mixed-oxide (MOX) fuel made from weapons-grade (WG) plutonium and depleted uranium for use in US reactors, an experiment containing WG-MOX fuel has been designed and is being irradiated in the Advanced Test Reactor (ATR) at the Idaho National Engineering and Environmental Laboratory. A simple, uninstrumented, test assembly containing nine MOX fuel capsules with neutron monitor wires was inserted into the ATR. Important neutronics parameters were computed using novel Monte Carlo methods. The purpose is to show that neutron monitor measurements have validated the new methodology.

  20. Multimedia content description framework

    NASA Technical Reports Server (NTRS)

    Bergman, Lawrence David (Inventor); Kim, Michelle Yoonk Yung (Inventor); Li, Chung-Sheng (Inventor); Mohan, Rakesh (Inventor); Smith, John Richard (Inventor)

    2003-01-01

    A framework is provided for describing multimedia content and a system in which a plurality of multimedia storage devices employing the content description methods of the present invention can interoperate. In accordance with one form of the present invention, the content description framework is a description scheme (DS) for describing streams or aggregations of multimedia objects, which may comprise audio, images, video, text, time series, and various other modalities. This description scheme can accommodate an essentially limitless number of descriptors in terms of features, semantics or metadata, and facilitate content-based search, index, and retrieval, among other capabilities, for both streamed or aggregated multimedia objects.

  1. Simultaneous inhibition of ATR and PARP sensitizes colon cancer cell lines to irinotecan

    PubMed Central

    Abu-Sanad, Atlal; Wang, Yunzhe; Hasheminasab, Fatemeh; Panasci, Justin; Noë, Alycia; Rosca, Lorena; Davidson, David; Amrein, Lilian; Sharif-Askari, Bahram; Aloyz, Raquel; Panasci, Lawrence

    2015-01-01

    Enhanced DNA damage repair is one mechanism involved in colon cancer drug resistance. Thus, targeting molecular components of repair pathways with specific small molecule inhibitors may improve the efficacy of chemotherapy. ABT-888 and VE-821, inhibitors of poly-ADP-ribose-polymerase (PARP) and the serine/threonine-kinase Ataxia telangiectasia related (ATR), respectively, were used to treat colon cancer cell lines in combination with the topoisomerase-I inhibitor irinotecan (SN38). Our findings show that each of these DNA repair inhibitors utilized alone at nontoxic single agent concentrations resulted in sensitization to SN38 producing a 1.4–3 fold reduction in the 50% inhibitory concentration (IC50) of SN38 in three colon cancer cell lines. When combined together, nontoxic concentrations of ABT-888 and VE-821 produced a 4.5–27 fold reduction in the IC50 of SN38 with the HCT-116 colon cancer cells demonstrating the highest sensitization as compared to LoVo and HT-29 colon cancer cells. Furthermore, the combination of all three agents was associated with maximal G2 −M arrest and enhanced DNA-damage (γH2AX) in all three colon cancer cell lines. The mechanism of this enhanced sensitization was associated with: (a) maximal suppression of SN38 induced PARP activity in the presence of both inhibitors and (b) ABT-888 producing partial abrogation of the VE-821 enhancement of SN38 induced DNA-PK phosphorylation, resulting in more unrepaired DNA damage; these alterations were only present in the HCT-116 cells which have reduced levels of ATM. This novel combination of DNA repair inhibitors may be useful to enhance the activity of DNA damaging chemotherapies such as irinotecan and help produce sensitization to this drug in colon cancer. PMID:26257651

  2. [Research on Rapid Discrimination of Edible Oil by ATR Infrared Spectroscopy].

    PubMed

    Ma, Xiao; Yuan, Hong-fu; Song, Chun-feng; Hu, Ai-qin; Li, Xiao-yu; Zhao, Zhong; Li, Xiu-qin; Guo Zhen; Zhu, Zhi-qiang

    2015-07-01

    A rapid discrimination method of edible oils, KL-BP model, was proposed by attenuated total reflectance infrared spectroscopy. The model extracts the characteristic of classification from source data by KL and reduces data dimension at the same time. Then the neural network model is constructed by the new data which as the input of the model. 84 edible oil samples which include sesame oil, corn oil, canola oil, blend oil, sunflower oil, peanut oil, olive oil, soybean oil and tea seed oil, were collected and their infrared spectra determined using an ATR FT-IR spectrometer. In order to compare the method performance, principal component analysis (PCA) direct-classification model, KL direct-classification model, PLS-DA model, PCA-BP model and KL-BP model are constructed in this paper. The results show that the recognition rates of PCA, PCA-BP, KL, PLS-DA and KL-BP are 59.1%, 68.2%, 77.3%, 77.3% and 90.9% for discriminating the 9 kinds of edible oils, respectively. KL extracts the eigenvector which make the distance between different class and distance of every class ratio is the largest. So the method can get much more classify information than PCA. BP neural network can effectively enhance the classification ability and accuracy. Taking full of the advantages of KL in extracting more category information in dimension reducing and the features of BP neural network in self-learning, adaptive, nonlinear, the KL-BP method has the best classification ability and recognition accuracy and great importance for rapidly recognizing edible oil in practice.

  3. ATR FT-IR H 2O spectra of acidic aqueous solutions. Insights about proton hydration

    NASA Astrophysics Data System (ADS)

    Śmiechowski, Maciej; Stangret, Janusz

    2008-04-01

    Proton hydration in aqueous solutions has been recently characterised in our laboratory by means of vibrational spectra of HDO isotopically diluted in H 2O [M. Śmiechowski, J. Stangret, J. Chem. Phys. 125 (2006) 204508]. Here, we attempt to study quantitatively H 2O spectra of acidic aqueous solutions. In principle, H 2O spectra provide more information about the structural state of water molecules, resulting from oscillator couplings in the system, but they are much more difficult in interpretation, when compared with HDO spectra. The spectra of aqueous solutions of monoprotic acids (HCl, HClO 4, HPF 6) have been measured by Attenuated Total Reflectance (ATR) FT-IR spectroscopy. Spectral data have been analysed in a way that led to removal of the contribution of bulk water, in order to separate the spectra of solute-affected water only. The analysis has been focused on the infinite dilution limit behaviour of the spectrum. Changes induced in the affected spectra by temperature have been studied for HPF 6 solutions at 25-45 °C. The stretching vibration fundamental has been found to be primarily affected by counter-anion. Proton-affected H 2O spectrum shows the presence of very wide absorption bands in the range, where bulk water shows negligible own absorption, rather than "absorption continua". They could be adequately resolved into analytical components. These bands have been unaffected by temperature and loosely correlated with the stretching fundamental, as indicated by 2D IR correlation spectra. All spectral effects of the studied acids on H 2O in solution have been quantitatively evidenced and discussed. They seem to be in accordance with the main conclusions about proton hydration derived from recent studies of HDO spectra mentioned above.

  4. The structural evolution of magnesium acetate complex in aerosols by FTIR-ATR spectra

    NASA Astrophysics Data System (ADS)

    Pang, Shu-Feng; Wu, Chang-Qin; Zhang, Qing-Nuan; Zhang, Yun-Hong

    2015-05-01

    The structural evolution of magnesium acetate complex in aerosols with the relative humidity (RH) has been studied by ATR-FTIR technique. When the RH is higher than 66%, the ν4 band lies at 929 cm-1 meaning the free CH3COO- ions in Mg(CH3COO)2 droplets. At the 66% RH, ν4 band positioned at 939 cm-1, accompanying the ν8 band shift to 1554 cm-1, which indicats that the free CH3COO- ions are bounded to Mg2+ ions to form [Mg(H2O)5(CH3COO)]+ species. At the 57.7% RH, the ν8-COO band shifts to 1556 cm-1 accompanying the ν3 band at 1421 cm-1 and the appearance of shoulder at 1452 cm-1, which suggests the formation of chain-structure connected by the bridging bidentate of Mg2(CH3COO)4(H2O)2. In the region of 57.7-18.7% RH, the shoulder at 1452 cm-1 increases with the decrease in RH, showing the increase of Mg2(CH3COO)4(H2O)2. From the water-content, the water-transfer from and to the surface of the aerosols became limited, showing the aerosols enter the gel state. Below 18.7%RH, water-loss becomes rapid and the ν8 band performs blue-shift. At 3.8%RH, the ν8 band positioned at 1581 cm-1, showing the anhydrous Mg(CH3COO)2 solid, which can be reflected by the ν4 band at 947 cm-1. During the humidification process, the reverse structural evolution can be found.

  5. Application of FTIR-ATR spectroscopy coupled with multivariate analysis for rapid estimation of butter adulteration.

    PubMed

    Fadzlillah, Nurrulhidayah Ahmad; Rohman, Abdul; Ismail, Amin; Mustafa, Shuhaimi; Khatib, Alfi

    2013-01-01

    In dairy product sector, butter is one of the potential sources of fat soluble vitamins, namely vitamin A, D, E, K; consequently, butter is taken into account as high valuable price from other dairy products. This fact has attracted unscrupulous market players to blind butter with other animal fats to gain economic profit. Animal fats like mutton fat (MF) are potential to be mixed with butter due to the similarity in terms of fatty acid composition. This study focused on the application of FTIR-ATR spectroscopy in conjunction with chemometrics for classification and quantification of MF as adulterant in butter. The FTIR spectral region of 3910-710 cm⁻¹ was used for classification between butter and butter blended with MF at various concentrations with the aid of discriminant analysis (DA). DA is able to classify butter and adulterated butter without any mistakenly grouped. For quantitative analysis, partial least square (PLS) regression was used to develop a calibration model at the frequency regions of 3910-710 cm⁻¹. The equation obtained for the relationship between actual value of MF and FTIR predicted values of MF in PLS calibration model was y = 0.998x + 1.033, with the values of coefficient of determination (R²) and root mean square error of calibration are 0.998 and 0.046% (v/v), respectively. The PLS calibration model was subsequently used for the prediction of independent samples containing butter in the binary mixtures with MF. Using 9 principal components, root mean square error of prediction (RMSEP) is 1.68% (v/v). The results showed that FTIR spectroscopy can be used for the classification and quantification of MF in butter formulation for verification purposes.

  6. Surface interactions of aromatic organoarsenical compounds with hematite nanoparticles using ATR-FTIR: kinetic studies.

    PubMed

    Arts, Derek; Abdus Sabur, Md; Al-Abadleh, Hind A

    2013-03-14

    Aromatic organoarsenicals p-arsanilic acid (pAsA) and roxarsone (ROX) are used as feed additives in developing countries that allow the use of arsenic-containing compounds in their poultry industry. These compounds are introduced to the environment through the application of contaminated poultry litter. Little is known about the surface chemistry of these organoarsenicals on the molecular level with reactive components in soils. We report herein the first in situ and surface-sensitive rapid kinetic studies on the adsorption and desorption of pAsA to/from hematite nanoparticles at pH 7 using ATR-FTIR. Values for the apparent initial rates of adsorption and desorption were extracted from experimental data as a function of spectral components. Hydrogen phosphate was used as a desorbing agent due to its ubiquitous presence in litter, and its adsorption kinetics was investigated on surfaces with and without surface arsenic. Initial first-order pseudo-adsorption rate constant for pAsA was lower by a factor of 1.6 than that of iAs(V), suggesting an average behavior for the formation of quantitatively more weakly bonded monodentate or hydrogen-bonded complexes for the former relative to strongly bonded bidentate surface complexes for the latter under our experimental conditions. Initial first-order pseudo-adsorption rate constants for hydrogen phosphate decrease in this order: fresh hematite > pAsA/hematite ≈ phenylarsonic acid (PhAs)/hematite > iAs/hematite by factors 1.5 and 3 relative to fresh films, respectively. Initial desorption kinetics of aromatic organoarsenicals due to flowing hydrogen phosphate proceed with a nonunity overall order, suggesting a complex mechanism, which is consistent with the existence of more than one type of surface complexes. The impact of our studies on the environmental fate and transport of aromatic organoarsenicals in geochemical environments and their overall surface chemistry with iron (oxyhyr)oxides is discussed.

  7. Provocative Opinion: Descriptive Chemistry.

    ERIC Educational Resources Information Center

    Bent, Henry A.; Bent, Brian E.

    1987-01-01

    Discusses many of the distinctions that chemists draw between theoretical chemistry and descriptive chemistry, along with the tendency for chemical educators to adopt the type of chemistry they feel is most important to teach. Uses examples to argue that theoretical chemistry and descriptive chemistry are, at the bottom line, the same. (TW)

  8. Physics 3204. Course Description.

    ERIC Educational Resources Information Center

    Newfoundland and Labrador Dept. of Education.

    A description of the physics 3204 course in Newfoundland and Labrador is provided. The description includes: (1) statement of purpose, including general objectives of science education; (2) a list of six course objectives; (3) course content for units on sound, light, optical instruments, electrostatics, current electricity, Michael Faraday and…

  9. Job descriptions made easy.

    PubMed

    Miller, Larry

    2014-01-01

    The act of writing a job description can be a daunting and difficult task for many managers. This article focuses on the key concepts of What, How, and Measureable Results as they relate to an employee's job duties. When the answers to these three elements are articulated, they define the core responsibilities of any job that form the basis for an effective job description.

  10. Checkpoint Kinase ATR Promotes Nucleotide Excision Repair of UV-induced DNA Damage via Physical Interaction with Xeroderma Pigmentosum Group A*

    PubMed Central

    Shell, Steven M.; Li, Zhengke; Shkriabai, Nikolozi; Kvaratskhelia, Mamuka; Brosey, Chris; Serrano, Moises A.; Chazin, Walter J.; Musich, Phillip R.; Zou, Yue

    2009-01-01

    In response to DNA damage, eukaryotic cells activate a series of DNA damage-dependent pathways that serve to arrest cell cycle progression and remove DNA damage. Coordination of cell cycle arrest and damage repair is critical for maintenance of genomic stability. However, this process is still poorly understood. Nucleotide excision repair (NER) and the ATR-dependent cell cycle checkpoint are the major pathways responsible for repair of UV-induced DNA damage. Here we show that ATR physically interacts with the NER factor Xeroderma pigmentosum group A (XPA). Using a mass spectrometry-based protein footprinting method, we found that ATR interacts with a helix-turn-helix motif in the minimal DNA-binding domain of XPA where an ATR phosphorylation site (serine 196) is located. XPA-deficient cells complemented with XPA containing a point mutation of S196A displayed a reduced repair efficiency of cyclobutane pyrimidine dimers as compared with cells complemented with wild-type XPA, although no effect was observed for repair of (6-4) photoproducts. This suggests that the ATR-dependent phosphorylation of XPA may promote NER repair of persistent DNA damage. In addition, a K188A point mutation of XPA that disrupts the ATR-XPA interaction inhibits the nuclear import of XPA after UV irradiation and, thus, significantly reduced DNA repair efficiency. By contrast, the S196A mutation has no effect on XPA nuclear translocation. Taken together, our results suggest that the ATR-XPA interaction mediated by the helix-turn-helix motif of XPA plays an important role in DNA-damage responses to promote cell survival and genomic stability after UV irradiation. PMID:19586908

  11. A quantitative study for determination of sugar concentration using attenuated total reflectance terahertz (ATR-THz) spectroscopy

    NASA Astrophysics Data System (ADS)

    Suhandy, Diding; Suzuki, Tetsuhito; Ogawa, Yuichi; Kondo, Naoshi; Ishihara, Takeshi; Takemoto, Yuichiro

    2011-06-01

    The objective of our research was to use ATR-THz spectroscopy together with chemometric for quantitative study in food analysis. Glucose, fructose and sucrose are main component of sugar both in fresh and processed fruits. The use of spectroscopic-based method for sugar determination is well reported especially using visible, near infrared (NIR) and middle infrared (MIR) spectroscopy. However, the use of terahertz spectroscopy for sugar determination in fruits has not yet been reported. In this work, a quantitative study for sugars determination using attenuated total reflectance terahertz (ATR-THz) spectroscopy was conducted. Each samples of glucose, fructose and sucrose solution with different concentrations were prepared respectively and their absorbance spectra between wavenumber 20 and 450 cm-1 (between 0.6 THz and 13.5 THz) were acquired using a terahertz-based Fourier Transform spectrometer (FARIS-1S, JASCO Co., Japan). This spectrometer was equipped with a high pressure of mercury lamp as light source and a pyroelectric sensor made from deuterated L-alanine triglycine sulfate (DLTGS) as detector. Each spectrum was acquired using 16 cm-1 of resolution and 200 scans for averaging. The spectra of water and sugar solutions were compared and discussed. The results showed that increasing sugar concentration caused decreasing absorbance. The correlation between sugar concentration and its spectra was investigated using multivariate analysis. Calibration models for glucose, fructose and sucrose determination were developed using partial least squares (PLS) regression. The calibration model was evaluated using some parameters such as coefficient of determination (R2), standard error of calibration (SEC), standard error of prediction (SEP), bias between actual and predicted sugar concentration value and ratio prediction to deviation (RPD) parameter. The cross validation method was used to validate each calibration model. It is showed that the use of ATR

  12. Engagement of the ATR-Dependent DNA Damage Response at the Human Papillomavirus 18 Replication Centers during the Initial Amplification

    PubMed Central

    Reinson, Tormi; Toots, Mart; Kadaja, Meelis; Pipitch, Regina; Allik, Mihkel; Ustav, Ene

    2013-01-01

    We have previously demonstrated that the human papillomavirus (HPV) genome replicates effectively in U2OS cells after transfection using electroporation. The transient extrachromosomal replication, stable maintenance, and late amplification of the viral genome could be studied for high- and low-risk mucosal and cutaneous papillomaviruses. Recent findings indicate that the cellular DNA damage response (DDR) is activated during the HPV life cycle and that the viral replication protein E1 might play a role in this process. We used a U2OS cell-based system to study E1-dependent DDR activation and the involvement of these pathways in viral transient replication. We demonstrated that the E1 protein could cause double-strand DNA breaks in the host genome by directly interacting with DNA. This activity leads to the induction of an ATM-dependent signaling cascade and cell cycle arrest in the S and G2 phases. However, the transient replication of HPV genomes in U2OS cells induces the ATR-dependent pathway, as shown by the accumulation of γH2AX, ATR-interacting protein (ATRIP), and topoisomerase IIβ-binding protein 1 (TopBP1) in viral replication centers. Viral oncogenes do not play a role in this activation, which is induced only through DNA replication or by replication proteins E1 and E2. The ATR pathway in viral replication centers is likely activated through DNA replication stress and might play an important role in engaging cellular DNA repair/recombination machinery for effective replication of the viral genome upon active amplification. PMID:23135710

  13. Comparison of the Radiosensitizing Effect of ATR, ATM and DNA-PK Kinase Inhibitors on Cervical Carcinoma Cells.

    PubMed

    Vávrová, J; Zárybnická, L; Jošt, P; Tichý, A; Řezáčová, M; Šinkorová, Z; Pejchal, J

    2016-01-01

    Here, we compared the effects of inhibitors of three phosphatidylinositol-3-kinase-related kinases, ATM, ATR a DNA-PK, on radiosensitization of cervical carcinoma cells. We demonstrated that DNA-PK inhibitor NU7441 enhanced phosphorylation of Chk1 and Chk2 kinases 2 h after irradiation of HeLa cells at a dose of 8 Gy in contrast to ATM kinase inhibitor KU55933, which completely blocked the Chk2 kinase phosphorylation on threonine 68, and ATR kinase inhibitor VE-821, which blocked the Chk1 kinase phosphorylation on serine 345. Most HeLa cells were accumulated in G2 phase of the cell cycle 24 h after irradiation at a high dose of 15 Gy, which was even potentiated after adding the inhibitors NU7441 and KU55933. Compared to all other irradiated groups, inhibitor VE-821 increased the number of cells in S phase and reduced the number of cells in G2 phase 24 h after irradiation at the high dose of 15 Gy. HeLa cells entered the mitotic cycle with unrepaired DNA, which resulted in cell death and the radiosensitizing effect of VE-821. Short-term application of the inhibitors (2 h before and 30 min after the irradiation by the dose of 8 Gy) significantly decreased the colony-forming ability of HeLa cells. Using real-time monitoring of cell proliferation by the xCELLigence system we demonstrated that while the radiosensitizing effect of VE-821 (ATR inhibitor) is manifested early after the irradiation, the radiosensitizing effect of KU55933 (ATM inhibitor) and NU7441 (DNA-PK inhibitor) is only observed as late as 72 h after the irradiation. PMID:27643582

  14. In situ-ATR-FTIR analysis on the uptake and release of streptomycin from polyelectrolyte complex layers

    NASA Astrophysics Data System (ADS)

    Torger, B.; Müller, M.

    2013-03-01

    In-situ ATR-FTIR spectroscopy and line shape analysis of the diagnostic spectral region was used to quantify the bound amount and release of the antibiotic streptomycin (STRP) at polyelectrolyte (PEL) multilayers (PEM) of poly(ethyleneimine) (PEI) and poly(acrylic acid) (PAA) or PEI and sodium alginate (ALG). Unlike common concepts based on the drug enrichment of the release medium, this analytical concept allowed to measure quantitatively the drug depletion in the delivery matrix. The measured kinetic in situ ATR-FTIR data were analysed by a modified Korsmeyer-Peppas equation based on two characteristic release parameters k and n. As main experimental parameters the number of PEL layers (adsorption steps) z and the STRP/PEL ratio were varied. For z = 8 the STRP/PEL ratio showed the most significant influence on release kinetics, whereby for STRP/PEL = 1:25 slowest (n = 0.77) and lowest (k = 21.4%) and for STRP/PEL = 1:5 most rapid (n = 0.30) and highest (k = 58.6%) drug releases were found. PEM-PEI/ALG-8 (STRP/PEL = 1:5) revealed slower release rates (n = 0.58) and lower released STRP amounts (k = 17.1%) compared to PEI/PAA. UV-VIS data on time dependent STRP enrichment of the release medium showed a similar trend compared to respective ATR-FTIR data on STRP depletion in PEM. Released amounts of around 1-2 mg from the herein introduced PEM films could be determined. The introduced analytical concept will be used as screening tool for other drugs, drug eluting films and bone substituting materials.

  15. A dynamic thermal ATR-FTIR/chemometric approach to the analysis of polymorphic interconversions. Cimetidine as a model drug.

    PubMed

    Calvo, Natalia L; Maggio, Rubén M; Kaufman, Teodoro S

    2014-04-01

    Crystal polymorphism of active ingredients is relevant to the pharmaceutical industry, since polymorphic changes taking place during manufacture or storage of pharmaceutical formulations can affect critical properties of the products. Cimetidine (CIM) has several relevant solid state forms, including four polymorphs (A, B, C and D), an amorphous form (AM) and a monohydrate (M1). Dehydration of M1 has been reported to yield mixtures of polymorphs A, B and C or just a single form. Standards of the solid forms of CIM were prepared and unequivocally characterized by FTIR spectroscopy, digital microscopy, differential scanning calorimetry and solid state (13)C NMR spectroscopy. Multivariate curve resolution with alternating least squares (MCR-ALS) was coupled to variable temperature attenuated total reflectance Fourier transform infrared spectroscopy (ATR-FTIR) to dynamically characterize the behavior of form M1 of CIM over a temperature range from ambient to 160°C, without sample pretreatment. MCR-ALS analysis of ATR-FTIR spectra obtained from the tested solid under variable temperature conditions unveiled the pure spectra of the species involved in the polymorphic transitions. This allowed the simultaneous observation of thermochemical and thermophysical events associated to the changes involved in the solid forms, enabling their unequivocal identification and improving the understanding of their thermal behavior. It was demonstrated that under the experimental conditions, dehydration of M1 initially results in the formation of polymorph B; after melting and upon cooling, the latter yields an amorphous solid (AM). It was concluded that the ATR-FTIR/MCR association is a promising and useful technique for monitoring solid-state phase transformations.

  16. Investigation of switch from ATM to ATR signaling at the sites of DNA damage induced by low and high LET radiation.

    PubMed

    Saha, Janapriya; Wang, Minli; Cucinotta, Francis A

    2013-12-01

    Upon induction of DNA damage by ionizing radiation (IR), members of the phosphatidylinositol 3-kinase-like kinase family of proteins namely ataxia-telangiectasia mutated (ATM), DNA-PKcs, and ATM- and Rad3-related (ATR) maintain genomic integrity by mounting DNA damage response (DDR). Recent reports suggest that activation of ATM and ATR are oppositely regulated by the length of single stranded overhangs generated during end processing by nucleases at the break sites. These stretches of single stranded overhangs hold the clue for the transition from ATM to ATR signaling at broken DNA ends. We investigated whether differential processing of breaks induced by low and high LET radiation augments the phenomenon of switching from ATM to ATR kinase and hence a concomitant NHEJ to HR transition at the sites of DNA damage. 82-6 human fibroblasts were irradiated with 1 or 2Gy of γ-rays and particle radiation of increasing LET in order to increase the complexity and variability of DNA double strand breaks (DSB) structures. The activation kinetics of ATM and ATR kinases along with their downstream substrates were determined utilizing Western blotting and immunofluorescence techniques. Our data provide evidence of a potential switch from ATM to ATR kinase signaling in cells treated with γ-rays at approximately 2h post irradiation, with induction and completion of resection denoted by Rad51 foci resolution kinetics and observed with a significant decline of phosphorylated ATR kinase 8h after IR. On the other hand, irradiation with high LET 600MeV/u (56)Fe (180keV/μm) and 170MeV/u (28)Si (99keV/μm) particles show a similar Rad51 foci decay kinetics, however, exhibiting prolonged resection, evident by the persistent phosphorylated ATM and ATR kinase until 24h post irradiation. This residual effect, however, was significantly reduced for 250MeV/u (16)O particles of moderate LET (25keV/μm) and absent for γ-rays. Hence, our results support the hypothesis that the transition

  17. Notes on Experiments.

    ERIC Educational Resources Information Center

    Physics Education, 1984

    1984-01-01

    Describes: (1) experiments using a simple phonocardiograph; (2) radioactivity experiments involving a VELA used as a ratemeter; (3) a 25cm continuously operating Foucault pendulum; and (4) camera control of experiments. Descriptions of equipment needed are provided when applicable. (JN)

  18. A Study of Electrochemical Reduction of Ethylene and PropyleneCarbonate Electrolytes on Graphite Using ATR-FTIR Spectroscopy

    SciTech Connect

    Zhuang, Guorong V.; Yang, Hui; Blizanac, Berislav; Ross Jr.,Philip N.

    2005-05-12

    We present results testing the hypothesis that there is a different reaction pathway for the electrochemical reduction of PC versus EC-based electrolytes at graphite electrodes with LiPF6 as the salt in common. We examined the reduction products formed using ex-situ Fourier Transform Infrared (FTIR) spectroscopy in attenuated total reflection (ATR) geometry. The results show the pathway for reduction of PC leads nearly entirely to lithium carbonate as the solid product (and presumably ethylene gas as the co-product) while EC follows a path producing a mixture of organic and inorganic compounds. Possible explanations for the difference in reaction pathway are discussed.

  19. Post-irradiation Examination Plan for ORNL and University of California Santa Barbara Assessment of UCSB ATR-2 Irradiation Experiment

    SciTech Connect

    Nanstad, R. K.; Yamamoto, T.; Sokolov, M. A.

    2014-01-25

    New and existing databases will be combined to support development of physically based models of transition temperature shifts (TTS) for high fluence-low flux (φ < 10{sup 11}n/cm{sup 2}-s) conditions, beyond the existing surveillance database, to neutron fluences of at least 1×10{sup 20} n/cm{sup 2} (>1 MeV). All references to neutron flux and fluence in this report are for fast neutrons (>1 MeV). The reactor pressure vessel (RPV) task of the Light Water Reactor Sustainability (LWRS) Program is working with various organizations to obtain archival surveillance materials from commercial nuclear power plants to allow for comparisons of the irradiation-induced microstructural features from reactor surveillance materials with those from similar materials irradiated under high flux conditions in test reactors

  20. Direct Binding to Replication Protein A (RPA)-coated Single-stranded DNA Allows Recruitment of the ATR Activator TopBP1 to Sites of DNA Damage.

    PubMed

    Acevedo, Julyana; Yan, Shan; Michael, W Matthew

    2016-06-17

    A critical event for the ability of cells to tolerate DNA damage and replication stress is activation of the ATR kinase. ATR activation is dependent on the BRCT (BRCA1 C terminus) repeat-containing protein TopBP1. Previous work has shown that recruitment of TopBP1 to sites of DNA damage and stalled replication forks is necessary for downstream events in ATR activation; however, the mechanism for this recruitment was not known. Here, we use protein binding assays and functional studies in Xenopus egg extracts to show that TopBP1 makes a direct interaction, via its BRCT2 domain, with RPA-coated single-stranded DNA. We identify a point mutant that abrogates this interaction and show that this mutant fails to accumulate at sites of DNA damage and that the mutant cannot activate ATR. These data thus supply a mechanism for how the critical ATR activator, TopBP1, senses DNA damage and stalled replication forks to initiate assembly of checkpoint signaling complexes.

  1. Tip-enhanced near-field optical microscope with side-on and ATR-mode sample excitation for super-resolution Raman imaging of surfaces

    NASA Astrophysics Data System (ADS)

    Heilman, A. L.; Gordon, M. J.

    2016-06-01

    A tip-enhanced near-field optical microscope with side-on and attenuated total reflectance (ATR) excitation and collection is described and used to demonstrate sub-diffraction-limited (super-resolution) optical and chemical characterization of surfaces. ATR illumination is combined with an Au optical antenna tip to show that (i) the tip can quantitatively transduce the optical near-field (evanescent waves) above the surface by scattering photons into the far-field, (ii) the ATR geometry enables excitation and characterization of surface plasmon polaritons (SPPs), whose associated optical fields are shown to enhance Raman scattering from a thin layer of copper phthalocyanine (CuPc), and (iii) SPPs can be used to plasmonically excite the tip for super-resolution chemical imaging of patterned CuPc via tip-enhanced Raman spectroscopy (TERS). ATR-illumination TERS is also quantitatively compared with the more conventional side-on illumination scheme. In both cases, spatial resolution was better than 40 nm and tip on/tip off Raman enhancement factors were >6500. Furthermore, ATR illumination was shown to provide similar Raman signal levels at lower "effective" pump powers due to additional optical energy delivered by SPPs to the active region in the tip-surface gap.

  2. Parvovirus B19 Infection of Human Primary Erythroid Progenitor Cells Triggers ATR-Chk1 Signaling, Which Promotes B19 Virus Replication ▿

    PubMed Central

    Luo, Yong; Lou, Sai; Deng, Xuefeng; Liu, Zhengwen; Li, Yi; Kleiboeker, Steve; Qiu, Jianming

    2011-01-01

    Human parvovirus B19 (B19V) infection is restricted to erythroid progenitor cells of the human bone marrow. Although the mechanism by which the B19V genome replicates in these cells has not been studied in great detail, accumulating evidence has implicated involvement of the cellular DNA damage machinery in this process. Here, we report that, in ex vivo-expanded human erythroid progenitor cells, B19V infection induces a broad range of DNA damage responses by triggering phosphorylation of all the upstream kinases of each of three repair pathways: ATM (ataxia-telangiectasi mutated), ATR (ATM and Rad3 related), and DNA-PKcs (DNA-dependent protein kinase catalytic subunit). We found that phosphorylated ATM, ATR, and DNA-PKcs, and also their downstream substrates and components (Chk2, Chk1, and Ku70/Ku80 complex, respectively), localized within the B19V replication center. Notably, inhibition of kinase phosphorylation (through treatment with either kinase-specific inhibitors or kinase-specific shRNAs) revealed requirements for signaling of ATR and DNA-PKcs, but not ATM, in virus replication. Inhibition of the ATR substrate Chk1 led to similar levels of decreased virus replication, indicating that signaling via the ATR-Chk1 pathway is critical to B19V replication. Notably, the cell cycle arrest characteristic of B19V infection was not rescued by interference with the activity of any of the three repair pathway kinases. PMID:21680529

  3. Characterization of Torin2, an ATP-competitive inhibitor of mTOR, ATM, and ATR.

    PubMed

    Liu, Qingsong; Xu, Chunxiao; Kirubakaran, Sivapriya; Zhang, Xin; Hur, Wooyoung; Liu, Yan; Kwiatkowski, Nicholas P; Wang, Jinhua; Westover, Kenneth D; Gao, Peng; Ercan, Dalia; Niepel, Mario; Thoreen, Carson C; Kang, Seong A; Patricelli, Matthew P; Wang, Yuchuan; Tupper, Tanya; Altabef, Abigail; Kawamura, Hidemasa; Held, Kathryn D; Chou, Danny M; Elledge, Stephen J; Janne, Pasi A; Wong, Kwok-Kin; Sabatini, David M; Gray, Nathanael S

    2013-04-15

    mTOR is a highly conserved serine/threonine protein kinase that serves as a central regulator of cell growth, survival, and autophagy. Deregulation of the PI3K/Akt/mTOR signaling pathway occurs commonly in cancer and numerous inhibitors targeting the ATP-binding site of these kinases are currently undergoing clinical evaluation. Here, we report the characterization of Torin2, a second-generation ATP-competitive inhibitor that is potent and selective for mTOR with a superior pharmacokinetic profile to previous inhibitors. Torin2 inhibited mTORC1-dependent T389 phosphorylation on S6K (RPS6KB1) with an EC(50) of 250 pmol/L with approximately 800-fold selectivity for cellular mTOR versus phosphoinositide 3-kinase (PI3K). Torin2 also exhibited potent biochemical and cellular activity against phosphatidylinositol-3 kinase-like kinase (PIKK) family kinases including ATM (EC(50), 28 nmol/L), ATR (EC(50), 35 nmol/L), and DNA-PK (EC(50), 118 nmol/L; PRKDC), the inhibition of which sensitized cells to Irradiation. Similar to the earlier generation compound Torin1 and in contrast to other reported mTOR inhibitors, Torin2 inhibited mTOR kinase and mTORC1 signaling activities in a sustained manner suggestive of a slow dissociation from the kinase. Cancer cell treatment with Torin2 for 24 hours resulted in a prolonged block in negative feedback and consequent T308 phosphorylation on Akt. These effects were associated with strong growth inhibition in vitro. Single-agent treatment with Torin2 in vivo did not yield significant efficacy against KRAS-driven lung tumors, but the combination of Torin2 with mitogen-activated protein/extracellular signal-regulated kinase (MEK) inhibitor AZD6244 yielded a significant growth inhibition. Taken together, our findings establish Torin2 as a strong candidate for clinical evaluation in a broad number of oncologic settings where mTOR signaling has a pathogenic role.

  4. Ageing of EUROBITUM bituminised radioactive waste: An ATR-FTIR spectroscopy study

    NASA Astrophysics Data System (ADS)

    Valcke, E.; Rorif, F.; Smets, S.

    2009-08-01

    The extent of the physico-chemical processes of concern in the study of the acceptability of Eurobitum bituminised radioactive waste for underground disposal (water uptake by hygroscopic NaNO 3 - swelling - pressure build-up - NaNO 3 leaching) will depend on the degree of ageing of the bituminous matrix. In the work reported here, the ageing behaviour was studied by comparing the characteristics of 25 years old radioactive Eurobitum with those of 25 years old non-radioactive Eurobitum samples that were heated or gamma-irradiated in the presence or absence of oxygen. Chemical changes in the bitumen structure were followed in the mid-infrared region with Attenuated Total Reflectance Fourier Transform InfraRed Spectroscopy (ATR-FTIR) by measuring the evolution of the band heights at 1700 cm -1 (C dbnd O functional groups) and 1600 cm -1 (C dbnd C double bonds). Needle penetration depths and ring and ball softening points were determined for some samples. Oxidation of bitumen in the presence of oxygen results in a distinct increase of both the number of C dbnd O and C dbnd C functionalities, with a positive linear relationship existing between the two groups. The production of C dbnd O functional groups seems to promote the generation of C dbnd C double bonds. Heating at 130 °C is much more efficient than gamma irradiation at low to moderate dose rates (20-140 Gy/h) to oxidise the bitumen. As the oxygen concentration decreases, for instance by diffusion limitation deeper inside the bitumen, the number of C dbnd O and C dbnd C functionalities formed per unit of time decreases. A similar behaviour was observed for 25 years old radioactive Eurobitum. In absence of oxygen, gamma irradiation still results in a small increase of the number of C dbnd O functional groups, probably by oxygen still adsorbed on the bitumen, and in a relatively higher amount of C dbnd C double bonds. The surface layer (<5 cm) of 25 years old radioactive Eurobitum was heavily oxidised. The

  5. Hardware description languages

    NASA Technical Reports Server (NTRS)

    Tucker, Jerry H.

    1994-01-01

    Hardware description languages are special purpose programming languages. They are primarily used to specify the behavior of digital systems and are rapidly replacing traditional digital system design techniques. This is because they allow the designer to concentrate on how the system should operate rather than on implementation details. Hardware description languages allow a digital system to be described with a wide range of abstraction, and they support top down design techniques. A key feature of any hardware description language environment is its ability to simulate the modeled system. The two most important hardware description languages are Verilog and VHDL. Verilog has been the dominant language for the design of application specific integrated circuits (ASIC's). However, VHDL is rapidly gaining in popularity.

  6. A micrometeoroid deceleration and capture experiment: Conceptual experiment design description

    NASA Technical Reports Server (NTRS)

    Wolfe, J. H.; Ballard, R. W.; Carle, G. C.; Bunch, T. E.

    1986-01-01

    The preliminary conceptual design for a cosmic dust collector is described. For the case of low Earth orbit (LEO), dust particles enter the collector through the collimator at a few volts negative potential due to charging in the ionosphere, at a velocity of 1 to 50 km/sec. The particles then pass through an electron stream and are charged to about 1 KV negative (regardless of incoming polarity). The 1 KV negatively charged particle then passes through three sensing grids coupled to charge sensitive preamps (CSP). The comparison of the two pulses provided by S(1) and S(2) are utilized by the microprocessor to determine the charge, q, on the particle (pulse amplitude) and its velocity, v (by time of flight). The third sensing grid, S(3), is kept at about 20 KV negative so that the dust particle will now be decelerated in passing from S(2) (zero potential) to S(3). S(3) is capacitively coupled to its CSP and the pulse from S(3) is utilized by the microprocessor to determine the particle's energy, E, and therefore its mass, m (again by time of flight) by comparison with the pulses from S(1) and S(2). The microprocessor can now precisely program the high-voltage switching network for the proper timing in the grounding of the successive deceleration grids. As determined by the microprocessor, each successive deceleration grid is grounded just after the dust particle passes, thus reducing the particle's energy by the amount q*100 KV at each stage. The microprocessor also determines at which stage the particle will fall below a certain critical energy where all remaining grids remain unswitched so that the particle will drift to the collector. The collector is kept at about 100V positive and is covered with gold foil to eliminate contamination and is removable for subsequent return to earth for detailed analysis.

  7. [A case of X-linked alpha-thalassemia/mental retardation (ATR-X) syndrome with repeated apnea attacks due to laryngomalacia].

    PubMed

    Ebishima, Yuko; Misaki, Takako; Owa, Kenji; Okuno, Takehiko; Wada, Takahito; Suehiro, Yutaka

    2013-01-01

    We report a case of X-linked alpha-thalassemia/mental retardation syndrome (ATR-X) with repeated apnea attacks dating from the patient's 12th year. We initially diagnosed them as obstructive apnea due to upper pharyngeal stenosis and laryngomalacia by polysomnography and laryngo-fiberscopy. However, reevaluation after one and a half years revealed that the boy had central and mixed apnea, as well as obstructive apnea. To date, few reports have been published on the causes of apnea attacks in ATR-X patients. We clinicians should therefore consider laryngomalacia as one cause of apnea attacks in ATR-X patients, and choose the appropriate therapy for a pattern of apnea that can change during its clinical course. PMID:23593745

  8. Splicing mutation in the ATR-X gene can lead to a dysmorphic mental retardation phenotype without {alpha}-thalassemia

    SciTech Connect

    Villard, L.; Lossi, A.M.; Fontes, M.

    1996-03-01

    We have previously reported the isolation of a gene from Xq13 that codes for a putative regulator of transcription (XNP) and has now been shown to be the gene involved in the X-linked {alpha}-thalassemia with mental retardation (ATR-X) syndrome. The widespread expression and numerous domains present in the putative protein suggest that this gene could be involved in other phenotypes. The predominant expression of the gene in the developing brain, as well as its association with neuron differentiation, indicates that mutations of this gene might result in a mental retardation (MR) phenotype. In this paper we present a family with a splice junction mutation in XNP that results in the skipping of an exon and in the introduction of a stop codon in the middle of the XNP-coding sequence. Only the abnormal transcript is expressed in two first cousins presenting the classic ATR-X phenotype (with {alpha}-thalassemia and HbH inclusions). In a distant cousin presenting a similar dysmorphic MR phenotype but not having thalassemia, {approximately}30% of the XNP transcripts are normal. These data demonstrate that the mode of action of the XNP gene product on globin expression is distinct from its mode of action in brain development and facial morphogenesis and suggest that other dysmorphic mental retardation phenotypes, such as Juberg-Marsidi or some sporadic cases of Coffin-Lowry, could be due to mutations in XNP. 20 refs., 5 figs., 2 tabs.

  9. SAXS and ATR-FTIR studies on EBT-TSX mixtures in their sol-gel phases.

    PubMed

    Hirun, Namon; Rugmai, Supagorn; Sangfai, Tanatchaporn; Tantishaiyakul, Vimon

    2012-11-01

    Our previous study demonstrated that mixtures of tamarind seed xyloglucan (TSX) with appropriate concentrations of eriochrome black T (EBT) produced a gel that could be of benefit for medical use. Here, the sol-gel systems of various fresh and aged mixtures were further investigated using rheological measurements. The nanostructural changes of EBT-TSX sol-gel phases were analyzed using SAXS. The interactions between EBT and TSX in the sol and gel states were examined using ATR-FTIR. SAXS data analysis demonstrated that the mixture containing lower concentration of EBT formed rod-like structures and that with higher concentrations of EBT produced flat particles. The sizes of the TSX structures from the aged mixtures in the gel stage were larger than those from the same mixtures in the sol state. ATR-FTIR spectral changes revealed that the azo and sulfonic acid groups of EBT interacted with the TSX, and the characteristic spectrum of the sulfonic acid group of EBT could discriminate between the sol and gel state of the EBT-TSX systems. The interactions between EBT and TSX may cause conformational changes to TSX and facilitate the sol-gel transition or formation of a gel.

  10. An overactivated ATR/CHK1 pathway is responsible for the prolonged G2 accumulation in irradiated AT cells

    NASA Technical Reports Server (NTRS)

    Wang, Xiang; Khadpe, Jay; Hu, Baocheng; Iliakis, George; Wang, Ya

    2003-01-01

    Induction of checkpoint responses in G1, S, and G2 phases of the cell cycle after exposure of cells to ionizing radiation (IR) is essential for maintaining genomic integrity. Ataxia telangiectasia mutated (ATM) plays a key role in initiating this response in all three phases of the cell cycle. However, cells lacking functional ATM exhibit a prolonged G2 arrest after IR, suggesting regulation by an ATM-independent checkpoint response. The mechanism for this ataxia telangiectasia (AT)-independent G2-checkpoint response remains unknown. We report here that the G2 checkpoint in irradiated human AT cells derives from an overactivation of the ATR/CHK1 pathway. Chk1 small interfering RNA abolishes the IR-induced prolonged G2 checkpoint and radiosensitizes AT cells to killing. These results link the activation of ATR/CHK1 with the prolonged G2 arrest in AT cells and show that activation of this G2 checkpoint contributes to the survival of AT cells.

  11. Characterization of compression-molded UHMWPE, PMMA and PMMA/MMA treated UHMWPE: density measurement, FTIR-ATR, and DSC.

    PubMed

    Park, K D; Khang, G S; Lee, H B; Park, J B

    2001-01-01

    Considered one of the weak links in the total hip replacement (THR), efforts to enhance the interfacial strength between bone cement and ultra-high molecular weight polyethylene (UHMWPE) acetabular cup had been conducted in this laboratory. Following the successful demonstration of high interfacial strengths for our new acetabular component design, the nature of physical, chemical, and thermal property of the compression-molded specimens, including UHMWPE, PMMA/MMA treated UHMWPE, and PMMA has been investigated in this study. Density results from a density gradient column showed that the molding processes and conditions were adequate for complete sintering of UHMWPE and PMMA powders. FTIR-ATR results gave a direct evidence that PMMA did exist in the PMMA/MMA treated UHMWPE matrix. It also revealed a clear diffusion-related behavior across the interface. Under the high temperature and pressure, the UHMWPE powders undergo drastic changes of their morphology and crystalline structures. These changes were examined by differential scanning calorimeter (DSC) which showed a large difference in terms of % crystallinity. The percent of PMMA deposited in the treated UHMWPE was 17.8%, 18.8%, and 24.3% from the analyses of density, FTIR-ATR, and DSC, respectively. Finally, an evidence of diffusive behavior at the interface exhibited diffusion of PMMA occurring across the interfaces between the treated UHMWPE and UHMWPE or PMMA.

  12. In-situ monitoring of blood glucose level for dialysis machine by AAA-battery-size ATR Fourier spectroscopy

    NASA Astrophysics Data System (ADS)

    Hosono, Satsuki; Sato, Shun; Ishida, Akane; Suzuki, Yo; Inohara, Daichi; Nogo, Kosuke; Abeygunawardhana, Pradeep K.; Suzuki, Satoru; Nishiyama, Akira; Wada, Kenji; Ishimaru, Ichiro

    2015-07-01

    For blood glucose level measurement of dialysis machines, we proposed AAA-battery-size ATR (Attenuated total reflection) Fourier spectroscopy in middle infrared light region. The proposed one-shot Fourier spectroscopic imaging is a near-common path and spatial phase-shift interferometer with high time resolution. Because numerous number of spectral data that is 60 (= camera frame rare e.g. 60[Hz]) multiplied by pixel number could be obtained in 1[sec.], statistical-averaging improvement realize high-accurate spectral measurement. We evaluated the quantitative accuracy of our proposed method for measuring glucose concentration in near-infrared light region with liquid cells. We confirmed that absorbance at 1600[nm] had high correlations with glucose concentrations (correlation coefficient: 0.92). But to measure whole-blood, complex light phenomenon caused from red blood cells, that is scattering and multiple reflection or so, deteriorate spectral data. Thus, we also proposed the ultrasound-assisted spectroscopic imaging that traps particles at standing-wave node. Thus, if ATR prism is oscillated mechanically, anti-node area is generated around evanescent light field on prism surface. By elimination complex light phenomenon of red blood cells, glucose concentration in whole-blood will be quantify with high accuracy. In this report, we successfully trapped red blood cells in normal saline solution with ultrasonic standing wave (frequency: 2[MHz]).

  13. Galiellalactone induces cell cycle arrest and apoptosis through the ATM/ATR pathway in prostate cancer cells.

    PubMed

    García, Víctor; Lara-Chica, Maribel; Cantarero, Irene; Sterner, Olov; Calzado, Marco A; Muñoz, Eduardo

    2016-01-26

    Galiellalactone (GL) is a fungal metabolite that presents antitumor activities on prostate cancer in vitro and in vivo. In this study we show that GL induced cell cycle arrest in G2/M phase, caspase-dependent apoptosis and also affected the microtubule organization and migration ability in DU145 cells. GL did not induce double strand DNA break but activated the ATR and ATM-mediated DNA damage response (DDR) inducing CHK1, H2AX phosphorylation (fH2AX) and CDC25C downregulation. Inhibition of the ATM/ATR activation with caffeine reverted GL-induced G2/M cell cycle arrest, apoptosis and DNA damage measured by fH2AX. In contrast, UCN-01, a CHK1 inhibitor, prevented GL-induced cell cycle arrest but enhanced apoptosis in DU145 cells. Furthermore, we found that GL did not increase the levels of intracellular ROS, but the antioxidant N-acetylcysteine (NAC) completely prevented the effects of GL on fH2AX, G2/M cell cycle arrest and apoptosis. In contrast to NAC, other antioxidants such as ambroxol and EGCG did not interfere with the activity of GL on cell cycle. GL significantly suppressed DU145 xenograft growth in vivo and induced the expression of fH2AX in the tumors. These findings identify for the first time that GL activates DDR in prostate cancer.

  14. Galiellalactone induces cell cycle arrest and apoptosis through the ATM/ATR pathway in prostate cancer cells

    PubMed Central

    García, Víctor; Lara-Chica, Maribel; Cantarero, Irene; Sterner, Olov; Calzado, Marco A.; Muñoz, Eduardo

    2016-01-01

    Galiellalactone (GL) is a fungal metabolite that presents antitumor activities on prostate cancer in vitro and in vivo. In this study we show that GL induced cell cycle arrest in G2/M phase, caspase-dependent apoptosis and also affected the microtubule organization and migration ability in DU145 cells. GL did not induce double strand DNA break but activated the ATR and ATM-mediated DNA damage response (DDR) inducing CHK1, H2AX phosphorylation (fH2AX) and CDC25C downregulation. Inhibition of the ATM/ATR activation with caffeine reverted GL-induced G2/M cell cycle arrest, apoptosis and DNA damage measured by fH2AX. In contrast, UCN-01, a CHK1 inhibitor, prevented GL-induced cell cycle arrest but enhanced apoptosis in DU145 cells. Furthermore, we found that GL did not increase the levels of intracellular ROS, but the antioxidant N-acetylcysteine (NAC) completely prevented the effects of GL on fH2AX, G2/M cell cycle arrest and apoptosis. In contrast to NAC, other antioxidants such as ambroxol and EGCG did not interfere with the activity of GL on cell cycle. GL significantly suppressed DU145 xenograft growth in vivo and induced the expression of fH2AX in the tumors. These findings identify for the first time that GL activates DDR in prostate cancer. PMID:26683224

  15. Cell cycle-dependent DNA damage signaling induced by ICRF-193 involves ATM, ATR, CHK2, and BRCA1

    SciTech Connect

    Park, Iha; Avraham, Hava Karsenty . E-mail: havraham@bidmc.harvard.edu

    2006-07-01

    Topoisomerase II is essential for cell proliferation and survival and has been a target of various anticancer drugs. ICRF-193 has long been used as a catalytic inhibitor to study the function of topoisomerase II. Here, we show that ICRF-193 treatment induces DNA damage signaling. Treatment with ICRF-193 induced G2 arrest and DNA damage signaling involving {gamma}-H2AX foci formation and CHK2 phosphorylation. DNA damage by ICRF-193 was further demonstrated by formation of the nuclear foci of 53BP1, NBS1, BRCA1, MDC1, and FANCD2 and increased comet tail moment. The DNA damage signaling induced by ICRF-193 was mediated by ATM and ATR and was restricted to cells in specific cell cycle stages such as S, G2, and mitosis including late and early G1 phases. Downstream signaling of ATM and ATR involved the phosphorylation of CHK2 and BRCA1. Altogether, our results demonstrate that ICRF-193 induces DNA damage signaling in a cell cycle-dependent manner and suggest that topoisomerase II might be essential for the progression of the cell cycle at several stages including DNA decondensation.

  16. In situ ATR-IR spectroscopic and electron microscopic analyses of settlement secretions of Undaria pinnatifida kelp spores

    PubMed Central

    Petrone, L.; Easingwood, R.; Barker, M. F.; McQuillan, A. J.

    2011-01-01

    Knowledge about the settlement of marine organisms on substrates is important for the development of environmentally benign new methods for control of marine biofouling. The adhesion to substrates by spores of Undaria pinnatifida, a kelp species that is invasive to several countries, was studied by scanning electron and transmission electron microscopies (SEM/TEM) as well as by in situ attenuated total reflection infrared (ATR-IR) spectroscopy. The IR spectra showed that adhesive secretion began approximately 15 min after initial settlement and that the adhesive bulk material contained protein and anionic polysaccharides. Energy dispersive X-ray microanalysis of the adhesive identified sulphur and phosphorus as well as calcium and magnesium ions, which facilitate the gelation of the anionic polysaccharides in the sea water. The adhesive may be secreted from Golgi bodies in the spore, which were imaged by TEM of spore thin sections. Additionally, an in situ settlement study on TiO2 particle film by ATR-IR spectroscopy revealed the presence of phosphorylated moieties directly binding the substrate. The presence of anionic groups dominating the adhesive suggests that inhibition of spore adhesion will be favoured by negatively charged surfaces. PMID:20685693

  17. SAXS and ATR-FTIR studies on EBT-TSX mixtures in their sol-gel phases.

    PubMed

    Hirun, Namon; Rugmai, Supagorn; Sangfai, Tanatchaporn; Tantishaiyakul, Vimon

    2012-11-01

    Our previous study demonstrated that mixtures of tamarind seed xyloglucan (TSX) with appropriate concentrations of eriochrome black T (EBT) produced a gel that could be of benefit for medical use. Here, the sol-gel systems of various fresh and aged mixtures were further investigated using rheological measurements. The nanostructural changes of EBT-TSX sol-gel phases were analyzed using SAXS. The interactions between EBT and TSX in the sol and gel states were examined using ATR-FTIR. SAXS data analysis demonstrated that the mixture containing lower concentration of EBT formed rod-like structures and that with higher concentrations of EBT produced flat particles. The sizes of the TSX structures from the aged mixtures in the gel stage were larger than those from the same mixtures in the sol state. ATR-FTIR spectral changes revealed that the azo and sulfonic acid groups of EBT interacted with the TSX, and the characteristic spectrum of the sulfonic acid group of EBT could discriminate between the sol and gel state of the EBT-TSX systems. The interactions between EBT and TSX may cause conformational changes to TSX and facilitate the sol-gel transition or formation of a gel. PMID:22652217

  18. Identification of the First ATRIP–Deficient Patient and Novel Mutations in ATR Define a Clinical Spectrum for ATR–ATRIP Seckel Syndrome

    PubMed Central

    Stiff, Tom; Hobson, Emma; Limsirichaikul, Siripan; Carpenter, Gillian; Prescott, Katrina; Suri, Mohnish; Byrd, Philip J.; Matsuse, Michiko; Mitsutake, Norisato; Nakazawa, Yuka; Vasudevan, Pradeep; Barrow, Margaret; Stewart, Grant S.; Taylor, A. Malcolm R.; O'Driscoll, Mark; Jeggo, Penny A.

    2012-01-01

    A homozygous mutational change in the Ataxia-Telangiectasia and RAD3 related (ATR) gene was previously reported in two related families displaying Seckel Syndrome (SS). Here, we provide the first identification of a Seckel Syndrome patient with mutations in ATRIP, the gene encoding ATR–Interacting Protein (ATRIP), the partner protein of ATR required for ATR stability and recruitment to the site of DNA damage. The patient has compound heterozygous mutations in ATRIP resulting in reduced ATRIP and ATR expression. A nonsense mutational change in one ATRIP allele results in a C-terminal truncated protein, which impairs ATR–ATRIP interaction; the other allele is abnormally spliced. We additionally describe two further unrelated patients native to the UK with the same novel, heterozygous mutations in ATR, which cause dramatically reduced ATR expression. All patient-derived cells showed defective DNA damage responses that can be attributed to impaired ATR–ATRIP function. Seckel Syndrome is characterised by microcephaly and growth delay, features also displayed by several related disorders including Majewski (microcephalic) osteodysplastic primordial dwarfism (MOPD) type II and Meier-Gorlin Syndrome (MGS). The identification of an ATRIP–deficient patient provides a novel genetic defect for Seckel Syndrome. Coupled with the identification of further ATR–deficient patients, our findings allow a spectrum of clinical features that can be ascribed to the ATR–ATRIP deficient sub-class of Seckel Syndrome. ATR–ATRIP patients are characterised by extremely severe microcephaly and growth delay, microtia (small ears), micrognathia (small and receding chin), and dental crowding. While aberrant bone development was mild in the original ATR–SS patient, some of the patients described here display skeletal abnormalities including, in one patient, small patellae, a feature characteristically observed in Meier-Gorlin Syndrome. Collectively, our analysis exposes an

  19. High-performance liquid chromatography with diamond ATR-FTIR detection for the determination of carbohydrates, alcohols and organic acids in red wine.

    PubMed

    Edelmann, Andrea; Diewok, Josef; Baena, Josefa Rodriguez; Lendl, Bernhard

    2003-05-01

    A horizontal diamond attenuated total reflection (ATR) element has been incorporated in a flow-through cell with low dead volume and used for on-line mid-IR detection in high-performance liquid chromatography. The chemical inertness of the ATR element permitted the use of a strongly acidic mobile phase in the isocratic separation. The hyphenation was used for the analysis of organic acids, sugars and alcohols in red wine. In the case of co-eluting analytes multivariate curve resolution-alternating least squares (MCR-ALS) was successfully employed for quantitative analysis.

  20. Standardizing the microsystems technology description

    NASA Astrophysics Data System (ADS)

    Liateni, Karim; Thomas, Gabriel; Hui Bon Hoa, Christophe; Bensaude, David

    2002-04-01

    The microsystems industry is promising a rapid and widespread growth for the coming years. The automotive, network, telecom and electronics industries take advantage of this technology by including it in their products; thus, getting better integration and high energetic performances. Microsystems related software and data exchange have inherited from the IC technology experience or standards, which appear not to fit the advanced level of conception currently needed by microsystems designers. A typical design flow to validate a microsystem device involves several software from disconnected areas like layout editors, FEM simulators, HDL modeling and simulation tools. However, and fabricated microsystem is obtained through execution of a layered process. Process characteristics will be used at each level of the design and analysis. Basically, the designer will have to customize each of his tools after the process. The project introduced here intends to unify the process description language and speed up the critical and tedious CAD customization task. We gather all the information related to the technology of a microsystem process in a single file. It is based on the XML standard format to receive worldwide attention. This format is called XML-MTD, standing for XML Microsystems Technology Description. Built around XML, it is an ASCII format which gives the ability to handle a comprehensive database for technology data. This format is open, given under general public license, but the aim is to manage the format withing a XML-MTD consortium of leader and well-established EDA companies and Foundries. In this way, it will take profit of their experience. For automated configuration of design and analysis tools regarding process-dependant information, we ship the Technology Manger software. Technology Manager links foundries with a large panel of standard EDA and FEA packages used by design teams relying on the Microsystems Technology Description in XML-MTD format.

  1. CRAC2 model description

    SciTech Connect

    Ritchie, L.T.; Alpert, D.J.; Burke, R.P.; Johnson, J.D.; Ostmeyer, R.M.; Aldrich, D.C.; Blond, R.M.

    1984-03-01

    The CRAC2 computer code is a revised version of CRAC (Calculation of Reactor Accident Consequences) which was developed for the Reactor Safety Study. This document provides an overview of the CRAC2 code and a description of each of the models used. Significant improvements incorporated into CRAC2 include an improved weather sequence sampling technique, a new evacuation model, and new output capabilities. In addition, refinements have been made to the atmospheric transport and deposition model. Details of the modeling differences between CRAC2 and CRAC are emphasized in the model descriptions.

  2. AGC-3 Experiment Irradiation Monitoring Data Qualification Final Report

    SciTech Connect

    Laurence Hull

    2014-10-01

    The Graphite Technology Development Program will run a series of six experiments to quantify the effects of irradiation on nuclear grade graphite. The third experiment, Advanced Graphite Creep 3 (AGC 3), began with Advanced Test Reactor (ATR) Cycle 152B on November 27, 2012, and ended with ATR Cycle 155B on April 23, 2014. This report documents qualification of AGC 3 experiment irradiation monitoring data for use by the Very High Temperature Reactor (VHTR) Technology Development Office (TDO) Program for research and development activities required to design and license the first VHTR nuclear plant. Qualified data meet the requirements for data collection and use as described in the experiment planning and quality assurance documents. Failed data do not meet the requirements. Trend data may not meet the requirements, but may still provide some useable information. All thermocouples (TCs) functioned throughout the AGC 3 experiment. There was one interval between December 18, 2012, and December 20, 2012, where 10 NULL values were reported for various TCs. These NULL values were deleted from the Nuclear Data Management and Analysis System database. All temperature data are Qualified for use by the VHTR TDO Program. Argon, helium, and total gas flow data were within expected ranges and are Qualified for use by the VHTR TDO Program. Total gas flow was approximately 50 sccm through the AGC 3 experiment capsule. Helium gas flow was briefly increased to 100 sccm during ATR shutdowns. At the start of the AGC 3 experiment, moisture in the outflow gas line was stuck at a constant value of 335.6174 ppmv for the first cycle (Cycle 152B). When the AGC 3 experiment capsule was reinstalled in ATR for Cycle 154B, a new moisture filter was installed. Moisture data from Cycle 152B are Failed. All moisture data from the final three cycles (Cycles 154B, 155A, and 155B) are Qualified for use by the VHTR TDO Program.

  3. Detect changes in lipid-related structure of brown- and yellow-seeded Brassica Carinata seed during rumen fermentation in relation to basic chemical profile using ATR-FT/IR molecular spectroscopy with chemometrics

    NASA Astrophysics Data System (ADS)

    Xin, Hangshu; Yu, Peiqiang

    2014-12-01

    In this experiment, brown- and yellow-seeded Brassica carinata were selected to use as a model to investigate whether there were any changes in lipid-related structure make-up (including CH3 and CH2 asymmetric and symmetric stretching bands ca. 3010-2765 cm-1, unsaturated lipid band ca. 3043-2987 cm-1 and carbonyl Cdbnd O ester band ca. 1789-1701 cm-1) of oilseed tissue during rumen in situ incubation using attenuated total reflectance-Fourier transform infrared spectroscopy (ATR-FT/IR). Correlations of lipid spectral characteristics with basic chemical profile and multivariate analyses for clarifying structural differences within lipid regions between two carinata seeds were also measured. The results showed that most spectral parameters in both carinata seeds were reduced as incubation time increased. However, the extent of changes in peak intensity of carbonyl Cdbnd O ester group of brown-seeded carinata was not in fully accordance with that of yellow-seeded carinata. Additionally, these lipid structure features were highly correlated with the concentrations of OM (positively), CP (positively), NDF (negatively) and EE (positively) in carinata seeds after 0, 12, 24 and 48 h of incubation. Based on the results from multivariate analyses, neither AHCA nor PCA could produce any distinctions in rumen residues between brown- and yellow-seeded carinata in spectra at lipid regions. It was concluded that besides for original feed samples, spectroscopic technique of ATR-FT/IR could also be used for rumen degradation residues in detecting changes in lipid-related molecular structure make-up. Further studies are needed to explore more details in lipid metabolism during ruminal fermentation with the combined consideration on both metabolic basis and molecular structural basis.

  4. Teaching Descriptive Style.

    ERIC Educational Resources Information Center

    Brashers, H. C.

    1968-01-01

    As the inexperienced writer becomes aware of the issues involved in the composition of effective descriptive prose, he also develops a consistent control over his materials. The persona he chooses, if coherently thought out, can function as an index of many choices, helping him to manipulate the tone, intent, and mood of this style; to regulate…

  5. On the pathway of photoexcited electrons: probing photon-to-electron and photon-to-phonon conversions in silicon by ATR-IR.

    PubMed

    Karabudak, Engin; Yüce, Emre; Schlautmann, Stefan; Hansen, Ole; Mul, Guido; Gardeniers, Han J G E

    2012-08-21

    Photoexcitation and charge carrier thermalization inside semiconductor photocatalysts are two important steps in solar fuel production. Here, photoexcitation and charge carrier thermalization in a silicon wafer are for the first time probed by a novel, yet simple and user-friendly Attenuated Total Reflectance Infrared spectroscopy (ATR-IR) system.

  6. X-linked [alpha]-thalassemia/mental retardation (ATR-X) syndrome: Localization to Xq12-q21. 31 by X inactivation and linkage analysis

    SciTech Connect

    Gibbons, R.J.; Buckle, V.J.; Higgs, D.R.; Suthers, G.K. ); Wilkie, A.O.M. )

    1992-11-01

    The authors have examined seven pedigrees that include individuals with a recently described X-linked form of severe mental retardation associated with [alpha]-thalassemia (ATR-X syndrome). Using hematologic and molecular approaches, they have shown that intellectually normal female carriers of this syndrome may be identified by the presence of rare cells containing HbH (hemoglobin H) inclusions in their peripheral blood and by an extremely skewed pattern of X inactivation seen in cells from a variety of tissues. Linkage analysis has localized the ATR-X locus to an interval of approximately 11 cM between the loci DXS106 and DXYS1X (Xq12-q21.31), with a peak LOD score of 5.4 (recombination fraction of 0) at DCS72. These findings provide the basis for genetic counseling, assessment of carrier risk, and prenatal diagnosis of the ATR-X syndrome. Furthermore, they represent an important step in developing strategies to understand how the mutant ATR-X allele causes mental handicap, dysmorphism, and down-regulation of the [alpha]-globin genes. 54 refs., 6 figs., 4 tabs.

  7. X-linked alpha-thalassemia/mental retardation (ATR-X) syndrome: localization to Xq12-q21.31 by X inactivation and linkage analysis.

    PubMed Central

    Gibbons, R J; Suthers, G K; Wilkie, A O; Buckle, V J; Higgs, D R

    1992-01-01

    We have examined seven pedigrees that include individuals with a recently described X-linked form of severe mental retardation associated with alpha-thalassemia (ATR-X syndrome). Using hematologic and molecular approaches, we have shown that intellectually normal female carriers of this syndrome may be identified by the presence of rare cells containing HbH inclusions in their peripheral blood and by an extremely skewed pattern of X inactivation seen in cells from a variety of tissues. Linkage analysis has localized the ATR-X locus to an interval of approximately 11 cM between the loci DXS106 and DXYS1X (Xq12-q21.31), with a peak LOD score of 5.4 (recombination fraction of 0) at DXS72. These findings provide the basis for genetic counseling, assessment of carrier risk, and prenatal diagnosis of the ATR-X syndrome. Furthermore, they represent an important step in developing strategies to understand how the mutant ATR-X allele causes mental handicap, dysmorphism, and down-regulation of the alpha-globin genes. Images Figure 3 Figure 4 PMID:1415255

  8. The Conference Proceedings of the 2001 Air Transport Research Society (ATRS) of the WCTR Society. Volume 1

    NASA Technical Reports Server (NTRS)

    Lee, Yeong-Heok (Editor); Bowen, Brent D. (Editor); Tarry, Scott E. (Editor)

    2001-01-01

    The ATRS held its Annual conference at Jeju Island, Korea in July 2001. The conference was a success with nearly 140 participants including 70 presenters. This report contains presentations from Volume 1 on the following: Airline and Travel Agent Relationships in Asia;Benchmarking Aviation Safety in the Commercial Airline Industry;Impact of Frequent Flyer Program on the Demand for Air Travel; Application of Genetic Algorithm on Airline Schedule;The Effects of Dual Carrier Designation and Partial Liberalization: The Case of Canada;Defense of Air Carriers and Air Agencies in FAA Enforcement proceedin gs - Damage Control Before the Case Arises; Cost Incentives for Airline Mergers? - An examination on the cost impact of U.S. airline mergers and acquisitions;Airport Regulation, Airline Competition and Canada's Airport System; Airline Competition: The Case of Israel's Domestic Doupoly; Non-Financial Indicators of Airline Distress: A Conceptual Approach;and Airport Privatization: An Empirical Analysis of Financial and Operational Efficiency.

  9. Rapid evaluation and quantitative analysis of thyme, origano and chamomile essential oils by ATR-IR and NIR spectroscopy

    NASA Astrophysics Data System (ADS)

    Schulz, Hartwig; Quilitzsch, Rolf; Krüger, Hans

    2003-12-01

    The essential oils obtained from various chemotypes of thyme, origano and chamomile species were studied by ATR/FT-IR as well as NIR spectroscopy. Application of multivariate statistics (PCA, PLS) in conjunction with analytical reference data leads to very good IR and NIR calibration results. For the main essential oil components (e.g. carvacrol, thymol, γ-terpinene, α-bisabolol and β-farnesene) standard errors are in the range of the applied GC reference method. In most cases the multiple coefficients of determination ( R2) are >0.97. Using the IR fingerprint region (900-1400 cm -1) a qualitative discrimination of the individual chemotypes is possible already by visual judgement without to apply any chemometric algorithms.The described rapid and non-destructive methods can be applied in industry to control very easily purifying, blending and redistillation processes of the mentioned essential oils.

  10. Crystallization kinetics from mixture Na2SO4/glycerol droplets of Na2SO4 by FTIR-ATR

    NASA Astrophysics Data System (ADS)

    Tan, Dan-Ting; Cai, Chen; Zhang, Yun; Wang, Na; Pang, Shu-Feng; Zhang, Yun-Hong

    2016-08-01

    The efflorescence of mixed Na2SO4/glycerol aerosols on the ZnSe substrate with various mole ratios (Na2SO4/glycerol = 1:1, 1:2, 1:4) has been studied in the relative humidity (RH) linearly decline process, using a situ Fourier transform infrared attenuated total reflection (FTIR-ATR) technique. The crystal ratio at a given RH can be gained by the absorbance of the band at 1132 cm-1, which shows the incomplete nucleation for mixed Na2SO4/glycerol aerosols and the decreased amount of the droplets crystallized at the lowest RH with the glycerol increase. Using the volume fraction of droplets that have yet to crystallize, the heterogeneous nucleation kinetics has been gained. By the Extended Aerosol Inorganics Model (E-AIM), the nucleation rate as the function of solute saturation degree has been gained for various mixed Na2SO4/glycerol aerosols.

  11. Bridging the gap between in vitro and in vivo: Dose and schedule predictions for the ATR inhibitor AZD6738

    PubMed Central

    Checkley, Stephen; MacCallum, Linda; Yates, James; Jasper, Paul; Luo, Haobin; Tolsma, John; Bendtsen, Claus

    2015-01-01

    Understanding the therapeutic effect of drug dose and scheduling is critical to inform the design and implementation of clinical trials. The increasing complexity of both mono, and particularly combination therapies presents a substantial challenge in the clinical stages of drug development for oncology. Using a systems pharmacology approach, we have extended an existing PK-PD model of tumor growth with a mechanistic model of the cell cycle, enabling simulation of mono and combination treatment with the ATR inhibitor AZD6738 and ionizing radiation. Using AZD6738, we have developed multi-parametric cell based assays measuring DNA damage and cell cycle transition, providing quantitative data suitable for model calibration. Our in vitro calibrated cell cycle model is predictive of tumor growth observed in in vivo mouse xenograft studies. The model is being used for phase I clinical trial designs for AZD6738, with the aim of improving patient care through quantitative dose and scheduling prediction. PMID:26310312

  12. ATR-FTIR Spectroscopy for the Assessment of Biochemical Changes in Skin Due to Cutaneous Squamous Cell Carcinoma

    PubMed Central

    Lima, Cássio A.; Goulart, Viviane P.; Côrrea, Luciana; Pereira, Thiago M.; Zezell, Denise M.

    2015-01-01

    Nonmelanoma skin cancers represent 95% of cutaneous neoplasms. Among them, squamous cell carcinoma (SCC) is the more aggressive form and shows a pattern of possible metastatic profile. In this work, we used Fourier transform infrared spectroscopy (FTIR) spectroscopy to assess the biochemical changes in normal skin caused by squamous cell carcinoma induced by multi-stage chemical carcinogenesis in mice. Changes in the absorption intensities and shifts were observed in the vibrational modes associated to proteins, indicating changes in secondary conformation in the neoplastic tissue. Hierarchical cluster analysis was performed to evaluate the potential of the technique to differentiate the spectra of neoplastic and normal skin tissue, so that the accuracy obtained for this classification was 86.4%. In this sense, attenuated total reflection (ATR)-FTIR spectroscopy provides a useful tool to complement histopathological analysis in the clinical routine for the diagnosis of cutaneous squamous cell carcinoma. PMID:25811925

  13. Cellulose acetate-lithium bis(trifluoromethanesulfonyl)imide solid polymer electrolyte: ATR-FTIR and ionic conductivity behavior

    NASA Astrophysics Data System (ADS)

    Mohd Razalli, Siti Masyitah; Sheikh Mohd Saaid, Siti Irma Yuana; Marwan Ali, Ab Malik; Hassan, Oskar Hasdinor; Yahya, Muhd Zu Azhan

    2015-05-01

    Solid polymer electrolytes (SPEs) based on cellulose acetate (CA) doped with lithium bis(trifluoromethanesulfonyl)imide (LiTFSI) salt are prepared by solution cast technique. Attenuated total reflectance-Fourier transform infrared (ATR-FTIR) spectroscopy of the polymer salt complexes are recorded in the frequency range between 400 cm-1 and 4000 cm-1. The shifting of carbonyl band (C=O) at 1737 cm-1 to a lower wavenumber confirms the occurrence of complexation between the polymer and the salt. The electrochemical impedance spectroscopy (EIS) analysis discovered that the film with 25 wt.% of salt shows the highest ionic conductivity at room temperature. The change in real dielectric permittivity (ɛr) as a function of frequency at different salt concentrations which exhibits a dispersive behavior at low frequencies and decays at higher frequencies, shows the electrode polarization and space charge effect. The real modulus formalism (Mr) analysis shows that the polymer electrolytes in this work are ionic conductors.

  14. Fabrication Control Plan for ORNL RH-LOCA ATF Test Specimens to be Irradiated in the ATR

    SciTech Connect

    Kevin G. Field; Richard Howard; Michael Teague

    2014-06-01

    The purpose of this fabrication plan is (1) to summarize the design of a set of rodlets that will be fabricated and then irradiated in the Advanced Test Reactor (ATR) and (2) provide requirements for fabrication and acceptance criteria for inspections of the Light Water Reactor (LWR) – Accident Tolerant Fuels (ATF) rodlet components. The functional and operational (F&OR) requirements for the ATF program are identified in the ATF Test Plan. The scope of this document only covers fabrication and inspections of rodlet components detailed in drawings 604496 and 604497. It does not cover the assembly of these items to form a completed test irradiation assembly or the inspection of the final assembly, which will be included in a separate INL final test assembly specification/inspection document. The controls support the requirements that the test irradiations must be performed safely and that subsequent examinations must provide valid results.

  15. Immobilization of proteins in their physiological active state at functionalized thiol monolayers on ATR-germanium crystals.

    PubMed

    Schartner, Jonas; Gavriljuk, Konstantin; Nabers, Andreas; Weide, Philipp; Muhler, Martin; Gerwert, Klaus; Kötting, Carsten

    2014-11-24

    Protein immobilization on solid surfaces has become a powerful tool for the investigation of protein function. Physiologically relevant molecular reaction mechanisms and interactions of proteins can be revealed with excellent signal-to-noise ratio by vibrational spectroscopy (ATR-FTIR) on germanium crystals. Protein immobilization by thiol chemistry is well-established on gold surfaces, for example, for surface plasmon resonance. Here, we combine features of both approaches: a germanium surface functionalized with different thiols to allow specific immobilization of various histidine-tagged proteins with over 99% specific binding. In addition to FTIR, the surfaces were characterized by XPS and fluorescence microscopy. Secondary-structure analysis and stimulus-induced difference spectroscopy confirmed protein activity at the atomic level, for example, physiological cation channel formation of Channelrhodopsin 2.

  16. Formulation and drug-content assay of microencapsulated antisense oligonucleotide to NF-κB using ATR-FTIR

    NASA Astrophysics Data System (ADS)

    Siwale, Rodney; Meadows, Fred; Mody, Vicky V.; Shah, Samit

    2013-09-01

    Antisense oligonucleotide to NF-κB sequence: 5‧-GGA AAC ACA TCC TCC ATG-3‧, was microencapsulated in an albumin matrix by the method of spray dryingTM. Spectral analysis was performed on varying drug loading formulations of both drugs by mid-IR attenuated total reflectance-Fourier transform infrared spectroscopy (ATR-FTIR). An out of plane O-H bending vibration at 948 cm-1, unique to both the native and microencapsulated drugs was identified. The calculated peak areas corresponded to the drug loadings in the microsphere formulations. A standard curve could then be used to determine the drug content of an unknown microsphere formulation. Accuracy and precision were determined to be comparable to other analytical techniques such as HPLC.

  17. ATR-IR spectroscopic study of the structural changes in the hydrophobic region of ICPAN/DPPC bilayers

    NASA Astrophysics Data System (ADS)

    Cieślik-Boczula, Katarzyna; Czarnik-Matusewicz, Bogusława; Perevozkina, Margarita; Filarowski, Aleksander; Boens, Noël; De Borggraeve, Wim M.; Koll, Aleksander

    2008-04-01

    Structural changes in the hydrophobic region in the self-aggregates of the long hydrocarbon chain ICPAN ((( N, N-dimethyl- N-octyl-2-ammonioethyl)-3-(3,5-di- tert-butyl-4-hydroxyphenyl)propionate bromide)) homologues and their interaction with a DPPC (dipalmitoylophosphatidylcholine) bilayer were the subject of detailed investigation using ATR infrared spectroscopy. On the base of analysis of the bands assigned to CH 2 stretching, scissoring, and rocking and CH wagging vibrations it was revealed that the hydrophobic parts ICPANs adopt a gauche-rich disordering structure. Moreover, it was shown that the micellar- or lamellar-like character of these structures depends on the hydrocarbon chain length. Results obtained from the ICPAN/DPPC mixtures indicate an increase in the conformational disorder in hydrophobic part compare to pure DPPC film. This effect depends on the length of the aliphatic chain of ICPAN homologues and on the relative concentrations of DPPC and ICPAN.

  18. Bridging the gap between in vitro and in vivo: Dose and schedule predictions for the ATR inhibitor AZD6738.

    PubMed

    Checkley, Stephen; MacCallum, Linda; Yates, James; Jasper, Paul; Luo, Haobin; Tolsma, John; Bendtsen, Claus

    2015-01-01

    Understanding the therapeutic effect of drug dose and scheduling is critical to inform the design and implementation of clinical trials. The increasing complexity of both mono, and particularly combination therapies presents a substantial challenge in the clinical stages of drug development for oncology. Using a systems pharmacology approach, we have extended an existing PK-PD model of tumor growth with a mechanistic model of the cell cycle, enabling simulation of mono and combination treatment with the ATR inhibitor AZD6738 and ionizing radiation. Using AZD6738, we have developed multi-parametric cell based assays measuring DNA damage and cell cycle transition, providing quantitative data suitable for model calibration. Our in vitro calibrated cell cycle model is predictive of tumor growth observed in in vivo mouse xenograft studies. The model is being used for phase I clinical trial designs for AZD6738, with the aim of improving patient care through quantitative dose and scheduling prediction. PMID:26310312

  19. The AP Descriptive Chemistry Question: Student Errors

    ERIC Educational Resources Information Center

    Crippen, Kent; Brooks, David W.

    2005-01-01

    For over a decade, the authors have been involved in a design theory experiment providing software for high school students preparing for the descriptive question on the Advanced Placement (AP) chemistry examination. Since 1997, the software has been available as a Web site offering repeatable practice. This study describes a 4-year project during…

  20. Overview of aerosol properties associated with air masses sampled by the ATR-42 during the EUCAARI campaign (2008)

    NASA Astrophysics Data System (ADS)

    Crumeyrolle, S.; Schwarzenboeck, A.; Roger, J. C.; Sellegri, K.; Burkhart, J. F.; Stohl, A.; Gomes, L.; Quennehen, B.; Roberts, G.; Weigel, R.; Villani, P.; Pichon, J. M.; Bourrianne, T.; Laj, P.

    2013-05-01

    Within the frame of the European Aerosol Cloud Climate and Air Quality Interactions (EUCAARI) project, the Météo-France aircraft ATR-42 performed 22 research flights over central Europe and the North Sea during the intensive observation period in May 2008. For the campaign, the ATR-42 was equipped to study the aerosol physical, chemical, hygroscopic and optical properties, as well as cloud microphysics. For the 22 research flights, retroplume analyses along the flight tracks were performed with FLEXPART in order to classify air masses into five sectors of origin, allowing for a qualitative evaluation of emission influence on the respective air parcel. This study shows that the extensive aerosol parameters (aerosol mass and number concentrations) show vertical decreasing gradients and in some air masses maximum mass concentrations (mainly organics) in an intermediate layer (1-3 km). The observed mass concentrations (in the boundary layer (BL): between 10 and 30 μg m-3; lower free troposphere (LFT): 0.8 and 14 μg m-3) are high especially in comparison with the 2015 European norms for PM2.5 (25 μg m-3) and with previous airborne studies performed over England (Morgan et al., 2009; McMeeking et al., 2012). Particle number size distributions show a larger fraction of particles in the accumulation size range in the LFT compared to BL. The chemical composition of submicron aerosol particles is dominated by organics in the BL, while ammonium sulphate dominates the submicron aerosols in the LFT, especially in the aerosol particles originated from north-eastern Europe (~ 80%), also experiencing nucleation events along the transport. As a consequence, first the particle CCN acting ability, shown by the CCN/CN ratio, and second the average values of the scattering cross sections of optically active particles (i.e. scattering coefficient divided by the optical active particle concentration) are increased in the LFT compared to BL.

  1. Classification of agents using Syrian hamster embryo (SHE) cell transformation assay (CTA) with ATR-FTIR spectroscopy and multivariate analysis.

    PubMed

    Ahmadzai, Abdullah A; Trevisan, Júlio; Pang, Weiyi; Riding, Matthew J; Strong, Rebecca J; Llabjani, Valon; Pant, Kamala; Carmichael, Paul L; Scott, Andrew D; Martin, Francis L

    2015-09-01

    The Syrian hamster embryo (SHE) cell transformation assay (pH 6.7) has a reported sensitivity of 87% and specificity of 83%, and an overall concordance of 85% with in vivo rodent bioassay data. To date, the SHE assay is the only in vitro assay that exhibits multistage carcinogenicity. The assay uses morphological transformation, the first stage towards neoplasm, as an endpoint to predict the carcinogenic potential of a test agent. However, scoring of morphologically transformed SHE cells is subjective. We treated SHE cells grown on low-E reflective slides with 2,6-diaminotoluene, N-nitroso-N-ethylnitroguanidine, N-nitroso-N-methylurea, N-nitroso-N-ethylurea, EDTA, dimethyl sulphoxide (DMSO; vehicle control), methyl methanesulfonate, benzo[e]pyrene, mitomycin C, ethyl methanesulfonate, ampicillin or five different concentrations of benzo[a]pyrene. Macroscopically visible SHE colonies were located on the slides and interrogated using attenuated total reflection Fourier-transform infrared (ATR-FTIR) spectroscopy acquiring five spectra per colony. The acquired IR data were analysed using Fisher's linear discriminant analysis (LDA) followed by principal component analysis (PCA)-LDA cluster vectors to extract major and minor discriminating wavenumbers for each treatment class. Each test agent vs. DMSO and treatment-induced transformed cells vs. corresponding non-transformed were classified by a unique combination of major and minor discriminating wavenumbers. Alterations associated with Amide I, Amide II, lipids and nucleic acids appear to be important in segregation of classes. Our findings suggest that a biophysical approach of ATR-FTIR spectroscopy with multivariate analysis could facilitate a more objective interrogation of SHE cells towards scoring for transformation and ultimately employing the assay for risk assessment of test agents.

  2. Advanced turbine systems program conceptual design and product development Task 8.3 - autothermal fuel reformer (ATR). Topical report

    SciTech Connect

    1996-11-01

    Autothermal fuel reforming (ATR) consists of reacting a hydrocarbon fuel such as natural gas or diesel with steam to produce a hydrogen-rich {open_quotes}reformed{close_quotes} fuel. This work has been designed to investigate the fuel reformation and the product gas combustion under gas turbine conditions. The hydrogen-rich gas has a high flammability with a wide range of combustion stability. Being lighter and more reactive than methane, the hydrogen-rich gas mixes readily with air and can be burned at low fuel/air ratios producing inherently low emissions. The reformed fuel also has a low ignition temperature which makes low temperature catalytic combustion possible. ATR can be designed for use with a variety of alternative fuels including heavy crudes, biomass and coal-derived fuels. When the steam required for fuel reforming is raised by using energy from the gas turbine exhaust, cycle efficiency is improved because of the steam and fuel chemically recuperating. Reformation of natural gas or diesel fuels to a homogeneous hydrogen-rich fuel has been demonstrated. Performance tests on screening various reforming catalysts and operating conditions were conducted on a batch-tube reactor. Producing over 70 percent of hydrogen (on a dry basis) in the product stream was obtained using natural gas as a feedstock. Hydrogen concentration is seen to increase with temperature but less rapidly above 1300{degrees}F. The percent reforming increases as the steam to carbon ratio is increased. Two basic groups of reforming catalysts, nickel - and platinum-basis, have been tested for the reforming activity.

  3. Specific interactions between alkali metal cations and the KcsA channel studied using ATR-FTIR spectroscopy

    PubMed Central

    Furutani, Yuji; Shimizu, Hirofumi; Asai, Yusuke; Oiki, Shigetoshi; Kandori, Hideki

    2015-01-01

    The X-ray structure of KcsA, a eubacterial potassium channel, displays a selectivity filter composed of four parallel peptide strands. The backbone carbonyl oxygen atoms of these strands solvate multiple K+ ions. KcsA structures show different distributions of ions within the selectivity filter in solutions containing different cations. To assess the interactions of cations with the selectivity filter, we used attenuated total reflection Fourier-transform infrared (ATR-FTIR) spectroscopy. Ion-exchange-induced ATR-FTIR difference spectra were obtained by subtracting the spectrum of KcsA soaked in K+ solution from that obtained in Li+, Na+, Rb+, and Cs+ solutions. Large spectral changes in the amide-I and -II regions were observed upon replacing K+ with smaller-sized cations Li+ and Na+ but not with larger-sized cations Rb+ and Cs+. These results strongly suggest that the selectivity filter carbonyls coordinating Rb+ or Cs+ adopt a conformation similar to those coordinating K+ (cage configuration), but those coordinating Li+ or Na+ adopt a conformation (plane configuration) considerably different from those coordinating K+. We have identified a cation-type sensitive amide-I band at 1681 cm−1 and an insensitive amide-I band at 1659 cm−1. The bands at 1650, 1639, and 1627 cm−1 observed for Na+-coordinating carbonyls were almost identical to those observed in Li+ solution, suggesting that KcsA forms a similar filter structure in Li+ and Na+ solutions. Thus, we conclude that the filter structure adopts a collapsed conformation in Li+ solution that is similar to that in Na+ solution but is in clear contrast to the X-ray crystal structure of KcsA with Li+. PMID:27493853

  4. Using FTIR-ATR Spectroscopy to Teach the Internal Standard Method

    ERIC Educational Resources Information Center

    Bellamy, Michael K.

    2010-01-01

    The internal standard method is widely applied in quantitative analyses. However, most analytical chemistry textbooks either omit this topic or only provide examples of a single-point internal standardization. An experiment designed to teach students how to prepare an internal standard calibration curve is described. The experiment is a modified…

  5. Orientations of carboxylate groups coupled to the Mn cluster in the photosynthetic oxygen-evolving center as studied by polarized ATR-FTIR spectroscopy.

    PubMed

    Iizasa, Mitsuhiro; Suzuki, Hiroyuki; Noguchi, Takumi

    2010-04-13

    It is essential to clarify the structures and interactions of amino acids surrounding the Mn cluster in photosystem II (PSII) to understand the molecular mechanism of photosynthetic oxygen evolution. In this study, polarized attenuated total reflection Fourier transform infrared spectroscopy (ATR-FTIR) was applied for the first time to PSII to investigate the orientation of carboxylate groups coupled to the oxygen-evolving Mn cluster. PSII membranes from spinach were oriented on the surface of a silicon ATR crystal, and flash-induced polarized ATR-FTIR difference spectra for the S(1) --> S(2) transition (S(2)/S(1) spectra) were obtained. The distribution of membrane orientations by mosaic spread was estimated from the semiquinone CO peak in polarized Q(A)(-)/Q(A) difference spectra recorded using the same oriented sample by buffer exchange. The orientations of carboxylate groups coupled to the Mn cluster were estimated from the dichroic ratios of the symmetric COO(-) bands in the polarized S(2)/S(1) ATR-FTIR spectra. We found that most of the carboxylate groups perturbed during the S(1) --> S(2) transition, due to direct ligation to the Mn cluster or though a hydrogen bond network, have orientations in a relatively narrow angle range of 34-48 degrees with respect to the membrane normal. Implications of the obtained orientations and the changes upon formation of S(2) are discussed on the basis of the information from previous FTIR studies and the X-ray structures. The results in this study show that polarized ATR-FTIR difference spectroscopy is a fruitful method for investigating the orientations and their reaction-induced changes in redox cofactors and coupled amino acid side chains in photosynthetic proteins.

  6. Management control system description

    SciTech Connect

    Bence, P. J.

    1990-10-01

    This Management Control System (MCS) description describes the processes used to manage the cost and schedule of work performed by Westinghouse Hanford Company (Westinghouse Hanford) for the US Department of Energy, Richland Operations Office (DOE-RL), Richland, Washington. Westinghouse Hanford will maintain and use formal cost and schedule management control systems, as presented in this document, in performing work for the DOE-RL. This MCS description is a controlled document and will be modified or updated as required. This document must be approved by the DOE-RL; thereafter, any significant change will require DOE-RL concurrence. Westinghouse Hanford is the DOE-RL operations and engineering contractor at the Hanford Site. Activities associated with this contract (DE-AC06-87RL10930) include operating existing plant facilities, managing defined projects and programs, and planning future enhancements. This document is designed to comply with Section I-13 of the contract by providing a description of Westinghouse Hanford's cost and schedule control systems used in managing the above activities. 5 refs., 22 figs., 1 tab.

  7. Joint Control and the Selection of Stimuli from Their Description

    ERIC Educational Resources Information Center

    Lowenkron, Barry

    2006-01-01

    This research examined the role the two constituents of joint control, the tact and the echoic, play in producing accurate selections of novel stimuli in response to their spoken descriptions. Experiment 1 examined the role of tacts. In response to unfamiliar spoken descriptions, children learned to select from among six successively presented…

  8. The Case for Descriptive Writing.

    ERIC Educational Resources Information Center

    Hauck, Marian K.

    An approach to teaching descriptive writing and its values are discussed. Benefits derived from a descriptive writing unit are said to be the following: (1) Descriptive writing is fun; (2) It enables the instructor to demonstrate that the first word that pops into the writer's mind is often not the best one; (3) There is no easier way in which to…

  9. Three Approaches to Descriptive Research.

    ERIC Educational Resources Information Center

    Svensson, Lennart

    This report compares three approaches to descriptive research, focusing on the kinds of descriptions developed and on the methods used to develop the descriptions. The main emphasis in all three approaches is on verbal data. In these approaches the importance of interpretation and its intuitive nature are emphasized. The three approaches, however,…

  10. Feedback produces divergence from prospect theory in descriptive choice.

    PubMed

    Jessup, Ryan K; Bishara, Anthony J; Busemeyer, Jerome R

    2008-10-01

    A recent study demonstrated that individuals making experience-based choices underweight small probabilities, in contrast to the overweighting observed in a typical descriptive paradigm. We tested whether trial-by-trial feedback in a repeated descriptive paradigm would engender choices more correspondent with experiential or descriptive paradigms. The results of a repeated gambling task indicated that individuals receiving feedback underweighted small probabilities, relative to their no-feedback counterparts. These results implicate feedback as a critical component during the decision-making process, even in the presence of fully specified descriptive information. A model comparison at the individual-subject level suggested that feedback drove individuals' decision weights toward objective probability weighting.

  11. Investigation of aged Asian dust particles by the combined use of quantitative ED-EPMA and ATR-FTIR imaging

    NASA Astrophysics Data System (ADS)

    Song, Y.-C.; Eom, H.-J.; Jung, H.-J.; Malek, M. A.; Kim, H. K.; Geng, H.; Ro, C.-U.

    2013-03-01

    In our previous works, it was demonstrated that the combined use of quantitative energy-dispersive electron probe X-ray microanalysis (ED-EPMA), which is also known as low-Z particle EPMA, and attenuated total reflectance Fourier transform infrared spectroscopy (ATR-FTIR) imaging has great potential for a detailed characterization of individual aerosol particles. In this study, extensively chemically modified (aged) individual Asian dust particles collected during an Asian dust storm event on 11 November 2002 in Korea were characterized by the combined use of low-Z particle EPMA and ATR-FTIR imaging. Overall, 109 individual particles were classified into four particle types based on their morphology, elemental concentrations, and molecular species and/or functional groups of individual particles available from the two analytical techniques: Ca-containing (38%), NaNO3-containing (30%), silicate (22%), and miscellaneous particles (10%). Among the 41 Ca-containing particles, 10, 8, and 14 particles contained nitrate, sulfate, and both, respectively, whereas only two particles contained unreacted CaCO3. Airborne amorphous calcium carbonate (ACC) particles were observed in this Asian dust sample for the first time, where their IR peaks for the insufficient symmetric environment of CO32- ions of ACC were clearly differentiated from those of crystalline CaCO3. This paper also reports the first inland field observation of CaCl2 particles probably converted from CaCO3 through the reaction with HCl(g). HCl(g) was likely released from the reaction of sea salt with NOx/HNO3, as all 33 particles of marine origin contained NaNO3 (no genuine sea salt particle was encountered). Some silicate particles with minor amounts of calcium were observed to be mixed with nitrate, sulfate, and water. Among 24 silicate particles, 10 particles are mixed with water, the presence of which could facilitate atmospheric heterogeneous reactions of silicate particles including swelling minerals, such

  12. Simultaneous monitoring of curing shrinkage and degree of cure of thermosets by attenuated total reflection Fourier transform infrared (ATR FT-IR) spectroscopy.

    PubMed

    Fernàndez-Francos, Xavier; Kazarian, Sergei G; Ramis, Xavier; Serra, Àngels

    2013-12-01

    We present a novel methodology to simultaneously monitor of the degree of cure and curing shrinkage of thermosetting formulations. This methodology is based on the observation of changes in the infrared absorption of reactive functional groups and the groups used as a standard reference for normalization. While the optical path length is exact and controlled in transmission infrared spectroscopy, in attenuated total reflection Fourier transform infrared (ATR FT-IR), the exact determination of volume changes requires the measurement of the refractive indices of the studied system throughout the curing process or at least an indirect parallel measurement of this property. The methodology presented here allows one to achieve quantitative measurements of the degree of cure and shrinkage for thermosets using in situ ATR FT-IR spectroscopy.

  13. Direction and Description

    NASA Astrophysics Data System (ADS)

    Ben-Menahem, Yemima

    This paper deals with the dependence of directionality in the course of events-or our claims concerning such directionality-on the modes of description we use in speaking of the events in question. I argue that criteria of similarity and individuation play a crucial role in assessments of directionality. This is an extension of Davidson's claim regarding the difference between causal and explanatory contexts. The argument is based on a characterisation of notions of necessity and contingency that differ from their modal logic counterparts on the one hand, and from causality and chance on the other. I show that some types of directionality are perfectly compatible with both determinism and indeterminism at the microscopic level, and that there is no likelihood of, or advantage to, reducing such directionality to other laws or causal processes.

  14. Symmetrical gait descriptions

    NASA Astrophysics Data System (ADS)

    Dunajewski, Adam; Dusza, Jacek J.; Rosado Muñoz, Alfredo

    2014-11-01

    The article presents a proposal for the description of human gait as a periodic and symmetric process. Firstly, the data for researches was obtained in the Laboratory of Group SATI in the School of Engineering of University of Valencia. Then, the periodical model - Mean Double Step (MDS) was made. Finally, on the basis of MDS, the symmetrical models - Left Mean Double Step and Right Mean Double Step (LMDS and RMDS) could be created. The method of various functional extensions was used. Symmetrical gait models can be used to calculate the coefficients of asymmetry at any time or phase of the gait. In this way it is possible to create asymmetry, function which better describes human gait dysfunction. The paper also describes an algorithm for calculating symmetric models, and shows exemplary results based on the experimental data.

  15. Task Description Language

    NASA Technical Reports Server (NTRS)

    Simmons, Reid; Apfelbaum, David

    2005-01-01

    Task Description Language (TDL) is an extension of the C++ programming language that enables programmers to quickly and easily write complex, concurrent computer programs for controlling real-time autonomous systems, including robots and spacecraft. TDL is based on earlier work (circa 1984 through 1989) on the Task Control Architecture (TCA). TDL provides syntactic support for hierarchical task-level control functions, including task decomposition, synchronization, execution monitoring, and exception handling. A Java-language-based compiler transforms TDL programs into pure C++ code that includes calls to a platform-independent task-control-management (TCM) library. TDL has been used to control and coordinate multiple heterogeneous robots in projects sponsored by NASA and the Defense Advanced Research Projects Agency (DARPA). It has also been used in Brazil to control an autonomous airship and in Canada to control a robotic manipulator.

  16. Description of Jet Breakup

    NASA Technical Reports Server (NTRS)

    Papageorgiou, Demetrios T.

    1996-01-01

    In this article we review recent results on the breakup of cylindrical jets of a Newtonian fluid. Capillary forces provide the main driving mechanism and our interest is in the description of the flow as the jet pinches to form drops. The approach is to describe such topological singularities by constructing local (in time and space) similarity solutions from the governing equations. This is described for breakup according to the Euler, Stokes or Navier-Stokes equations. It is found that slender jet theories can be applied when viscosity is present, but for inviscid jets the local shape of the jet at breakup is most likely of a non-slender geometry. Systems of one-dimensional models of the governing equations are solved numerically in order to illustrate these differences.

  17. AGR-2 Data Qualification Report for ATR Cycles 151B-2, 152A, 152B, 153A, 153B and 154A

    SciTech Connect

    Binh T. Pham; Jeffrey J. Einerson

    2013-09-01

    This report documents the data qualification status of AGR-2 fuel irradiation experimental data from Advanced Test Reactor (ATR) Cycles 152A, 152B, 153A, 153B, and 154A, as recorded in the Nuclear Data Management and Analysis System (NDMAS). The AGR-2 data streams addressed include thermocouple (TC) temperatures, sweep gas data (flow rate, pressure, and moisture content), and fission product monitoring system (FPMS) data for each of the six capsules in the experiment. A total of 13,400,520 every minute instantaneous TC and sweep gas data records were received and processed by NDMAS for this period. Of these data, 8,911,791 records (66.5% of the total) were determined to be Qualified based on NDMAS accuracy testing and data validity assessment. For temperature, there were 4,266,081 records (74% of the total TC data) that were Failed due to TC instrument failures. For sweep gas flows, there were 222,648 gas flow records (2.91% of the flow data) that were Failed. The inlet gas flow failures due to gas flow cross-talk and leakage problems that occurred after Cycle 150A were corrected by using the same gas mixture in all six capsules and the Leadout. For FPMS data, NDMAS received and processed preliminary release rate and release-to-birth rate ratio (R/B) data for three reactor cycles (Cycles 149B, 150B, and 151A) . This data consists of 45,983 release rate records and 45,235 R/B records for the 12 radionuclides reported. The qualification status of these FPMS data has been set to In Process until receipt of Quality Assurance-approved data generator reports. All of the above data have been processed and tested using a SAS®-based enterprise application software system, stored in a secure Structured Query Language database, made available on the NDMAS Web portal (http://ndmas.inl.gov), and approved by the INL STIM for release to both internal and appropriate external Very High Temperature Reactor Program participants.

  18. YUCCA MOUNTAIN SITE DESCRIPTION

    SciTech Connect

    A.M. Simmons

    2004-04-16

    The ''Yucca Mountain Site Description'' summarizes, in a single document, the current state of knowledge and understanding of the natural system at Yucca Mountain. It describes the geology; geochemistry; past, present, and projected future climate; regional hydrologic system; and flow and transport within the unsaturated and saturated zones at the site. In addition, it discusses factors affecting radionuclide transport, the effect of thermal loading on the natural system, and tectonic hazards. The ''Yucca Mountain Site Description'' is broad in nature. It summarizes investigations carried out as part of the Yucca Mountain Project since 1988, but it also includes work done at the site in earlier years, as well as studies performed by others. The document has been prepared under the Office of Civilian Radioactive Waste Management quality assurance program for the Yucca Mountain Project. Yucca Mountain is located in Nye County in southern Nevada. The site lies in the north-central part of the Basin and Range physiographic province, within the northernmost subprovince commonly referred to as the Great Basin. The basin and range physiography reflects the extensional tectonic regime that has affected the region during the middle and late Cenozoic Era. Yucca Mountain was initially selected for characterization, in part, because of its thick unsaturated zone, its arid to semiarid climate, and the existence of a rock type that would support excavation of stable openings. In 1987, the United States Congress directed that Yucca Mountain be the only site characterized to evaluate its suitability for development of a geologic repository for high-level radioactive waste and spent nuclear fuel.

  19. Quantitative Phosphoproteomics of the Ataxia Telangiectasia-Mutated (ATM) and Ataxia Telangiectasia-Mutated and Rad3-related (ATR) Dependent DNA Damage Response in Arabidopsis thaliana*

    PubMed Central

    Roitinger, Elisabeth; Hofer, Manuel; Köcher, Thomas; Pichler, Peter; Novatchkova, Maria; Yang, Jianhua; Schlögelhofer, Peter; Mechtler, Karl

    2015-01-01

    The reversible phosphorylation of proteins on serine, threonine, and tyrosine residues is an important biological regulatory mechanism. In the context of genome integrity, signaling cascades driven by phosphorylation are crucial for the coordination and regulation of DNA repair. The two serine/threonine protein kinases ataxia telangiectasia-mutated (ATM) and Ataxia telangiectasia-mutated and Rad3-related (ATR) are key factors in this process, each specific for different kinds of DNA lesions. They are conserved across eukaryotes, mediating the activation of cell-cycle checkpoints, chromatin modifications, and regulation of DNA repair proteins. We designed a novel mass spectrometry-based phosphoproteomics approach to study DNA damage repair in Arabidopsis thaliana. The protocol combines filter aided sample preparation, immobilized metal affinity chromatography, metal oxide affinity chromatography, and strong cation exchange chromatography for phosphopeptide generation, enrichment, and separation. Isobaric labeling employing iTRAQ (isobaric tags for relative and absolute quantitation) was used for profiling the phosphoproteome of atm atr double mutants and wild type plants under either regular growth conditions or challenged by irradiation. A total of 10,831 proteins were identified and 15,445 unique phosphopeptides were quantified, containing 134 up- and 38 down-regulated ATM/ATR dependent phosphopeptides. We identified known and novel ATM/ATR targets such as LIG4 and MRE11 (needed for resistance against ionizing radiation), PIE1 and SDG26 (implicated in chromatin remodeling), PCNA1, WAPL, and PDS5 (implicated in DNA replication), and ASK1 and HTA10 (involved in meiosis). PMID:25561503

  20. Development of an LS-DYNA Model of an ATR42-300 Aircraft for Crash Simulation

    NASA Technical Reports Server (NTRS)

    Jackson, Karen E.; Fasanella, Edwin L.

    2004-01-01

    This paper describes the development of an LS-DYNA simulation of a vertical drop test of an ATR42-300 twin-turboprop high-wing commuter-class airplane. A 30-ft/s drop test of this aircraft was performed onto a concrete impact surface at the FAA Technical Center on July 30, 2003. The purpose of the test was to evaluate the structural response of a commuter-class aircraft when subjected to a severe, but survivable, impact. The aircraft was configured with crew and passenger seats, anthropomorphic test dummies, forward and aft luggage, instrumentation, and onboard data acquisition systems. The wings were filled with approximately 8,700 lb. of water to represent the fuel and the aircraft weighed a total of 33,200 lb. The model, which consisted of 57,643 nodes and 62,979 elements, was developed from direct measurements of the airframe geometry, over a period of approximately 8 months. The seats, dummies, luggage, fuel, and other ballast were represented using concentrated masses. Comparisons were made of the structural deformation and failure behavior of the airframe, as well as selected acceleration time history responses.