Science.gov

Sample records for analysis aplicacao da

  1. TA-DA: A TOOL FOR ASTROPHYSICAL DATA ANALYSIS

    SciTech Connect

    Da Rio, Nicola; Robberto, Massimo

    2012-12-01

    We present the Tool for Astrophysical Data Analysis (TA-DA), a new software aimed to greatly simplify and improve the analysis of stellar photometric data in comparison with theoretical models, and allow the derivation of stellar parameters from multi-band photometry. Its flexibility allows one to address a number of such problems: from the interpolation of stellar models, or sets of stellar physical parameters in general, to the computation of synthetic photometry in arbitrary filters or units; from the analysis of observed color-magnitude diagrams to a Bayesian derivation of stellar parameters (and extinction) based on multi-band data. TA-DA is available as a pre-compiled Interactive Data Language widget-based application; its graphical user interface makes it considerably user-friendly. In this paper, we describe the software and its functionalities.

  2. Evolution of the ATLAS PanDA Production and Distributed Analysis System

    NASA Astrophysics Data System (ADS)

    Maeno, T.; De, K.; Wenaus, T.; Nilsson, P.; Walker, R.; Stradling, A.; Fine, V.; Potekhin, M.; Panitkin, S.; Compostella, G.

    2012-12-01

    The PanDA (Production and Distributed Analysis) system has been developed to meet ATLAS production and analysis requirements for a data-driven workload management system capable of operating at LHC data processing scale. PanDA has performed well with high reliability and robustness during the two years of LHC data-taking, while being actively evolved to meet the rapidly changing requirements for analysis use cases. We will present an overview of system evolution including automatic rebrokerage and reattempt for analysis jobs, adaptation for the CernVM File System, support for the multi-cloud model through which Tier-2 sites act as members of multiple clouds, pledged resource management and preferential brokerage, and monitoring improvements. We will also describe results from the analysis of two years of PanDA usage statistics, current issues, and plans for the future.

  3. OnDA: online data analysis and feedback for serial X-ray imaging1

    PubMed Central

    Mariani, Valerio; Morgan, Andrew; Yoon, Chun Hong; Lane, Thomas J.; White, Thomas A.; O’Grady, Christopher; Kuhn, Manuela; Aplin, Steve; Koglin, Jason; Barty, Anton; Chapman, Henry N.

    2016-01-01

    This article describes a free and open-source data analysis utility designed for fast online feedback during serial X-ray diffraction and scattering experiments: OnDA (online data analysis). Three complete real-time monitors for common types of serial X-ray imaging experiments are presented. These monitors are capable of providing the essential information required for quick decision making in the face of extreme rates of data collection. In addition, a set of modules, functions and algorithms that allow developers to modify the provided monitors or develop new ones are provided. The emphasis here is on simple, modular and scalable code that is based on open-source libraries and protocols. OnDA monitors have already proven to be invaluable tools in several experiments, especially for scoring and monitoring of diffraction data during serial crystallography experiments at both free-electron laser and synchrotron facilities. It is felt that in the future the kind of fast feedback that OnDA monitors provide will help researchers to deal with the expected very high throughput data flow at next-generation facilities such as the European X-ray free-electron laser. PMID:27275150

  4. STRESS AND FAILURE ANALYSIS OF RAPIDLY ROTATING ASTEROID (29075) 1950 DA

    SciTech Connect

    Hirabayashi, Masatoshi; Scheeres, Daniel J.

    2015-01-01

    Rozitis et al. recently reported that near-Earth asteroid (29075) 1950 DA, whose bulk density ranges from 1.0 g cm{sup –3} to 2.4 g cm{sup –3}, is a rubble pile and requires a cohesive strength of at least 44-76 Pa to keep from failing due to its fast spin period. Since their technique for giving failure conditions required the averaged stress over the whole volume, it discarded information about the asteroid's failure mode and internal stress condition. This paper develops a finite element model and revisits the stress and failure analysis of 1950 DA. For the modeling, we do not consider material hardening and softening. Under the assumption of an associated flow rule and uniform material distribution, we identify the deformation process of 1950 DA when its constant cohesion reaches the lowest value that keeps its current shape. The results show that to avoid structural failure the internal core requires a cohesive strength of at least 75-85 Pa. It suggests that for the failure mode of this body, the internal core first fails structurally, followed by the surface region. This implies that if cohesion is constant over the whole volume, the equatorial ridge of 1950 DA results from a material flow going outward along the equatorial plane in the internal core, but not from a landslide as has been hypothesized. This has additional implications for the likely density of the interior of the body.

  5. AN IMPROVED SPECTROSCOPIC ANALYSIS OF DA WHITE DWARFS FROM THE SLOAN DIGITAL SKY SURVEY DATA RELEASE 4

    SciTech Connect

    Tremblay, P.-E.; Bergeron, P.; Gianninas, A. E-mail: bergeron@astro.umontreal.ca

    2011-04-01

    We present an improved spectroscopic and photometric analysis of hydrogen-line DA white dwarfs from the Sloan Digital Sky Survey Data Release 4 (SDSS DR4) based on model atmospheres that include improved Stark broadening profiles with non-ideal gas effects. We also perform a careful visual inspection of all spectroscopic fits with high signal-to-noise ratios (S/Ns > 12) and present improved atmospheric parameters (T{sub eff} and log g) for each white dwarf. Through a comparison of spectroscopic and photometric temperatures, we report the discovery of 35 DA+DB/DC double degenerate candidates and two helium-rich DA stars. We also determine that a cutoff at S/N = 15 optimizes the size and quality of the sample for computing the mean mass of DA white dwarfs, for which we report a value of 0.613 M{sub sun}. We compare our results to previous analyses of the SDSS DR4 and find a good agreement if we account for the shift produced by the improved Stark profiles. Finally, the properties of DA white dwarfs in the SDSS are weighed against those of the Villanova White Dwarf Catalog sample of Gianninas et al. We find systematically lower masses (by about 3% on average), a difference that we trace back to the data reduction procedure of the SDSS. We conclude that a better understanding of these differences will be important to determine the absolute temperature scale and mean mass of DA white dwarfs.

  6. SeDA: A software package for the statistical analysis of the instrument drift

    SciTech Connect

    Lee, H. J.; Jang, S. C.; Lim, T. J.

    2006-07-01

    The setpoints for safety-related equipment are affected by many sources of an uncertainty. ANSI/ISA-S67.04.01-2000 [1] and ISA-RP6 7.04.02-2000 [2] suggested the statistical approaches for ensuring that the safety-related instrument setpoints were established and maintained within the technical specification limits [3]. However, Jang et al. [4] indicated that the preceding methodologies for a setpoint drift analysis might be insufficient to manage a setpoint drift on an instrumentation device and proposed new statistical analysis procedures for the management of a setpoint drift, based on the plant specific as-found/as-left data. Although IHPA (Instrument History Performance Analysis) is a widely known commercial software package to analyze an instrument setpoint drift, several steps in the new procedure cannot be performed by using it because it is based on the statistical approaches suggested in the ANSI/ISA-S67.04.01 -2000 [1] and ISA-RP67.04.02-2000 [2], In this paper we present a software package (SeDA: Setpoint Drift Analysis) that implements new methodologies, and which is easy to use, as it is accompanied by powerful graphical tools. (authors)

  7. Agarose and Polyacrylamide Gel Electrophoresis Methods for Molecular Mass Analysis of 5–500 kDa Hyaluronan

    PubMed Central

    Bhilocha, Shardul; Amin, Ripal; Pandya, Monika; Yuan, Han; Tank, Mihir; LoBello, Jaclyn; Shytuhina, Anastasia; Wang, Wenlan; Wisniewski, Hans-Georg; de la Motte, Carol; Cowman, Mary K.

    2011-01-01

    Agarose and polyacrylamide gel electrophoresis systems for the molecular mass-dependent separation of hyaluronan (HA) in the size range of approximately 5–500 kDa have been investigated. For agarose-based systems, the suitability of different agarose types, agarose concentrations, and buffers systems were determined. Using chemoenzymatically synthesized HA standards of low polydispersity, the molecular mass range was determined for each gel composition, over which the relationship between HA mobility and logarithm of the molecular mass was linear. Excellent linear calibration was obtained for HA molecular mass as low as approximately 9 kDa in agarose gels. For higher resolution separation, and for extension to molecular masses as low as approximately 5 kDa, gradient polyacrylamide gels were superior. Densitometric scanning of stained gels allowed analysis of the range of molecular masses present in a sample, and calculation of weight-average and number-average values. The methods were validated for polydisperse HA samples with viscosity-average molecular masses of 112, 59, 37, and 22 kDa, at sample loads of 0.5 µg (for polyacrylamide) to 2.5 µg (for agarose). Use of the methods for electrophoretic mobility shift assays was demonstrated for binding of the HA-binding region of aggrecan (recombinant human aggrecan G1-IGD-G2 domains) to a 150 kDa HA standard. PMID:21684248

  8. Quartz grain surface analysis for paleoenvironmental reconstruction in Western Iberia mountain environments (Serra da Estrela, Portugal).

    NASA Astrophysics Data System (ADS)

    Nieuwendam, Alexandre; Woronko, Barbara; Schaefer, Carlos; Vieira, Gonçalo

    2014-05-01

    This work deals with the genesis and paleoenvironmental significance of relict slope deposits in Serra da Estrela, Central Portugal and is part of a wider sedimentological and dating approach. The aim is to identify what microstructures indicate frost weathering, witch mechanisms are responsible for their development and the effectiveness of frost weathering across an altitudinal profile. Our goals are to contribute to the better understanding of the morphogenetical significance of the different types of slope deposits, clarifying the role of cold environment processes and develop a chronological framework for the Late Quaternary evolution of the slope environment of the mountains of Western Iberia. Quartz grains, 0.5 mm in diameter, were collected from samples from stratified, head and debris-flow deposits. Cailleux (1942) analysis, with modifications from Gozdzik (1980), was performed allowing assessing frosting and rounding, as well as the effects of later frost weathering in vertical profiles from slope deposits. Grains were also analysed using a scanning electron microscope (SEM) following Mahaney (2002). The effects of frost weathering comprise several microstructures such as breakage blocks, conchoidal fractures and fresh surfaces. Breakage blocks microstructures are the most common. Two types of frost weathering were distinguished: weathering of the P type is mainly initiated on convex fragments of grains as the result of ice segregation, and F type is linked to the volumetric expansion of ice and usually observed within concave linear microstructures. The frost action index (FAI) was estimated from the rate of microstructures from frost weathering. FAI varies between 0 and 3. The values of the sediments from the slope deposits vary between 1.2 and 2.05. This approach was for the first time applied on slope deposits from Serra da Estrela. There is a clear correlation between deposits in weathering type. Samples that display intensive physical weathering in

  9. A structural analysis of the Minas da Panasqueira vein network and related fracture generations

    NASA Astrophysics Data System (ADS)

    Jacques, Dominique; Vieira, Romeu; Muchez, Philippe; Sintubin, Manuel

    2014-05-01

    The Minas da Panasqueira is a world-class W-Cu-Sn vein-type deposit, situated within the Central Iberian Zone of the Palaeozoic Iberian Massif (Portugal). The deposit consists of a network of subhorizontal, sill-like massive quartz veins situated above the southwestern extremity of a greisen cupola, within regionally metamorphosed, isoclinally folded, lower-greenschist slates and greywackes. The greisen cupola is part of a larger intrusive complex, emplaced during the late- to post-tectonic stage of the Variscan orogeny. The late-Variscan granitoid(s) underlying the Panasqueira deposit is considered to have served as a major metal source. The structure of the network of subhorizontal extension veins, consists of numerous planar vein lobes that are separated by host-rock bridges and merge at branch-points. A structural analysis demonstrates that not only within the Panasqueira mine, but also on a more regional scale, one or more generations of flat-lying fractures are present. The veins clearly exploited these pre-existing discontinuities, as confirmed by (1) the vein geometry being directly influenced by variations in the orientation of the initial fracture sets and (2) the geometry of the rock bridges and overlapping vein morphologies, consistently showing straight-line propagating crack tips. If veining is governed by a preferential, strongly developed anisotropy in the host rock, the hypothesis of vein lobes and rock bridges forming during propagation of the parent crack by tip-line bifurcation and confinement processes (Foxford et al., 2000) does not seem plausible. Instead, we propose that the rock bridges formed from several, initially separate and small veinlets that eventually overlapped in an en echelon arrangement during progressive propagation and inflation. Bending of the rock bridges and incipient vein rotation indicate that veining occurred near the brittle-ductile transition. Using a quantitative analysis of bridge orientations, vein aspect ratios

  10. PROOF-based analysis on the ATLAS Grid facilities: first experience with the PoD/PanDa plugin

    NASA Astrophysics Data System (ADS)

    Vilucchi, E.; De Salvo, A.; Di Donato, C.; Di Nardo, R.; Doria, A.; Ganis, G.; Manafov, A.; Mancini, G.; Mazza, S.; Preltz, F.; Rebatto, D.; Salvucci, A.; Sanchez Pineda, A. R.

    2014-06-01

    In the ATLAS computing model Grid resources are managed by PanDA, the system designed for production and distributed analysis, and data are stored under various formats in ROOT files. End-user physicists have the choice to use either the ATHENA framework or directly ROOT, that provides users the possibility to use PROOF to exploit the computing power of multi-core machines or to dynamically manage analysis facilities. Since analysis facilities are, in general, not dedicated to PROOF only, PROOF-on-Demand (PoD) is used to enable PROOF on top of an existing resource management system. In a previous work we investigated the usage of PoD to enable PROOF-based analysis on Tier-2 facilities using the PoD/gLite plug-in interface. In this paper we present the status of our investigations using the recently developed PoD/PanDA plug-in to enable PROOF and a real end-user ATLAS physics analysis as payload. For this work, data were accessed using two different protocols: XRootD and file protocol. The former in the site where the SRM interface is Disk Pool Manager (DPM) and the latter where the SRM interface is StoRM with GPFS file system. We will first describe the results of some benchmark tests we run on the ATLAS Italian Tier-1 and Tier-2s sites and at CERN. Then, we will compare the results of different types of analysis, comparing performances accessing data in relation to different types of SRM interfaces and accessing data with XRootD in the LAN and in the WAN using the ATLAS XROOTD storage federation infrastructure.

  11. SPECTROSCOPIC ANALYSIS OF THE WHITE DWARF KUV 02196+2816: A NEW UNRESOLVED DA+DB DEGENERATE BINARY

    SciTech Connect

    Limoges, M.-M.; Bergeron, P.; Dufour, Pierre E-mail: bergeron@astro.umontreal.ca

    2009-05-10

    A spectroscopic analysis of the DBA (or DAB) white dwarf KUV 02196+2816 is presented. The observed hydrogen- and helium-line profiles are shown to be incompatible with model spectra calculated under the assumption of a homogeneous hydrogen and helium chemical composition. In contrast, an excellent fit to the optical spectrum of KUV 02196+2816 can be achieved if the object is interpreted as an unresolved double degenerate composed of a hydrogen-line DA star and a helium-line DB star. The atmospheric parameters obtained from the best fit are T {sub eff} = 27170 K and log g = 8.09 for the DA star, T {sub eff} = 36340 K and log g = 8.09 for the DB star, which implies that the total mass of the system (M {approx} 1.4 M {sub sun}) is very close to the Chandrasekhar limit. Moreover, the effective temperature of the DB stars lies well within the so-called DB gap where very few bright DB stars are found. The implications of this discovery with respect to the DAB and DBA spectral classes and to the evolution of double-degenerate binaries are discussed.

  12. Botanical identity of plant sources of Daśamūla drugs through an analysis of published literature

    PubMed Central

    Aparna, S.; Ved, Devendra Kumar; Lalitha, S.; Venkatasubramanian, Padma

    2012-01-01

    Background: Daśamūla (DM) is a top-traded group of medicinal plants used by the Ayurvedic industry. Through literature survey and analysis, this article has enlisted the botanical sources of DM, as correlated by several scholars. Such a list is not available from any single, earlier publication. It brings to light the confusion that exists in terms of botanical sources correlated to Ayurvedic entities. There is quite a bit of difference in the botanical correlation, parts, and substitutes reported in the different scholarly works, particularly for Pṛṣṇiparṇī, and Agnimantha. For e.g., is Uraria picta the original intended Pṛṣṇiparṇī, as the Ayurvedic Formulary of India (AFI) stipulates or is it U. lagopoidiodes or Desmodium gangeticum as other scholars report? While AFI provides two botanical correlations to Agnimantha in its two editions, namely Premna integrifolia and Clerodendrum phlomidis, other scholars correlate it to other Premna and Clerodendrum species. Why has AFI provided stem bark and whole plant as substitutes for roots of DM? Are substitutes recommended by AFI only for ecological or practical convenience or is there an Ayurvedic or pharmacological explanation for the same? Aim: There are many species used in the name of Daśamūla,, in this article all the species are listed out to find the differences in the usage of the drugs. Materials and Methods: Ayurveda texts and lexicons along with the texts which have done correlation work were considered to arrive at a list of various species used as Dasmula. Results and Conclusion: Since neither the methodology nor the logic behind the correlation have been discussed in these scholarly works, including the AFI, the same is not available for analysis or scrutiny. Such a list as provided in this article can form an essential base for a much needed systematic approach at etymological analysis, botanical correlation, and further scientific work to establish legitimacy of substitutes

  13. Microbiological Analysis of Surfaces of Leonardo Da Vinci's Atlantic Codex: Biodeterioration Risk

    PubMed Central

    Moroni, Catia; Pasquariello, Giovanna; Maggi, Oriana

    2014-01-01

    Following the discovery of discoloration on some pages of the Atlantic Codex (AC) of Leonardo da Vinci kept in the Biblioteca Ambrosiana in Milan, some investigations have been carried out to verify the presence of microorganisms, such as bacteria and fungi. To verify the presence of microorganisms a noninvasive method of sampling has been used that was efficient and allowed us to highlight the microbial facies of the material that was examined using conventional microbiological techniques. The microclimatic conditions in the storage room as well as the water content of the volume were also assessed. The combined observations allowed the conclusion that the discoloration of suspected biological origin on some pages of AC is not related to the presence or current attack of microbial agents. PMID:25574171

  14. Expression, purification and immunologic analysis of three Pasteurella haemolytica A1 28-30 kDa lipoproteins.

    PubMed

    Dabo, S M; Confer, A W; Styre, D; Murphy, G L

    1994-09-01

    Three genes, tandemly arranged on the Pasteurella haemolytica A1 chromosome and encoding similar 28-30 kDa proteins, were previously cloned and sequenced by our laboratory. In this study, we demonstrate that the cloned genes encode lipoproteins, as previously suggested by DNA sequence analysis. To further analyze the bovine immune response to these proteins, the individual genes were cloned separately into an expression vector and recombinant forms of the three proteins were purified after expression in Escherichia coli. Sera from cattle vaccinated with live P. haemolytica or P. haemolytica bacterins and from cattle naturally exposed to P. haemolytica recognized each of the recombinant proteins. Vaccination with live or killed whole bacteria did not elicit an immune response of the same quality as that which developed in response to natural infection. A statistically significant correlation existed between resistance to challenge and a high antibody response to one of these three proteins. PMID:7700132

  15. SPECTROSCOPIC ANALYSIS OF DA WHITE DWARFS: STARK BROADENING OF HYDROGEN LINES INCLUDING NONIDEAL EFFECTS

    SciTech Connect

    Tremblay, P.-E.; Bergeron, P. E-mail: bergeron@astro.umontreal.ca

    2009-05-10

    We present improved calculations for the Stark broadening of hydrogen lines in dense plasmas typical of white dwarf atmospheres. Our new model is based on the unified theory of Stark broadening from Vidal, Cooper, and Smith. For the first time, we account for the nonideal effects in a consistent way directly inside the line profile calculations. The Hummer and Mihalas theory is used to describe the nonideal effects due to perturbations on the absorber from protons and electrons. We use a truncation of the electric microfield distribution in the quasi-static proton broadening to take into account the fact that high electric microfields dissociate the upper state of a transition. This approach represents a significant improvement over previous calculations that relied on the use of an ad hoc parameter to mimic these nonideal effects. We obtain the first model spectra with line profiles that are consistent with the equation of state. We revisit the properties of DA stars in the range 40,000 K >T {sub eff}> 13,000 K by analyzing the optical spectra with our improved models. The updated atmospheric parameters are shown to differ substantially from those published in previous studies, with a mean mass shifted by +0.034 M {sub sun}. We also show that these revised atmospheric parameters yield absolute visual magnitudes that remain in excellent agreement with trigonometric parallax measurements.

  16. Spectroscopic Analysis of DA White Dwarfs: Stark Broadening of Hydrogen Lines Including Nonideal Effects

    NASA Astrophysics Data System (ADS)

    Tremblay, P.-E.; Bergeron, P.

    2009-05-01

    We present improved calculations for the Stark broadening of hydrogen lines in dense plasmas typical of white dwarf atmospheres. Our new model is based on the unified theory of Stark broadening from Vidal, Cooper, and Smith. For the first time, we account for the nonideal effects in a consistent way directly inside the line profile calculations. The Hummer and Mihalas theory is used to describe the nonideal effects due to perturbations on the absorber from protons and electrons. We use a truncation of the electric microfield distribution in the quasi-static proton broadening to take into account the fact that high electric microfields dissociate the upper state of a transition. This approach represents a significant improvement over previous calculations that relied on the use of an ad hoc parameter to mimic these nonideal effects. We obtain the first model spectra with line profiles that are consistent with the equation of state. We revisit the properties of DA stars in the range 40,000 K >T eff> 13,000 K by analyzing the optical spectra with our improved models. The updated atmospheric parameters are shown to differ substantially from those published in previous studies, with a mean mass shifted by +0.034 M sun. We also show that these revised atmospheric parameters yield absolute visual magnitudes that remain in excellent agreement with trigonometric parallax measurements.

  17. Structural-based mutational analysis of d-aminoacylase from Alcaligenes faecalis DA1

    PubMed Central

    Hsu, Cheng-Sheng; Lai, Wen-Lin; Chang, Wei-Wei; Liaw, Shwu-Huey; Tsai, Ying-Chieh

    2002-01-01

    d-Aminoacylase is an attractive candidate for commercial production of d-amino acids through its catalysis in the zinc-assistant hydrolysis of N-acyl-d-amino acids. We report here the cloning, expression, and structural-based mutation of the d-aminoacylase from Alcaligenes faecalis DA1. A 1,007-bp PCR product amplified with degenerate primers, was used to isolate a 4-kb genomic fragment, encoding a 484-residue d-aminoacylase. The enzyme amino-terminal segment shared significant homology within a variety of enzymes including urease. The structural fold was predicted by 3D-PSSM to be similar to urease and dihydroorotase, which have grouped into a novel α/β-barrel amidohydrolase superfamily with a virtually indistinguishable binuclear metal centers containing six ligands, four histidines, one aspartate, and one carboxylated lysine. Three histidines, His-67, His-69, and His-250, putative metal ligands in d-aminoacylase, have been mutated previously, the remaining histidine (His-220) and aspartate (Asp-366) Asp-65, and four cysteines were then characterized. Substitution of Asp-65, Cys-96, His-220, and Asp-366 with alanine abolished the enzyme activity. The H220A mutant bound approximately half the normal complement of zinc ion as did H250N. However, the C96A mutant showed little zinc-binding ability, revealing that Cys-96 may replace the carboxylated lysine to serve as a bridging ligand. According to the urease structure, the conserved amino-terminal segment including Asp-65 may be responsible for structural stabilization. PMID:12381838

  18. Managing Risk for Cassini During Mission Operations and Data Analysis (MOandDA)

    NASA Technical Reports Server (NTRS)

    Witkowski, Mona M.

    2002-01-01

    A Risk Management Process has been tailored for Cassini that not only satisfies the requirements of NASA and JPL, but also allows the Program to proactively identify and assess risks that threaten mission objectives. Cassini Risk Management is a team effort that involves both management and engineering staff. The process is managed and facilitated by the Mission Assurance Manager (MAM), but requires regular interactions with Program Staff and team members to instill the risk management philosophy into the day to day mission operations. While Risk Management is well defined for projects in the development phase, it is a relatively new concept for Mission Operations. The Cassini team has embraced this process and has begun using it in an effective, proactive manner, to ensure mission success. It is hoped that the Cassini Risk Management Process will form the basis by which risk management is conducted during MO&DA on future projects. proactive in identifying, assessing and mitigating risks before they become problems. Cost ehtiveness is achieved by: Comprehensively identifying risks Rapidly assessing which risks require the expenditure of pruject cewums Taking early actions to mitigate these risks Iterating the process frequently, to be responsive to the dynamic internal and external environments The Cassini Program has successfully implemented a Risk Management Process for mission operations, The initial SRL has been developed and input into he online tool. The Risk Management webbased system has been rolled out for use by the flight team and risk owners we working proactive in identifying, assessing and mitigating risks before they become problems. Cost ehtiveness is achieved by: Comprehensively identifying risks Rapidly assessing which risks require the expenditure of pruject cewums Taking early actions to mitigate these risks Iterating the process frequently, to be responsive to the dynamic internal and external environments The Cassini Program has successfully

  19. 76 FR 56455 - DaVita, Inc.; Analysis of Agreement Containing Consent Orders To Aid Public Comment

    Federal Register 2010, 2011, 2012, 2013, 2014

    2011-09-13

    ... terms of the Consent Agreement, DaVita is required to divest 28 dialysis clinics and terminate one... Commission Act, as amended, 15 U.S.C. 45, by lessening competition for the provision of outpatient dialysis... provider of outpatient dialysis services in the United States. DaVita operates 1,612 outpatient...

  20. Olive oil sensory defects classification with data fusion of instrumental techniques and multivariate analysis (PLS-DA).

    PubMed

    Borràs, Eva; Ferré, Joan; Boqué, Ricard; Mestres, Montserrat; Aceña, Laura; Calvo, Angels; Busto, Olga

    2016-07-15

    Three instrumental techniques, headspace-mass spectrometry (HS-MS), mid-infrared spectroscopy (MIR) and UV-visible spectrophotometry (UV-vis), have been combined to classify virgin olive oil samples based on the presence or absence of sensory defects. The reference sensory values were provided by an official taste panel. Different data fusion strategies were studied to improve the discrimination capability compared to using each instrumental technique individually. A general model was applied to discriminate high-quality non-defective olive oils (extra-virgin) and the lowest-quality olive oils considered non-edible (lampante). A specific identification of key off-flavours, such as musty, winey, fusty and rancid, was also studied. The data fusion of the three techniques improved the classification results in most of the cases. Low-level data fusion was the best strategy to discriminate musty, winey and fusty defects, using HS-MS, MIR and UV-vis, and the rancid defect using only HS-MS and MIR. The mid-level data fusion approach using partial least squares-discriminant analysis (PLS-DA) scores was found to be the best strategy for defective vs non-defective and edible vs non-edible oil discrimination. However, the data fusion did not sufficiently improve the results obtained by a single technique (HS-MS) to classify non-defective classes. These results indicate that instrumental data fusion can be useful for the identification of sensory defects in virgin olive oils. PMID:26948620

  1. Herbal medicine (Gan Mai Da Zao decoction) for depression: a systematic review and meta-analysis of randomized controlled trials.

    PubMed

    Jun, Ji Hee; Choi, Tae-Young; Lee, Ju Ah; Yun, Kyung-Jin; Lee, Myeong Soo

    2014-12-01

    The objective of this review was to analyze the trial data on the efficacy and safety of Gan Mai Da Zao (GMDZ) decoction for depression. PubMed, the Cochrane Library, and EMBASE, AMED, Korea Med, DBPIA, OASIS, RISS, KISS, CNKI, Wan Fang Database, and VIP were searched through to May 2014. Randomized controlled trials (RCTs) testing GMDZ decoction for any type of depression were considered. All RCTs of GMDZ decoction or modified GMDZ decoction were included. Data were extracted by 2 independent reviewers. Meta-analysis was used for the pooled data. A total of 298 potentially relevant studies were identified, and 13 RCTs met our inclusion criteria. All of the included RCTs had a high risk of bias across their domains. Three RCTs failed to show favorable effects of GMDZ decoction on response rate or HAMD score in major depression. One RCT showed a beneficial effect of GMDZ decoction on response rate in post-surgical depression, while another failed to do so. Two studies showed favorable effects on response rate in post-stroke depression, while another two failed to do so. A meta-analysis, however, showed that GMDZ decoction produced better response rates than anti-depressants in post-stroke depression (RR: 1.17, I(2)=15%). One trial failed to show any beneficial effects of GMDZ decoction on response rate or HAMD score in depression in an elderly sample. Two trials tested GMDZ decoction in combination with anti-depressants but failed to show effects on response rate in major depression, while another did show beneficial effects on response rate in post-stroke depression. In summary, our systematic review and meta-analysis failed to provide evidence of the superiority of GMDZ decoction over anti-depressant therapies for major depression, post-surgical depression, or depression in the elderly, although there was evidence of an effect in post-stroke depression. The quality of evidence for this finding was low, however, because of a high risk of bias. PMID:25262476

  2. Compositional Data Analysis (CoDA) as a tool to study the (paleo)ecology of coccolithophores from coastal-neritic settings off central Portugal

    NASA Astrophysics Data System (ADS)

    Guerreiro, Catarina; Cachão, Mário; Pawlowsky-Glahn, Vera; Oliveira, Anabela; Rodrigues, Aurora

    2015-04-01

    Whereas using the species percentages is the standard analytical procedure used to infer species ecological preferences, independently of taphonomical effects, the closure problem associated with closed number systems and subsequent inconsistency of determining percentages may lead to spurious correlations, biased statistical analysis and misleading interpretations. To avoid these problems, we applied Compositional Data Analysis (CoDA) to investigate the (paleo)ecological preferences and spatial distribution of coccolith assemblages preserved in seafloor sediments, using as a case-study the central Portuguese submarine canyons and adjacent shelf-slope areas. Results from using the isometric log-ratio (ilr) approach from CoDA are compared with results from using classical analytical methods, and further discussed. While providing scale invariance and subcompositional coherence, CoDA is revealed to be a consistent statistical tool to infer the (paleo)ecological preferences of coccolithophores, corroborating earlier work based on from percentage determinations. Results of this study clearly confirmed the coastal-neritic distribution of coccoliths from Gephyrocapsa oceanica, Helicosphaera carteri and Coronosphaera mediterranea, whereas coccoliths from Calcidiscus leptoporus, Umbilicosphaera sibogae, Umbellosphaera irregularis and Rhabdosphaera spp. more typically occur offshore. Differences between canyons and adjacent shelf and slope areas were also confirmed, namely the (a) greater importance of the coastal-neritic assemblage possibly resulting from local and persistent nutrient pumping in these areas, and (b) stronger mixing of coccoliths from coastal and oceanic species in upper canyon reaches, resulting from the focused coastward advection of more oceanic water masses along their axes. Unlike the results from both ilr-coordinates and the percentage approaches, both coccolith concentrations and fluxes showed that spatial trends in which the species ecological inter

  3. Mineralogical and Geochemical Analysis of Howardite DaG 779: understanding geological evolution of asteroid (4) Vesta

    NASA Astrophysics Data System (ADS)

    Marcel Müller, Christian; Mengel, Kurt; Singh Thangjam, Guneshwar; Weckwerth, Gerd

    2016-04-01

    The HED meteorites, a clan of stony achondrites, are believed to originate from asteroid (4) Vesta (e.g. Mittlefehldt et al. (2015)). Recent evolution models (e.g. Toplis et al. (2013)) and observations from Dawn spacecraft data (e.g., Prettyman et al. (2013)) indicate that diogenites form the lower crust and uppermost mantle of (4) Vesta. Deep seated material excavated by large impacts such as the Rheasilvia- and Veneneiaforming event should be present in howardites. We analysed a slice of howardite DaG 779 which had been recovered from the Libyan Desert in 1999 and was briefly described by Grossmann (2000). The data presented here include electron microprobe, bulk-rock XRD and XRF as well as trace element analysis by ICP-MS and INA. The petrographic results confirm earlier observations that DaG 779 is polymict and mainly contains diogenite and eucrite clasts. Mass balance calculations using bulk-rock and microprobe major element data reveal a modal mineralogy of 77% orthopyroxene, 8% plagioclase, 7% clinopyroxene and 2% spinels, the rest being olivine, SiO2-phases, sulphides, and native Fe(Ni). When compared with the element compilation recently reported by Mittlefehldt (2015) the 39 trace element analysed here (including REE and PGE) confirm that this howardite is clearly dominated by diogenite. Beside the modal petrographic information, a number of more detailed observations obtained from microprobe investigations reveal fresh and recrystallized glasses, troilite-orthopyroxene symplectites from a mixed silicate-sulphide melt giving rise to graphic intergrowths as well as vermicular and reticular FeS in highly disrupted clasts. While the origin of the FeS in these clasts is not clear yet, its particular shape and distribution indicates that this mineral has been (partially) molten and recrystallized from a sulphide melt. The silicate minerals around these FeS occurrences are recrystallized but there is no indication for a partial silicate melt. Further

  4. Commercial tree species discrimination using airborne AISA Eagle hyperspectral imagery and partial least squares discriminant analysis (PLS-DA) in KwaZulu-Natal, South Africa

    NASA Astrophysics Data System (ADS)

    Peerbhay, Kabir Yunus; Mutanga, Onisimo; Ismail, Riyad

    2013-05-01

    Discriminating commercial tree species using hyperspectral remote sensing techniques is critical in monitoring the spatial distributions and compositions of commercial forests. However, issues related to data dimensionality and multicollinearity limit the successful application of the technology. The aim of this study was to examine the utility of the partial least squares discriminant analysis (PLS-DA) technique in accurately classifying six exotic commercial forest species (Eucalyptus grandis, Eucalyptus nitens, Eucalyptus smithii, Pinus patula, Pinus elliotii and Acacia mearnsii) using airborne AISA Eagle hyperspectral imagery (393-900 nm). Additionally, the variable importance in the projection (VIP) method was used to identify subsets of bands that could successfully discriminate the forest species. Results indicated that the PLS-DA model that used all the AISA Eagle bands (n = 230) produced an overall accuracy of 80.61% and a kappa value of 0.77, with user's and producer's accuracies ranging from 50% to 100%. In comparison, incorporating the optimal subset of VIP selected wavebands (n = 78) in the PLS-DA model resulted in an improved overall accuracy of 88.78% and a kappa value of 0.87, with user's and producer's accuracies ranging from 70% to 100%. Bands located predominantly within the visible region of the electromagnetic spectrum (393-723 nm) showed the most capability in terms of discriminating between the six commercial forest species. Overall, the research has demonstrated the potential of using PLS-DA for reducing the dimensionality of hyperspectral datasets as well as determining the optimal subset of bands to produce the highest classification accuracies.

  5. cDNA sequence analysis of a 29-kDa cysteine-rich surface antigen of pathogenic Entamoeba histolytica

    SciTech Connect

    Torian, B.E.; Stroeher, V.L.; Stamm, W.E. ); Flores, B.M. ); Hagen, F.S. )

    1990-08-01

    A {lambda}gt11 cDNA library was constructed from poly(U)-Spharose-selected Entamoeba histolytica trophozoite RNA in order to clone and identify surface antigens. The library was screened with rabbit polyclonal anti-E. histolytica serum. A 700-base-pair cDNA insert was isolated and the nucleotide sequence was determined. The deduced amino acid sequence of the cDNA revealed a cysteine-rich protein. DNA hybridizations showed that the gene was specific to E. histolytica since the cDNA probe reacted with DNA from four axenic strains of E. histolytica but did not react with DNA from Entamoeba invadens, Acanthamoeba castellanii, or Trichomonas vaginalis. The insert was subcloned into the expression vector pGEX-1 and the protein was expressed as a fusion with the C terminus of glutathione S-transferase. Purified fusion protein was used to generate 22 monoclonal antibodies (mAbs) and a mouse polyclonal antiserum specific for the E. histolytica portion of the fusion protein. A 29-kDa protein was identified as a surface antigen when mAbs were used to immunoprecipitate the antigen from metabolically {sup 35}S-labeled live trophozoites. The surface location of the antigen was corroborated by mAb immunoprecipitation of a 29-kDa protein from surface-{sup 125}I-labeled whole trophozoites as well as by the reaction of mAbs with live trophozoites in an indirect immunofluorescence assay performed at 4{degree}C. Immunoblotting with mAbs demonstrated that the antigen was present on four axenic isolates tested. mAbs recognized epitopes on the 29-kDa native antigen on some but not all clinical isolates tested.

  6. Matrix-assisted Laser Desorption/Ionization Time of Flight (MALDI-TOF) Mass Spectrometric Analysis of Intact Proteins Larger than 100 kDa

    PubMed Central

    Signor, Luca; Boeri Erba, Elisabetta

    2013-01-01

    Effectively determining masses of proteins is critical to many biological studies (e.g. for structural biology investigations). Accurate mass determination allows one to evaluate the correctness of protein primary sequences, the presence of mutations and/or post-translational modifications, the possible protein degradation, the sample homogeneity, and the degree of isotope incorporation in case of labelling (e.g. 13C labelling). Electrospray ionisation (ESI) mass spectrometry (MS) is widely used for mass determination of denatured proteins, but its efficiency is affected by the composition of the sample buffer. In particular, the presence of salts, detergents, and contaminants severely undermines the effectiveness of protein analysis by ESI-MS. Matrix-assisted laser desorption/ionization (MALDI) MS is an attractive alternative, due to its salt tolerance and the simplicity of data acquisition and interpretation. Moreover, the mass determination of large heterogeneous proteins (bigger than 100 kDa) is easier by MALDI-MS due to the absence of overlapping high charge state distributions which are present in ESI spectra. Here we present an accessible approach for analysing proteins larger than 100 kDa by MALDI-time of flight (TOF). We illustrate the advantages of using a mixture of two matrices (i.e. 2,5-dihydroxybenzoic acid and α-cyano-4-hydroxycinnamic acid) and the utility of the thin layer method as approach for sample deposition. We also discuss the critical role of the matrix and solvent purity, of the standards used for calibration, of the laser energy, and of the acquisition time. Overall, we provide information necessary to a novice for analysing intact proteins larger than 100 kDa by MALDI-MS. PMID:24056304

  7. Crystallization and X-ray data analysis of the 10 kDa C-terminal lid subdomain from Caenorhabditis elegans Hsp70

    SciTech Connect

    Worrall, Liam; Walkinshaw, Malcolm D.

    2006-09-01

    Crystals of the C-terminal 10 kDa lid subdomain from the C. elegans chaperone Hsp70 have been obtained that diffract X-rays to ∼3.5 Å and belong to space group I2{sub 1}2{sub 1}2{sub 1}. Analysis of X-ray data and initial heavy-atom phasing reveals 24 monomers in the asymmetric unit related by 432 non-crystallographic symmetry. Hsp70 is an important molecular chaperone involved in the regulation of protein folding. Crystals of the C-terminal 10 kDa helical lid domain (residues 542–640) from a Caenorhabditis elegans Hsp70 homologue have been produced that diffract X-rays to ∼3.4 Å. Crystals belong to space group I2{sub 1}2{sub 1}2{sub 1}, with unit-cell parameters a = b = 197, c = 200 Å. The Matthews coefficient, self-rotation function and Patterson map indicate 24 monomers in the asymmetric unit, showing non-crystallographic 432 symmetry. Molecular-replacement studies using the corresponding domain from rat, the only eukaryotic homologue with a known structure, failed and a mercury derivative was obtained. Preliminary MAD phasing using SHELXD and SHARP for location and refinement of the heavy-atom substructure and SOLOMON for density modification produced interpretable maps with a clear protein–solvent boundary. Further density-modification, model-building and refinement are currently under way.

  8. Fully-automated identification of fish species based on otolith contour: using short-time Fourier transform and discriminant analysis (STFT-DA)

    PubMed Central

    Salimi, Nima; Loh, Kar Hoe; Kaur Dhillon, Sarinder

    2016-01-01

    Background. Fish species may be identified based on their unique otolith shape or contour. Several pattern recognition methods have been proposed to classify fish species through morphological features of the otolith contours. However, there has been no fully-automated species identification model with the accuracy higher than 80%. The purpose of the current study is to develop a fully-automated model, based on the otolith contours, to identify the fish species with the high classification accuracy. Methods. Images of the right sagittal otoliths of 14 fish species from three families namely Sciaenidae, Ariidae, and Engraulidae were used to develop the proposed identification model. Short-time Fourier transform (STFT) was used, for the first time in the area of otolith shape analysis, to extract important features of the otolith contours. Discriminant Analysis (DA), as a classification technique, was used to train and test the model based on the extracted features. Results. Performance of the model was demonstrated using species from three families separately, as well as all species combined. Overall classification accuracy of the model was greater than 90% for all cases. In addition, effects of STFT variables on the performance of the identification model were explored in this study. Conclusions. Short-time Fourier transform could determine important features of the otolith outlines. The fully-automated model proposed in this study (STFT-DA) could predict species of an unknown specimen with acceptable identification accuracy. The model codes can be accessed at http://mybiodiversityontologies.um.edu.my/Otolith/ and https://peerj.com/preprints/1517/. The current model has flexibility to be used for more species and families in future studies. PMID:26925315

  9. Fully-automated identification of fish species based on otolith contour: using short-time Fourier transform and discriminant analysis (STFT-DA).

    PubMed

    Salimi, Nima; Loh, Kar Hoe; Kaur Dhillon, Sarinder; Chong, Ving Ching

    2016-01-01

    Background. Fish species may be identified based on their unique otolith shape or contour. Several pattern recognition methods have been proposed to classify fish species through morphological features of the otolith contours. However, there has been no fully-automated species identification model with the accuracy higher than 80%. The purpose of the current study is to develop a fully-automated model, based on the otolith contours, to identify the fish species with the high classification accuracy. Methods. Images of the right sagittal otoliths of 14 fish species from three families namely Sciaenidae, Ariidae, and Engraulidae were used to develop the proposed identification model. Short-time Fourier transform (STFT) was used, for the first time in the area of otolith shape analysis, to extract important features of the otolith contours. Discriminant Analysis (DA), as a classification technique, was used to train and test the model based on the extracted features. Results. Performance of the model was demonstrated using species from three families separately, as well as all species combined. Overall classification accuracy of the model was greater than 90% for all cases. In addition, effects of STFT variables on the performance of the identification model were explored in this study. Conclusions. Short-time Fourier transform could determine important features of the otolith outlines. The fully-automated model proposed in this study (STFT-DA) could predict species of an unknown specimen with acceptable identification accuracy. The model codes can be accessed at http://mybiodiversityontologies.um.edu.my/Otolith/ and https://peerj.com/preprints/1517/. The current model has flexibility to be used for more species and families in future studies. PMID:26925315

  10. Molecular identification and bioinformatics analysis of a potential anti-vector vaccine candidate, 15-kDa salivary gland protein (Salp15), from Ixodes affinis ticks.

    PubMed

    Sultana, Hameeda; Patel, Unnati; Toliver, Marcée; Maggi, Ricardo G; Neelakanta, Girish

    2016-02-01

    Salp15, a 15-kDa salivary gland protein plays an important role in tick blood-feeding and transmission of Borrelia burgdorferi, the causative agent of Lyme borreliosis. The comparative studies reveal that Salp15 is a genetically conserved protein across various Ixodes species. In this study, we have identified a Salp15 homolog, designated as Iaff15, from Ixodes affinis ticks that are the principal enzootic vectors of B. burgdorferi sensu stricto in the southeastern part of the United States. Comparison of the annotated amino acid sequences showed that Iaff15 share 81% homology with I. sinensis Salp15 homolog and 64% homology with I. scapularis Salp15. Phylogenetic analysis revealed that Iaff15 come within the same clade with I. sinensis, I. scapularis, and I. pacificus Salp15 homologs. The bioinformatics analysis of the posttranslational modifications prediction revealed that all the Salp15 family members contain glycosylation sites. In addition, Iaff15 carried a higher number of Casein Kinase II phosphorylation sites in comparison to the other Salp15 family members. Collectively, high sequence conservation distributed over the entire amino acids sequence not only suggests an important role for Iaff15 in I. affinis blood feeding and vector-pathogen interactions but may also lead to the development of an anti-vector vaccine against this group of ticks. PMID:26296588

  11. Differential and scanning-mode external PIXE for the analysis of the painting “Ritratto Trivulzio” by Antonello da Messina

    NASA Astrophysics Data System (ADS)

    Grassi, Novella

    2009-03-01

    Extensive PIXE investigations have been performed at the LABEC accelerator laboratory in Florence on the painting "Ritratto Trivulzio" by Antonello da Messina, one of the great Italian masters of XV Century and a pioneer in modern oil painting. It is well known that a complete and unambiguous characterisation of materials in paintings is often difficult, owing to their complex structure. For the "Ritratto Trivulzio", the combination of advanced variants of PIXE, such as differential and scanning-mode analysis, provided a relevant contribution to the characterisation of paint layers, in terms of composition and structure, in a totally non-invasive and non-destructive way. Single-spot mode PIXE with external proton beams of about half millimetre diameter was first used for a general characterisation of different areas of the painting. Differential PIXE performed in many spots led to reconstruct the sequence of paints employed by the artist and to estimate in some cases the local paint layer thickness. A second run carried out with the external scanning microbeam facility, using a 3 MeV proton beam of about 80 μm size, was then crucial to clarify some issues raised by the first analysis. In particular, elemental maps from selected areas helped to understand the way some colour shades had been obtained on the red mantle of the portrayed gentleman, using different pigments irregularly distributed on the surface.

  12. SaDA: From Sampling to Data Analysis-An Extensible Open Source Infrastructure for Rapid, Robust and Automated Management and Analysis of Modern Ecological High-Throughput Microarray Data.

    PubMed

    Singh, Kumar Saurabh; Thual, Dominique; Spurio, Roberto; Cannata, Nicola

    2015-06-01

    One of the most crucial characteristics of day-to-day laboratory information management is the collection, storage and retrieval of information about research subjects and environmental or biomedical samples. An efficient link between sample data and experimental results is absolutely important for the successful outcome of a collaborative project. Currently available software solutions are largely limited to large scale, expensive commercial Laboratory Information Management Systems (LIMS). Acquiring such LIMS indeed can bring laboratory information management to a higher level, but most of the times this requires a sufficient investment of money, time and technical efforts. There is a clear need for a light weighted open source system which can easily be managed on local servers and handled by individual researchers. Here we present a software named SaDA for storing, retrieving and analyzing data originated from microorganism monitoring experiments. SaDA is fully integrated in the management of environmental samples, oligonucleotide sequences, microarray data and the subsequent downstream analysis procedures. It is simple and generic software, and can be extended and customized for various environmental and biomedical studies. PMID:26047146

  13. Analysis of ultraviolet and extreme-ultraviolet spectra of the DA white dwarf G 191-B2B using self-consistent diffusion models

    NASA Astrophysics Data System (ADS)

    Dreizler, S.; Wolff, B.

    1999-08-01

    We present a multi-wavelength spectral analysis of the DA white dwarf G 191-B2B. The employed atmospheric models account for gravitational settling and radiative levitation, which are, for the first time, calculated self-consistently with the atmospheric structure. The resulting spectra can reproduce the complete EUVE spectrum and the ultraviolet lines of iron. Some restrictions regarding the UV lines of other elements (C, N, O, Ni), however, still remain. In contrast to homogeneous models, it is not necessary to introduce additional photospheric or interstellar absorbers to account for the high opacity at lambda <~ 230 Ä. Abundance profile changing mechanisms, like mass-loss or accretion, are also not needed. Based on observations made with the EUVE Sattelite and with the NASA/ESA Hubble Space Telescope, obtained from the data archive at the Space Telescope Science Institute. STScI is operated by the Association of Universities for Research in Astronomy, Inc. under NASA contract NAS 5-26555.

  14. Integrated and Functional Genomics Analysis Validates the Relevance of the Nuclear Variant ErbB380kDa in Prostate Cancer Progression

    PubMed Central

    El Maassarani, Mahmoud; Barbarin, Alice; Fromont, Gaëlle; Kaissi, Ouafae; Lebbe, Margot; Vannier, Brigitte; Moussa, Ahmed; Séité, Paule

    2016-01-01

    The EGF-family of tyrosine-kinase receptors activates cytoplasmic pathways involved in cell proliferation, migration and differentiation in response to specific extracellular ligands. Beside these canonical pathways, the nuclear localization of the ErbB receptors in primary tumours and cancer cell lines led to investigate their role as transcriptional regulators of cancer genes. The nuclear localization of ErbB3 has been reported in various cancer tissues and cell lines but the nuclear functions and the putative correlation with tumour progression and resistance to therapy remain unclear. We first assessed ErbB3 expression in normal and tumour prostate tissues. The nuclear staining was mainly due to an isoform matching the C-terminus domain of the full length ErbB3185kDa receptor. Nuclear staining was also restricted to cancer cells and was increased in advanced castration-resistant prostate cancer when compared to localized tumours, suggesting it could be involved in the progression of prostate cancer up to the terminal castration-resistant stage. ChIP-on-chip experiments were performed on immortalized and tumour cell lines selected upon characterization of endogenous nuclear expression of an ErbB380kDa isoform. Among the 1840 target promoters identified, 26 were selected before ErbB380kDa-dependent gene expression was evaluated by real-time quantitative RT-PCR, providing evidence that ErbB380kDa exerted transcriptional control on those genes. Some targets are already known to be involved in prostate cancer progression even though no link was previously established with ErbB3 membrane and/or nuclear signalling. Many others, not yet associated with prostate cancer, could provide new therapeutic possibilities for patients expressing ErbB380kDa. Detecting ErbB380kDa could thus constitute a useful marker of prognosis and response to therapy. PMID:27191720

  15. UPLC-QTOFMS based metabolomics followed by stepwise partial least square-discriminant analysis (PLS-DA) explore the possible relation between the variations in secondary metabolites and the phylogenetic divergences of the genus Panax.

    PubMed

    Nguyen, Huy Truong; Lee, Dong-Kyu; Lee, Won Jun; Lee, GwangJin; Yoon, Sang Jun; Shin, Byong-Kyu; Nguyen, Minh Duc; Park, Jeong Hill; Lee, Jeongmi; Kwon, Sung Won

    2016-02-15

    Phylogenetic and metabolomic approaches have long been employed to study evolutionary relationships among plants. Nonetheless, few studies have examined the difference in metabolites within a clade and between clades of the phylogenetic tree. We attempted to relate phylogenetic studies to metabolomics using stepwise partial least squares-discriminant analysis (PLS-DA) for the genus Panax. Samples were analyzed by ultra-performance liquid chromatography-quadrupole time of flight mass spectrometry (UPLC-QTOFMS) to obtain metabolite profiles. Initially, conventional principal component analysis was subsequently applied to the metabolomic data to show the limitations in relating the expression of metabolites to divisions in the phylogenetic tree. Thereafter, we introduced stepwise PLS-DA with optimized scaling methods, which were properly applied according to the branches of the phylogenetic tree of the four species. Our approach highlighted metabolites of interest by elucidating the directions and degrees of metabolic alterations in each clade of the phylogenetic tree. The results revealed the relationship between metabolic changes in the genus Panax and its species' evolutionary adaptations to different climates. We believe our method will be useful to help understand the metabolite-evolution relationship. PMID:26807706

  16. SaDA: From Sampling to Data Analysis—An Extensible Open Source Infrastructure for Rapid, Robust and Automated Management and Analysis of Modern Ecological High-Throughput Microarray Data

    PubMed Central

    Singh, Kumar Saurabh; Thual, Dominique; Spurio, Roberto; Cannata, Nicola

    2015-01-01

    One of the most crucial characteristics of day-to-day laboratory information management is the collection, storage and retrieval of information about research subjects and environmental or biomedical samples. An efficient link between sample data and experimental results is absolutely important for the successful outcome of a collaborative project. Currently available software solutions are largely limited to large scale, expensive commercial Laboratory Information Management Systems (LIMS). Acquiring such LIMS indeed can bring laboratory information management to a higher level, but most of the times this requires a sufficient investment of money, time and technical efforts. There is a clear need for a light weighted open source system which can easily be managed on local servers and handled by individual researchers. Here we present a software named SaDA for storing, retrieving and analyzing data originated from microorganism monitoring experiments. SaDA is fully integrated in the management of environmental samples, oligonucleotide sequences, microarray data and the subsequent downstream analysis procedures. It is simple and generic software, and can be extended and customized for various environmental and biomedical studies. PMID:26047146

  17. Crystallization and preliminary X-ray crystallographic analysis of a 40 kDa N-terminal fragment of the yeast prion-remodeling factor Hsp104

    SciTech Connect

    Lee, Sukyeong; Tsai, Francis T. F.

    2007-09-01

    An N-terminal fragment of S. cerevisiae Hsp104 has been crystallized. This is the first report of the crystallization of a eukaryotic member of the Hsp100 family of molecular chaperones. A 40 kDa N-terminal fragment of Saccharomyces cerevisiae Hsp104 was crystallized in two different crystal forms. Native 1 diffracted to 2.6 Å resolution and belonged to space group P2{sub 1}2{sub 1}2{sub 1}, with unit-cell parameters a = 66.6, b = 75.8, c = 235.7 Å. Native 2 diffracted to 2.9 Å resolution and belonged to space group P6{sub 1}22 or P6{sub 5}22, with unit-cell parameters a = 179.1, b = 179.1, c = 69.7 Å. This is the first report of the crystallization of a eukaryotic member of the Hsp100 family of molecular chaperones.

  18. Crystallization and Preliminary X-ray Crystallographic Analysis of a 40 kDa N-Terminal Fragment of the Yeast Prion-Remodeling Factor Hsp104

    SciTech Connect

    Lee,S.; Tsai, F.

    2007-01-01

    A 40 kDa N-terminal fragment of Saccharomyces cerevisiae Hsp104 was crystallized in two different crystal forms. Native 1 diffracted to 2.6 {angstrom} resolution and belonged to space group P2{sub 1}2{sub 1}2{sub 1}, with unit-cell parameters a = 66.6, b = 75.8, c = 235.7 {angstrom}. Native 2 diffracted to 2.9 {angstrom} resolution and belonged to space group P6{sub 1}22 or P6{sub 5}22, with unit-cell parameters a = 179.1, b = 179.1, c = 69.7 {angstrom}. This is the first report of the crystallization of a eukaryotic member of the Hsp100 family of molecular chaperones.

  19. Comprehensive Enzymatic Analysis of the Cellulolytic System in Digestive Fluid of the Sea Hare Aplysia kurodai. Efficient Glucose Release from Sea Lettuce by Synergistic Action of 45 kDa Endoglucanase and 210 kDa ß-Glucosidase

    PubMed Central

    Tsuji, Akihiko; Tominaga, Keiko; Nishiyama, Nami; Yuasa, Keizo

    2013-01-01

    Although many endo-ß-1,4-glucanases have been isolated in invertebrates, their cellulolytic systems are not fully understood. In particular, gastropod feeding on seaweed is considered an excellent model system for production of bioethanol and renewable bioenergy from third-generation feedstocks (microalgae and seaweeds). In this study, enzymes involved in the conversion of cellulose and other polysaccharides to glucose in digestive fluids of the sea hare (Aplysia kurodai) were screened and characterized to determine how the sea hare obtains glucose from sea lettuce (Ulva pertusa). Four endo-ß-1,4-glucanases (21K, 45K, 65K, and 95K cellulase) and 2 ß-glucosidases (110K and 210K) were purified to a homogeneous state, and the synergistic action of these enzymes during cellulose digestion was analyzed. All cellulases exhibited cellulase and lichenase activities and showed distinct cleavage specificities against cellooligosaccharides and filter paper. Filter paper was digested to cellobiose, cellotriose, and cellotetraose by 21K cellulase, whereas 45K and 65K enzymes hydrolyzed the filter paper to cellobiose and glucose. 210K ß-glucosidase showed unique substrate specificity against synthetic and natural substrates, and 4-methylumbelliferyl (4MU)-ß-glucoside, 4MU–ß-galactoside, cello-oligosaccharides, laminarin, and lichenan were suitable substrates. Furthermore, 210K ß-glucosidase possesses lactase activity. Although ß-glucosidase and cellulase are necessary for efficient hydrolysis of carboxymethylcellulose to glucose, laminarin is hydrolyzed to glucose only by 210K ß-glucosidase. Kinetic analysis of the inhibition of 210K ß-glucosidase by D-glucono-1,5-lactone suggested the presence of 2 active sites similar to those of mammalian lactase-phlorizin hydrolase. Saccharification of sea lettuce was considerably stimulated by the synergistic action of 45K cellulase and 210K ß-glucosidase. Our results indicate that 45K cellulase and 210K ß-glucosidase are the

  20. Sequence Analysis and Molecular Characterization of Clonorchis sinensis Hexokinase, an Unusual Trimeric 50-kDa Glucose-6-Phosphate-Sensitive Allosteric Enzyme

    PubMed Central

    Chen, Tingjin; Ning, Dan; Sun, Hengchang; Li, Ran; Shang, Mei; Li, Xuerong; Wang, Xiaoyun; Chen, Wenjun; Liang, Chi; Li, Wenfang; Mao, Qiang; Li, Ye; Deng, Chuanhuan; Wang, Lexun; Wu, Zhongdao; Huang, Yan; Xu, Jin; Yu, Xinbing

    2014-01-01

    Clonorchiasis, which is induced by the infection of Clonorchis sinensis (C. sinensis), is highly associated with cholangiocarcinoma. Because the available examination, treatment and interrupting transmission provide limited opportunities to prevent infection, it is urgent to develop integrated strategies to prevent and control clonorchiasis. Glycolytic enzymes are crucial molecules for trematode survival and have been targeted for drug development. Hexokinase of C. sinensis (CsHK), the first key regulatory enzyme of the glycolytic pathway, was characterized in this study. The calculated molecular mass (Mr) of CsHK was 50.0 kDa. The obtained recombinant CsHK (rCsHK) was a homotrimer with an Mr of approximately 164 kDa, as determined using native PAGE and gel filtration. The highest activity was obtained with 50 mM glycine-NaOH at pH 10 and 100 mM Tris-HCl at pH 8.5 and 10. The kinetics of rCsHK has a moderate thermal stability. Compared to that of the corresponding negative control, the enzymatic activity was significantly inhibited by praziquantel (PZQ) and anti-rCsHK serum. rCsHK was homotropically and allosterically activated by its substrates, including glucose, mannose, fructose, and ATP. ADP exhibited mixed allosteric effect on rCsHK with respect to ATP, while inorganic pyrophosphate (PPi) displayed net allosteric activation with various allosteric systems. Fructose behaved as a dose-dependent V activator with the substrate glucose. Glucose-6-phosphate (G6P) displayed net allosteric inhibition on rCsHK with respect to ATP or glucose with various allosteric systems in a dose-independent manner. There were differences in both mRNA and protein levels of CsHK among the life stages of adult worm, metacercaria, excysted metacercaria and egg of C. sinensis, suggesting different energy requirements during different development stages. Our study furthers the understanding of the biological functions of CsHK and supports the need to screen for small molecule inhibitors

  1. Molecular cloning and sequence analysis of the gene coding for the 57-kDa major soluble antigen of the salmonid fish pathogen Renibacterium salmoninarum.

    PubMed

    Chien, M S; Gilbert, T L; Huang, C; Landolt, M L; O'Hara, P J; Winton, J R

    1992-09-15

    The complete sequence coding for the 57-kDa major soluble antigen of the salmonid fish pathogen, Renibacterium salmoninarum, was determined. The gene contained an opening reading frame of 1671 nucleotides coding for a protein of 557 amino acids with a calculated M(r) value of 57,190. The first 26 amino acids constituted a signal peptide. The deduced sequence for amino acid residues 27-61 was in agreement with the 35 N-terminal amino acid residues determined by microsequencing, suggesting the protein is synthesized as a 557-amino acid precursor and processed to produce a mature protein of M(r) 54,505. Two regions of the protein contained imperfect direct repeats. The first region contained two copies of an 81-residue repeat, the second contained five copies of an unrelated 25-residue repeat. Also, a perfect inverted repeat (including three in-frame UAA stop codons) was observed at the carboxyl-terminus of the gene. PMID:1383085

  2. The Virtual Observatory Service TheoSSA: Establishing a Database of Synthetic Stellar Flux Standards I. NLTE Spectral Analysis of the DA-Type White Dwarf G191-B2B *,**,***,****

    NASA Technical Reports Server (NTRS)

    Rauch, T.; Werner, K.; Bohlin, R.; Kruk, J. W.

    2013-01-01

    Hydrogen-rich, DA-type white dwarfs are particularly suited as primary standard stars for flux calibration. State-of-the-art NLTE models consider opacities of species up to trans-iron elements and provide reliable synthetic stellar-atmosphere spectra to compare with observations. Aims. We will establish a database of theoretical spectra of stellar flux standards that are easily accessible via a web interface. Methods. In the framework of the Virtual Observatory, the German Astrophysical Virtual Observatory developed the registered service TheoSSA. It provides easy access to stellar spectral energy distributions (SEDs) and is intended to ingest SEDs calculated by any model-atmosphere code. In case of the DA white dwarf G191-B2B, we demonstrate that the model reproduces not only its overall continuum shape but also the numerous metal lines exhibited in its ultraviolet spectrum. Results. TheoSSA is in operation and contains presently a variety of SEDs for DA-type white dwarfs. It will be extended in the near future and can host SEDs of all primary and secondary flux standards. The spectral analysis of G191-B2B has shown that our hydrostatic models reproduce the observations best at Teff =60 000 +/- 2000K and log g=7.60 +/- 0.05.We newly identified Fe vi, Ni vi, and Zn iv lines. For the first time, we determined the photospheric zinc abundance with a logarithmic mass fraction of -4.89 (7.5 × solar). The abundances of He (upper limit), C, N, O, Al, Si, O, P, S, Fe, Ni, Ge, and Sn were precisely determined. Upper abundance limits of about 10% solar were derived for Ti, Cr, Mn, and Co. Conclusions. The TheoSSA database of theoretical SEDs of stellar flux standards guarantees that the flux calibration of all astronomical data and cross-calibration between different instruments can be based on the same models and SEDs calculated with different model-atmosphere codes and are easy to compare.

  3. Differentiation of walnut wood species and steam treatment using ATR-FTIR and partial least squares discriminant analysis (PLS-DA).

    PubMed

    Hobro, Alison J; Kuligowski, Julia; Döll, Markus; Lendl, Bernhard

    2010-11-01

    Wood is a ubiquitous material used in everyday life. Accurate identification of species can be of importance in a historical context enabling appropriate conservation treatment and adequate choice of material to be applied to historic wooden objects, and in a more modern context, in the identification of forgeries. Wood is also often treated to improve certain physical characteristics, often strength and durability. However, determination of whether or not a piece of wood has been treated can be very difficult. Infrared spectroscopy has previously been applied to differentiate between different wood species or between treated and untreated wood, often in conjunction with chemometric analysis techniques. Here, we report the use of mid-IR spectroscopy, coupled with partial least squares discriminant analysis for the discrimination between two walnut wood species and to differentiate between steam-treated and untreated samples of each of these wood species. We show that the discrimination between species and between steam-treated and non-steam-treated wood from Juglans nigra is very clear and, while analysis of the quality of the discrimination between steam-treated and non-steam-treated J. regia samples is not as good, it is, nevertheless, sufficient for discrimination between the two groups with a statistical significance of P < 0.0001. PMID:20882383

  4. The virtual observatory service TheoSSA: Establishing a database of synthetic stellar flux standards. I. NLTE spectral analysis of the DA-type white dwarf G191-B2B

    NASA Astrophysics Data System (ADS)

    Rauch, T.; Werner, K.; Bohlin, R.; Kruk, J. W.

    2013-12-01

    Context. Hydrogen-rich, DA-type white dwarfs are particularly suited as primary standard stars for flux calibration. State-of-the-art NLTE models consider opacities of species up to trans-iron elements and provide reliable synthetic stellar-atmosphere spectra to compare with observations. Aims: We will establish a database of theoretical spectra of stellar flux standards that are easily accessible via a web interface. Methods: In the framework of the Virtual Observatory, the German Astrophysical Virtual Observatory developed the registered service TheoSSA. It provides easy access to stellar spectral energy distributions (SEDs) and is intended to ingest SEDs calculated by any model-atmosphere code. In case of the DA white dwarf G191-B2B, we demonstrate that the model reproduces not only its overall continuum shape but also the numerous metal lines exhibited in its ultraviolet spectrum. Results: TheoSSA is in operation and contains presently a variety of SEDs for DA-type white dwarfs. It will be extended in the near future and can host SEDs of all primary and secondary flux standards. The spectral analysis of G191-B2B has shown that our hydrostatic models reproduce the observations best at and log g = 7.60 ± 0.05. We newly identified Fe vi, Ni vi, and Zn iv lines. For the first time, we determined the photospheric zinc abundance with a logarithmic mass fraction of -4.89 (7.5 × solar). The abundances of He (upper limit), C, N, O, Al, Si, O, P, S, Fe, Ni, Ge, and Sn were precisely determined. Upper abundance limits of about 10% solar were derived for Ti, Cr, Mn, and Co. Conclusions: The TheoSSA database of theoretical SEDs of stellar flux standards guarantees that the flux calibration of all astronomical data and cross-calibration between different instruments can be based on the same models and SEDs calculated with different model-atmosphere codes and are easy to compare. Based on observations with the NASA/ESA Hubble Space Telescope, obtained at the Space Telescope

  5. An analysis of the ``accidental painting'' technique of D.A. Siqueiros: the Rayleigh Taylor instability as a tool to create explosive textures

    NASA Astrophysics Data System (ADS)

    Zetina, S.; Zenit, R.

    2012-11-01

    In the spring of 1936, the famous Mexican muralist David Alfaro Siqueiros organized an experimental painting workshop in New York: a group of artists focused in developing painting techniques through empirical experimentation of modern and industrial materials and tools. Among the young artists attending the workshop was Jackson Pollock. They tested different lacquers and a number of experimental techniques. One of the techniques, named by Siqueiros as a ``controlled accident,'' consisted in pouring layers of paint of different colors on top of each other. After a brief time, the paint from the lower layer emerged from bottom to top creating a relatively regular pattern of blobs. This technique led to the creation of explosion-inspired textures and catastrophic images. We conducted an analysis of this process. We experimentally reproduced the patterns ``discovered'' by Siquieros and analyzed the behavior of the flow. We found that the flow is driven by the well-known Rayleigh Taylor instability: different colors paints have different densities; a heavy layer on top of a light one is an unstable configuration. The blobs and plumes that result from the instability create the aesthetically pleasing patterns. We discuss the importance of fluid mechanics in artistic creation.

  6. Migration of ATLAS PanDA to CERN

    NASA Astrophysics Data System (ADS)

    Stewart, Graeme Andrew; Klimentov, Alexei; Koblitz, Birger; Lamanna, Massimo; Maeno, Tadashi; Nevski, Pavel; Nowak, Marcin; Emanuel De Castro Faria Salgado, Pedro; Wenaus, Torre

    2010-04-01

    The ATLAS Production and Distributed Analysis System (PanDA) is a key component of the ATLAS distributed computing infrastructure. All ATLAS production jobs, and a substantial amount of user and group analysis jobs, pass through the PanDA system, which manages their execution on the grid. PanDA also plays a key role in production task definition and the data set replication request system. PanDA has recently been migrated from Brookhaven National Laboratory (BNL) to the European Organization for Nuclear Research (CERN), a process we describe here. We discuss how the new infrastructure for PanDA, which relies heavily on services provided by CERN IT, was introduced in order to make the service as reliable as possible and to allow it to be scaled to ATLAS's increasing need for distributed computing. The migration involved changing the backend database for PanDA from MySQL to Oracle, which impacted upon the database schemas. The process by which the client code was optimised for the new database backend is discussed. We describe the procedure by which the new database infrastructure was tested and commissioned for production use. Operations during the migration had to be planned carefully to minimise disruption to ongoing ATLAS offline computing. All parts of the migration were fully tested before commissioning the new infrastructure and the gradual migration of computing resources to the new system allowed any problems of scaling to be addressed.

  7. Overview of ATLAS PanDA Workload Management

    NASA Astrophysics Data System (ADS)

    Maeno, T.; De, K.; Wenaus, T.; Nilsson, P.; Stewart, G. A.; Walker, R.; Stradling, A.; Caballero, J.; Potekhin, M.; Smith, D.; ATLAS Collaboration

    2011-12-01

    The Production and Distributed Analysis System (PanDA) plays a key role in the ATLAS distributed computing infrastructure. All ATLAS Monte-Carlo simulation and data reprocessing jobs pass through the PanDA system. We will describe how PanDA manages job execution on the grid using dynamic resource estimation and data replication together with intelligent brokerage in order to meet the scaling and automation requirements of ATLAS distributed computing. PanDA is also the primary ATLAS system for processing user and group analysis jobs, bringing further requirements for quick, flexible adaptation to the rapidly evolving analysis use cases of the early datataking phase, in addition to the high reliability, robustness and usability needed to provide efficient and transparent utilization of the grid for analysis users. We will describe how PanDA meets ATLAS requirements, the evolution of the system in light of operational experience, how the system has performed during the first LHC data-taking phase and plans for the future.

  8. Overview of ATLAS PanDA Workload Management

    SciTech Connect

    Maeno T.; De K.; Wenaus T.; Nilsson P.; Stewart G. A.; Walker R.; Stradling A.; Caballero J.; Potekhin M.; Smith D.

    2011-01-01

    The Production and Distributed Analysis System (PanDA) plays a key role in the ATLAS distributed computing infrastructure. All ATLAS Monte-Carlo simulation and data reprocessing jobs pass through the PanDA system. We will describe how PanDA manages job execution on the grid using dynamic resource estimation and data replication together with intelligent brokerage in order to meet the scaling and automation requirements of ATLAS distributed computing. PanDA is also the primary ATLAS system for processing user and group analysis jobs, bringing further requirements for quick, flexible adaptation to the rapidly evolving analysis use cases of the early datataking phase, in addition to the high reliability, robustness and usability needed to provide efficient and transparent utilization of the grid for analysis users. We will describe how PanDA meets ATLAS requirements, the evolution of the system in light of operational experience, how the system has performed during the first LHC data-taking phase and plans for the future.

  9. Henrique da Rocha Lima.

    PubMed

    Bernardes Filho, Fred; Avelleira, João Carlos Regazzi

    2015-01-01

    Brazilian physician and researcher Henrique da Rocha Lima was born in 1879 in the city of Rio de Janeiro, where he studied medicine and obtained the degree of M.D. in 1901. He specialized in Clinical Medicine in Germany and was the ambassador in European countries of the scientific medicine that emerged from the Oswaldo Cruz Institute in the early twentieth century. Rocha Lima has discovered the causative agent of typhus and had a major contribution to the studies of yellow fever, Chagas disease, Carrión's disease and histoplasmosis. His genius, his research and his discoveries projected his name, and, with it, the image of Brazil in the international scientific scene. PMID:26131867

  10. Henrique da Rocha Lima*

    PubMed Central

    Bernardes Filho, Fred; Avelleira, João Carlos Regazzi

    2015-01-01

    Brazilian physician and researcher Henrique da Rocha Lima was born in 1879 in the city of Rio de Janeiro, where he studied medicine and obtained the degree of M.D. in 1901. He specialized in Clinical Medicine in Germany and was the ambassador in European countries of the scientific medicine that emerged from the Oswaldo Cruz Institute in the early twentieth century. Rocha Lima has discovered the causative agent of typhus and had a major contribution to the studies of yellow fever, Chagas disease, Carrión’s disease and histoplasmosis. His genius, his research and his discoveries projected his name, and, with it, the image of Brazil in the international scientific scene. PMID:26131867

  11. Computer-assisted prediction of HLA-DR binding and experimental analysis for human promiscuous Th1-cell peptides in the 24 kDa secreted lipoprotein (LppX) of Mycobacterium tuberculosis.

    PubMed

    Al-Attiyah, R; Mustafa, A S

    2004-01-01

    The secreted 24 kDa lipoprotein (LppX) is an antigen that is specific for Mycobacterium tuberculosis complex and M. leprae. The present study was carried out to identify the promiscuous T helper 1 (Th1)-cell epitopes of the M. tuberculosis LppX (MT24, Rv2945c) antigen by using 15 overlapping synthetic peptides (25 mers overlapping by 10 residues) covering the sequence of the complete protein. The analysis of Rv2945c sequence for binding to 51 alleles of nine serologically defined HLA-DR molecules, by using a virtual matrix-based prediction program (propred), showed that eight of the 15 peptides of Rv2945c were predicted to bind promiscuously to >/=10 alleles from more than or equal to three serologically defined HLA-DR molecules. The Th1-cell reactivity of all the peptides was assessed in antigen-induced proliferation and interferon-gamma (IFN-gamma)-secretion assays with peripheral blood mononuclear cells (PBMCs) from 37 bacille Calmette-Guérin (BCG)-vaccinated healthy subjects. The results showed that 17 of the 37 donors, which represented an HLA-DR-heterogeneous group, responded to one or more peptides of Rv2945c in the Th1-cell assays. Although each peptide stimulated PBMCs from one or more donors in the above assays, the best positive responses (12/17 (71%) responders) were observed with the peptide p14 (aa 196-220). This suggested a highly promiscuous presentation of p14 to Th1 cells. In addition, the sequence of p14 is completely identical among the LppX of M. tuberculosis, M. bovis and M. leprae, which further supports the usefulness of Rv2945c and p14 in the subunit vaccine design against both tuberculosis and leprosy. PMID:14723617

  12. The ATLAS PanDA Monitoring System and its Evolution

    NASA Astrophysics Data System (ADS)

    Klimentov, A.; Nevski, P.; Potekhin, M.; Wenaus, T.

    2011-12-01

    The PanDA (Production and Distributed Analysis) Workload Management System is used for ATLAS distributed production and analysis worldwide. The needs of ATLAS global computing imposed challenging requirements on the design of PanDA in areas such as scalability, robustness, automation, diagnostics, and usability for both production shifters and analysis users. Through a system-wide job database, the PanDA monitor provides a comprehensive and coherent view of the system and job execution, from high level summaries to detailed drill-down job diagnostics. It is (like the rest of PanDA) an Apache-based Python application backed by Oracle. The presentation layer is HTML code generated on the fly in the Python application which is also responsible for managing database queries. However, this approach is lacking in user interface flexibility, simplicity of communication with external systems, and ease of maintenance. A decision was therefore made to migrate the PanDA monitor server to Django Web Application Framework and apply JSON/AJAX technology in the browser front end. This allows us to greatly reduce the amount of application code, separate data preparation from presentation, leverage open source for tools such as authentication and authorization mechanisms, and provide a richer and more dynamic user experience. We describe our approach, design and initial experience with the migration process.

  13. Recent Improvements in the ATLAS PanDA Pilot

    NASA Astrophysics Data System (ADS)

    Nilsson, P.; Caballero Bejar, J.; Compostella, G.; Contreras, C.; De, K.; Dos Santos, T.; Maeno, T.; Potekhin, M.; Wenaus, T.

    2012-12-01

    The Production and Distributed Analysis system (PanDA) in the ATLAS experiment uses pilots to execute submitted jobs on the worker nodes. The pilots are designed to deal with different runtime conditions and failure scenarios, and support many storage systems. This talk will give a brief overview of the PanDA pilot system and will present major features and recent improvements including CernVM File System integration, the job retry mechanism, advanced job monitoring including JEM technology, and validation of new pilot code using the HammerCloud stress-testing system. PanDA is used for all ATLAS distributed production and is the primary system for distributed analysis. It is currently used at over 130 sites worldwide. We analyze the performance of the pilot system in processing LHC data on the OSG, EGI and Nordugrid infrastructures used by ATLAS, and describe plans for its further evolution.

  14. Evolution of the ATLAS PanDA workload management system for exascale computational science

    NASA Astrophysics Data System (ADS)

    Maeno, T.; De, K.; Klimentov, A.; Nilsson, P.; Oleynik, D.; Panitkin, S.; Petrosyan, A.; Schovancova, J.; Vaniachine, A.; Wenaus, T.; Yu, D.; Atlas Collaboration

    2014-06-01

    An important foundation underlying the impressive success of data processing and analysis in the ATLAS experiment [1] at the LHC [2] is the Production and Distributed Analysis (PanDA) workload management system [3]. PanDA was designed specifically for ATLAS and proved to be highly successful in meeting all the distributed computing needs of the experiment. However, the core design of PanDA is not experiment specific. The PanDA workload management system is capable of meeting the needs of other data intensive scientific applications. Alpha-Magnetic Spectrometer [4], an astro-particle experiment on the International Space Station, and the Compact Muon Solenoid [5], an LHC experiment, have successfully evaluated PanDA and are pursuing its adoption. In this paper, a description of the new program of work to develop a generic version of PanDA will be given, as well as the progress in extending PanDA's capabilities to support supercomputers and clouds and to leverage intelligent networking. PanDA has demonstrated at a very large scale the value of automated dynamic brokering of diverse workloads across distributed computing resources. The next generation of PanDA will allow other data-intensive sciences and a wider exascale community employing a variety of computing platforms to benefit from ATLAS' experience and proven tools.

  15. The role of transparency in da Vinci stereopsis.

    PubMed

    Zannoli, Marina; Mamassian, Pascal

    2011-10-15

    The majority of natural scenes contains zones that are visible to one eye only. Past studies have shown that these monocular regions can be seen at a precise depth even though there are no binocular disparities that uniquely constrain their locations in depth. In the so-called da Vinci stereopsis configuration, the monocular region is a vertical line placed next to a binocular rectangular occluder. The opacity of the occluder has been mentioned to be a necessary condition to obtain da Vinci stereopsis. However, this opacity constraint has never been empirically tested. In the present study, we tested whether da Vinci stereopsis and perceptual transparency can interact using a classical da Vinci configuration in which the opacity of the occluder varied. We used two different monocular objects: a line and a disk. We found no effect of the opacity of the occluder on the perceived depth of the monocular object. A careful analysis of the distribution of perceived depth revealed that the monocular object was perceived at a depth that increased with the distance between the object and the occluder. The analysis of the skewness of the distributions was not consistent with a double fusion explanation, favoring an implication of occlusion geometry in da Vinci stereopsis. A simple model that includes the geometry of the scene could account for the results. In summary, the mechanism responsible to locate monocular regions in depth is not sensitive to the material properties of objects, suggesting that da Vinci stereopsis is solved at relatively early stages of disparity processing. PMID:21906614

  16. PD2P: PanDA Dynamic Data Placement for ATLAS

    NASA Astrophysics Data System (ADS)

    Maeno, T.; De, K.; Panitkin, S.

    2012-12-01

    The PanDA (Production and Distributed Analysis) system plays a key role in the ATLAS distributed computing infrastructure. PanDA is the ATLAS workload management system for processing all Monte-Carlo (MC) simulation and data reprocessing jobs in addition to user and group analysis jobs. The PanDA Dynamic Data Placement (PD2P) system has been developed to cope with difficulties of data placement for ATLAS. We will describe the design of the new system, its performance during the past year of data taking, dramatic improvements it has brought about in the efficient use of storage and processing resources, and plans for the future.

  17. Leonardo da Vinci and the Downburst.

    NASA Astrophysics Data System (ADS)

    Gedzelman, Stanley David

    1990-05-01

    Evidence from the drawings, experiments, and writings of Leonardo da Vinci are presented to demonstrate that da Vinci recognized and, possibly, discovered the downburst and understood its associated airflow. Other early references to vortex flows resembling downbursts are mentioned.

  18. The future of PanDA in ATLAS distributed computing

    NASA Astrophysics Data System (ADS)

    De, K.; Klimentov, A.; Maeno, T.; Nilsson, P.; Oleynik, D.; Panitkin, S.; Petrosyan, A.; Schovancova, J.; Vaniachine, A.; Wenaus, T.

    2015-12-01

    Experiments at the Large Hadron Collider (LHC) face unprecedented computing challenges. Heterogeneous resources are distributed worldwide at hundreds of sites, thousands of physicists analyse the data remotely, the volume of processed data is beyond the exabyte scale, while data processing requires more than a few billion hours of computing usage per year. The PanDA (Production and Distributed Analysis) system was developed to meet the scale and complexity of LHC distributed computing for the ATLAS experiment. In the process, the old batch job paradigm of locally managed computing in HEP was discarded in favour of a far more automated, flexible and scalable model. The success of PanDA in ATLAS is leading to widespread adoption and testing by other experiments. PanDA is the first exascale workload management system in HEP, already operating at more than a million computing jobs per day, and processing over an exabyte of data in 2013. There are many new challenges that PanDA will face in the near future, in addition to new challenges of scale, heterogeneity and increasing user base. PanDA will need to handle rapidly changing computing infrastructure, will require factorization of code for easier deployment, will need to incorporate additional information sources including network metrics in decision making, be able to control network circuits, handle dynamically sized workload processing, provide improved visualization, and face many other challenges. In this talk we will focus on the new features, planned or recently implemented, that are relevant to the next decade of distributed computing workload management using PanDA.

  19. The major histocompatibility complex genes impact pain response in DA and DA.1U rats.

    PubMed

    Guo, Yuan; Yao, Fan-Rong; Cao, Dong-Yuan; Li, Li; Wang, Hui-Sheng; Xie, Wen; Zhao, Yan

    2015-08-01

    Our recent studies have shown that the difference in basal pain sensitivity to mechanical and thermal stimulation between Dark-Agouti (DA) rats and a novel congenic DA.1U rats is major histocompatibility complex (MHC) genes dependent. In the present study, we further used DA and DA.1U rats to investigate the role of MHC genes in formalin-induced pain model by behavioral, electrophysiological and immunohistochemical methods. Behavioral results showed biphasic nociceptive behaviors increased significantly following the intraplantar injection of formalin in the hindpaw of DA and DA.1U rats. The main nociceptive behaviors were lifting and licking, especially in DA rats (P<0.001 and P<0.01). The composite pain scores (CPS) in DA rats were significantly higher than those in DA.1U rats in both phases of the formalin test (P<0.01). Electrophysiological results also showed the biphasic increase in discharge rates of C and Aδ fibers of L5 dorsal root in the two strains, and the net change of the discharge rate of DA rats was significantly higher than that of DA.1U rats (P<0.05). The mechanical thresholds decreased after formalin injection in both strains (P<0.01), and the net change in the mechanical threshold in DA was greater than that in DA.1U rats (P<0.05). The expression of RT1-B, representation of MHC class II molecule, in laminae I-II of L4/5 spinal cord in DA rats was significantly higher than that in DA.1U rats in the respective experimental group (P<0.05). These results suggested that both DA and DA.1U rats exhibited nociceptive responses in formalin-induced pain model and DA rats were more sensitive to noxious chemical stimulus than DA.1U rats, indicating that MHC genes might contribute to the difference in pain sensitivity. PMID:25861730

  20. Approaches to Sample Size Determination for Multivariate Data: Applications to PCA and PLS-DA of Omics Data.

    PubMed

    Saccenti, Edoardo; Timmerman, Marieke E

    2016-08-01

    Sample size determination is a fundamental step in the design of experiments. Methods for sample size determination are abundant for univariate analysis methods, but scarce in the multivariate case. Omics data are multivariate in nature and are commonly investigated using multivariate statistical methods, such as principal component analysis (PCA) and partial least-squares discriminant analysis (PLS-DA). No simple approaches to sample size determination exist for PCA and PLS-DA. In this paper we will introduce important concepts and offer strategies for (minimally) required sample size estimation when planning experiments to be analyzed using PCA and/or PLS-DA. PMID:27322847

  1. Asteroid 1986 DA: Radar evidence for a metallic composition

    NASA Technical Reports Server (NTRS)

    Ostro, Steven J.; Campbell, D. B.; Chandler, J. F.; Hine, A. A.; Hudson, R. S.; Rosema, K. D.; Shapiro, Irwin I.

    1991-01-01

    Radar observations of the near-Earth asteroid 1986 DA were carried out at the Arecibo Observatory in April 1986, two months after its discovery. Radar results are consistent with the hypothesis that 1986 HA is a piece of NiFe metal derived from the interior of a much larger object that melted, differentiated, cooled and subsequently was disrupted in a catastrophic collision. This 2-km asteroid might be (or have been part of) the parent body of some iron meteorites. Or 1986 DA might share the parentage and/or part of the dynamical history of some meteorites without ever having contributed any of its own ejecta to our meteorite sample. Analysis of the samples returned from 1986 DA might ultimately involve economic considerations. Meteoritic metal is mostly iron with about 8 percent nickel, but also contains substantial concentrations of precious and strategic metals, including approx. 1 ppm of gold and approx. 10 ppm of platinum group elements. If these abundances apply to 1986 DA, it contains some 10(exp 16) g of iron, 10 (exp 15) g of nickel, 10(exp 11) g of platinum group metals, and 10(exp 10) g of gold.

  2. JCoDA: a tool for detecting evolutionary selection

    PubMed Central

    2010-01-01

    Background The incorporation of annotated sequence information from multiple related species in commonly used databases (Ensembl, Flybase, Saccharomyces Genome Database, Wormbase, etc.) has increased dramatically over the last few years. This influx of information has provided a considerable amount of raw material for evaluation of evolutionary relationships. To aid in the process, we have developed JCoDA (Java Codon Delimited Alignment) as a simple-to-use visualization tool for the detection of site specific and regional positive/negative evolutionary selection amongst homologous coding sequences. Results JCoDA accepts user-inputted unaligned or pre-aligned coding sequences, performs a codon-delimited alignment using ClustalW, and determines the dN/dS calculations using PAML (Phylogenetic Analysis Using Maximum Likelihood, yn00 and codeml) in order to identify regions and sites under evolutionary selection. The JCoDA package includes a graphical interface for Phylip (Phylogeny Inference Package) to generate phylogenetic trees, manages formatting of all required file types, and streamlines passage of information between underlying programs. The raw data are output to user configurable graphs with sliding window options for straightforward visualization of pairwise or gene family comparisons. Additionally, codon-delimited alignments are output in a variety of common formats and all dN/dS calculations can be output in comma-separated value (CSV) format for downstream analysis. To illustrate the types of analyses that are facilitated by JCoDA, we have taken advantage of the well studied sex determination pathway in nematodes as well as the extensive sequence information available to identify genes under positive selection, examples of regional positive selection, and differences in selection based on the role of genes in the sex determination pathway. Conclusions JCoDA is a configurable, open source, user-friendly visualization tool for performing evolutionary

  3. Fluorine substitution enhanced photovoltaic performance of a D-A(1)-D-A(2) copolymer.

    PubMed

    Dang, Dongfeng; Chen, Weichao; Yang, Renqiang; Zhu, Weiguo; Mammo, Wendimagegn; Wang, Ergang

    2013-10-18

    A new alternating donor-acceptor (D-A1-D-A2) copolymer containing two electron-deficient moieties, isoindigo and quinoxaline, was synthesized. The photovoltaic performance of this polymer could be improved by incorporating fluorine atoms into the quinoxaline units, resulting in an efficiency of 6.32%. This result highlights the attractive promise of D-A1-D-A2 copolymers for high-performance bulk heterojunction solar cells. PMID:24000353

  4. O Imperio como Argumento: Um Contraponto entre Joaquim Nabuco e o Bispo D. Jose Mauricio da Rocha (The Empire as Argument: A Counterpoint between Joaquim Nabuco and the Bishop Dom Jose Mauricio da Rocha).

    ERIC Educational Resources Information Center

    Marson, Izabel Andrade

    1998-01-01

    Dialogs with the previous article establishing a comparative analysis between the political acceptance present in the reactionary speech of Dom Jose Mauricio da Rocha and in the monarchist words of Joaquim Nabuco. (PA)

  5. The ATLAS PanDA Pilot in Operation

    NASA Astrophysics Data System (ADS)

    Nilsson, P.; Caballero, J.; De, K.; Maeno, T.; Stradling, A.; Wenaus, T.; ATLAS Collaboration

    2011-12-01

    The Production and Distributed Analysis system (PanDA) [1-2] was designed to meet ATLAS [3] requirements for a data-driven workload management system capable of operating at LHC data processing scale. Submitted jobs are executed on worker nodes by pilot jobs sent to the grid sites by pilot factories. This paper provides an overview of the PanDA pilot [4] system and presents major features added in light of recent operational experience, including multi-job processing, advanced job recovery for jobs with output storage failures, gLExec [5-6] based identity switching from the generic pilot to the actual user, and other security measures. The PanDA system serves all ATLAS distributed processing and is the primary system for distributed analysis; it is currently used at over 100 sites worldwide. We analyze the performance of the pilot system in processing real LHC data on the OSG [7], EGI [8] and Nordugrid [9-10] infrastructures used by ATLAS, and describe plans for its evolution.

  6. Autocorrelation descriptor improvements for QSAR: 2DA_Sign and 3DA_Sign.

    PubMed

    Sliwoski, Gregory; Mendenhall, Jeffrey; Meiler, Jens

    2016-03-01

    Quantitative structure-activity relationship (QSAR) is a branch of computer aided drug discovery that relates chemical structures to biological activity. Two well established and related QSAR descriptors are two- and three-dimensional autocorrelation (2DA and 3DA). These descriptors encode the relative position of atoms or atom properties by calculating the separation between atom pairs in terms of number of bonds (2DA) or Euclidean distance (3DA). The sums of all values computed for a given small molecule are collected in a histogram. Atom properties can be added with a coefficient that is the product of atom properties for each pair. This procedure can lead to information loss when signed atom properties are considered such as partial charge. For example, the product of two positive charges is indistinguishable from the product of two equivalent negative charges. In this paper, we present variations of 2DA and 3DA called 2DA_Sign and 3DA_Sign that avoid information loss by splitting unique sign pairs into individual histograms. We evaluate these variations with models trained on nine datasets spanning a range of drug target classes. Both 2DA_Sign and 3DA_Sign significantly increase model performance across all datasets when compared with traditional 2DA and 3DA. Lastly, we find that limiting 3DA_Sign to maximum atom pair distances of 6 Å instead of 12 Å further increases model performance, suggesting that conformational flexibility may hinder performance with longer 3DA descriptors. Consistent with this finding, limiting the number of bonds in 2DA_Sign from 11 to 5 fails to improve performance. PMID:26721261

  7. DaVinci's Mona Lisa entering the next dimension.

    PubMed

    Carbon, Claus-Christian; Hesslinger, Vera M

    2013-01-01

    For several of Leonardo da Vinci's paintings, such as The Virgin and Child with St Anne or the Mona Lisa, there exist copies produced by his own studio. In case of the Mona Lisa, a quite exceptional, rediscovered studio copy was presented to the public in 2012 by the Prado Museum in Madrid. Not only does it mirror its famous counterpart superficially; it also features the very same corrections to the lower layers, which indicates that da Vinci and the 'copyist' must have elaborated their panels simultaneously. On the basis of subjective (thirty-two participants estimated painter-model constellations) as well as objective data (analysis of trajectories between landmarks of both paintings), we revealed that both versions differ slightly in perspective. We reconstructed the original studio setting and found evidence that the disparity between both paintings mimics human binocular disparity. This points to the possibility that the two Giocondas together might represent the first stereoscopic image in world history. PMID:24303752

  8. Effect of a single-amino acid substitution of the 43 kDa chlorophyll protein on the oxygen-evolving reaction of the cyanobacterium Synechocystis sp. PCC 6803: analysis of the Glu354Gln mutation.

    PubMed

    Shimada, Yuichiro; Suzuki, Hiroyuki; Tsuchiya, Tohru; Tomo, Tatsuya; Noguchi, Takumi; Mimuro, Mamoru

    2009-07-01

    We constructed a mutant (CP43-Glu354Gln) of the cyanobacterium Synechocystis sp. PCC 6803 in which the glutamic acid at position 354 of the 43 kDa chlorophyll protein (CP43) was replaced with glutamine. To determine the effect of this mutation on the reaction processes of the Mn cluster in the oxygen-evolving complex, we mainly analyzed the spectroscopic properties, including Fourier transform infrared (FTIR) spectroscopy, of photosystem II core complexes. Mutant cells exhibited a lower oxygen-evolving activity than wild-type cells, and an altered pattern of flash-dependent delayed luminescence. This phenotype differed somewhat from an earlier report of the same mutant [Strickler, M. A., et al. (2008) Philos. Trans. R. Soc. London, Ser. B 363, 1179-1187]. FTIR difference spectroscopy revealed that CP43-Glu354 functions as a ligand to the Mn cluster, most likely with bridging bidentate coordination to two Mn ions in the S(1) state and chelating bidentate coordination to a single Mn ion in the S(2) state. A single water molecule was bound to the same Mn atom to which CP43-Glu354 was ligated, and this Mn atom was oxidized in the S(1)-to-S(2) transition. This is the first report on a binding site of a water molecule relevant to a specific amino acid ligand. We found that the Mn ion or ligand that is oxidized in the S(2)-to-S(3) transition was not directly coupled to CP43-Glu354. While the definitive assignment of ligation to the Mn atoms is still under debate, our identification of a novel water binding site will lead to new insights into the oxygen evolution mechanism. PMID:19466796

  9. Experience with ATLAS MySQL PanDA database service

    NASA Astrophysics Data System (ADS)

    Smirnov, Y.; Wlodek, T.; De, K.; Hover, J.; Ozturk, N.; Smith, J.; Wenaus, T.; Yu, D.

    2010-04-01

    The PanDA distributed production and analysis system has been in production use for ATLAS data processing and analysis since late 2005 in the US, and globally throughout ATLAS since early 2008. Its core architecture is based on a set of stateless web services served by Apache and backed by a suite of MySQL databases that are the repository for all PanDA information: active and archival job queues, dataset and file catalogs, site configuration information, monitoring information, system control parameters, and so on. This database system is one of the most critical components of PanDA, and has successfully delivered the functional and scaling performance required by PanDA, currently operating at a scale of half a million jobs per week, with much growth still to come. In this paper we describe the design and implementation of the PanDA database system, its architecture of MySQL servers deployed at BNL and CERN, backup strategy and monitoring tools. The system has been developed, thoroughly tested, and brought to production to provide highly reliable, scalable, flexible and available database services for ATLAS Monte Carlo production, reconstruction and physics analysis.

  10. Virtual observatory publishing with DaCHS

    NASA Astrophysics Data System (ADS)

    Demleitner, M.; Neves, M. C.; Rothmaier, F.; Wambsganss, J.

    2014-11-01

    The Data Center Helper Suite DaCHS is an integrated publication package for building VO and Web services, supporting the entire workflow from ingestion to data mapping to service definition. It implements all major data discovery, data access, and registry protocols defined by the VO. DaCHS in this sense works as glue between data produced by the data providers and the standard protocols and formats defined by the VO. This paper discusses central elements of the design of the package and gives two case studies of how VO protocols are implemented using DaCHS' concepts.

  11. Improving Security in the ATLAS PanDA System

    NASA Astrophysics Data System (ADS)

    Caballero, J.; Maeno, T.; Nilsson, P.; Stewart, G.; Potekhin, M.; Wenaus, T.

    2011-12-01

    The security challenges faced by users of the grid are considerably different to those faced in previous environments. The adoption of pilot jobs systems by LHC experiments has mitigated many of the problems associated with the inhomogeneities found on the grid and has greatly improved job reliability; however, pilot jobs systems themselves must then address many security issues, including the execution of multiple users' code under a common 'grid' identity. In this paper we describe the improvements and evolution of the security model in the ATLAS PanDA (Production and Distributed Analysis) system. We describe the security in the PanDA server which is in place to ensure that only authorized members of the VO are allowed to submit work into the system and that jobs are properly audited and monitored. We discuss the security in place between the pilot code itself and the PanDA server, ensuring that only properly authenticated workload is delivered to the pilot for execution. When the code to be executed is from a 'normal' ATLAS user, as opposed to the production system or other privileged actor, then the pilot may use an EGEE developed identity switching tool called gLExec. This changes the grid proxy available to the job and also switches the UNIX user identity to protect the privileges of the pilot code proxy. We describe the problems in using this system and how they are overcome. Finally, we discuss security drills which have been run using PanDA and show how these improved our operational security procedures.

  12. The 32 kDa Enamelin Undergoes Conformational Transitions upon Calcium Binding

    PubMed Central

    Fan, Daming; Lakshminarayanan, Rajamani; Moradian-Oldak, Janet

    2008-01-01

    The 32 kDa hydrophilic and acidic enamelin, the most stable cleavage fragment of the enamel specific glycoprotein, is believed to play vital roles in controlling crystal nucleation or growth during enamel biomineralization. Circular dichroism and Fourier transform infrared spectra demonstrate that the secondary structure of the 32 kDa enamelin has a high content of α-helix (81.5%). Quantitative analysis on the circular dichroism data revealed that the 32 kDa enamelin undergoes conformational changes with a structural preference to β-sheet as a function of calcium ions. We suggest that the increase of β-sheet conformation upon presence of Ca2+ may allow preferable interaction of the 32 kDa enamelin with apatite crystal surfaces during enamel biomineralization. The calcium association constant of the 32 kDa enamelin calculated from the fitting curve of ellipticity at 222 nm is Ka = 1.55 (±0.13) × 103 M−1, indicating a relatively low affinity. Our current biophysical studies on the 32 kDa enamelin structure provide novel insights towards understanding the enamelin-mineral interaction and subsequently the functions of enamelin during enamel formation. PMID:18508280

  13. Discrimination of Aurantii Fructus Immaturus and Fructus Poniciri Trifoliatae Immaturus by Flow Injection UV Spectroscopy (FIUV) and 1H NMR using Partial Least-squares Discriminant Analysis (PLS-DA)

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Two simple fingerprinting methods, flow-injection UV spectroscopy (FIUV) and 1H nuclear magnetic resonance (NMR), for discrimination of Aurantii FructusImmaturus and Fructus Poniciri TrifoliataeImmaturususing were described. Both methods were combined with partial least-squares discriminant analysis...

  14. Origin of the DA and non-DA white dwarf stars

    NASA Technical Reports Server (NTRS)

    Shipman, Harry L.

    1989-01-01

    Various proposals for the bifurcation of the white dwarf cooling sequence are reviewed. 'Primordial' theories, in which the basic bifurcation of the white dwarf sequence is rooted in events predating the white dwarf stage of stellar evolution, are discussed, along with the competing 'mixing' theories in which processes occurring during the white dwarf stage are responsible for the existence of DA or non-DA stars. A new proposal is suggested, representing a two-channel scenario. In the DA channel, some process reduces the hydrogen layer mass to the value of less than 10 to the -7th. The non-DA channel is similar to that in the primordial scenario. These considerations suggest that some mechanism operates in both channels to reduce the thickness of the outermost layer of the white dwarf. It is also noted that accretion from the interstellar medium has little to do with whether a particular white dwarf becomes a DA or a non-DA star.

  15. Fluorescence spectroscopy coupled with PARAFAC and PLS DA for characterization and classification of honey.

    PubMed

    Lenhardt, Lea; Bro, Rasmus; Zeković, Ivana; Dramićanin, Tatjana; Dramićanin, Miroslav D

    2015-05-15

    Fluorescence spectroscopy coupled with parallel factor analysis (PARAFAC) and Partial least squares Discriminant Analysis (PLS DA) were used for characterization and classification of honey. Excitation emission spectra were obtained for 95 honey samples of different botanical origin (acacia, sunflower, linden, meadow, and fake honey) by recording emission from 270 to 640 nm with excitation in the range of 240-500 nm. The number of fluorophores present in honey, excitation and emission spectra of each fluorophore, and their relative concentration are determined using a six-component PARAFAC model. Emissions from phenolic compounds and Maillard reaction products exhibited the largest difference among classes of honey of different botanical origin. The PLS DA classification model, constructed from PARAFAC model scores, detected fake honey samples with 100% sensitivity and specificity. Honey samples were also classified using PLS DA with errors of 0.5% for linden, 10% for acacia, and about 20% for both sunflower and meadow mix. PMID:25577082

  16. Ultratight crystal packing of a 10 kDa protein

    SciTech Connect

    Trillo-Muyo, Sergio; Chruszcz, Maksymilian; Minor, Wladek; Kuisiene, Nomeda

    2013-03-01

    The crystal structure of the C-terminal domain of a putative U32 peptidase from G. thermoleovorans is reported; it is one of the most tightly packed protein structures reported to date. While small organic molecules generally crystallize forming tightly packed lattices with little solvent content, proteins form air-sensitive high-solvent-content crystals. Here, the crystallization and full structure analysis of a novel recombinant 10 kDa protein corresponding to the C-terminal domain of a putative U32 peptidase are reported. The orthorhombic crystal contained only 24.5% solvent and is therefore among the most tightly packed protein lattices ever reported.

  17. Neospora caninum: identification of 19-, 38-, and 40-kDa surface antigens and a 33-kDa dense granule antigen using monoclonal antibodies.

    PubMed

    Schares, G; Dubremetz, J F; Dubey, J P; Bärwald, A; Loyens, A; Conraths, F J

    1999-06-01

    Neospora caninum, a coccidian parasite closely related to Toxoplasma gondii, can infect a broad host range and is regarded as an important cause of bovine abortion worldwide. In the present study, four antigens of N. caninum were partially characterized using monoclonal antibodies. Immunofluorescence of viable tachyzoites as well as the immunoprecipitation of antigens extracted from tachyzoites previously labeled by surface biotinylation revealed that three of these antigens with apparent molecular weights of 40, 38, and 19 kDa are located in the outer surface membrane of this parasite stage. Further evidence for the surface localization of the 38-kDa antigen was obtained by immunoelectron microscopy. In addition to the surface molecules, an antigen located in dense granules and in the tubular network of the parasitophorous vacuole was detected by another monoclonal antibody. When tachyzoite antigens separated under nonreducing conditions were probed on Western blots, this antibody reacted mainly with a 33-kDa antigen. Immunohistochemical analysis of infected tissue sections indicated that the 33-kDa dense granule antigen is present in both tachyzoites and bradyzoites, while the 38-kDa surface antigen from tachyzoites seems to be absent in bradyzoites. PMID:10366536

  18. Distributed analysis in ATLAS

    NASA Astrophysics Data System (ADS)

    Dewhurst, A.; Legger, F.

    2015-12-01

    The ATLAS experiment accumulated more than 140 PB of data during the first run of the Large Hadron Collider (LHC) at CERN. The analysis of such an amount of data is a challenging task for the distributed physics community. The Distributed Analysis (DA) system of the ATLAS experiment is an established and stable component of the ATLAS distributed computing operations. About half a million user jobs are running daily on DA resources, submitted by more than 1500 ATLAS physicists. The reliability of the DA system during the first run of the LHC and the following shutdown period has been high thanks to the continuous automatic validation of the distributed analysis sites and the user support provided by a dedicated team of expert shifters. During the LHC shutdown, the ATLAS computing model has undergone several changes to improve the analysis workflows, including the re-design of the production system, a new analysis data format and event model, and the development of common reduction and analysis frameworks. We report on the impact such changes have on the DA infrastructure, describe the new DA components, and include recent performance measurements.

  19. [Health survey in Quilombola communities (descendants of Afro-Brazilian slaves who escaped from slave plantations that existed in Brazil until abolition in 1888) in Vitória da Conquista in the state of Bahia (COMQUISTA Project), Brazil: methodological aspects and descriptive analysis].

    PubMed

    Bezerra, Vanessa Moraes; Medeiros, Danielle Souto de; Gomes, Karine de Oliveira; Souzas, Raquel; Giatti, Luana; Steffens, Ana Paula; Kochergin, Clavdia Nicolaevna; Souza, Cláudio Lima; Moura, Cristiano Soares de; Soares, Daniela Arruda; Santos, Luis Rogério Cosme Silva; Cardoso, Luiz Gustavo Vieira; Oliveira, Márcio Vasconcelos de; Martins, Poliana Cardoso; Neves, Orlando Sílvio Caires; Guimarães, Mark Drew Crosland

    2014-06-01

    The scope of this article was to present the methodology, preliminary descriptive results and the reliability of the instruments used in the COMQUISTA Project. It involved a cross-sectional study with adults (>18 years) and children (up to 5 years old) of Quilombola communities in Vitória da Conquista, Bahia. Data collection consisted of individual and household interviews, anthropometric and blood pressure measurements. A semi-structured questionnaire adapted from the Brazilian National Health Survey (PNS) was used and the interviews were conducted using handheld computers. 397 housing units were visited and 797 adults and 130 children were interviewed. The demographic profile of the Quilombolas was similar to the Brazilian population with respect to sex and age, however, they had precarious access to basic sanitation and a low socioeconomic status. The analysis of reliability revealed the adequacy of strategies adopted for quality assurance and control in the study. The methodology used was considered adequate to achieve the objectives and can be used in other populations. The results indicate the need for implementing strategies to improve the quality of life and reduce the degree of vulnerability of the Quilombolas. PMID:24897483

  20. In response to Dr. Jose AP da Silva: fall prevention with vitamin D clarifications needed

    Technology Transfer Automated Retrieval System (TEKTRAN)

    We agree with Dr. da Silva, and wish to clarify three issues raised by the recent IOM report concerning our 2009 meta-analysis on vitamin D and fall prevention. 1. The IOM questioned the inclusion of Broe et al., which did not pre-specify falls as a primary or secondary outcome. While this did viol...

  1. Aerodynamic design of the Cal Poly Da Vinci Human-Powered Helicopter

    NASA Technical Reports Server (NTRS)

    Larwood, Scott; Saiki, Neal

    1990-01-01

    This paper will discuss the methodology used in designing the rotor and drive propellers for the third generation Cal Poly Da Vinci Human-Powered Helicopter. The rotor was designed using a lifting surface, uniform inflow hover analysis code and the propeller was designed using a minimum induced-loss method. Construction, geometry, and operating considerations are discussed as they impact the designs. Optimization of the design performance is also explained. The propellers were tested in a wind tunnel and results are compared with theoretical data. Successful flight tests of the Da Vinci III are discussed.

  2. Solubilization of insoluble inorganic phosphate by Burkholderia cepacia DA23 isolated from cultivated soil

    PubMed Central

    Song, Ok-Ryul; Lee, Seung-Jin; Lee, Yong-Seok; Lee, Sang-Cheol; Kim, Keun-Ki; Choi, Yong-Lark

    2008-01-01

    A mineral phosphate solubilizing bacterium, Burkholderia cepacia DA23 has been isolated from cultivated soils. Phosphate-solubilizing activities of the strain against three types of insoluble phosphate were quantitatively determined. When 3% of glucose concentration was used for carbon source, the strain had a marked mineral phosphate-solubilizing activity. Mineral phosphate solubilization was directly related to the pH drop by the strain. Analysis of the culture medium by high pressure liquid chromatography identified gluconic acid as the main organic acid released by Burkholderia cepacia DA23. Gluconic acid production was apparently the result of the glucose dehydrogenase activity and glucose dehydrogenase was affected by phosphate regulation. PMID:24031195

  3. Influence of 120 kDa Pyruvate:Ferredoxin Oxidoreductase on Pathogenicity of Trichomonas vaginalis

    PubMed Central

    Song, Hyun-Ouk

    2016-01-01

    Trichomonas vaginalis is a flagellate protozoan parasite and commonly infected the lower genital tract in women and men. Iron is a known nutrient for growth of various pathogens, and also reported to be involved in establishment of trichomoniasis. However, the exact mechanism was not clarified. In this study, the author investigated whether the 120 kDa protein of T. vaginalis may be involved in pathogenicity of trichomonads. Antibodies against 120 kDa protein of T. vaginalis, which was identified as pyruvate:ferredoxin oxidoreductase (PFOR) by peptide analysis of MALDI-TOF-MS, were prepared in rabbits. Pretreatment of T. vaginalis with anti-120 kDa Ab decreased the proliferation and adherence to vaginal epithelial cells (MS74) of T. vaginalis. Subcutaneous tissue abscess in anti-120 kDa Ab-treated T. vaginalis-injected mice was smaller in size than that of untreated T. vaginalis-infected mice. Collectively, the 120 kDa protein expressed by iron may be involved in proliferation, adhesion to host cells, and abscess formation, thereby may influence on the pathogenicity of T. vaginalis. PMID:26951982

  4. PanDA: Exascale Federation of Resources for the ATLAS Experiment at the LHC

    NASA Astrophysics Data System (ADS)

    Barreiro Megino, Fernando; Caballero Bejar, Jose; De, Kaushik; Hover, John; Klimentov, Alexei; Maeno, Tadashi; Nilsson, Paul; Oleynik, Danila; Padolski, Siarhei; Panitkin, Sergey; Petrosyan, Artem; Wenaus, Torre

    2016-02-01

    After a scheduled maintenance and upgrade period, the world's largest and most powerful machine - the Large Hadron Collider(LHC) - is about to enter its second run at unprecedented energies. In order to exploit the scientific potential of the machine, the experiments at the LHC face computational challenges with enormous data volumes that need to be analysed by thousand of physics users and compared to simulated data. Given diverse funding constraints, the computational resources for the LHC have been deployed in a worldwide mesh of data centres, connected to each other through Grid technologies. The PanDA (Production and Distributed Analysis) system was developed in 2005 for the ATLAS experiment on top of this heterogeneous infrastructure to seamlessly integrate the computational resources and give the users the feeling of a unique system. Since its origins, PanDA has evolved together with upcoming computing paradigms in and outside HEP, such as changes in the networking model, Cloud Computing and HPC. It is currently running steadily up to 200 thousand simultaneous cores (limited by the available resources for ATLAS), up to two million aggregated jobs per day and processes over an exabyte of data per year. The success of PanDA in ATLAS is triggering the widespread adoption and testing by other experiments. In this contribution we will give an overview of the PanDA components and focus on the new features and upcoming challenges that are relevant to the next decade of distributed computing workload management using PanDA.

  5. Measurement of D->A Momentum Aperture and Test of D->A Field Qualities

    SciTech Connect

    Halling, Mike

    1992-02-27

    The data presented here were taken during two shifts dedicated to D->A studies. The goal during both of these study periods was a test of the field quality of the D->A channel devices, but for the first study period on 10/21/91 the TBT system was not operational so we simply measured the transfer efficiency as a function of momentum. The conclusion from these measurements is as follows: (1) The momentum aperture of the D->A channel is smaller than expected. (2) The restriction is in physical space is somewhere near A:IKIK. (3) The field quality of the injection channel devices is adequate.

  6. Ubiquitous expression of the 43- and 44-kDa forms of transcription factor USF in mammalian cells.

    PubMed Central

    Sirito, M; Lin, Q; Maity, T; Sawadogo, M

    1994-01-01

    USF is a helix-loop-helix transcription factor that, like Myc, recognizes the DNA binding motif CACGTG. Two different forms of USF, characterized by apparent molecular weights of 43,000 and 44,000, were originally identified in HeLa cells by biochemical analysis. Clones for the 43-kDa USF were first characterized, but only partial clones for the human 44-kDa USF (USF2, or FIP) have been reported. Here we describe a complete cDNA for the 44-kDa USF from murine cells. Analysis of this clone has revealed that the various USF family members are quite divergent in their N-terminal amino acid sequences, while a high degree of conservation characterizes their dimerization and DNA-binding domains. Interestingly, the 3' noncoding region of the 44-kDa USF cDNAs displayed an unusual degree of conservation between human and mouse. In vitro transcription/translation experiments indicated a possible role for this region in translation regulation. Alternative splicing forms of the 44-kDa USF messages exist in both mouse and human. Examination of the tissue and cell-type distribution of USF by Northern blot and gel retardation assays revealed that while expression of both the 43- and 44-kDa USF species is ubiquitous, different ratios of USF homo- and heterodimers are found in different cells. Images PMID:8127680

  7. (3H)domperidone binding to the kidney inner medullary collecting duct dopamine-2K (DA2K) receptor

    SciTech Connect

    Huo, T.; Healy, D.P. )

    1991-08-01

    Previous studies by the authors laboratory have indicated that inner medullary collecting ducts (IMCDs) express a novel dopamine (DA) receptor, designated DA2K, that is linked to stimulation of prostaglandin E2 production. This receptor has a distinct pharmacological profile and is similar in size, but not homologous to, the brain D2 receptor. Because the DA2-selective antagonist domperidone blocks DA-mediated stimulation of prostaglandin E2 production in IMCD cells, we utilized (3H)domperidone to study the binding characteristics of the DA2K receptor in IMCD cells. (3H)Domperidone binding was saturable and best fit to a single high density site (KD, 57.6 {plus minus} 10.5 nM; Bmax, 14.9 {plus minus} 2.7 pmol/mg protein). The specificity of (3H)domperidone binding in IMCD cells was verified by competition analysis with a variety of dopaminergic and nondopaminergic agents. Dopaminergic drugs were less potent competitors for (3H)domperidone binding in IMCD cells than previously reported for brain DA receptors, but the rank order was consistent with the labeling of a DA receptor (antagonists: domperidone greater than spiperone greater than haloperidol greater than Sch 23390 much greater than (-)-sulpiride; agonists: norapomorphine greater than fenoldopam much greater than dopamine = quinpirole), and was better correlated with the pharmacological profile for the brain D2 receptor than the brain D3 receptor. In addition, quinpirole, the most D3-selective ligand currently available, did not compete for (3H)domperidone binding in IMCD cells. These results add further support to the existence of a novel high density DA receptor, DA2K, expressed in IMCD cells.

  8. [Textual Research on Chiding Disease and Matixiang Herb in Da he wai ke (External Medicine of Da He)].

    PubMed

    Pu, Xiao-Lan; Zhang, Yi; Yang, Wen-Yu; Wu, Ya-Mei

    2012-11-01

    Recorded in Da he wai ke (The External Medicine of Da He) in the Ming dynasty without a corresponding disease title in contemporary scholarly concepts of Traditional Chinese Medicine (TCM), Chiding disease was described as an acute symptomatic disease with inevitable serious conditions of convulsion-like or mania-like behavior, and as a refractory ailment. It was also considered as an alias of Hongsiding (namely the acute lymphangitis) in few ancient books. Matixiang, a Chinese herb for treatment of Chiding, was regarded as a nonsuch drug by Da he wai ke, and was considered as a take-then-cure drug by Chuang yang jing yan quan shu (Compendium for Experience in Sores Diseases). The present studies about Chiding and Matixiang show that: (1) the name of Chiding was first seen in Zhong zang jing (Master Hua's Classic of the Viscera) ; (2) Chiding was rarely mentioned in medical literature of the Song, Yuan and Qing Dynasty, but mostly seen in the Ming Dynasty; (3) Xinding and Huoyanding were found as synonyms of Chiding ; (4) the distinction between Chiding and Hongsiding (flaming sore) was revealed by comparison analysis of their etiology, affected part(s), symptoms, prognosis and syndromic pictures; (5) Chiding on the tongue is the same as "Tongue Ding" or "Sublingual Ding" in contemporary TCM and as "Sublingual Space Infection" in Western Medicine. Moreover, Chiding on the hands, feet or other skin parts could be classified as "Hands/Feet Ding" in contemporary TCM and as "Furuncle" (i.e., Acute Suppurative Folliculitis and Perifolliculitis or cellulites of the tongue) in Western Medicine; (6) Matixiang is probably deduced as Asarum forbesii Maxim., A. ichangense C. Y. Cheng et C. S. Yang, family Aristolochiaceae, or Valeriana jatamansi Jones., family Valerianaceae. PMID:23363849

  9. The local effect of octreotide on mechanical pain sensitivity is more sensitive in DA rats than DA.1U rats.

    PubMed

    Yao, Fan-Rong; Wang, Hui-Sheng; Guo, Yuan; Zhao, Yan

    2016-02-01

    A recent study by the authors indicated that major histocompatibility complex (MHC) genes are associated with the differences in basal pain sensitivity and in formalin model between Dark-Agouti (DA) and novel congenic DA.1U rats, which have the same genetic background as DA rats except for the u alleles of MHC. The objective of the present study is to investigate whether there is a difference in the pristane-induced arthritis (PIA) model and local analgesic effect of octreotide (OCT) between DA and DA.1U rats. The hindpaw mechanical withdrawal threshold (MWT) and heat withdrawal latency (HWL) were observed. The C unit firings of the tibial nerve evoked by non-noxious and noxious toe movements were recorded by electrophysiological methods in normal and PIA models in DA and DA.1U rats before and after local OCT administration. The expression of somatostatin receptor 2A (SSTR2A) was observed by immunohistochemistry. The results demonstrate that DA rats have a higher mechanical sensitivity than DA.1U rats after PIA. Local OCT administration significantly elevated MWT in DA rats under normal and PIA sate, but not in DA.1U rats. The electrophysiological experiments showed OCT significantly attenuated the firings of C units evoked by non-noxious and noxious stimulation in DA rats more than those in DA.1U rats both in normal and PIA states. In addition, the expression of SSTR2A in the dorsal horn of the spinal cord was significantly higher in DA than in DA.1U rats. All of the findings suggest a higher local analgesic effect of OCT in DA rats than DA.1U rats, which might be associated with the MHC genes. PMID:26606866

  10. Hidden sketches by Leonardo da Vinci revealed

    NASA Astrophysics Data System (ADS)

    Dumé, Belle

    2009-02-01

    Three drawings on the back of Leonardo da Vinci's The Virgin and Child with St Anne (circa 1508) have been discovered by researchers led by Michel Menu from the Centre de Recherche et de Restauration des Musées de France (C2RMF) and the Louvre Museum in Paris.

  11. Common colds on Tristan da Cunha

    PubMed Central

    Shibli, M.; Gooch, S.; Lewis, H. E.; Tyrrell, D. A. J.

    1971-01-01

    Eight epidemics of respiratory disease have been observed among islanders of Tristan da Cunha. They seem to be initiated by the arrival of ships and transmission seemed to occur as a result of close human contact but could not always be traced. Islanders suffered from less colds than those in less isolated communities. PMID:5282927

  12. The PAN-DA data acquisition system

    SciTech Connect

    Petravick, D.; Berg, D.; Berman, E.; Bernett, M.; Constanta-Fanourakis, P.; Dorries, T.; Haire, M.; Kaczar, K; MacKinnon, B.; Moore, C.; Nicinski, T.; Oleynik, G.; Pordes, R.; Sergey, G.; Votava, M.; White, V.

    1989-05-01

    The Online and Data Acquisition software groups at Fermi National Accelerator Laboratory have extended the VAXONLINE data acquisition package to include a VME based data path. The resulting environment, PAN-DA, provides a high throughput for logging, filtering, formatting and selecting events. 10 refs., 1 fig.

  13. How to Think Like Leonardo da Vinci

    ERIC Educational Resources Information Center

    Caouette, Ralph

    2008-01-01

    To be effective and relevant in twenty-first-century learning, art needs to be more inclusive. In this article, the author discusses how teachers can find a good example in Leonardo da Vinci for building an art program. His art, design, and curiosity are the perfect foundation for any art program, at any level. (Contains 3 resources and 3 online…

  14. Chandra Confirmation of a Pulsar Wind Nebula in DA 495

    NASA Technical Reports Server (NTRS)

    Arzoumanian, Z.; Safi-Harb, S.; Landecker, T.L.; Kothes, R.; Camilo, F.

    2008-01-01

    As part of a multiwavelength study of the unusual radio supernova remnant DA 495, we present observations made with the Chandra X-ray Observatory. Imaging and spectroscopic analysis confirms the previously detected X-ray source at the heart of the annular radio nebula, establishing the radiative properties of two key emission components: a soft unresolved source with a blackbody temperature of 1 MK consistent with a neutron star, surrounded by a nontherma1 nebula 40" in diameter exhibiting a power-law spectrum with photon index Gamma = 1.63, typical of a pulsar wind nebula. Morphologically, the nebula appears to be slightly extended along a direction, in projection on the sky, previously demonstrated to be of significance in radio and ASCA observations; we argue that this represents the orientation of the pulsar spin axis. At smaller scales, a narrow X-ray feature is seen extending out 5" from the point source, but energetic arguments suggest that it is not the resolved termination shock of the pulsar wind against the ambient medium. Finally, we argue based on synchrotron lifetimes in the nebular magnetic field that DA 495 represents the first example of a pulsar wind nebula in which electromagnetic flux makes up a significant part, together with particle flux, of the neutron star's wind.

  15. The DA+dMe Binary WD 0334-6400

    NASA Astrophysics Data System (ADS)

    Barrett, P. E.; Schlegel, E. M.; Dupuis, J.; Heathcote, B.

    2005-12-01

    Multiwavelength observations of the star WD 0334-6400 (or Ret 1 in A Catalog and Altas of Cataclysmic Variables: Living Edition) show it to be a DA+dMe binary. Our analysis of the far-ultraviolet continuum and spectral lines reveal that Teff = 36500 K; log g = 7.7; and the photosphere contains C, N, O, Si, P, and S. C/H = 2 x 10-6, which is the highest abundance seen in a DA white dwarf at this temperature. The dMe star is seen as a flux excess in near-infrared photometry and appears to show occasional flaring of about one magnitude as seen in the Harvard plates. There is no evidence of periodic variability in the spectroscopic or photometric data. This paper is based on observations made with the NASA-CNES-CSA FUSE. This research is partially supported by NASA FUSE grants NAG5-12413 and NNG04GL18G.

  16. Characterization of the 105-kDa molecular chaperone. Identification, biochemical properties, and localization.

    PubMed

    Matsumori, Mika; Itoh, Hideaki; Toyoshima, Itaru; Komatsuda, Atsushi; Sawada, Ken-Ichi; Fukuda, Jun; Tanaka, Toshinobu; Okubo, Atsuya; Kinouchi, Hiroyuki; Mizoi, Kazuo; Hama, Tokiko; Suzuki, Akira; Hamada, Fumio; Otaka, Michiro; Shoji, Yutaka; Takada, Goro

    2002-11-01

    We have characterized the biochemical properties of the testis and brain-specific 105-kDa protein which is cross-reacted with an anti-bovine HSP90 antibody. The protein was induced in germ cells by heat stress, resulting in a protein which is one of the heat shock proteins [Kumagai, J., Fukuda, J., Kodama, H., Murata, M., Kawamura, K., Itoh, H. & Tanaka, T. (2000) Eur. J. Biochem.267, 3073-3078]. In the present study, we characterized the biochemical properties of the protein. The 105-kDa protein inhibited the aggregation of citrate synthase as a molecular chaperone in vitro. ATP/MgCl2 has a slight influence of the suppression of the citrate synthase aggregation by the 105-kDa protein. The protein possessed chaperone activity. The protein was able to bind to ATP-Sepharose like the other molecular chaperone HSP70. A partial amino-acid sequence (24 amino-acid residues) of the protein was determined and coincided with those of the mouse testis- and brain-specific APG-1 and osmotic stress protein 94 (OSP94). The 105-kDa protein was detected only in the medulla of the rat kidney sections similar to OSP94 upon immunoblotting. The purified 105-kDa protein was cross-reacted with an antibody against APG-1. These results suggested that APG-1 and OSP94 are both identical to the 105-kDa protein. There were highly homologous regions between the 105-kDa protein/APG-1/OSP94 and HSP90. The region of HSP90 was also an immunoreactive site. An anti-bovine HSP90 antibody may cross-react with the 105-kDa protein similar to HSP90 in the rat testis and brain. We have investigated the localization and developmental induction of the protein in the rat brain. In the immunohistochemical analysis, the protein was mainly detected in the cytoplasm of the nerve and glial cells of the rat brain. Although the 105-kDa protein was localized in all rat brain segments, the expression pattern was fast in the cerebral cortex and hippocampus and slow in the cerebellum. PMID:12423363

  17. High resolution structure of cleaved Serpin 42 Da from Drosophila melanogaster

    PubMed Central

    2014-01-01

    Background The Drosophila melanogaster Serpin 42 Da gene (previously Serpin 4) encodes a serine protease inhibitor that is capable of remarkable functional diversity through the alternative splicing of four different reactive centre loop exons. Eight protein isoforms of Serpin 42 Da have been identified to date, targeting the protease inhibitor to both different proteases and cellular locations. Biochemical and genetic studies suggest that Serpin 42 Da inhibits target proteases through the classical serpin ‘suicide’ inhibition mechanism, however the crystal structure of a representative Serpin 42 Da isoform remains to be determined. Results We report two high-resolution crystal structures of Serpin 42 Da representing the A/B isoforms in the cleaved conformation, belonging to two different space-groups and diffracting to 1.7 Å and 1.8 Å. Structural analysis reveals the archetypal serpin fold, with the major elements of secondary structure displaying significant homology to the vertebrate serpin, neuroserpin. Key residues known to have central roles in the serpin inhibitory mechanism are conserved in both the hinge and shutter regions of Serpin 42 Da. Furthermore, these structures identify important conserved interactions that appear to be of crucial importance in allowing the Serpin 42 Da fold to act as a versatile template for multiple reactive centre loops that have different sequences and protease specificities. Conclusions In combination with previous biochemical and genetic studies, these structures confirm for the first time that the Serpin 42 Da isoforms are typical inhibitory serpin family members with the conserved serpin fold and inhibitory mechanism. Additionally, these data reveal the remarkable structural plasticity of serpins, whereby the basic fold is harnessed as a template for inhibition of a large spectrum of proteases by reactive centre loop exon ‘switching’. This is the first structure of a Drosophila serpin reported to date

  18. 40 CFR 60.51Da - Reporting requirements.

    Code of Federal Regulations, 2013 CFR

    2013-07-01

    ... Generating Units § 60.51Da Reporting requirements. (a) For SO2, NOX, PM, and NOX plus CO emissions, the... 40 Protection of Environment 7 2013-07-01 2013-07-01 false Reporting requirements. 60.51Da Section 60.51Da Protection of Environment ENVIRONMENTAL PROTECTION AGENCY (CONTINUED) AIR PROGRAMS...

  19. 40 CFR 60.47Da - Commercial demonstration permit.

    Code of Federal Regulations, 2012 CFR

    2012-07-01

    ... 40 Protection of Environment 7 2012-07-01 2012-07-01 false Commercial demonstration permit. 60.47Da Section 60.47Da Protection of Environment ENVIRONMENTAL PROTECTION AGENCY (CONTINUED) AIR PROGRAMS... Steam Generating Units § 60.47Da Commercial demonstration permit. (a) An owner or operator of...

  20. 40 CFR 60.51Da - Reporting requirements.

    Code of Federal Regulations, 2014 CFR

    2014-07-01

    ... Generating Units § 60.51Da Reporting requirements. (a) For SO2, NOX, PM, and NOX plus CO emissions, the... 40 Protection of Environment 7 2014-07-01 2014-07-01 false Reporting requirements. 60.51Da Section 60.51Da Protection of Environment ENVIRONMENTAL PROTECTION AGENCY (CONTINUED) AIR PROGRAMS...

  1. 40 CFR 60.47Da - Commercial demonstration permit.

    Code of Federal Regulations, 2014 CFR

    2014-07-01

    ... 40 Protection of Environment 7 2014-07-01 2014-07-01 false Commercial demonstration permit. 60.47Da Section 60.47Da Protection of Environment ENVIRONMENTAL PROTECTION AGENCY (CONTINUED) AIR PROGRAMS... Steam Generating Units § 60.47Da Commercial demonstration permit. (a) An owner or operator of...

  2. 40 CFR 60.51Da - Reporting requirements.

    Code of Federal Regulations, 2012 CFR

    2012-07-01

    ... Generating Units § 60.51Da Reporting requirements. (a) For SO2, NOX, PM, and NOX plus CO emissions, the... 40 Protection of Environment 7 2012-07-01 2012-07-01 false Reporting requirements. 60.51Da Section 60.51Da Protection of Environment ENVIRONMENTAL PROTECTION AGENCY (CONTINUED) AIR PROGRAMS...

  3. 40 CFR 60.47Da - Commercial demonstration permit.

    Code of Federal Regulations, 2013 CFR

    2013-07-01

    ... 40 Protection of Environment 7 2013-07-01 2013-07-01 false Commercial demonstration permit. 60.47Da Section 60.47Da Protection of Environment ENVIRONMENTAL PROTECTION AGENCY (CONTINUED) AIR PROGRAMS... Steam Generating Units § 60.47Da Commercial demonstration permit. (a) An owner or operator of...

  4. 32 CFR 516.25 - DA Form 4.

    Code of Federal Regulations, 2011 CFR

    2011-07-01

    ... 32 National Defense 3 2011-07-01 2009-07-01 true DA Form 4. 516.25 Section 516.25 National Defense Department of Defense (Continued) DEPARTMENT OF THE ARMY AID OF CIVIL AUTHORITIES AND PUBLIC RELATIONS LITIGATION Reporting Legal Proceedings to HQDA § 516.25 DA Form 4. (a) General. The DA Form 4 (See figure...

  5. A Day in the Life at DaVita Academy

    ERIC Educational Resources Information Center

    Weinstein, Margery

    2010-01-01

    When a company name means "giving life," the bar for learning and development programs is held high. In this article, the author describes what it takes to graduate from DaVita Academy, the soft skills training program dialysis services company DaVita offers all its employees. DaVita's chief executive officer, Kent Thiry, states that the Academy…

  6. 32 CFR 516.25 - DA Form 4.

    Code of Federal Regulations, 2010 CFR

    2010-07-01

    ... 32 National Defense 3 2010-07-01 2010-07-01 true DA Form 4. 516.25 Section 516.25 National Defense Department of Defense (Continued) DEPARTMENT OF THE ARMY AID OF CIVIL AUTHORITIES AND PUBLIC RELATIONS LITIGATION Reporting Legal Proceedings to HQDA § 516.25 DA Form 4. (a) General. The DA Form 4 (See figure...

  7. Integration of PanDA workload management system with Titan supercomputer at OLCF

    NASA Astrophysics Data System (ADS)

    De, K.; Klimentov, A.; Oleynik, D.; Panitkin, S.; Petrosyan, A.; Schovancova, J.; Vaniachine, A.; Wenaus, T.

    2015-12-01

    The PanDA (Production and Distributed Analysis) workload management system (WMS) was developed to meet the scale and complexity of LHC distributed computing for the ATLAS experiment. While PanDA currently distributes jobs to more than 100,000 cores at well over 100 Grid sites, the future LHC data taking runs will require more resources than Grid computing can possibly provide. To alleviate these challenges, ATLAS is engaged in an ambitious program to expand the current computing model to include additional resources such as the opportunistic use of supercomputers. We will describe a project aimed at integration of PanDA WMS with Titan supercomputer at Oak Ridge Leadership Computing Facility (OLCF). The current approach utilizes a modified PanDA pilot framework for job submission to Titan's batch queues and local data management, with light-weight MPI wrappers to run single threaded workloads in parallel on Titan's multicore worker nodes. It also gives PanDA new capability to collect, in real time, information about unused worker nodes on Titan, which allows precise definition of the size and duration of jobs submitted to Titan according to available free resources. This capability significantly reduces PanDA job wait time while improving Titan's utilization efficiency. This implementation was tested with a variety of Monte-Carlo workloads on Titan and is being tested on several other supercomputing platforms. Notice: This manuscript has been authored, by employees of Brookhaven Science Associates, LLC under Contract No. DE-AC02-98CH10886 with the U.S. Department of Energy. The publisher by accepting the manuscript for publication acknowledges that the United States Government retains a non-exclusive, paid-up, irrevocable, world-wide license to publish or reproduce the published form of this manuscript, or allow others to do so, for United States Government purposes.

  8. 70 DA WHITE DWARFS IDENTIFIED IN LAMOST PILOT SURVEY

    SciTech Connect

    Zhao, J. K.; Luo, A. L.; Zhao, G.; Oswalt, T. D. E-mail: gzhao@bao.ac.cn E-mail: toswalt@fit.edu

    2013-06-01

    We present a spectroscopically identified catalog of 70 DA white dwarfs (WDs) from the LAMOST pilot survey. Thirty-five are found to be new identifications after cross-correlation with the Eisenstein et al. and Villanova catalogs. The effective temperature and gravity of these WDs are estimated by Balmer lines fitting. Most of them are hot WDs. The cooling times and masses of these WDs are estimated by interpolation in theoretical evolution tracks. The peak of the mass distribution is found to be {approx}0.6 M {sub Sun }, which is consistent with prior work in the literature. The distances of these WDs are estimated using the method of synthetic spectral distances. All of these WDs are found to be in the Galactic disk from our analysis of space motions. Our sample supports the expectation that WDs with high mass are concentrated near the plane of the Galactic disk.

  9. Evaluation of the immunomodulatory effect of the 14 kDa protein isolated from aged garlic extract on dendritic cells.

    PubMed

    Ahmadabad, Hasan Namdar; Hassan, Zuhair Mohammad; Safari, Elahe; Bozorgmehr, Mahmood; Ghazanfari, Tooba; Moazzeni, Seyed Mohammad

    2011-01-01

    Garlic is used all over the world for treatment of different diseases. A wide range of biological activities of garlic has been verified in vitro and in vivo. One of major proteins of garlic which has been isolated and purified is the 14 kDa protein. This protein has been shown to have immunomodulatory effects. In this study, the effect of the 14 kDa protein isolated from aged garlic extract (AGE) was investigated on maturation and immunomodulatory activity of dendritic cells (DC). Proteins were purified from AGE by biochemical method; the semi-purified 14 kDa protein was run on gel filtration Sephadex G50 and its purity was checked by SDS-PAGE. DC were isolated from spleen of BALB/c mice by Nycodenz centrifugation and their adhesiveness to plastic dish. 14 kDa protein from AGE was added to overnight culture of DC medium and the expression percentage of CD40, CD86, and MHC-II was evaluated by flowcytometric analysis. Also, proliferation of T-cells was measured by allogenic mixed lymphocyte reaction (MLR) test. The purified 14 kDa protein isolated from AGE increased the expression of CD40 molecule on DC, but it did not influence CD86 and MHCII molecules. Furthermore, no significant differences were noticed in the pulsed-DC with 14 kDa protein and non-pulsed DC on the MLR. PMID:21570063

  10. The DA{phi}NE-Light Facility

    SciTech Connect

    Burattini, Emilio; Cinque, Gianfelice; Dabagov, Sultan; Grilli, Antonio; Marcelli, Augusto; Pace, Elisabetta; Piccinini, Massimo; Raco, Agostino; Monti, Francesca

    2004-05-12

    The new Synchrotron Radiation facility at Frascati exploits the intense photon emission from DA{phi}NE, the 0,51 GeV storage ring circulating over 1 A of electrons. Among the three beamlines commissioned, the Synchrotron INfrared Beamline At Da{phi}ne (SINBAD) is fully operational by a brilliant SR beam spanning the entire IR. Recently, the soft X-ray beamline has been characterized and, once implemented the double-crystal monocromator, X-ray Absorption Spectroscopy is applied on material standards in the distinguishing energy region below 4 keV. An UltraViolet line, presently dedicated to photobiology dosimetry, has also given first results on cell irradiation in the UVB band.

  11. Detection and differentiation of 22 kDa and 20 kDa Growth Hormone proteoforms in human plasma by LC-MS/MS.

    PubMed

    Such-Sanmartín, Gerard; Bache, Nicolai; Bosch, Jaume; Gutiérrez-Gallego, Ricardo; Segura, Jordi; Jensen, Ole N

    2015-04-01

    Human growth hormone (GH) is suspected to be widely and illegally used in sport to improve athletes' performance. For the detection of GH abuse, blood samples are screened for abnormal ratios between the 22 and 20 kDa GH proteoforms that demonstrate the administration of the synthetic hormone. Current detection methods are based on classical immunoassays as they provide sufficient sensitivity for the detection of GH proteoforms. These antibody based methods, however, suffer from unclear selectivity and potential cross-reactivity towards similar proteins. For unambiguous GH detection, we report a Mass Spectrometry ImmunoAssay (MSIA) that first enriches GH from plasma with an antibody of relatively low specificity, and subsequently quantifies the 22 and 20 kDa proteoforms by Selected Reaction Monitoring (SRM) LC-MS/MS analysis. This method proved superior to an antibody-free strategy based on GH purification by protein precipitation. Using GH-MSIA we successfully quantified the 22/20 kDa GH ratio in post-exercise capillary plasma extracted from two individuals. This GH-MSIA is applicable to anti-doping and GH-related disease analysis. PMID:25556001

  12. Da0324, an inhibitor of nuclear factor-κB activation, demonstrates selective antitumor activity on human gastric cancer cells

    PubMed Central

    Jin, Rong; Xia, Yiqun; Chen, Qiuxiang; Li, Wulan; Chen, Dahui; Ye, Hui; Zhao, Chengguang; Du, Xiaojing; Shi, Dengjian; Wu, Jianzhang; Liang, Guang

    2016-01-01

    Background The transcription factor nuclear factor-κB (NF-κB) is constitutively activated in a variety of human cancers, including gastric cancer. NF-κB inhibitors that selectively kill cancer cells are urgently needed for cancer treatment. Curcumin is a potent inhibitor of NF-κB activation. Unfortunately, the therapeutic potential of curcumin is limited by its relatively low potency and poor cellular bioavailability. In this study, we presented a novel NF-κB inhibitor named Da0324, a synthetic asymmetric mono-carbonyl analog of curcumin. The purpose of this study is to research the expression of NF-κB in gastric cancer and the antitumor activity and mechanism of Da0324 on human gastric cancer cells. Methods The expressions between gastric cancer tissues/cells and normal gastric tissues/cells of NF-κB were evaluated by Western blot. The inhibition viability of compounds on human gastric cancer cell lines SGC-7901, BGC-823, MGC-803, and normal gastric mucosa epithelial cell line GES-1 was assessed with the 3-[4,5-dimethylthiazol-2-yl]-2,5-diphenyltetrazolium bromide assay. Absorption spectrum method and high-performance liquid chromatography method detected the stability of the compound in vitro. The compound-induced changes of inducible NF-κB activation in the SGC-7901 and BGC-823 cells were examined by Western blot analysis and immunofluorescence methods. The antitumor activity of compound was performed by clonogenic assay, matrigel invasion assay, flow cytometric analysis, Western blot analysis, and Hoechst 33258 staining assay. Results High levels of p65 were found in gastric cancer tissues and cells. Da0324 displayed higher growth inhibition against several types of gastric cancer cell lines and showed relatively low toxicity to GES-1. Moreover, Da0324 was more stable than curcumin in vitro. Western blot analysis and immunofluorescence methods showed that Da0324 blocked NF-κB activation. In addition, Da0324 significantly inhibited tumor proliferation

  13. The Real Code of Leonardo da Vinci

    PubMed Central

    Ose, Leiv

    2008-01-01

    Leonardo da Vinci was born in Italy. Among the researchers and scientists, he is favourably known for his remarkable efforts in scientific work. His investigations of atherosclerosis judiciously combine three separate fields of research. In 1506, he finished his masterpiece, painting of Mona Lisa. A careful clinical examination of the famous painting reveals a yellow irregular leather-like spot at the inner end of the left upper eyelid and a soft bumpy well-defined swelling of the dorsum of the right hand beneath the index finger about 3 cm long. This is probably the first case of familial hypercholesterolemia (FH). The FH code of Leonardo da Vinci was given immense consideration by scientists like Carl Muller, who described the xanthomas tuberosum and angina pectoris. On the contrary, Akira Endo searched for microbial metabolites that would inhibit HMG-CoA reductase, the rate-limiting enzyme in the synthesis of cholesterol and finally, Michael Brown and Joseph Goldstein published a remarkable series of elegant and insightful papers in the 70s and 80s. They established that the cellular uptake of low-density lipoprotein (LDL) essentially requires the LDL receptor. In conclusion: this was the real Code of Leonardo da Vinci. PMID:19924278

  14. PanDA Pilot Submission using Condor-G: Experience and Improvements

    SciTech Connect

    Zhao X.; Hover John; Wlodek Tomasz; Wenaus Torre; Frey Jaime; Tannenbaum Todd; Livny Miron

    2011-01-01

    PanDA (Production and Distributed Analysis) is the workload management system of the ATLAS experiment, used to run managed production and user analysis jobs on the grid. As a late-binding, pilot-based system, the maintenance of a smooth and steady stream of pilot jobs to all grid sites is critical for PanDA operation. The ATLAS Computing Facility (ACF) at BNL, as the ATLAS Tier1 center in the US, operates the pilot submission systems for the US. This is done using the PanDA 'AutoPilot' scheduler component which submits pilot jobs via Condor-G, a grid job scheduling system developed at the University of Wisconsin-Madison. In this paper, we discuss the operation and performance of the Condor-G pilot submission at BNL, with emphasis on the challenges and issues encountered in the real grid production environment. With the close collaboration of Condor and PanDA teams, the scalability and stability of the overall system has been greatly improved over the last year. We review improvements made to Condor-G resulting from this collaboration, including isolation of site-based issues by running a separate Gridmanager for each remote site, introduction of the 'Nonessential' job attribute to allow Condor to optimize its behavior for the specific character of pilot jobs, better understanding and handling of the Gridmonitor process, as well as better scheduling in the PanDA pilot scheduler component. We will also cover the monitoring of the health of the system.

  15. PanDA Pilot Submission using Condor-G: Experience and Improvements

    NASA Astrophysics Data System (ADS)

    Zhao, Xin; Hover, John; Wlodek, Tomasz; Wenaus, Torre; Frey, Jaime; Tannenbaum, Todd; Livny, Miron; ATLAS Collaboration

    2011-12-01

    PanDA (Production and Distributed Analysis) is the workload management system of the ATLAS experiment, used to run managed production and user analysis jobs on the grid. As a late-binding, pilot-based system, the maintenance of a smooth and steady stream of pilot jobs to all grid sites is critical for PanDA operation. The ATLAS Computing Facility (ACF) at BNL, as the ATLAS Tier1 center in the US, operates the pilot submission systems for the US. This is done using the PanDA "AutoPilot" scheduler component which submits pilot jobs via Condor-G, a grid job scheduling system developed at the University of Wisconsin-Madison. In this paper, we discuss the operation and performance of the Condor-G pilot submission at BNL, with emphasis on the challenges and issues encountered in the real grid production environment. With the close collaboration of Condor and PanDA teams, the scalability and stability of the overall system has been greatly improved over the last year. We review improvements made to Condor-G resulting from this collaboration, including isolation of site-based issues by running a separate Gridmanager for each remote site, introduction of the 'Nonessential' job attribute to allow Condor to optimize its behavior for the specific character of pilot jobs, better understanding and handling of the Gridmonitor process, as well as better scheduling in the PanDA pilot scheduler component. We will also cover the monitoring of the health of the system.

  16. Iron abundance in the hot DA white dwarfs Feige 24 and G191 B2B

    NASA Technical Reports Server (NTRS)

    Vennes, Stephane; Chayer, Pierre; Thorstensen, John R.; Bowyer, Stuart; Shipman, Harry L.

    1992-01-01

    Attention is given to model calculations of the far- and extreme-UV line spectra of highly ionized Fe species (Fe IV, Fe V, and Fe VI) for hot high-gravity H-rich stars. A spectral analysis of 31 hr of exposure of the DA white dwarf Feige 24 with IUE in the echelle mode reveals the presence of Fe with an abundance relative to H by number of (5-10) x 10 exp -6 with an uncertainty dominated by the determination of stellar parameters. An analysis of IUE data from the white dwarf G191 B2B results in a similar Fe abundance if this star shares similar atmospheric parameters (Teff, g) with Feige 24. Fe is thus the second most abundant photospheric element in hot DA white dwarfs.

  17. GS32, a novel Golgi SNARE of 32 kDa, interacts preferentially with syntaxin 6.

    PubMed

    Wong, S H; Xu, Y; Zhang, T; Griffiths, G; Lowe, S L; Subramaniam, V N; Seow, K T; Hong, W

    1999-01-01

    Syntaxin 1, synaptobrevins or vesicle-associated membrane proteins, and the synaptosome-associated protein of 25 kDa (SNAP-25) are key molecules involved in the docking and fusion of synaptic vesicles with the presynaptic membrane. We report here the molecular, cell biological, and biochemical characterization of a 32-kDa protein homologous to both SNAP-25 (20% amino acid sequence identity) and the recently identified SNAP-23 (19% amino acid sequence identity). Northern blot analysis shows that the mRNA for this protein is widely expressed. Polyclonal antibodies against this protein detect a 32-kDa protein present in both cytosol and membrane fractions. The membrane-bound form of this protein is revealed to be primarily localized to the Golgi apparatus by indirect immunofluorescence microscopy, a finding that is further established by electron microscopy immunogold labeling showing that this protein is present in tubular-vesicular structures of the Golgi apparatus. Biochemical characterizations establish that this protein behaves like a SNAP receptor and is thus named Golgi SNARE of 32 kDa (GS32). GS32 in the Golgi extract is preferentially retained by the immobilized GST-syntaxin 6 fusion protein. The coimmunoprecipitation of syntaxin 6 but not syntaxin 5 or GS28 from the Golgi extract by antibodies against GS32 further sustains the preferential interaction of GS32 with Golgi syntaxin 6. PMID:9880331

  18. Tumour-infiltrating lymphocytes bear the 75 kDa tumour necrosis factor receptor.

    PubMed Central

    Trentin, L.; Zambello, R.; Bulian, P.; Cerutti, A.; Enthammer, C.; Cassatella, M.; Nitti, D.; Lise, M.; Agostini, C.; Semenzato, G.

    1995-01-01

    Tumour necrosis factor alpha (TNF-alpha) is a cytokine with a variety of immunological properties. The identification of two receptors for this molecule, i.e. the 75 kDa and the 55 kDa TNF receptors (TNF-R), recently clarified the mechanisms through which this cytokine provides its wide range of immunomodulatory activities. In this study we have investigated the expression and the functional properties of these receptors on tumour-infiltrating lymphocytes (TILs) recovered from 17 patients with solid cancers (melanoma, colorectal carcinoma and lung cancer). To this end, TIL lines and freshly isolated TILs were evaluated for (a) the expression and the functional role of TNF receptors following culture in the presence of interleukin 2 (IL-2) and (b) the production of TNF-alpha following culture with IL-2 and the role of this cytokine in IL-2-driven TIL proliferation. Flow cytometry analysis demonstrated that TILs bear the 75 kDa TNF-R. Moreover, TIL lines express detectable messages for TNF-alpha and release this cytokine. Functional in vitro studies have shown that anti-TNF-alpha, as well as anti-75 kDa TNF-R antibodies, are able to inhibit the IL-2-induced TIL proliferation. These data demonstrate that TILs are equipped with a fully functional TNF-R system and suggest a putative role for this receptor and its ligand in the activation and expression of TILs following immunotherapy with IL-2. Images Figure 2 PMID:7841036

  19. Next Generation PanDA Pilot for ATLAS and Other Experiments

    NASA Astrophysics Data System (ADS)

    Nilsson, P.; Barreiro Megino, F.; Caballero Bejar, J.; De, K.; Hover, J.; Love, P.; Maeno, T.; Medrano Llamas, R.; Walker, R.; Wenaus, T.; Atlas Collaboration

    2014-06-01

    The Production and Distributed Analysis system (PanDA) has been in use in the ATLAS Experiment since 2005. It uses a sophisticated pilot system to execute submitted jobs on the worker nodes. While originally designed for ATLAS, the PanDA Pilot has recently been refactored to facilitate use outside of ATLAS. Experiments are now handled as plug-ins such that a new PanDA Pilot user only has to implement a set of prototyped methods in the plug-in classes, and provide a script that configures and runs the experiment-specific payload. We will give an overview of the Next Generation PanDA Pilot system and will present major features and recent improvements including live user payload debugging, data access via the Federated XRootD system, stage-out to alternative storage elements, support for the new ATLAS DDM system (Rucio), and an improved integration with glExec, as well as a description of the experiment-specific plug-in classes. The performance of the pilot system in processing LHC data on the OSG, LCG and Nordugrid infrastructures used by ATLAS will also be presented. We will describe plans for future development on the time scale of the next few years.

  20. Nano-LC FTICR tandem mass spectrometry for top-down proteomics: routine baseline unit mass resolution of whole cell lysate proteins up to 72 kDa.

    PubMed

    Tipton, Jeremiah D; Tran, John C; Catherman, Adam D; Ahlf, Dorothy R; Durbin, Kenneth R; Lee, Ji Eun; Kellie, John F; Kelleher, Neil L; Hendrickson, Christopher L; Marshall, Alan G

    2012-03-01

    Current high-throughput top-down proteomic platforms provide routine identification of proteins less than 25 kDa with 4-D separations. This short communication reports the application of technological developments over the past few years that improve protein identification and characterization for masses greater than 25 kDa. Advances in separation science have allowed increased numbers of proteins to be identified, especially by nanoliquid chromatography (nLC) prior to mass spectrometry (MS) analysis. Further, a goal of high-throughput top-down proteomics is to extend the mass range for routine nLC MS analysis up to 80 kDa because gene sequence analysis predicts that ~70% of the human proteome is transcribed to be less than 80 kDa. Normally, large proteins greater than 50 kDa are identified and characterized by top-down proteomics through fraction collection and direct infusion at relatively low throughput. Further, other MS-based techniques provide top-down protein characterization, however at low resolution for intact mass measurement. Here, we present analysis of standard (up to 78 kDa) and whole cell lysate proteins by Fourier transform ion cyclotron resonance mass spectrometry (nLC electrospray ionization (ESI) FTICR MS). The separation platform reduced the complexity of the protein matrix so that, at 14.5 T, proteins from whole cell lysate up to 72 kDa are baseline mass resolved on a nano-LC chromatographic time scale. Further, the results document routine identification of proteins at improved throughput based on accurate mass measurement (less than 10 ppm mass error) of precursor and fragment ions for proteins up to 50 kDa. PMID:22356091

  1. Constitutive expression of DaCBF7, an Antarctic vascular plant Deschampsia antarctica CBF homolog, resulted in improved cold tolerance in transgenic rice plants.

    PubMed

    Byun, Mi Young; Lee, Jungeun; Cui, Li Hua; Kang, Yoonjee; Oh, Tae Kyung; Park, Hyun; Lee, Hyoungseok; Kim, Woo Taek

    2015-07-01

    Deschampsia antarctica is an Antarctic hairgrass that grows on the west coast of the Antarctic peninsula. In this report, we have identified and characterized a transcription factor, D. antarctica C-repeat binding factor 7 (DaCBF7), that is a member of the monocot group V CBF homologs. The protein contains a single AP2 domain, a putative nuclear localization signal, and the typical CBF signature. DaCBF7, like other monocot group V homologs, contains a distinct polypeptide stretch composed of 43 amino acids in front of the AP2 motif. DaCBF7 was predominantly localized to nuclei and interacted with the C-repeat/dehydration responsive element (CRT/DRE) core sequence (ACCGAC) in vitro. DaCBF7 was induced by abiotic stresses, including drought, cold, and salinity. To investigate its possible cellular role in cold tolerance, a transgenic rice system was employed. DaCBF7-overexpressing transgenic rice plants (Ubi:DaCBF7) exhibited markedly increased tolerance to cold stress compared to wild-type plants without growth defects; however, overexpression of DaCBF7 exerted little effect on tolerance to drought or salt stress. Transcriptome analysis of a Ubi:DaCBF7 transgenic line revealed 13 genes that were up-regulated in DaCBF7-overexpressing plants compared to wild-type plants in the absence of cold stress and in short- or long-term cold stress. Five of these genes, dehydrin, remorin, Os03g63870, Os11g34790, and Os10g22630, contained putative CRT/DRE or low-temperature responsive elements in their promoter regions. These results suggest that overexpression of DaCBF7 directly and indirectly induces diverse genes in transgenic rice plants and confers enhanced tolerance to cold stress. PMID:26025521

  2. Molecular cloning, tissue distribution, and expression of a 14-kDa bile acid-binding protein from rat ileal cytosol.

    PubMed Central

    Gong, Y Z; Everett, E T; Schwartz, D A; Norris, J S; Wilson, F A

    1994-01-01

    A cDNA clone encoding the major intestinal cytosolic 14-kDa bile acid-binding protein (14-kDa I-BABP) was isolated from a rat ileal lambda gt22A library following immunoscreening using a monospecific antiserum raised against a 14-kDa polypeptide found in the rat ileal cytosol. One clone of 516 bp encoded a 128-amino acid protein with a predicted molecular mass of 14,544 Da. The deduced amino acid sequence of 14-kDa I-BABP showed 100% homology to rat intestinal 15-kDa protein (I-15P) and 72% homology to porcine 15-kDa gastrotropin, whereas comparison of I-BABP to rat 14-kDa fatty acid-binding proteins of liver, intestine, and heart revealed homologies of 44%, 25%, and 28%, respectively. Northern blot analysis revealed a single transcript of approximately 0.5 kb in ileum and ovary; however, the abundance of I-BABP mRNA was much greater in ileum than in ovary. No transcript was seen in RNA extracted from stomach, jejunum, colon, liver, adrenal, brain, heart, kidney, or testis. Transfection of the I-BABP cDNA into COS-7 cells resulted in the expression of a 14-kDa protein that was identical to the ileal cytosolic I-BABP as determined by immunoblotting. Photoaffinity labeling of expressed 14-kDa protein was saturable with respect to increasing concentrations of 7,7-azo[3H]taurocholate (Km, 83.3 microM; Vmax, 6.7 pmol/mg per 5 min). Taurocholate inhibited 7,7-azotaurocholate labeling by > 96% with lesser inhibition by taurochenodeoxycholate (83.1%), chenodeoxycholate (74.6%), cholate (50.5%), and progesterone (38.5%), whereas oleic acid and estradiol did not inhibit binding. Images PMID:8197128

  3. Identification of Variables Associated with Group Separation in Descriptive Discriminant Analysis: Comparison of Methods for Interpreting Structure Coefficients

    ERIC Educational Resources Information Center

    Finch, Holmes

    2010-01-01

    Discriminant Analysis (DA) is a tool commonly used for differentiating among 2 or more groups based on 2 or more predictor variables. DA works by finding 1 or more linear combinations of the predictors that yield maximal difference among the groups. One common goal of researchers using DA is to characterize the nature of group difference by…

  4. Onsite Gaseous Centrifuge Enrichment Plant UF6 Cylinder Destructive Analysis

    SciTech Connect

    Anheier, Norman C.; Cannon, Bret D.; Qiao, Hong; Carter, Jennifer C.; McNamara, Bruce K.; O'Hara, Matthew J.; Phillips, Jon R.; Curtis, Michael M.

    2012-07-17

    The IAEA safeguards approach for gaseous centrifuge enrichment plants (GCEPs) includes measurements of gross, partial, and bias defects in a statistical sampling plan. These safeguard methods consist principally of mass and enrichment nondestructive assay (NDA) verification. Destructive assay (DA) samples are collected from a limited number of cylinders for high precision offsite mass spectrometer analysis. DA is typically used to quantify bias defects in the GCEP material balance. Under current safeguards measures, the operator collects a DA sample from a sample tap following homogenization. The sample is collected in a small UF6 sample bottle, then sealed and shipped under IAEA chain of custody to an offsite analytical laboratory. Current practice is expensive and resource intensive. We propose a new and novel approach for performing onsite gaseous UF6 DA analysis that provides rapid and accurate assessment of enrichment bias defects. DA samples are collected using a custom sampling device attached to a conventional sample tap. A few micrograms of gaseous UF6 is chemically adsorbed onto a sampling coupon in a matter of minutes. The collected DA sample is then analyzed onsite using Laser Ablation Absorption Ratio Spectrometry-Destructive Assay (LAARS-DA). DA results are determined in a matter of minutes at sufficient accuracy to support reliable bias defect conclusions, while greatly reducing DA sample volume, analysis time, and cost.

  5. Synergetic effects of DA-6/GA₃ with EDTA on plant growth, extraction and detoxification of Cd by Lolium perenne.

    PubMed

    He, Shanying; Wu, Qiuling; He, Zhenli

    2014-12-01

    Research is needed to improve efficiency of phytoextraction of heavy metals from contaminated soils. A pot experiment was carried out to study the effects of plant growth regulators (PGRs) (diethyl aminoethyl hexanoate (C18H33NO8, DA-6) and gibberellic acid 3 (C19H22O6, GA3)) and/or EDTA on Cd extraction, subcellular distribution and chemical forms in Lolium perenne. The addition of EDTA or PGRs significantly enhanced Cd extraction efficiency (P<0.05), with the decreasing order of: 1 μM DA-6>10 μM DA-6>10 μM GA3>2.5 mmol kg(-1) EDTA>other treatments of PGR alone. PGRs+EDTA resulted in a further increase in Cd extraction efficiency, with EDTA+1 μM DA-6 being the most efficient. At the subcellular level, about 44-57% of Cd was soluble fraction, 18-44% in cell walls, and 12-25% in cellular organelles fraction. Chemical speciation analysis showed that 40-54% of Cd was NaCl extractable, 7-23% HAc extractable, followed by other fractions. EDTA increased the proportions of Cd in soluble and cellular organelles fraction, as well as the metal migration in shoot; therefore, the toxicity to plant increased and plant growth was inhibited. Conversely, PGRs fixed more Cd in cell walls and reduced Cd migration in shoot; thus, metal toxicity was reduced. In addition, PGRs promoted plant biomass growth significantly (P<0.05), with 1 μM DA-6 being the most effective. A combination of DA-6/GA3 with EDTA can alleviate the adverse effect of EDTA on plant growth, and the treatment of EDTA+1 μM DA-6 appears to be optimal for improving the remediation efficiency of L. perenne for Cd contaminated soil. PMID:24999226

  6. 15 kDa Granulysin versus GM-CSF for monocytes differentiation: analogies and differences at the transcriptome level

    PubMed Central

    2011-01-01

    Background Granulysin is an antimicrobial and proinflammatory protein with several isoforms. While the 9 kDa isoform is a well described cytolytic molecule with pro-inflammatory activity, the functions of the 15 kDa isoform is less well understood. Recently it was shown that 15 kDa Granulysin can act as an alarmin that is able to activate monocytes and immature dendritic cells. Granulocyte Macrophage Colony Stimulating Factor (GM-CSF) is a growth factor widely used in immunotherapy both for in vivo and ex vivo applications, especially for its proliferative effects. Methods We analyzed gene expression profiles of monocytes cultured with 15 kDa Granulysin or GM-CSF for 4, 12, 24 and 48 hours to unravel both similarities and differences between the effects of these stimulators. Results The analysis revealed a common signature induced by both factors at each time point, but over time, a more specific signature for each factor became evident. At all time points, 15 kDa Granulysin induced immune response, chemotaxis and cell adhesion genes. In addition, only 15 kDa Granulsyin induced the activation of pathways related to fundamental dendritic cell functions, such as co-stimulation of T-cell activation and Th1 development. GM-CSF specifically down-regulated genes related to cell cycle arrest and the immune response. More specifically, cytokine production, lymphocyte mediated immunity and humoral immune response were down-regulated at late time points. Conclusion This study provides important insights on the effects of a novel agent, 15 kDa granulysin, that holds promise for therapeutic applications aimed at the activation of the immune response. PMID:21501511

  7. Construction of a Linkage Map of the Medaka (Oryzias latipes) and Mapping of the Da Mutant Locus Defective in Dorsoventral Patterning

    PubMed Central

    Ohtsuka, Masato; Makino, Satoshi; Yoda, Kinya; Wada, Hironori; Naruse, Kiyoshi; Mitani, Hiroshi; Shima, Akihiro; Ozato, Kenjiro; Kimura, Minoru; Inoko, Hidetoshi

    1999-01-01

    Double anal fin (Da) is a medaka with an autosomal semidominant mutation that causes mirror image duplication of the ventral region concentrating on the caudal region. The chromosomal location of the Da gene and its sequence have remained unknown. We constructed a medaka linkage map as a first step to approach positional cloning of the gene. The segregation analysis was performed on the basis of genetic recombination during female meiosis using 134 random amplified polymorphic DNA (RAPD) markers, 13 sequence-tagged sites (STSs), 15 polymorphic sequences from known genes, and the Da gene. One hundred forty-six markers from the above markers segregated into 26 linkage groups. The size of the genome was estimated to be 1776 cM in length. We identified four syntenic regions between medaka and zebrafish (and human) by mapping the known genes and found one of them to be located in close proximity to the Da gene. By mapping the region surrounding the Da gene in high resolution, two markers were detected flanking the Da gene at 0.32 and 0.80 cM. The detected markers providing a vital clue to initiate chromosome walking will lead us to the definite location of the Da gene. PMID:10613850

  8. Food residue recycling by swine breeders in a developing economy: a case study in Da Nang, Viet Nam.

    PubMed

    Kato, Takaaki; Pham, Dung Thi Xuan; Hoang, Hai; Xue, Yonghai; Tran, Quang Van

    2012-12-01

    This study provides a detailed description of food residue collection by swine breeders in Da Nang, Viet Nam. In January 2011, the study surveyed 30 swine breeders in two villages with respect to locations, methods, prices, quantities, and prospects for food residue collection. The sampled swine breeders regularly visited 55 locations in central Da Nang to collect raw food residue. They then transferred the food residue to their piggeries, boiled it, and fed it to their swine. A regression analysis revealed that the total amount of food residue collected by a farm depends on the number of swine in the farm and the number of collections made per day. Swine breeders in Da Nang were estimated to collect 26.3 metric tons of organic waste per day, which amounted to 4.1% of domestic waste collected by the local government. Among the sampled swine breeders, 93% answered that they would continue using food residue for the next five years. PMID:22883688

  9. Evaluating the potential of marine Bacteriovorax sp. DA5 as a biocontrol agent against vibriosis in Litopenaeus vannamei larvae.

    PubMed

    Wen, Chongqing; Xue, Ming; Liang, Huafang; Zhou, Shining

    2014-09-17

    The potential application of Bdellovibrio-and-like organisms (BALOs) for the biocontrol of bacterial diseases has been widely recognized. However, no marine BALOs have been reported for Vibrio-related infections in penaeid shrimp. In the present study, the bacteriolytic ability of the marine Bacteriovorax strain DA5 against Vibrio alginolyticus zouA was examined by cocultivation and electron microscopy, and optimal lysis was observed at 30-35°C and 20-30‰ salinity along with a high multiplicity of infection. Then, we showed that experimentally infected Litopenaeus vannamei larvae exhibited significantly higher survival with incremental DA5 levels. Finally, variation in the bacterial counts and the bacterial community in larval rearing water was investigated after prophylactic application of DA5. The elimination effect of DA5 on vibrios was visible at early time points, whereas only a few non-dominant bacteria, rather than the predominant populations, were affected through analysis of denaturing gradient gel electrophoresis of the 16S rDNA V3 region. Accordingly, the prophylactic and therapeutic efficacies of DA5 on vibriosis associated with L. vannamei could markedly enhance larval survivability, and these results will facilitate the application of marine Bacteriovorax to control vibriosis in shrimp larviculture. PMID:25139659

  10. Visual degradation in Leonardo da Vinci's iconic self-portrait: A nanoscale study

    NASA Astrophysics Data System (ADS)

    Conte, A. Mosca; Pulci, O.; Misiti, M. C.; Lojewska, J.; Teodonio, L.; Violante, C.; Missori, M.

    2014-06-01

    The discoloration of ancient paper, due to the development of oxidized groups acting as chromophores in its chief component, cellulose, is responsible for severe visual degradation in ancient artifacts. By adopting a non-destructive approach based on the combination of optical reflectance measurements and time-dependent density functional theory ab-initio calculations, we describe and quantify the chromophores affecting Leonardo da Vinci's iconic self-portrait. Their relative concentrations are very similar to those measured in modern and ancient samples aged in humid environments. This analysis quantifies the present level of optical degradation of the Leonardo da Vinci's self-portrait which, compared with future measurements, will assess its degradation rate. This is a fundamental information in order to plan appropriate conservation strategies.

  11. Solid state of a new PDE-5 inhibitor DA-8159: characterization, dissolution, transformation.

    PubMed

    Ryu, Ji Yoon; Sohn, Young-Taek

    2012-05-01

    The polymorphic forms of a new PDE-5 inhibitor DA-8159 were prepared and characterized by differential scanning calorimetry (DSC), powder X-ray diffractometry (PXRD) and thermogravimetric analysis (TG). Two crystal forms and one amorphous form of DA-8159 have been isolated by recrystallization and characterized by DSC, TG and PXRD. From the TG data it was confirmed that two crystal forms are neither solvates nor hydrates. The PXRD patterns of the two crystal forms were different. In the dissolution studies in simulated intestinal fluid at 37 ± 0.5°C, the solubility decreased in the order of amorphous form > Form 1 > Form 2. After storage of 60 days, Form 1 was transformed to Form 2. Form 2 was not transformed. The amorphous form was transformed to Form 2 at 52% R.H. and 95% R.H., but it did not transform at 0% R.H. PMID:22644853

  12. Development of noSQL data storage for the ATLAS PanDA Monitoring System

    NASA Astrophysics Data System (ADS)

    Potekhin, M.; ATLAS Collaboration

    2012-06-01

    For several years the PanDA Workload Management System has been the basis for distributed production and analysis for the ATLAS experiment at the LHC. Since the start of data taking PanDA usage has ramped up steadily, typically exceeding 500k completed jobs/day by June 2011. The associated monitoring data volume has been rising as well, to levels that present a new set of challenges in the areas of database scalability and monitoring system performance and efficiency. These challenges are being met with a R&D effort aimed at implementing a scalable and efficient monitoring data storage based on a noSQL solution (Cassandra). We present our motivations for using this technology, as well as data design and the techniques used for efficient indexing of the data. We also discuss the hardware requirements as they were determined by testing with actual data and realistic loads.

  13. gLExec and MyProxy integration in the ATLAS/OSG PanDA workload management system

    NASA Astrophysics Data System (ADS)

    Caballero, J.; Hover, J.; Litmaath, M.; Maeno, T.; Nilsson, P.; Potekhin, M.; Wenaus, T.; Zhao, X.

    2010-04-01

    Worker nodes on the grid exhibit great diversity, making it difficult to offer uniform processing resources. A pilot job architecture, which probes the environment on the remote worker node before pulling down a payload job, can help. Pilot jobs become smart wrappers, preparing an appropriate environment for job execution and providing logging and monitoring capabilities. PanDA (Production and Distributed Analysis), an ATLAS and OSG workload management system, follows this design. However, in the simplest (and most efficient) pilot submission approach of identical pilots carrying the same identifying grid proxy, end-user accounting by the site can only be done with application-level information (PanDA maintains its own end-user accounting), and end-user jobs run with the identity and privileges of the proxy carried by the pilots, which may be seen as a security risk. To address these issues, we have enabled PanDA to use gLExec, a tool provided by EGEE which runs payload jobs under an end-user's identity. End-user proxies are pre-staged in a credential caching service, MyProxy, and the information needed by the pilots to access them is stored in the PanDA DB. gLExec then extracts from the user's proxy the proper identity under which to run. We describe the deployment, installation, and configuration of gLExec, and how PanDA components have been augmented to use it. We describe how difficulties were overcome, and how security risks have been mitigated. Results are presented from OSG and EGEE Grid environments performing ATLAS analysis using PanDA and gLExec.

  14. Asteroid 2012 DA14 To Whiz Past Earth Safely

    NASA Video Gallery

    The small near-Earth asteroid 2012 DA14 will pass very close to Earth on Feb. 15, 2013. Asteroid 2012 DA14 will be closest to Earth at about 11:24 a.m. PST (2:24 p.m. EST and 1924 UTC), on Feb. 15,...

  15. 40 CFR 60.52Da - Recordkeeping requirements.

    Code of Federal Regulations, 2010 CFR

    2010-07-01

    ... 40 Protection of Environment 6 2010-07-01 2010-07-01 false Recordkeeping requirements. 60.52Da Section 60.52Da Protection of Environment ENVIRONMENTAL PROTECTION AGENCY (CONTINUED) AIR PROGRAMS (CONTINUED) STANDARDS OF PERFORMANCE FOR NEW STATIONARY SOURCES Standards of Performance for Electric Utility Steam Generating Units for...

  16. The Case: Bunche-Da Vinci Learning Partnership Academy

    ERIC Educational Resources Information Center

    Eisenberg, Nicole; Winters, Lynn; Alkin, Marvin C.

    2005-01-01

    The Bunche-Da Vinci case described in this article presents a situation at Bunche Elementary School that four theorists were asked to address in their evaluation designs (see EJ791771, EJ719772, EJ791773, and EJ792694). The Bunche-Da Vinci Learning Partnership Academy, an elementary school located between an urban port city and a historically…

  17. Da Costa's syndrome or neurocirculatory asthenia.

    PubMed Central

    Paul, O

    1987-01-01

    The syndrome variously called Da Costa's syndrome, effort syndrome, neurocirculatory asthenia, etc has been studied for more than 100 years by many distinguished physicians. Originally identified in men in wartime, it has been widely recognised as a common chronic condition in both sexes in civilian life. Although the symptoms may seem to appear after infections and various physical and psychological stresses, neurocirculatory asthenia is most often encountered as a familial disorder that is unrelated to these factors, although they may aggravate an existing tendency. Respiratory complaints (including breathlessness, with and without effort, and smothering sensations) are almost universal, and palpitation, chest discomfort, dizziness and faintness, and fatigue are common. The physical examination is normal. The aetiology is obscure but patients usually have a normal life span. Reassurance and measures to improve physical fitness are helpful. PMID:3314950

  18. Biogeochemical Indicators of Paleoenvironmental Changes in a Humid Region of Amazonia (Lagoa da Pata, Sao Gabriel da Cachoeira)

    NASA Astrophysics Data System (ADS)

    Cordeiro, R. C.; Turcq, B.; Mendes, L. G.; Azeredo, J. B.; Moura, M. S.; de Oliveira, A. R.; Monteiro, F.; Santelli, R. E.

    2004-12-01

    Analysis of four sediment core collected in Lagoa da Pata lake show significant changes in the environmental history of Amazonia during the last 40,000 years. The Lagoa da Pata Lake (0°17'S, 66°40'W) is located on the top of the Morro dos Seis Lagos, an isolated hill in the extensive forested plane surface of high Rio Negro basin. The climate in the region presents mean annual precipitation around 3000 mm without dry season. Three distinct sections are clearly identified in the LPT III, LPT IV and LPT V cores. They consist of upper and lower organic-rich layers, separated by a clastic layer which represents a short period of rapid accumulation around 18 ka BP. Analysis of the organic matter composition by d13C and d15N, total Carbon and Nitrogen, sedimentary chlorophyll concentration and organic matter petrography show three different phases related to organic matter deposition. Between, at least 46,000 and 31,000 14C yr B.P., the lake presented a high water level attested by high accumulation rates of organic carbon. Values of d13C (around -32%) associated to high C/N ratio demonstrate a lignocellulosic material contribution in this phase; the second phase between the 31000 yr 14C B.P. and 18000 14C B.P. is characterised by a lower productivity attested by low sedimentary chlorophyll and total organic carbon values. The d13C values increase with medium values around -28% that may correspond to an input of organic matter rich in C4 plants (grasses). The sedimentation rate decreases significantly. High charcoal fluxes were observed in this period. At around 18000 14C yr BP, there appears to have been a sudden input of clastic material. This is represented by a sandy facies, which exhibits lower carbon contents. From 18000 14C yr B.P. to the present time occurred an increase in lacustrine productivity marked by an increase in carbon and chlorophyll derivate accumulation rates. The C/N values dropped indicting an algae organic matter contribution. It probably

  19. 75 FR 52292 - Airworthiness Directives; Diamond Aircraft Industries GmbH Models DA 40 and DA 40F Airplanes

    Federal Register 2010, 2011, 2012, 2013, 2014

    2010-08-25

    ... ``significant rule'' under the DOT Regulatory Policies and Procedures (44 FR 11034, February 26, 1979); and 3... Federal Aviation Administration 14 CFR Part 39 RIN 2120-AA64 Airworthiness Directives; Diamond Aircraft... new airworthiness directive (AD) for all Diamond Aircraft Industries GmbH Models DA 40 and DA...

  20. 75 FR 75868 - Airworthiness Directives; Diamond Aircraft Industries GmbH Models DA 40 and DA 40F Airplanes

    Federal Register 2010, 2011, 2012, 2013, 2014

    2010-12-07

    ... Register on August 25, 2010 (75 FR 52292). That NPRM proposed to require a retrofit of the rear passenger... 12866, (2) Is not a ``significant rule'' under DOT Regulatory Policies and Procedures (44 FR 11034... Aircraft Industries GmbH Models DA 40 and DA 40F Airplanes AGENCY: Federal Aviation Administration,...

  1. The Meanings of Astronomical Observation: An Analysis on the Basis of Relationship with Knowledge. (Spanish Title: Los Sentidos de la Observación Astronómica: un Análisis sobre la Base de la Relación con el Saber.) Os Sentidos da Observação Astronômica: Uma Análise com Base na Relação com o Saber

    NASA Astrophysics Data System (ADS)

    Klein, Alberto Eduardo; de Mello Arruda, Sergio; Meneghello Passos, Marinez; Vinicius Domenes Zapparoli, Ferdinando

    2010-12-01

    This article presents results of a research which aimed to understand the meanings that people construct for astronomical observation. The subjects, students and school teachers, initially received some instruction on how to view astronomical objects through the telescope. After the observation was realized, they were interviewed. The data analysis allowed the creation of 12 categories, later interpreted on the basis of relationship with knowledge (relation to the world, with himself and with others), as presented by Bernard Charlot. Este artículo presenta los resultados de una investigación que tuvo como objetivo comprender los sentidos que las personas construyen para la observación astronómica. Los sujetos, los estudiantes y maestros de escuela, recibieron inicialmente algunas instrucciones sobre cómo ver los objetos astronómicos a través del telescopio. Al término de la observación, fueron entrevistados. El análisis de datos permitió la creación de 12 categorías que más tarde fueron interpretadas sobre la base de la relación con el conocimiento (relación con el mundo, consigo mismo y con los demás), tal como presentado por Bernard Charlot. Este artigo apresenta resultados de uma pesquisa que objetivou entender quais os sentidos que as pessoas constroem para a observação astronômica. Os sujeitos da pesquisa, estudantes e professores do ensino médio, receberam inicialmente alguma instrução sobre como visualizar os objetos astronômicos através do telescópio. Após a realização da observação, eles foram entrevistados. A análise dos dados permitiu a elaboração de 12 categorias que foram posteriormente interpretadas com base nas relações com o saber (relação com o mundo, consigo mesmo e com o outro), conforme apresentadas por Bernard Charlot.

  2. Parametric phase diffusion analysis of irregular oscillations

    NASA Astrophysics Data System (ADS)

    Schwabedal, Justus T. C.

    2014-09-01

    Parametric phase diffusion analysisDA), a method to determine variability of irregular oscillations, is presented. ΦDA is formulated as an analysis technique for sequences of Poincaré return times found in numerous applications. The method is unbiased by the arbitrary choice of Poincaré section, i.e. isophase, which causes a spurious component in the Poincaré return times. Other return-time variability measures can be biased drastically by these spurious return times, as shown for the Fano factor of chaotic oscillations in the Rössler system. The empirical use of ΦDA is demonstrated in an application to heart rate data from the Fantasia Database, for which ΦDA parameters successfully classify heart rate variability into groups of age and gender.

  3. Granite geomorphology and its geological controls, Serra da Estrela, Portugal

    NASA Astrophysics Data System (ADS)

    Migoń, Piotr; Vieira, Gonçalo

    2014-12-01

    Serra da Estrela is an elevated granite massif in central Portugal, characterized by extensive plateau surfaces incised by deep valleys affected by Quaternary glaciation, bounded by steep fault-generated escarpments. The presence of seven major textural variants of granite provides an opportunity to study the relationships between lithology and relief, whereas DEM analysis helped to show the relationships between lithology and topography objectively. The higher ground is associated with fine- to medium-grained granites and is typified by planar surfaces of low gradient, with occasional angular tors and rock pedestals. Block fields built by angular material are common in the parts that were not previously glaciated. Less elevated parts of the plateau are supported by medium- to coarse-grained granites and show more varied topography, with an abundance of tors, boulder piles, and depressions. Lithological boundaries locally coincide with slope breaks but this is not the rule. In the northern part of the massif a deep topographic basin has evolved in biotite granite, whereas deeply incised valleys follow major fault lines. Geological controls show a hierarchy, in that gross relief reflects the pattern of tectonic uplift and subsidence, whereas lithology and then fracture patterns become more and more important if one focuses on smaller and smaller landforms.

  4. New Insights into the Problem of the Surface Gravity Distribution of Cool DA White Dwarfs

    NASA Astrophysics Data System (ADS)

    Tremblay, P.-E.; Bergeron, P.; Kalirai, J. S.; Gianninas, A.

    2010-04-01

    We review at length the longstanding problem in the spectroscopic analysis of cool hydrogen-line (DA) white dwarfs (T eff< 13,000 K) where gravities are significantly higher than those found in hotter DA stars. The first solution that has been proposed for this problem is a mild and systematic helium contamination from convective mixing that would mimic the high gravities. We constrain this scenario by determining the helium abundances in six cool DA white dwarfs using high-resolution spectra from the Keck I 10 m telescope. We obtain no detections, with upper limits as low as He/H = 0.04 in some cases. This allows us to put this scenario to rest for good. We also extend our model grid to lower temperatures using improved Stark profiles with non-ideal gas effects from Tremblay & Bergeron and find that the gravity distribution of cool objects remains suspiciously high. Finally, we find that photometric masses are, on average, in agreement with expected values, and that the high-log g problem is so far unique to the spectroscopic approach.

  5. NEW INSIGHTS INTO THE PROBLEM OF THE SURFACE GRAVITY DISTRIBUTION OF COOL DA WHITE DWARFS

    SciTech Connect

    Tremblay, P.-E.; Bergeron, P.; Gianninas, A.; Kalirai, J. S. E-mail: bergeron@astro.umontreal.c E-mail: gianninas@astro.umontreal.c

    2010-04-01

    We review at length the longstanding problem in the spectroscopic analysis of cool hydrogen-line (DA) white dwarfs (T{sub eff}< 13,000 K) where gravities are significantly higher than those found in hotter DA stars. The first solution that has been proposed for this problem is a mild and systematic helium contamination from convective mixing that would mimic the high gravities. We constrain this scenario by determining the helium abundances in six cool DA white dwarfs using high-resolution spectra from the Keck I 10 m telescope. We obtain no detections, with upper limits as low as He/H = 0.04 in some cases. This allows us to put this scenario to rest for good. We also extend our model grid to lower temperatures using improved Stark profiles with non-ideal gas effects from Tremblay and Bergeron and find that the gravity distribution of cool objects remains suspiciously high. Finally, we find that photometric masses are, on average, in agreement with expected values, and that the high-log g problem is so far unique to the spectroscopic approach.

  6. Culture and Dehydration: A Comparative Study of Caída de la Mollera (Fallen Fontanel) in Three Latino Populations.

    PubMed

    Pachter, Lee M; Weller, Susan C; Baer, Roberta D; de Alba Garcia, Javier E Garcia; Glazer, Mark; Trotter, Robert; Klein, Robert E; Gonzalez, Eduardo

    2016-10-01

    A sunken soft-spot or fontanel is a sign for dehydration in infants. Around the world, folk illnesses, such as caída de la mollera in some Latin American cultures, often incorporate this sign as a hallmark of illness, but may or may not incorporate re-hydration therapies in treatment strategies. This report describes a study of lay descriptions of causes, symptoms, and treatments for caída de la mollera in three diverse Latin American populations. A mixed-methods approach was used. Representative community-based samples were interviewed in rural Guatemala, Guadalajara, Mexico, and Edinburgh, Texas, with a 132 item questionnaire on the causes, susceptibility, symptoms, and therapies for caída de la mollera. Cultural consensus analysis was used to estimate community beliefs about caída. Interviews conducted in rural Guatemala (n = 60), urban Mexico (n = 62), and rural Texas on the Mexican border (n = 61) indicated consistency in thematic elements within and among these three diverse communities. The high degree of consistency in the illness explanatory models indicated shared beliefs about caída de la mollera in each of the communities and a core model shared across communities. However, an important aspect of the community beliefs was that rehydration therapies were not widely endorsed. The consistency in explanatory models in such diverse communities, as well as the high degree of recognition and experience with this illness, may facilitate communication between community members, and health care providers/public health intervention planners to increase use of rehydration therapies for caída de la mollera. Recommendations for culturally informed and respectful approaches to clinical communication are provided. PMID:26239172

  7. Purification and properties of an oestrogen-stimulated mouse uterine glycoprotein (approx. 70 kDa).

    PubMed Central

    Teng, C T; Walker, M P; Bhattacharyya, S N; Klapper, D G; DiAugustine, R P; McLachlan, J A

    1986-01-01

    An oestrogen-induced secretory protein from mouse uterine luminal fluid was purified by CM-Affi-Gel Blue chromatography and reverse-phase h.p.l.c. This protein has an apparent molecular mass of approx. 70 kDa both by SDS/polyacrylamide-gel electrophoresis (with or without 2-mercaptoethanol) and by gel-filtration column chromatography, indicating that it exists as a single-chain polypeptide. Further analysis of the protein revealed that it is highly basic (pI greater than or equal to 10) and is a glycoprotein. The N-terminus appears to be blocked to Edman degradation. The partial amino acid sequence of a fragment was obtained by cleavage with CNBr; no sequence homology was apparent between the analysed fragment and other known sequences. The incorporation of [35S]methionine into uterine proteins in vitro revealed that oestrogen treatment of immature mice stimulates both synthesis and secretion of the 70 kDa protein. An enzyme-linked immunosorbent assay with polyclonal antibody was used to determine the tissue distribution of the protein. Tissues such as lung, brain, spleen, muscle, intestine, liver, kidney and ovary of oestrogen-treated mice did not have detectable amounts of the 70 kDa protein. Immunoreactivity was present in uterine and vaginal tissues from oestrogen-treated animals. The 70 kDa protein was not induced by testosterone or progesterone. Although the function of this protein is unknown, it is useful as a marker for the study of oestrogen action in the mammalian uterus as well as regulation of gene expression at the molecular level. Images Fig. 1. Fig. 2. Fig. 3. Fig. 4. Fig. 6. PMID:3814091

  8. Metal Lines in DA White Dwarfs

    NASA Astrophysics Data System (ADS)

    Zuckerman, B.; Koester, D.; Reid, I. N.; Hünsch, M.

    2003-10-01

    We report Keck telescope HIRES echelle observations of DA white dwarfs in a continuation of an extensive search for metals. These spectra are supplemented with new JHK magnitudes that are used to determine improved atmospheric parameters. Of the DA white dwarfs not in binary or common proper motion systems, about 25% show Ca II lines. For these, Ca abundances are determined from comparison with theoretical equivalent widths from model atmosphere calculations; in a few cases we also obtain Mg, Fe, Si, and Al abundances. If Ca is not observed, we generally determine very stringent upper limits. We compare the data to predictions of previously published models involving the accretion/diffusion of interstellar matter and of comets. The derived abundances are not obviously compatible with the predictions of either model, which up to now could only be tested with traces of metals in helium-rich white dwarfs. By modifying certain assumptions in the published interstellar accretion model we are able to match the distribution of the elements in the white dwarf atmospheres, but, even so, tests of other expectations from this scenario are less successful. Because comet accretion appears unlikely to be the primary cause of the DAZ phenomenon, the data suggest that no more than about 20% of F-type main-sequence stars are accompanied by Oort-like comet clouds. This represents the first observational estimate of this fraction. A plausible alternative to the accretion of cometary or interstellar matter is disruption and accretion of asteroidal material, a model first suggested in 1990 to explain excess near-infrared emission from the DAZ G29-38. An asteroidal debris model to account for the general DAZ phenomenon does not presently disagree with the HIRES data, but neither is there any compelling evidence in support of such a model. The HIRES data indicate that in close red dwarf/white dwarf binaries not known to be cataclysmic variables there is, nonetheless, significant mass

  9. Differential localization of processed fragments of Plasmodium falciparum serine repeat antigen and further processing of its N-terminal 47 kDa fragment.

    PubMed

    Li, Jie; Mitamura, Toshihide; Fox, Barbara A; Bzik, David J; Horii, Toshihiro

    2002-12-01

    The serine repeat antigen (SERA) of Plasmodium falciparum is a blood stage malaria vaccine candidate. It has been shown that 120 kDa SERA was proteolytically processed into N-terminal 47 kDa fragment (P47), central 56 kDa fragment (P56) that was further converted to 50 kDa (P50), and C-terminal 18 kDa fragment (P18). Here, we have examined the processing of SERA and the localization of its processed fragments by using mouse antibodies directed against recombinant proteins corresponding to different domains of SERA. Western blot analysis showed that all the processing events occurred inside parasitized erythrocytes at the stage just prior to the schizont rupture, that P47 was further processed into two 25 kDa fragments and that the two fragments, which were linked to P18 through disulfide bonds, were associated with the merozoite. In contrast, P50 was completely shed into culture medium and absent from the merozoite. This observation was further supported by the results of indirect immunofluorescence assay. These results could account for the findings that antibodies against P47 were inhibitory to the parasite growth in vitro but those against P50 were not. Finally, we demonstrated that the further processing of P47 is allelic type-dependent. The results of the present study would help in vaccine designing based on SERA. PMID:12421632

  10. Der Telemanipulator daVinci als mechanisches Trackingsystem

    NASA Astrophysics Data System (ADS)

    Käst, Johannes; Neuhaus, Jochen; Nickel, Felix; Kenngott, Hannes; Engel, Markus; Short, Elaine; Reiter, Michael; Meinzer, Hans-Peter; Maier-Hein, Lena

    Der Telemanipulator daVinci (Intuitive Surgical, Sunnyvale, Kalifornien) ist ein M aster-Slave System für roboterassistierte minimalinvasive Chirurgie. Da er über integrierte Gelenksensoren verfügt, kann er unter Verwendung der daVinci-API als mechanisches Trackingsystem verwendet werden. In dieser Arbeit evaluieren wir die Präzision und Genauigkeit eines daVinci mit Hilfe eines Genauigkeitsphantoms mit bekannten Maßen. Der ermittelte Positionierungsfehler liegt in der Größenordnung von 6 mm und ist somit für einen Großteil der medizinischen Fragestellungen zu hoch. Zur Reduktion des Fehlers schlagen wir daher eine Kalibrierung der Gelenksensoren vor.

  11. Quadrupole Ion Mass Spectrometer for Masses of 2 to 50 Da

    NASA Technical Reports Server (NTRS)

    Helms, William; Griffin, Timothy P.; Ottens, Andrew; Harrison, Willard

    2005-01-01

    A customized quadrupole ion-trap mass spectrometer (QITMS) has been built to satisfy a need for a compact, rugged instrument for measuring small concentrations of hydrogen, helium, oxygen, and argon in a nitrogen atmosphere. This QITMS can also be used to perform quantitative analyses of other gases within its molecular-mass range, which is 2 to 50 daltons (Da). (More precisely, it can be used to perform quantitative analysis of gases that, when ionized, are characterized by m/Z ratios between 2 and 50, where m is the mass of an ion in daltons and Z is the number of fundamental electric charges on the ion.

  12. Purification, characterization and allergenicity assessment of 26kDa protein, a major allergen from Cicer arietinum.

    PubMed

    Verma, Alok Kumar; Sharma, Akanksha; Kumar, Sandeep; Gupta, Rinkesh Kumar; Kumar, Dinesh; Gupta, Kriti; Giridhar, B H; Das, Mukul; Dwivedi, Premendra D

    2016-06-01

    Chickpea (CP), a legume of the family Fabaceae, is an important nutrient-rich food providing protein, essential amino acids, vitamins, dietary fibre, and minerals. Unfortunately, several IgE-binding proteins in CP have been detected that are responsible for allergic manifestations in sensitized population. Therefore, the prevalence of CP induced allergy prompted us towards purification, characterization and allergenicity assessment of a major ∼26kDa protein from chickpea crude protein extract (CP-CPE). Purification of CP 26kDa protein was done using a combination of fractionation and anion exchange chromatography. This protein was further characterized as "Chain A, crystal structure of a plant albumin" from Cicer arietinum with Mol wt 25.8kDa by Liquid chromatography-tandem mass spectrometry (LC-MS/MS) analysis. Further, allergenic potential of purified 25.8kDa protein was assessed using in vivo and in vitro model. Purified protein showed IgE-binding capacity with sensitized BALB/c mice and CP allergic patient's sera. Enhanced levels of specific and total IgE, MCP-1, MCPT-1, myeloperoxidase, histamine, prostaglandin D2, and cysteinyl leukotriene were found in sera of mice treated with CP ∼26kDa protein. Further, expressions of Th2 cytokines (i.e. IL-4, IL-5, IL-13), transcription factors (i.e. GATA-3, STAT-6, SOCS-3) and mast cell signaling proteins (Lyn, cFgr, Syk, PLC-γ2, PI-3K, PKC) were also found increased at mRNA and protein levels in the intestines of mice treated with CP ∼26kDa protein. In addition, enhanced release of β-hexosaminidase, histamine, cysteinyl leukotriene and prostaglandin D2 were observed in RBL2H3 cell line when treated (125μg) with CP 26kDa protein. Conclusively, in vivo and in vitro studies revealed the allergenic potential of purified CP 26kDa protein. Being a potential allergen, plant albumin may play a pivotal role in CP induced allergenicity. Current study will be helpful for better development of therapeutic approaches to

  13. Gene duplication confers enhanced expression of 27-kDa γ-zein for endosperm modification in quality protein maize.

    PubMed

    Liu, Hongjun; Shi, Junpeng; Sun, Chuanlong; Gong, Hao; Fan, Xingming; Qiu, Fazhan; Huang, Xuehui; Feng, Qi; Zheng, Xixi; Yuan, Ningning; Li, Changsheng; Zhang, Zhiyong; Deng, Yiting; Wang, Jiechen; Pan, Guangtang; Han, Bin; Lai, Jinsheng; Wu, Yongrui

    2016-05-01

    The maize opaque2 (o2) mutant has a high nutritional value but it develops a chalky endosperm that limits its practical use. Genetic selection for o2 modifiers can convert the normally chalky endosperm of the mutant into a hard, vitreous phenotype, yielding what is known as quality protein maize (QPM). Previous studies have shown that enhanced expression of 27-kDa γ-zein in QPM is essential for endosperm modification. Taking advantage of genome-wide association study analysis of a natural population, linkage mapping analysis of a recombinant inbred line population, and map-based cloning, we identified a quantitative trait locus (qγ27) affecting expression of 27-kDa γ-zein. qγ27 was mapped to the same region as the major o2 modifier (o2 modifier1) on chromosome 7 near the 27-kDa γ-zein locus. qγ27 resulted from a 15.26-kb duplication at the 27-kDa γ-zein locus, which increases the level of gene expression. This duplication occurred before maize domestication; however, the gene structure of qγ27 appears to be unstable and the DNA rearrangement frequently occurs at this locus. Because enhanced expression of 27-kDa γ-zein is critical for endosperm modification in QPM, qγ27 is expected to be under artificial selection. This discovery provides a useful molecular marker that can be used to accelerate QPM breeding. PMID:27092004

  14. Gene duplication confers enhanced expression of 27-kDa γ-zein for endosperm modification in quality protein maize

    PubMed Central

    Liu, Hongjun; Shi, Junpeng; Sun, Chuanlong; Gong, Hao; Fan, Xingming; Qiu, Fazhan; Huang, Xuehui; Feng, Qi; Zheng, Xixi; Yuan, Ningning; Li, Changsheng; Zhang, Zhiyong; Deng, Yiting; Wang, Jiechen; Pan, Guangtang; Han, Bin; Lai, Jinsheng; Wu, Yongrui

    2016-01-01

    The maize opaque2 (o2) mutant has a high nutritional value but it develops a chalky endosperm that limits its practical use. Genetic selection for o2 modifiers can convert the normally chalky endosperm of the mutant into a hard, vitreous phenotype, yielding what is known as quality protein maize (QPM). Previous studies have shown that enhanced expression of 27-kDa γ-zein in QPM is essential for endosperm modification. Taking advantage of genome-wide association study analysis of a natural population, linkage mapping analysis of a recombinant inbred line population, and map-based cloning, we identified a quantitative trait locus (qγ27) affecting expression of 27-kDa γ-zein. qγ27 was mapped to the same region as the major o2 modifier (o2 modifier1) on chromosome 7 near the 27-kDa γ-zein locus. qγ27 resulted from a 15.26-kb duplication at the 27-kDa γ-zein locus, which increases the level of gene expression. This duplication occurred before maize domestication; however, the gene structure of qγ27 appears to be unstable and the DNA rearrangement frequently occurs at this locus. Because enhanced expression of 27-kDa γ-zein is critical for endosperm modification in QPM, qγ27 is expected to be under artificial selection. This discovery provides a useful molecular marker that can be used to accelerate QPM breeding. PMID:27092004

  15. Loss of 45 Da from a2 Ions and Preferential Loss of 48 Da from a2 Ions Containing Methionine in Peptide Ion Tandem Mass Spectra

    NASA Astrophysics Data System (ADS)

    Simón-Manso, Yamil; Neta, Pedatsur; Yang, Xiaoyu; Stein, Stephen E.

    2011-02-01

    While analyzing tandem mass spectra of tryptic tripeptides, intense unassigned peaks were observed, corresponding to neutral loss of 45 Da from a2 ions. This process was confirmed by MS3 experiments. Based on exact mass analysis, the loss was ascribed to (NH3 + CO) or formamide. The proposed mechanism involves a cyclic form of the a2 ions. The structure of the a2 - 45 ions was confirmed by their fragmentation in MS3 experiments. Loss of (NH3 + CO) from the a2 ions occurs in competition with other paths, such as the loss of H2O or the formation of immonium ions. However, if the a2 ion contains methionine, a neutral loss of 48 Da (ascribed to CH3SH) predominates, and is followed by the loss of (NH3 + CO). These processes were confirmed by MS3 experiments. The intensity of the a2 - 48 peak formed from XaaMet has a maximum value of 42% (of the total intensity of all ions) for Xaa=Gly, varies between 15% and 40% for most other Xaa residues, is lower for residues that can undergo loss of water or ammonia, and is very low for Lys or Arg. When the order of the residues is reversed to MetXaa, the loss of 48 Da is much smaller. This effect can be used to determine the sequence of b2 ions containing Met in proteomic studies. Considerable loss of CH3SH is observed from doubly protonated tryptic tripeptides with N-terminal Met, but the loss is much less when they are singly protonated or when Met is in the center position.

  16. Tree Branching: Leonardo da Vinci's Rule versus Biomechanical Models

    PubMed Central

    Minamino, Ryoko; Tateno, Masaki

    2014-01-01

    This study examined Leonardo da Vinci's rule (i.e., the sum of the cross-sectional area of all tree branches above a branching point at any height is equal to the cross-sectional area of the trunk or the branch immediately below the branching point) using simulations based on two biomechanical models: the uniform stress and elastic similarity models. Model calculations of the daughter/mother ratio (i.e., the ratio of the total cross-sectional area of the daughter branches to the cross-sectional area of the mother branch at the branching point) showed that both biomechanical models agreed with da Vinci's rule when the branching angles of daughter branches and the weights of lateral daughter branches were small; however, the models deviated from da Vinci's rule as the weights and/or the branching angles of lateral daughter branches increased. The calculated values of the two models were largely similar but differed in some ways. Field measurements of Fagus crenata and Abies homolepis also fit this trend, wherein models deviated from da Vinci's rule with increasing relative weights of lateral daughter branches. However, this deviation was small for a branching pattern in nature, where empirical measurements were taken under realistic measurement conditions; thus, da Vinci's rule did not critically contradict the biomechanical models in the case of real branching patterns, though the model calculations described the contradiction between da Vinci's rule and the biomechanical models. The field data for Fagus crenata fit the uniform stress model best, indicating that stress uniformity is the key constraint of branch morphology in Fagus crenata rather than elastic similarity or da Vinci's rule. On the other hand, mechanical constraints are not necessarily significant in the morphology of Abies homolepis branches, depending on the number of daughter branches. Rather, these branches were often in agreement with da Vinci's rule. PMID:24714065

  17. 40 CFR 60.49Da - Emission monitoring.

    Code of Federal Regulations, 2013 CFR

    2013-07-01

    ... affected unit that qualifies as a gas-fired or oil-fired unit, as defined in 40 CFR 72.2, may use, as an... 40 Protection of Environment 7 2013-07-01 2013-07-01 false Emission monitoring. 60.49Da Section 60... Generating Units § 60.49Da Emission monitoring. (a) An owner or operator of an affected facility subject...

  18. 40 CFR 60.49Da - Emission monitoring.

    Code of Federal Regulations, 2010 CFR

    2010-07-01

    ... affected unit that qualifies as a gas-fired or oil-fired unit, as defined in 40 CFR 72.2, may use, as an... 40 Protection of Environment 6 2010-07-01 2010-07-01 false Emission monitoring. 60.49Da Section 60... Generating Units for Which Construction is Commenced After September 18, 1978 § 60.49Da Emission...

  19. 40 CFR 60.49Da - Emission monitoring.

    Code of Federal Regulations, 2014 CFR

    2014-07-01

    ... affected unit that qualifies as a gas-fired or oil-fired unit, as defined in 40 CFR 72.2, may use, as an... 40 Protection of Environment 7 2014-07-01 2014-07-01 false Emission monitoring. 60.49Da Section 60... Generating Units § 60.49Da Emission monitoring. (a) An owner or operator of an affected facility subject...

  20. A comparative study of DA-9601 and misoprostol for prevention of NSAID-associated gastroduodenal injury in patients undergoing chronic NSAID treatment.

    PubMed

    Lee, Oh Young; Kang, Dae-Hwan; Lee, Dong Ho; Chung, Il-Kwun; Jang, Jae Young; Jang, Jae-Young; Kim, Jin-Il; Cho, Jin-Woong; Rew, Jong-Sun; Lee, Kang-Moon; Kim, Kyoung Oh; Choi, Myung-Gyu; Lee, Sang-Woo; Lee, Soo-Teik; Kim, Tae-Oh; Shin, Yong-Woon; Seol, Sang-Yong

    2014-10-01

    Misoprostol is reported to prevent non-steroidal anti-inflammatory drug (NSAID)-associated gastroduodenal complications. There is, however, limited information regarding the efficacy of DA-9601 in this context. We performed a comparative study on the relative efficacy of DA-9601 and misoprostol for prevention of NSAID-associated complications. In this multicenter, double-blinded, active-controlled, stratified randomized, parallel group, non-inferiority trial, 520 patients who were to be treated with an NSAID (aceclofenac, 100 mg, twice daily) over a 4-week period were randomly assigned to groups for coincidental treatment with DA-9601 (60 mg, thrice daily) (236 patients for full analysis) or misoprostol (200 μg, thrice daily) (242 patients for full analysis). [corrected]. The primary endpoint was the gastric protection rate, and secondary endpoints were the duodenal protection rate and ulcer incidence rate. Endpoints were assessed by endoscopy after the 4-week treatment period. Drug-related adverse effects, including gastrointestinal (GI) symptoms, were also compared. At week 4, the gastric protection rates with DA-9601 and misoprostol were 81.4 % (192/236) and 89.3 % (216/242), respectively. The difference between the groups was -14.2 %, indicating non-inferiority of DA-9601 to misoprostol. Adverse event rates were not different between the two groups; however, the total scores for GI symptoms before and after administration were significantly lower in the DA-9601 group than in the misoprostol group (-0.2 ± 2.8 vs 1.2 ± 3.2; p < 0.0001). DA-9601 is as effective as misoprostol in preventing NSAID-associated gastroduodenal complications, and has a superior adverse GI effect profile. PMID:24871787

  1. Localization of the 70-kDa peroxisomal membrane protein to human 1p21-p22 and mouse 3

    SciTech Connect

    Gaertner, J.; Kearns, W.; Rosenberg, C.; Pearson, P.; Valle, D. ); Copeland, N.G.; Gilbert, D.J.; Jenkins, N.A. )

    1993-02-01

    The 70-kDa peroxisomal membrane protein (PXMPI) is a member of the ATP-binding cassette transporter family. In humans, mutations in this gene may be responsible for a subset of patients with Zellweger syndrome, a lethal inborn error of peroxisome assembly. The PXMPI gene was assigned to human chromosome 1p21-p22 by in situ hybridization and its murine homologue (Pxmp-1) to chromosome 3 by interspecific backcross analysis. 19 refs., 2 figs.

  2. Allergenic Characterization of 27-kDa Glycoprotein, a Novel Heat Stable Allergen, from the Pupa of Silkworm, Bombyx mori

    PubMed Central

    Son, Mina; Lee, June Yong

    2016-01-01

    Boiled silkworm pupa is a traditional food in Asia, and patients with silkworm pupa food allergy are common in these regions. Still now only one allergen from silkworm, arginine kinase, has been identified. The purpose of this study was to identify novel food allergens in silkworm pupa by analyzing a protein extract after heat treatment. Heat treated extracts were examined by proteomic analysis. A 27-kDa glycoprotein was identified, expressed in Escherichia coli, and purified. IgE reactivity of the recombinant protein was investigated by ELISA. High molecular weight proteins (above 100 kDa) elicited increased IgE binding after heat treatment compared to that before heat treatment. The molecular identities of these proteins, however, could not be determined. IgE reactivity toward a 27-kDa glycoprotein was also increased after heating the protein extract. The recombinant protein was recognized by IgE antibodies from allergic subjects (33.3%). Glycation or aggregation of protein by heating may create new IgE binding epitopes. Heat stable allergens are shown to be important in silkworm allergy. Sensitization to the 27-kDa glycoprotein from silkworm may contribute to elevation of IgE to silkworm. PMID:26770033

  3. Allergenic Characterization of 27-kDa Glycoprotein, a Novel Heat Stable Allergen, from the Pupa of Silkworm, Bombyx mori.

    PubMed

    Jeong, Kyoung Yong; Son, Mina; Lee, June Yong; Park, Kyung Hee; Lee, Jae-Hyun; Park, Jung-Won

    2016-01-01

    Boiled silkworm pupa is a traditional food in Asia, and patients with silkworm pupa food allergy are common in these regions. Still now only one allergen from silkworm, arginine kinase, has been identified. The purpose of this study was to identify novel food allergens in silkworm pupa by analyzing a protein extract after heat treatment. Heat treated extracts were examined by proteomic analysis. A 27-kDa glycoprotein was identified, expressed in Escherichia coli, and purified. IgE reactivity of the recombinant protein was investigated by ELISA. High molecular weight proteins (above 100 kDa) elicited increased IgE binding after heat treatment compared to that before heat treatment. The molecular identities of these proteins, however, could not be determined. IgE reactivity toward a 27-kDa glycoprotein was also increased after heating the protein extract. The recombinant protein was recognized by IgE antibodies from allergic subjects (33.3%). Glycation or aggregation of protein by heating may create new IgE binding epitopes. Heat stable allergens are shown to be important in silkworm allergy. Sensitization to the 27-kDa glycoprotein from silkworm may contribute to elevation of IgE to silkworm. PMID:26770033

  4. PKC phosphorylates residues in the N-terminal of the DA transporter to regulate amphetamine-induced DA efflux.

    PubMed

    Wang, Qiang; Bubula, Nancy; Brown, Jason; Wang, Yunliang; Kondev, Veronika; Vezina, Paul

    2016-05-27

    The DA transporter (DAT), a phosphoprotein, controls extracellular dopamine (DA) levels in the central nervous system through transport or reverse transport (efflux). Multiple lines of evidence support the claim that PKC significantly contributes to amphetamine-induced DA efflux. Other signaling pathways, involving CaMKII and ERK, have also been shown to regulate DAT mediated efflux. Here we assessed the contribution of putative PKC residues (S4, S7, S13) in the N-terminal of the DAT to amphetamine-induced DA efflux by transfecting DATs containing different serine to alanine (S-A) point mutations into DA pre-loaded HEK-293 cells and incubating these cells in amphetamine (2μM). The effects of a S-A mutation at the non-PKC residue S12 and a threonine to alanine (T-A) mutation at the ERK T53 residue were also assessed for comparison. WT-DATs were used as controls. In an initial experiment, we confirmed that inhibiting PKC with Go6976 (130nM) significantly reduced amphetamine-induced DA efflux. In subsequent experiments, cells transfected with the S4A, S12A, S13A, T53A and S4,7,13A mutants showed a reduction in amphetamine-induced DA efflux similar to that observed with Go6976. Interestingly, cells transfected with the S7A mutant, identified by some as a PKC-PKA residue, showed unperturbed WT-DAT levels of amphetamine-induced DA efflux. These results indicate that phosphorylation by PKC of select residues in the DAT N-terminal can regulate amphetamine-induced efflux. PKC can act either independently or in concert with other kinases such as ERK to produce this effect. PMID:27113203

  5. The magmatic source of the Tristan da Cunha hotspot: Implication from electrical conductivity

    NASA Astrophysics Data System (ADS)

    Chen, Jin; Baba, Kiyoshi; Jegen, Marion; Utada, Hisashi; Geissler, Wolfram; Jokat, Wilfried

    2016-04-01

    Tristan da Cunha Island is one of the classical hot spots in the Atlantic Ocean, situated at the western end of the aseismic Walvis Ridge which forms a connection to the Cretaceous Etendeka flood basalt province in northwestern Namibia. The discussion about its source (in shallow asthenosphere or deeper mantle) have not reached consensus yet because of lack of the geophysical observations in the area. A marine magnetotelluric (MT) experiment was conducted together with seismological observations in the area in 2012-2013 through a German-Japanese collaboration with the goal to constrain the physical state of the mantle beneath the area. A total of 26 MT seafloor stations were deployed around the Tristan da Cunha Islands and available data were retrieved and processed from 24 stations. We applied iterative topographic effect correction and one-dimensional (1-D) conductivity structure inversion to the data. Then, three-dimensional (3-D) inversion analysis incorporating the topographic effect was carried out, using the 1-D model as the initial model. The local small-scale topography and the far continental coast effects are incorporated as the distortion term in the 3-D inversion. The preliminary result of our analysis shows no evidence of a significant conductive anomaly arising from the mantle transition zone, suggesting that the current magmatic source (major place of melting) of the hotspot activity is in the shallow upper mantle. This is in contrast to results from geochemical analysis, in which samples along the Tristan track exhibit an ocean-island-basalt-type incompatible element pattern pointing to a deep mantle source of the melt. Our findings therefore might indicate that the deep mantle up-welling underneath Tristan da Cunha Islands may be almost dead. A conductive anomaly at approx. 100 km depth in our derived conductivity model to the southwest of Tristan da Cunha Islands suggests an interaction between the mid-ocean ridge and/or up-welling further south

  6. Discourse analysis and social constructionism.

    PubMed

    White, Robert

    2004-01-01

    Discourse analysis (DA) is underpinned by a social constructionist orientation to knowledge. Social constructionism rests on the philosophical assumptions that multiple versions of the world are legitimate; that texts are open to multiple readings; and that language is non-representational. As social constructionism is relativistic, the status of 'evidence' generated by DA is questionable from more traditional research perspectives. On a common-sense level, people obviously construct meaning in relation to their lives. Thus, DA can help us to examine constructions of meaning in relation to nursing care. Equally the discourse analyst constructs one possible meaning in relation to a phenomenon that may compete with other versions. Multiplicity does not necessarily entail anarchy and competing versions prevent authoritarianism and loss of freedom. However, judgements have to be made about competing versions, for example, by assessing the level of 'facticity', or referring to the ethics embedded in the cultural context. In this paper, Bob White discusses DA as a form of qualitative research that offers promise for nursing research. Subsequent papers will examine the methodology and methods of DA and its application to nursing research. PMID:15636002

  7. Atmospheric parameters of a soft X ray selected set of hot DA white dwarfs

    NASA Astrophysics Data System (ADS)

    Kidder, Kenneth Mark

    Soft x-ray/EUV observations provide a sensitive means of probing the structure and composition of the atmospheres of hot hydrogen-rich (DA) white dwarf stars. This is due to the fact that soft x-rays originate from hotter, deeper layers of the photosphere than do longer wavelengths. A primary aim of this research is to expand the sample of DA's observed with soft x-ray instrumentation through a search for serendipitous observations of catalogued hot DA white dwarfs in existing soft x-ray databases. The positional coincidences of 31 catalogued DA's (McCook and Sion 1987) were examined in Einstein IPC and EXOSAT LE fields. As a result, three soft x-ray sources have been identified corresponding to the white dwarfs (WD0631 + 107, WD1113 + 413 and WD0425 + 168) and a fourth source which is probably not due to photospheric thermal emission from the coincident white dwarf. The three detected DA's have relatively low effective temperatures (27,200 +/- 400 K, 26,200 +/- 1100 K and 24,000 +/- 500 K, respectively), as determined independently using complementary optical and UV spectroscopy. Applying these temperature constraints to the soft x-ray photometric data, the photospheres of these stars must be composed of effectively pure hydrogen (n(He)/n(H) less than 10 exp -5), although the hottest star, WD0631 + 107, can have trace levels of homogeneously mixed helium less than 10 exp -4.2. The analysis of the soft x-ray observations are supplemented with independent determinations of temperature, gravity, and V magnitude. The method of determination employed is to fit the well-sampled wings of the broad hydrogen absorption profiles with self-consistent model atmosphere predictions. Precise temperatures and gravities are obtained by fitting the observed profiles independently, then jointly determining a consistent solution for each object. In this effort, a ground-based observation program was established to obtain high quality spectra of the Balmer delta and gamma lines and in

  8. Distributed data analysis in ATLAS

    NASA Astrophysics Data System (ADS)

    Nilsson, Paul; Atlas Collaboration

    2012-12-01

    Data analysis using grid resources is one of the fundamental challenges to be addressed before the start of LHC data taking. The ATLAS detector will produce petabytes of data per year, and roughly one thousand users will need to run physics analyses on this data. Appropriate user interfaces and helper applications have been made available to ensure that the grid resources can be used without requiring expertise in grid technology. These tools enlarge the number of grid users from a few production administrators to potentially all participating physicists. ATLAS makes use of three grid infrastructures for the distributed analysis: the EGEE sites, the Open Science Grid, and Nordu Grid. These grids are managed by the gLite workload management system, the PanDA workload management system, and ARC middleware; many sites can be accessed via both the gLite WMS and PanDA. Users can choose between two front-end tools to access the distributed resources. Ganga is a tool co-developed with LHCb to provide a common interface to the multitude of execution backends (local, batch, and grid). The PanDA workload management system provides a set of utilities called PanDA Client; with these tools users can easily submit Athena analysis jobs to the PanDA-managed resources. Distributed data is managed by Don Quixote 2, a system developed by ATLAS; DQ2 is used to replicate datasets according to the data distribution policies and maintains a central catalog of file locations. The operation of the grid resources is continually monitored by the Ganga Robot functional testing system, and infrequent site stress tests are performed using the Hammer Cloud system. In addition, the DAST shift team is a group of power users who take shifts to provide distributed analysis user support; this team has effectively relieved the burden of support from the developers.

  9. Adsorptive Films in Support of In-field UF6 Destructive Assay Sample Collection and Analysis

    SciTech Connect

    Barrett, Christopher A.; Martinez, Alonzo; McNamara, Bruce K.; Cannon, Bret D.; Anheier, Norman C.

    2014-07-20

    International Atom Energy Agency (IAEA) safeguard verification measures in gaseous centrifuge enrichment plants (GCEPs) rely on environmental sampling, non-destructive assay (NDA), and destructive assay (DA) sampling and analysis to determine uranium enrichment. UF6 bias defect measurements are made by DA sampling and analysis to assure that enrichment is consistent with declarations. DA samples are collected from a limited number of cylinders for high precision, offsite mass spectrometer analysis. Samples are typically drawn from a sampling tap into a UF6 sample bottle, then packaged, sealed, and shipped under IAEA chain of custody to an offsite analytical laboratory. Future DA safeguard measures may require improvements in efficiency and effectiveness as GCEP capacities increase and UF6 shipping regulations become increasingly more restrictive. The Pacific Northwest National Laboratory (PNNL) DA sampler concept and Laser Ablation Absorption Ratio Spectrometry (LAARS) assay method are under development to potentially provide DA safeguard tools that increase inspection effectiveness and reduce sample shipping constraints. The PNNL DA sampler concept uses a handheld sampler to collect DA samples for either onsite LAARS assay or offsite laboratory analysis. The DA sampler design will use a small sampling planchet that is coated with an adsorptive film to collect controlled quantities of UF6 gas directly from a cylinder or process sampling tap. Development efforts are currently underway at PNNL to enhance LAARS assay performance to allow high-precision onsite bias defect measurements. In this paper, we report on the experimental investigation to develop adsorptive films for the PNNL DA sampler concept. These films are intended to efficiently capture UF6 and then stabilize the collected DA sample prior to onsite LAARS or offsite laboratory analysis. Several porous material composite films were investigated, including a film designed to maximize the chemical adsorption

  10. Genes influencing spinal bone mineral density in inbred F344, LEW, COP, and DA rats

    PubMed Central

    Alam, Imranul; Sun, Qiwei; Koller, Daniel L.; Liu, Lixiang; Liu, Yunlong; Edenberg, Howard J.; Foroud, Tatiana

    2009-01-01

    Previously, we identified the regions of chromosomes 10q12–q31 and 15p16–q21 harbor quantitative trait loci (QTLs) for lumbar volumetric bone mineral density (vBMD) in female F2 rats derived from Fischer 344 (F344) × Lewis (LEW) and Copenhagen 2331 (COP) × Dark Agouti (DA) crosses. The purpose of this study is to identify the candidate genes within these QTL regions contributing to the variation in lumbar vBMD. RNA was extracted from bone tissue of F344, LEW, COP, and DA rats. Microarray analysis was performed using Affymetrix Rat Genome 230 2.0 Arrays. Genes differentially expressed among the rat strains were then ranked based on the strength of the correlation with lumbar vBMD in F2 animals derived from these rats. Quantitative PCR (qPCR) analysis was performed to confirm the prioritized candidate genes. A total of 285 genes were differentially expressed among all strains of rats with a false discovery rate less than 10%. Among these genes, 18 candidate genes were prioritized based on their strong correlation (r2 > 0.90) with lumbar vBMD. Of these, 14 genes (Akap1, Asgr2, Esd, Fam101b, Irf1, Lcp1, Ltc4s, Mdp-1, Pdhb, Plxdc1, Rabep1, Rhot1, Slc2a4, Xpo4) were confirmed by qPCR. We identified several novel candidate genes influencing spinal vBMD in rats. PMID:19841953

  11. A cosmologia no ensino da geografia

    NASA Astrophysics Data System (ADS)

    Santos, S. C.; Chiaradia, A. P. M.

    2003-08-01

    O principal objetivo deste trabalho é auxiliar o professor de Geografia em sala de aula no ensino de tópicos relacionados com a Cosmologia. A idéia deste trabalho surgiu quando foi constatado que o professor de Geografia tem dificuldades de ensinar este tópico. Esta constatação foi feita por uma das autoras ao lecionar este tópico no ensino fundamental e em discussões com outros professores de Geografia. Da mesma maneira que ocorria desde os tempos mais antigos, os alunos têm muito interesse em conhecer os fenômenos que ocorrem no Cosmo, porém os livros didáticos de Geografia utilizados em sala de aula não são ricos em informações sobre este assunto. Assim, o professor de Geografia tem poucas informações para discutir este assunto em sala de aula e não dá a devida importância para este tópico. Então, foi desenvolvido um material de apoio para professores de Geografia sobre a origem do Universo, sua evolução e seu possível futuro evolutivo segundo as mais recentes teorias, com base em perguntas feitas pelos alunos de ensino fundamental e as informações trazidas nos livros didáticos Não cabe a este material inovar e tão pouco trazer uma metodologia de ensino de Cosmologia. Neste material o professor de Geografia pode encontrará um banco de informações, que constitui no estabelecimento de conceitos, teorias e hipóteses, sobre a Cosmologia, em linguagem simples e de fácil entendimento. Para desenvolvê-lo, foram feitas pesquisas não exaustivas em livros e revistas científicas, compilação e discussão em forma cronológica das teorias aceitas sobre modelos cosmológicos. Portanto, este material será apresentado neste trabalho.

  12. A 31-kDa seminal plasma heparin-binding protein reduces cold shock stress during cryopreservation of cross-bred cattle bull semen.

    PubMed

    Patel, M K; Cheema, R S; Bansal, A K; Gandotra, V K

    2016-10-01

    In the present study, a 31-kDa protein, purified from cattle bull seminal plasma heparin-binding proteins (SP-HBP), was characterized by sodium dodecyl sulfate-polyacrylamide gel electrophoresis and mass spectrometry. Raw semen of six cross-bred bulls was treated with 31-kDa HBP before cryopreservation to observe its effect on motility, viability, hypo-osmotic swelling test, acrosome integrity, in vitro capacitation/acrosome reaction, and oxidative stress at pre-freeze and frozen-thawed phases of cryopreservation. Sodium dodecyl sulfate-polyacrylamide gel electrophoresis of 31-kDa protein eluted and purified from SP-HBP (separated on acrylamide gels) resulted in a single band of 40 kDa. In matrix-assisted laser desorption/ionization-time of flight analysis, 12 peptides were identified with matching significantly (P < 0.05) to interlukin-6 of bovine with a top score of 55. Addition of 25 μg/mL of fluorescein isothiocyanate-conjugated 31-kDa protein to raw semen and incubation at 37 °C for 20 minutes before cryopreservation resulted in its binding mainly to head region. Treatment of semen with 31-kDa HBP resulted in a significant (P < 0.05) average increase of 9.2%, 6.8%, and 11.7% and 5.5%, 6.5%, and 11.0% in motile, viable, hypo-osmotic swelling-responsive spermatozoa in six bulls at pre-freeze and frozen-thawed phases of cryopreservation, respectively. Percentage of spermatozoa with intact acrosomes nonsignificantly enhanced in the semen treated with 31-kDa HBP at both phases of cryopreservation. An average nonsignificant increase of 3.1% in in vitro capacitated and acrosome-reacted spermatozoa was obtained in semen supplemented with 31-kDa HBP. Addition of 31-kDa HBP also nonsignificantly reduced Malonadialdehyde (MDA) level by 10.7 and 19.3 μM/10(9) spermatozoa in prefrozen and frozen-thawed semen, respectively. The results obtained here indicate to conclude that treatment of cross-bred cattle bull semen with 31-kDa HBP protects the spermatozoa

  13. 7 CFR 58.812 - Methods of sample analysis.

    Code of Federal Regulations, 2010 CFR

    2010-01-01

    ... 7 Agriculture 3 2010-01-01 2010-01-01 false Methods of sample analysis. 58.812 Section 58.812... Procedures § 58.812 Methods of sample analysis. Samples shall be tested according to the applicable methods of laboratory analysis contained in either DA Instruction 918-RL, as issued by the USDA,...

  14. 7 CFR 58.245 - Method of sample analysis.

    Code of Federal Regulations, 2010 CFR

    2010-01-01

    ... 7 Agriculture 3 2010-01-01 2010-01-01 false Method of sample analysis. 58.245 Section 58.245... Procedures § 58.245 Method of sample analysis. Samples shall be tested according to the applicable methods of laboratory analysis contained in either DA Instruction 918-RL as issued by the USDA, Agricultural...

  15. Two-dimensional electrophoresis analysis of proteins extracted from Alexandrium sp. LC3

    NASA Astrophysics Data System (ADS)

    Li, Hao; Miao, Jinlai; Cui, Fengxia; Li, Guangyou

    2007-10-01

    Two-dimensional electrophoresis(2-DE) of protein extracted and purified from Alexandrium sp. LC3 was conducted. In the SDS-PAGE study, the relative molecular weights of the proteins were mainly in the range of 14kDa-31kDa and 43kDa-66kDa, and more proteins were detected between 14kDa and 31kDa. With the improved protein preparation, the two-dimensional electrophoresis patterns indicated that the relative molecular weights of the proteins were between 14kDa and 100kDa, and most of them ranged from 14kDa to 31kDa. This was consistent with the result of the SDS-PAGE analysis. The isoelectric points were found to lie between 3.0 and 8.0, and most of them were in the range of 3.0 6.0. Better separation effect was acquired with pre-prepared immobilized gradient (IPG) strip (pH3 5.6), and about 320 protein spots could be visualized on the 2-DE map by staining. Within pH3 10 and pH3 5.6 strips, the protein samples of Alexandrium sp. LC3 could be separated well.

  16. Geomagnetic observations on tristan da cunha, south atlantic ocean

    USGS Publications Warehouse

    Matzka, J.; Olsen, N.; Maule, C.F.; Pedersen, L.W.; Berarducci, A.M.; Macmillan, S.

    2009-01-01

    Few geomagnetic ground observations exist of the Earth's strongest core field anomaly, the South Atlantic Anomaly (SAA). The geomagnetic repeat station on the island Tristan da Cunha, located half-way between South Africa and South America at 37?? 05' S, 12?? 18' W, is therefore of crucial importance. We have conducted several sets of repeat station measurements during magnetically quiet conditions (Kp 2o or less) in 2004. The procedures are described and the results are compared to those from earlier campaigns and to the predictions of various global field models. Features of the local crustal bias field and the solar quiet daily variation are discussed. We also evaluate the benefit of continuous magnetic field recordings from Tristan da Cunha, and argue that such a data set is a very valuable addition to geomagnetic satellite data. Recently, funds were set up to establish and operate a magnetometer station on Tristan da Cunha during the Swarm magnetic satellite mission (2011-2014).

  17. Using OPLS-DA to find new hypotheses in vast amounts of gene expression data - studying the progression of cardiac hypertrophy in the heart of aorta ligated rat.

    PubMed

    Gennebäck, Nina; Malm, Linus; Hellman, Urban; Waldenström, Anders; Mörner, Stellan

    2013-06-10

    One of the great problems facing science today lies in data mining of the vast amount of data. In this study we explore a new way of using orthogonal partial least squares-discrimination analysis (OPLS-DA) to analyze multidimensional data. Myocardial tissues from aorta ligated and control rats (sacrificed at the acute, the adaptive and the stable phases of hypertrophy) were analyzed with whole genome microarray and OPLS-DA. Five functional gene transcript groups were found to show interesting clusters associated with the aorta ligated or the control animals. Clustering of "ECM and adhesion molecules" confirmed previous results found with traditional statistics. The clustering of "Fatty acid metabolism", "Glucose metabolism", "Mitochondria" and "Atherosclerosis" which are new results is hard to interpret, thereby being possible subject to new hypothesis formation. We propose that OPLS-DA is very useful in finding new results not found with traditional statistics, thereby presenting an easy way of creating new hypotheses. PMID:23523859

  18. A stable and functional single peptide phycoerythrin (15.45 kDa) from Lyngbya sp. A09DM.

    PubMed

    Sonani, Ravi Raghav; Rastogi, Rajesh Prasad; Joshi, Meghna; Madamwar, Datta

    2015-03-01

    A functional and stable truncated-phycoerythrin (T-PE) was found as a result of spontaneous in vitro truncation. Truncation was noticed to occur during storage of purified native-phycoerythrin (N-PE) isolated from Lyngbya sp. A09DM. SDS and native-PAGE analysis revealed the truncation of N-PE, containing α (19.0 kDa)--and β (21.5 kDa)--subunits to the only single peptide of ∼15.45 kDa (T-PE). The peptide mass fingerprinting (PMF) and MS/MS analysis indicated that T-PE is the part of α-subunit of N-PE. UV-visible absorption peak of N-PE was found to split into two peaks (540 and 565 nm) after truncation, suggesting the alterations in its folded state. The emission spectra of both N-PE and T-PE show the emission band centered at 581 nm (upon excitation at 559 nm) suggested the maintenance of fluorescence even after significant truncation. Urea-induced denaturation and Gibbs-free energy (ΔGD°) calculations suggested that the folding and structural stability of T-PE was almost similar to that of N-PE. Presented bunch of evidences revealed the truncation in N-PE without perturbing its folding, structural stability and functionality (fluorescence), and thereby suggested its applicability in fluorescence based biomedical techniques where smaller fluorescence molecules are more preferable. PMID:25485942

  19. Situação da Mulher na Astronomia Brasileira

    NASA Astrophysics Data System (ADS)

    Silva, Adriana V. R.

    2007-07-01

    O conteúdo desse texto surgiu de uma apresentação de mesmo título que fiz na XXXI Reunião Anual da Sociedade Astronômica Brasileira (SAB) em 2005. Esse tema foi inspirado originalmente pela minha participação no "2nd UIPAP International Conference on Women in Physics" realizado entre 23 e 25 de maio de 2005 no Rio de Janeiro. Essa é uma conferência internacional que acontece de três em três anos, sendo que a primeira ocorreu em 2002 na cidade de Paris, França. Participei dessa conferência como membro da delegação da Sociedade Brasileira de Física e um dos trabalhos que apresentei versava sobre a situação das mulheres na Astronomia brasileira, cujos resultados principais discorro a seguir. A situação das astrônomas, baseada nos dados dos sócios da SAB coletados no final de 2004, é comparada com a das físicas brasileiras e também com as nossas colegas americanas. Os dados identificam ainda uma maior evasão da carreira por parte das mulheres do que os homens. Alguns dos possíveis motivos da evasão são discutidos, como o desejo de constituir família e/ou isolamento. Resultados um tanto preocupantes com relação à distribuição de bolsas de produtividade do CNPq também são apresentados. As principais discussões e estratégias recomendadas nesse congresso são mencionadas de forma resumida ao final.

  20. Publishing Planetary Data to the VO using DaCHS

    NASA Astrophysics Data System (ADS)

    Demleitner, M.

    2014-04-01

    Publishing to the Virtual Observatory has many advantages, but between standards compliance, registration, data organisation, and server operation it is also requires a nontrivial effort if starting from scratch. The DaCHS software from the German Astrophysical Virtual Observatory offers a packaged solution letting publishers concentrate on working with their own data and metadata as much as possible. For the planetary community, publishing is further facilitated by built-in support for the EPN-TAP data model. This contribution will show a typical publishing workflow together with a brief overview of how DaCHS meshes in with the VO and Web-based data usage.

  1. Asteroid 1986 DA - Radar evidence for a metallic composition

    NASA Technical Reports Server (NTRS)

    Ostro, S. J.; Rosema, K. D.; Campbell, D. B.; Chandler, J. F.; Hine, A. A.; Hudson, R. S.

    1991-01-01

    Echoes from the near-earth object 1986 DA show it to be significantly more reflective than other radar-detected asteroids. This result supports the hypothesis that 1986 DA is a piece of NiFe metal derived from the interior of a much larger object that melted, differentiated, cooled, and subsequently was disrupted in a catastrophic collision. This 2-kilometer asteroid, which appears smooth at centimeter to meter scales but extremely irregular at 10- to 100-meter scales, might be (or have been a part of) the parent body of some iron meteorites.

  2. [The "myologie dynamique" by Girolamo Fabrizi da Aquapendente in the scientific language in the Renaissance age (XVI-XVII)].

    PubMed

    Stroppiana, L

    1989-01-01

    Beginning from the XV century, mechanical materialism underwent an evolution in "biological mechanics" within the scientific doctrine. Among the greatest exponents of this new current there were two Italian men, Leonardo da Vinci (1452-1519) and Girolamo da Acquapendente (1533-1619). By the trend given by Leonardo, the myology, instead of being a static science, took a dynamic meaning and valence. Later, Fabrizi resumed and investigated the subject above all in its less known expression, elaborating an original theory. With Acquapendente, the anatomy lost its merely descriptive pecularity and evolved in analysis of the structure in connection with the function. Moreover, he opposed the syllogism against the mechanic language and the mathematical formulation. A new scientific way will be afterwards characterized by Galileo Galilei in the field of the physics and by Giovanni Alfonso Borrelli in the biology. PMID:11640090

  3. Expression of surface-associated 82kDa-proMMP-9 in primary acute leukemia blast cells inversely correlates with patients' risk.

    PubMed

    Schmohl, Joerg; Santovito, Donato; Guenther, Thomas; Sutanto, Wishnu; Kroell, Tanja; Salih, Helmut; Pitsch, Thomas; Egea, Virginia; Weber, Christian; Schmetzer, Helga; Ries, Christian

    2016-05-01

    With its ability to degrade extracellular matrix proteins and activate growth factors and cytokines, matrix metalloproteinase (MMP)-9 is an important regulator of cell function. Previously, we reported that myeloid leukemic cells express a unique 82kDa-proMMP-9 variant on their cell surface that is not affected by its natural inhibitor. In this study, we generated monoclonal antibodies that specifically recognize 82kDa-proMMP-9. Flow cytometry analysis using these antibodies revealed significant surface expression of 82kDa-proMMP-9 in monocytes, but minimal amounts in T and B cells isolated from peripheral blood of nine healthy donors and 22 patients with acute myeloid leukemia (AML). In all AML patients, blasts expressed 82kDa-proMMP-9 at levels of 4%-46%, with significantly higher levels in patients with a better risk defined according to National Comprehensive Cancer Network (NCCN) guidelines (ρ = -0.748, p < 0.001) and favorable phenotype according to the French-American-British classification (p = 0.02) compared with patients with adverse prognoses. Receiver operating characteristic curve analysis confirmed the diagnostic accuracy of 82kDa-proMMP-9 measurement in AML blasts (area under the curve: 0.893 [0.739-1.000], p = 0.019). It led us to define a cutoff value of 11.5% for identifying patients with lower NCCN risk (p = 0.005) and with a tendency toward a higher probability of response to anthracycline-based therapy (p = 0.109) and increased event-free survival (p = 0.24). Thus, 82kDa-proMMP-9 expression on blasts may represent a novel independent marker of prognosis in patients with AML. PMID:26845021

  4. Blockade of atopic dermatitis-like skin lesions by DA-9102, a natural medicine isolated from Actinidia arguta, in the Mg-deficiency induced dermatitis model of hairless rats.

    PubMed

    Choi, Jeong June; Park, Bokyoung; Kim, Dong Hee; Pyo, Myoung-Yun; Choi, Sangzin; Son, Miwon; Jin, Mirim

    2008-08-01

    DA-9102 isolated from Actinidia arguta is a candidate of natural medicine currently under Phase II clinical trial for atopic dermatitis in Korea. In this study, spontaneous dermatitis was induced by magnesium deficiency in hairless rats and this system was applied to assess the suppressive effects of DA-9102 on atopic dermatitis-like skin disease. Oral administration of DA-9102 at a dose of 100 mg/kg for 16 days substantially suppressed the occurrence of spontaneous dermatitis. Eczematous skin lesions, water loss and scratching behavior were significantly decreased by DA-9102 in a dose-dependent manner. Infiltration of inflammatory cells into the skin and pathologic remodeling of the epidermis and dermis were much less than the Mg-def. group. Results from flow cytometry analysis of peripheral blood mononuclear cells indicated that DA-9102 suppressed activation of leukocytes. The decrease in the number of CD45RA+ cells was accompanied by a lower level of IgE in DA-9102 treated rats, and the reduction in the number of CD11b+ cells by DA-9102 in both periphery and skin was significant. Further, DA-9102 not only suppressed the mRNA expression of T(H)2 cytokines including IL-4 and IL-10 in the lymph node but it also decreased the levels of inflammatory mediators such as nitric oxide and leukotriene B(4) (LTB(4)) in the serum. Taken together, these results suggest that DA-9102 is an orally applicable potent immune modulator capable of controlling the occurrence of atopic dermatitis-like skin disease. PMID:18535171

  5. Differential algebraic method for aberration analysis of typical electrostatic lenses.

    PubMed

    Liu, Zhixiong

    2006-02-01

    In this paper up to fifth-order geometric and third-order chromatic aberration coefficients of typical electrostatic lenses are calculated by means of the charged particle optics code, COSY INFINITY, based on the differential algebraic (DA) method. A two-tube immersion lens and a symmetric einzel lens have been chosen as two examples, whose axial potential distributions are numerically calculated by a FORTRAN program using the finite difference method. The DA results are in good agreement with those evaluated by the aberration integrals in electron optics. The DA method presented here can easily be extended to aberration analysis of other numerically computed electron lenses, including magnetic lenses. PMID:16125845

  6. Identification of domains on the extrinsic 23 kDa protein possibly involved in electrostatic interaction with the extrinsic 33 kDa protein in spinach photosystem II.

    PubMed

    Tohri, Akihiko; Dohmae, Naoshi; Suzuki, Takehiro; Ohta, Hisataka; Inoue, Yasunori; Enami, Isao

    2004-03-01

    To elucidate the domains on the extrinsic 23 kDa protein involved in electrostatic interaction with the extrinsic 33 kDa protein in spinach photosystem II, we modified amino or carboxyl groups of the 23 kDa protein to uncharged methyl ester groups with N-succinimidyl propionate or glycine methyl ester in the presence of a water-soluble carbodiimide, respectively. The N-succinimidyl propionate-modified 23 kDa protein did not bind to the 33 kDa protein associated with PSII membranes, whereas the glycine methyl ester-modified 23 kDa protein completely bound. This indicates that positive charges on the 23 kDa protein are important for electrostatic interaction with the 33 kDa protein associated with the PSII membranes. Mapping of the N-succinimidyl propionate-modified sites of the 23 kDa protein was performed using Staphylococcus V8 protease digestion of the modified protein followed by determination of the mass of the resultant peptide fragments with MALDI-TOF MS. The results showed that six domains (Lys11-Lys14, Lys27-Lys38, Lys40, Lys90-Lys96, Lys143-Lys152, Lys166-Lys174) were modified with N-succinimidyl propionate. In these domains, Lys11, Lys13, Lys33, Lys38, Lys143, Lys166, Lys170 and Lys174 were wholly conserved in the 23 kDa protein from 12 species of higher plants. These positively charged lysyl residues on the 23 kDa protein may be involved in electrostatic interactions with the negatively charged carboxyl groups on the 33 kDa protein, the latter has been suggested to be important for the 23 kDa binding [Bricker, T.M. & Frankel, L.K. (2003) Biochemistry42, 2056-2061]. PMID:15009208

  7. 40 CFR 60.45Da - Standard for mercury (Hg).

    Code of Federal Regulations, 2010 CFR

    2010-07-01

    ... 40 Protection of Environment 6 2010-07-01 2010-07-01 false Standard for mercury (Hg). 60.45Da... for mercury (Hg). (a) For each coal-fired electric utility steam generating unit other than an IGCC... gases that contain mercury (Hg) emissions in excess of each Hg emissions limit in paragraphs...

  8. Training and Health. Leonardo da Vinci Series: Good Practices.

    ERIC Educational Resources Information Center

    Commission of the European Communities, Brussels (Belgium). Directorate-General for Education and Culture.

    This document profiles programs in the fields of health and medicine that are offered through the European Commission's Leonardo da Vinci program. The following programs are profiled: (1) CYTOTRAIN (a transnational vocational training program in cervical cancer screening); (2) Apollo (a program of open and distance learning for paramedical…

  9. The DaVinci Project: Multimedia in Art and Chemistry.

    ERIC Educational Resources Information Center

    Simonson, Michael; Schlosser, Charles

    1998-01-01

    Provides an overview of the DaVinci Project, a collaboration of students, teachers, and researchers in chemistry and art to develop multimedia materials for grades 3-12 visualizing basic concepts in chemistry and visual art. Topics addressed include standards in art and science; the conceptual framework for the project; and project goals,…

  10. The Potential da Vinci in All of Us

    ERIC Educational Resources Information Center

    Petto, Sarah; Petto, Andrew

    2009-01-01

    The study of the human form is fundamental to both science and art curricula. For vertebrates, perhaps no feature is more important than the skeleton to determine observable form and function. As Leonard da Vinci's famous Proportions of the Human Figure (Virtruvian Man) illustrates, the size, shape, and proportions of the human body are defined by…

  11. DATA ASSESSMENT REPORTS FOR CEMS AT SUBPART DA FACILITIES

    EPA Science Inventory

    EPA promulgated minimum quality assurance (QA) requirements for Continuous Emission Monitoring Systems (CEMS) in 40 CFR Part 60 Appendix F. Appendix F requires Da source owners to develop site-specific QA plans and report the results of EPA specified QA activities each calendar q...

  12. 40 CFR 60.47Da - Commercial demonstration permit.

    Code of Federal Regulations, 2010 CFR

    2010-07-01

    ... potential combustion concentration (80 percent reduction) for each 24-hour period of steam generator... owner or operator of a fluidized bed combustion electric utility steam generator (atmospheric or... Steam Generating Units for Which Construction is Commenced After September 18, 1978 § 60.47Da...

  13. 40 CFR 60.47Da - Commercial demonstration permit.

    Code of Federal Regulations, 2011 CFR

    2011-07-01

    ... potential combustion concentration (80 percent reduction) for each 24-hour period of steam generator... owner or operator of a fluidized bed combustion electric utility steam generator (atmospheric or... Steam Generating Units for Which Construction is Commenced After September 18, 1978 § 60.47Da...

  14. Women and Technical Professions. Leonardo da Vinci Series: Good Practices.

    ERIC Educational Resources Information Center

    Commission of the European Communities, Brussels (Belgium). Directorate-General for Education and Culture.

    This document profiles programs for women in technical professions that are offered through the European Commission's Leonardo da Vinci program. The following programs are profiled: (1) Artemis and Diana (vocational guidance programs to help direct girls toward technology-related careers); (2) CEEWIT (an Internet-based information and…

  15. Studying and Working Abroad. Leonardo da Vinci Series: Good Practices.

    ERIC Educational Resources Information Center

    Commission of the European Communities, Brussels (Belgium). Directorate-General for Education and Culture.

    This document profiles recent successful examples of students studying and working abroad as part of the European Commission's Leonardo da Vinci program, which is designed to give students across the European Union the opportunity to experience vocational training in a foreign country. The following examples are presented: (1) 3 Finnish students…

  16. Blood species identification using Near-Infrared diffuse transmitted spectra and PLS-DA method

    NASA Astrophysics Data System (ADS)

    Zhang, Linna; Zhang, Shengzhao; Sun, Meixiu; Wang, Zhennan; Li, Hongxiao; Li, Yingxin; Li, Gang; Lin, Ling

    2016-05-01

    Blood species identification is of great significance for blood supervision and wildlife investigations. The current methods used to identify the blood species are destructive. Near-Infrared spectroscopy method is known for its non-invasive properties. In this research, we combined Near-Infrared diffuse transmitted spectra and Partial Least Square Discrimination Analysis (PLS-DA) to identify three blood species, including macaque, human and mouse. Blind test and external test were used to assess the PLS-DA model. The model performed 100% accuracy in its identification between three blood species. This approach does not require a specific knowledge of biochemical features for each individual class but relies on a spectroscopic statistical differentiation of the whole components. This is the first time to demonstrate Near-Infrared diffuse transmitted spectra have the ability to identify the species of origin of blood samples. The results also support a good potential of absorption and scattering spectroscopy for species identification in practical applications for real-time detection.

  17. Integration of Globus Online with the ATLAS PanDA Workload Management System

    NASA Astrophysics Data System (ADS)

    Contreras, C.; Deng, W.; Maeno, T.; Nilsson, P.; Potekhin, M.

    2012-12-01

    The PanDA Workload Management System is the basis for distributed production and analysis for the ATLAS experiment at the LHC. In this role, it relies on sophisticated dynamic data movement facilities developed in ATLAS. In certain scenarios, such as small research teams in ATLAS Tier-3 sites and non-ATLAS Virtual Organizations, the overhead of installation and operation of these components makes their use not very cost effective. Globus Online is an emerging new tool from the Globus Alliance, which already proved popular within the research community. It provides the users with fast and robust file transfer capabilities that can also be managed from a Web interface, and in addition to grid sites, can have individual workstations and laptops serving as data transmission endpoints. We will describe the integration of the Globus Online functionality into the PanDA suite of software, in order to give more flexibility in choosing the method of data transfer to ATLAS Tier-3 and Open Science Grid (OSG) users.

  18. Development of noSQL data storage for the ATLAS PanDA Monitoring System

    NASA Astrophysics Data System (ADS)

    Ito, H.; Potekhin, M.; Wenaus, T.

    2012-12-01

    For several years the PanDA Workload Management System has been the basis for distributed production and analysis for the ATLAS experiment at the LHC. Since the start of data taking PanDA usage has ramped up steadily, typically exceeding 500k completed jobs/day by June 2011. The associated monitoring data volume has been rising as well, to levels that present a new set of challenges in the areas of database scalability and monitoring system performance and efficiency. These challenges are being met with an R&D effort aimed at implementing a scalable and efficient monitoring data storage based on a noSQL solution (Cassandra). We present our motivations for using this technology, as well as data design and the techniques used for efficient indexing of the data. We also discuss the hardware requirements as they were determined by testing with actual data and realistic rate of queries. In conclusion, we present our experience with operating a Cassandra cluster over an extended period of time and with data load adequate for planned application.

  19. Modelagem do vento e da fotosfera de AG Carinae

    NASA Astrophysics Data System (ADS)

    Groh, J. H.; Damineli, A.

    2003-08-01

    A trajetória evolutiva das estrelas de alta massa depende fortemente de suas taxas de perda de massa. Apesar do rápido progresso no estudo destas estrelas, a taxa de perda de massa e outros parâmetros físicos básicos, como a temperatura superficial e a velocidade terminal do vento ainda não estão bem determinados. Isto ocorre devido à presença de ventos irregulares, rápidos e fortes ao redor destas estrelas, tornando a interpretação dos seus espectros uma tarefa difícil. Assim, a modelagem do vento e da fotosfera dessas estrelas está sendo cada vez mais usada para obter tais parâmetros a partir dos espectros. O aumento da taxa de perda de massa durante a fase LBV (Variáveis Luminosas Azuis), comparado com outros tipos de estrelas, tem sido atribuído a instabilidades do tipo S Doradus. Dispomos de uma base de dados espectroscópicos cobrindo 22 anos de observações de AG Carinae, incluindo um ciclo S Doradus completo, com espectros CCD em alta resolução na faixa óptica e infravermelha. Utilizamos o programa desenvolvido por Schmutz (1997) para uma análise preliminar desse ciclo, obtendo a taxa de perda de massa a partir da linha do Ha. Não existe uma correlação clara da taxa de perda de massa com mudanças da temperatura efetiva, do raio da estrela e do fluxo na banda V. A estrela atingiu seu mínimo fotométrico (raio mínimo) em 1990 e o máximo fotométrico (raio máximo) em 1995, enquanto que o fluxo máximo da linha do Ha ocorreu em 1996. Além disso a taxa de perda de massa não segue esse ciclo, contrariamente às idéias correntes. Para fazer um modelo mais realista estamos usando o programa CMFGEN (Hillier & Miller), que trata a fotosfera e o vento estelar de forma consistente, considerando a radiação fora do equilíbrio termodinâmico (NLTE) e com blanketting total de linhas. Simulamos o espectro de AG Carinae em duas épocas extremas do ciclo S Dor para testar os resultados obtidos com o modelo mais simplificado.

  20. Micromorphology of selected relict slope deposits from Serra da Estrela, Portugal

    NASA Astrophysics Data System (ADS)

    Nieuwendam, Alexandre; Vieira, Gonçalo; Schaefer, Carlos

    2013-04-01

    Serra da Estrela is the highest mountain in Portugal (1,993 m ASL) and part of the Iberian Central Cordillera. The mountain has a strong relief and a lithological diversity with several types of granitoids and metasediments. Most of the western plateau area was glaciated during the Last Glacial Maximum and its morphology is dominated by glacial landforms. Vieira (2004) produced a detailed geomorphological map of Serra da Estrela and described several sites showing stratified slope, head and debris-flow deposits. Based on the geomorphological analysis of the relationships between glacial and periglacial evidence, a first relative chronology was presented. However, a detailed and systematical sedimentological analysis has not been conducted before and absolute ages are also lacking. Micromorphology analysis has proven to be of considerable value in the interpretation of mountain soils and sediments. Such interpretation depends on identifying diagnostic features, indicating factors as the presence or absence of permafrost, thickness of the active layer, ice segregation and the operation of processes of mass-wasting. In this study, micromorphology was used to answer questions concerning the composition, structure, origin and depositional processes of relict slope deposits. Micromorphology allowed a systematic description of the physical characteristics of the sediments. Lamination and sorting, when preserved, are good evidence for overland flow. Features due to deformation (folds, boudins, coatings and tails due to the rotation of clasts) are associated with sliding. Other mass-movements such as debris flows, earth flows, and to a certain extent, dry grain flows may be characterized by similar microscopic facies, typically a poorly sorted, porphyric material. Porosity gives evidence for both liquefaction (debris flows) and frost-induced mass-movement (solifluction). The relict slope deposits of the Serra da Estrela show an increase in cryogenic micromorphological

  1. 49 CFR 178.58 - Specification 4DA welded steel cylinders for aircraft use.

    Code of Federal Regulations, 2012 CFR

    2012-10-01

    ... 49 Transportation 3 2012-10-01 2012-10-01 false Specification 4DA welded steel cylinders for...) SPECIFICATIONS FOR PACKAGINGS Specifications for Cylinders § 178.58 Specification 4DA welded steel cylinders for aircraft use. (a) Type, size, and service pressure. A DOT 4DA is a welded steel sphere (two...

  2. 49 CFR 178.58 - Specification 4DA welded steel cylinders for aircraft use.

    Code of Federal Regulations, 2014 CFR

    2014-10-01

    ... 49 Transportation 3 2014-10-01 2014-10-01 false Specification 4DA welded steel cylinders for...) SPECIFICATIONS FOR PACKAGINGS Specifications for Cylinders § 178.58 Specification 4DA welded steel cylinders for aircraft use. (a) Type, size, and service pressure. A DOT 4DA is a welded steel sphere (two...

  3. In vivo breakdown products of the 32 kDa thylakoid herbicide binding protein. [Spirodela oligorrhiza

    SciTech Connect

    Greenberg, B.M.; Mattoo, A.K.; Gaba, V.; Edelman, M.

    1986-04-01

    The 32 kDa herbicide binding protein of PSII is degraded rapidly in the light. This phenomenon was investigated in Spirodela oligorrhiza. When fronds were radiolabeled in the presence of cycloheximide only the chloroplast-encoded proteins were labeled. Under these conditions, a breakdown product of 23.5 kDa was observed. This polypeptide was further degraded with kinetics similar to that of the 32 kDa protein. The 23.5 kDa polypeptide cross-reacted with an antibody specific to the 32 kDa protein. By protease digestion it was determined that the 23.5 kDa polypeptide is the intact N-terminal piece of the 32 kDa protein. Thus, this product corresponds to the membrane anchor of the 32 kDa protein. Using the same antibody, breakdown products of 16 kDa, 14 kDa and 12 kDa were observed. These products have also been observed in Zea mays and Solanum nigrum. Using DCMU during pulse-chase experiments at different light intensities, evidence was obtained that the 23.5 kDa breakdown product is generated in vivo.

  4. Roles and Delegation of Authority (R/DA) System

    SciTech Connect

    ABBOTT,JOHN P.; HUTCHINS,JAMES C.; SCHOCH,DAVID G.

    1999-11-01

    The processes of defining managerial roles and providing for delegation of authority are essential to any enterprise. At most large organizations, these processes are defined in policy manuals and through sets of standard operating procedures for many, if not all, business and administrative functions. Many of these staff-initiated, administrative functions require the routing of documents for approval to one or more levels of management. These employee-oriented, back office types of workflows tend to require more flexibility in determining to whom these documents should go to, while, at the same time, providing the responsible parties with the flexibility to delegate their approval authority or allow others to review their work. Although this practice is commonplace in manual, paper-based processes that exist in many organizations, it is difficult to provide the same flexibility in the more structured, electronic-based, workflow systems. The purpose of this report is to present a framework or architecture for creating a R/DA system and provide some insights associated with its design and utilization. To improve understanding and clarify subsequent discussion, the goals and requirements for the major R/DA system components, namely, the database and interface modules, are initially presented along with the identification of important concepts and the definition of critical terms. Next high-level functions relating the types of inputs to the outputs of the R/DA interface module are introduced and discussed. Then the relationships between the major R/DA modules and the primary components associated with its creation and maintenance are presented and analyzed. Finally, some conclusions are drawn relative to the advantages associated with developing a R/DA system for use in implementing an enterprise-wide, work-facilitating information system.

  5. Comment: Spurious Correlation and Other Observations on Experimental Design for Engineering Dimensional Analysis

    SciTech Connect

    Piepel, Gregory F.

    2013-08-01

    This article discusses the paper "Experimental Design for Engineering Dimensional Analysis" by Albrecht et al. (2013, Technometrics). That paper provides and overview of engineering dimensional analysis (DA) for use in developing DA models. The paper proposes methods for generating model-robust experimental designs to supporting fitting DA models. The specific approach is to develop a design that maximizes the efficiency of a specified empirical model (EM) in the original independent variables, subject to a minimum efficiency for a DA model expressed in terms of dimensionless groups (DGs). This discussion article raises several issues and makes recommendations regarding the proposed approach. Also, the concept of spurious correlation is raised and discussed. Spurious correlation results from the response DG being calculated using several independent variables that are also used to calculate predictor DGs in the DA model.

  6. Isolation and characterization of cDNA clones for carrot extensin and a proline-rich 33-kDa protein

    SciTech Connect

    Chen, J.; Varner, J.E.

    1985-07-01

    Extensins are hydroxyproline-rich glycoproteins associated with most dicotyledonous plant cell walls. To isolate cDNA clones encoding extensin, the authors started by isolating poly(A) RNA from carrot root tissue, and then translating the RNA in vitro, in the presence of tritiated leucine or proline. A 33-kDa peptide was identified in the translation products as a putative extensin precursor. From a cDNA library constructed with poly(A) RNA from wounded carrots, one cDNA clone (pDC5) was identified that specifically hybridized to poly(A) RNA encoding this 33-kDa peptide. They isolated three cDNA clones (pDC11, pDC12, and pDC16) from another cDNA library using pCD5 as a probe. DNA sequence data, RNA hybridization analysis, and hybrid released in vitro translation indicate that the cDNA clones pDC11 encodes extensin and that cDNA clones pDC12 and pDC16 encode the 33-kDa peptide, which as yet has an unknown identity and function. The assumption that the 33-kDa peptide was an extensin precursor was invalid. RNA hybridization analysis showed that RNA encoded by both clone types is accumulated upon wounding.

  7. A human nuclear uracil DNA glycosylase is the 37-kDa subunit of glyceraldehyde-3-phosphate dehydrogenase

    SciTech Connect

    Meyer-Siegler, K.; Mauro, D.J.; Seal, G.; Wurzer, J.; DeRiel, J.K.; Sirover, M.A. )

    1991-10-01

    The authors have isolated and characterized a plasmid (pChug 20.1) that contains the cDNA of a nuclear uracil DNA glycosylase (UDG) gene isolated from normal human placenta. This cDNA directed the synthesis of a fusion protein that exhibited UDG activity. The enzymatic activity was specific for a uracil-containing polynucleotide substrate and was inhibited by a glycosylase antibody or a {beta}-galactosidase antibody. Sequence analysis demonstrated an open reading frame that encoded a protein of 335 amino acids of calculated M{sub r} 36,050 and pI 8.7, corresponding to the M{sub r} 37,000 and pI 8.1 of purified human placental UDG. Surprisingly, a search of the GenBank data base revealed that the cDNA of UDG was completely homologous with the 378-kDa subunit of human glyceraldehyde-3-phosphate dehydrogenase. Human erythrocyte glyceraldehyde-3-phosphate dehydrogenase was obtained commercially in its tetrameric form. A 37-kDa subunit was isolated form it and shown to possess UDG activity equivalent to that seen for the purified human placental UDG. The multiple functions of this 37-kDa protein as here and previously reported indicate that it possesses a series of activities, depending on its oligomeric state. Accordingly, mutation(s) in the gene of this multifunctional protein may conceivably result in the diverse cellular phenotypes of Bloom syndrome.

  8. Purification and sequence analysis of two rat tissue inhibitors of metalloproteinases

    NASA Technical Reports Server (NTRS)

    Roswit, W. T.; McCourt, D. W.; Partridge, N. C.; Jeffrey, J. J.

    1992-01-01

    Two protein inhibitors of metalloproteinases (TIMP) were isolated from medium conditioned by the clonal rat osteosarcoma line UMR 106-01. Initial purification of both a 30-kDa inhibitor and a 20-kDa inhibitor was accomplished using heparin-Sepharose chromatography with dextran sulfate elution followed by DEAE-Sepharose and CM-Sepharose chromatography. Purification of the 20-kDa inhibitor to homogeneity was completed with reverse-phase high-performance liquid chromatography. The 20-kDa inhibitor was identified as rat TIMP-2. The 30-kDa inhibitor, although not purified to homogeneity, was identified as rat TIMP-1. Amino terminal amino acid sequence analysis of the 30-kDa inhibitor demonstrated 86% identity to human TIMP-1 for the first 22 amino acids while the sequence of the 20-kDa inhibitor was identical to that of human TIMP-2 for the first 22 residues. Treatment with peptide:N-glycosidase F indicated that the 30-kDa rat inhibitor is glycosylated while the 20-kDa inhibitor is apparently unglycosylated. Inhibition of both rat and human interstitial collagenase by rat TIMP-2 was stoichiometric, with a 1:1 molar ratio required for complete inhibition. Exposure of UMR 106-01 cells to 10(-7) M parathyroid hormone resulted in approximately a 40% increase in total inhibitor production over basal levels.

  9. THE KEPLER LIGHT CURVE OF THE UNIQUE DA WHITE DWARF BOKS 53856

    SciTech Connect

    Holberg, J. B.; Howell, Steve B. E-mail: howell@noao.edu

    2011-08-15

    The faint (g = 16.9) hot white dwarf BOKS 53856 was observed by the Kepler Mission in short cadence mode during mid-2009. Analysis of these observations reveals a highly stable modulation with a period of 6.1375 hr and a 2.46% half-amplitude. The folded light curve has an unusual shape that is difficult to explain in terms of a binary system containing an unseen companion more luminous than an L0 brown dwarf. Optical spectra of BOKS 53856 show a T{sub eff} = 34,000 K, log g = 8.0 DA white dwarf. There are few, if any, known white dwarfs in this temperature range exhibiting photometric variations similar to those we describe. A magnetic spin-modulated white dwarf model can in principle explain the light curve, an interpretation supported by spectral observations of the H{alpha} line showing evidence of Zeeman splitting.

  10. Basil as functional and preserving ingredient in "Serra da Estrela" cheese.

    PubMed

    Carocho, Márcio; Barros, Lillian; Barreira, João C M; Calhelha, Ricardo C; Soković, Marina; Fernández-Ruiz, Virginia; Buelga, Celestino Santos; Morales, Patricia; Ferreira, Isabel C F R

    2016-09-15

    Antitumor, antimicrobial and antioxidant activities of basil were studied, along with its characterization in phenolic compounds, organic acids and soluble sugars. The results placed basil as a valuable candidate for functionalization and conservation of food products, maintaining their nutritional properties, while increasing their shelf life and potential health effects. The basil leaves were then incorporated in "Serra da Estrela Cheese", either in its dehydrated form or as a decoction. The cheeses were then subject to a nutritional evaluation, being characterized for their fatty acids, minerals and CIE color parameters. To assess the combined effects of plant incorporation and storage time, a 2-way ANOVA was used to process the results, further analysed through a linear discriminant analysis. Overall, basil leaves provided antioxidant activity to the cheeses, reduced the moisture, and preserved the unsaturated fatty acids and proteins. Comparing both incorporation types, the decoctions had a higher functionalizing and conservative effect. PMID:27080879

  11. Analyse spectroscopique d'etoiles naines blanches riches en hydrogene (DA): vers des modeles d'atmosphere ameliores sans parametres libres

    NASA Astrophysics Data System (ADS)

    Tremblay, Pier-Emmanuel

    2011-01-01

    The goal of this thesis is to refine and to understand better the spectroscopic method, which compares optical spectra of hydrogen-atmosphere white dwarfs (DA) with synthetic spectra to determine the atmospheric parameters (effective temperature and surface gravity). Our approach rests mainly on the development of improved model spectra, which come themselves from DA model atmospheres. We present a new grid of DA synthetic spectra with the first consistent implementation of the non-ideal gas theory of Hummer & Mihalas and the unified theory of Stark broadening from Vidal, Cooper & Smith. This allows for an adequate treatment of the quenching effects in Balmer lines, without the need of a free parameter. We show that these improved spectra predict surface gravities that are much more stable as a function of the effective temperature. We then study the long-standing problem that surface gravities in cool DA stars are significantly higher than those found in hotter DA white dwarfs. The hypothesis of Bergeron et al., according to which the atmospheres are contaminated by small amounts of helium, is constrained with observations. Using high-resolution spectra collected at the Keck in Hawaii, we find superior limits on the helium abundances in the atmospheres that are nearly 10 times lower than those required to sustain the Bergeron et al. scenario. The grid of spectra calculated in this work is then applied to a new spectroscopic analysis of the DA in the SDSS. Our careful analysis allows us to define a cleaner sample and to identify a large number of double degenerates. We find that a cutoff at a signal-to-noise ratio ≳ 15 optimizes the size and quality of the sample for computing the average mass, for which we find a value of 0.613 M⊙ . Finally, eight new 3D white dwarf models with a radiative-hydrodynamics treatment of the convection are presented. We also calculated models with the same physics, except for a treatment of the convection with the standard mixing

  12. DaVIE: Database for the Visualization and Integration of Epigenetic data

    PubMed Central

    Fejes, Anthony P.; Jones, Meaghan J.; Kobor, Michael S.

    2014-01-01

    One of the challenges in the analysis of large data sets, particularly in a population-based setting, is the ability to perform comparisons across projects. This has to be done in such a way that the integrity of each individual project is maintained, while ensuring that the data are comparable across projects. These issues are beginning to be observed in human DNA methylation studies, as the Illumina 450k platform and next generation sequencing-based assays grow in popularity and decrease in price. This increase in productivity is enabling new insights into epigenetics, but also requires the development of pipelines and software capable of handling the large volumes of data. The specific problems inherent in creating a platform for the storage, comparison, integration, and visualization of DNA methylation data include data storage, algorithm efficiency and ability to interpret the results to derive biological meaning from them. Databases provide a ready-made solution to these issues, but as yet no tools exist that that leverage these advantages while providing an intuitive user interface for interpreting results in a genomic context. We have addressed this void by integrating a database to store DNA methylation data with a web interface to query and visualize the database and a set of libraries for more complex analysis. The resulting platform is called DaVIE: Database for the Visualization and Integration of Epigenetics data. DaVIE can use data culled from a variety of sources, and the web interface includes the ability to group samples by sub-type, compare multiple projects and visualize genomic features in relation to sites of interest. We have used DaVIE to identify patterns of DNA methylation in specific projects and across different projects, identify outlier samples, and cross-check differentially methylated CpG sites identified in specific projects across large numbers of samples. A demonstration server has been setup using GEO data at http

  13. [Lobectomy for lung cancer using the Da Vinci surgical system].

    PubMed

    Nakamura, Hiroshige

    2014-05-01

    Robot-assisted surgery using the da Vinci surgical system has attracted attention because of excellent operability without shaking by joint forceps under the clear vision of a three-dimensional high-definition camera in lung cancer surgery. Although this form of advanced medical care is not yet approved for insurance coverage, it is at the stage of clinical research and expected to be useful in hilar exposure, lymph node dissection, and suturing of the lung parenchyma or bronchus. Lung cancer surgery with the da Vinci system has the advantage of combining thoracotomy and minimally invasive surgery in video-assisted thoracic surgery. However, safety management, education, and significant cost are problems to be resolved. Several important issues such as sharing knowledge and technology of robotic surgery, education, training, development of new instruments, and acquisition of advanced medical insurance are discussed for the future development of robotic surgical systems. PMID:24946522

  14. The Da Vinci code dynamically de-coded.

    PubMed

    Cohen, Mariam

    2005-01-01

    The novel The Da Vinci Code, by Dan Brown has been on best-seller lists for over two years. An examination of Brown's previous novels reveals a well-designed plot line shared by all four novels that not only makes them good "thrillers" but also creates a mythological structure to the novels that draws on common unconscious fantasies in the same way that fairy tales do. One aspect of this mythological structure is the use of evil conspiracies (and benign ones as well) for the protagonist to overcome. In addition, The Da Vinci Code presents a religious theme involving legends about Mary Magdalene. This theme touches on the role of a feminine aspect to divinity in allowing for an erotic connection with the divine. PMID:16448349

  15. The da Vinci robot in right adrenalectomy: considerations on technique.

    PubMed

    D'Annibale, Annibale; Fiscon, Valentino; Trevisan, Paolo; Pozzobon, Maurizia; Gianfreda, Valeria; Sovernigo, Gianna; Morpurgo, Emilio; Orsini, Camillo; Del Monte, Daniele

    2004-02-01

    The da Vinci Robotic System (Intuitive Surgical, Mountain View, CA) became available at the General Surgery Department of Camposampiero Hospital in May 2001. From May 2001 to October 2002, 139 robotic operations were performed, one of which was a right adrenalectomy for a right adrenal mass. The progressive growth of the mass was the indication for surgical excision. Surgical adrenalectomy was successfully completed with da Vinci Robotic System using 5 ports (3 for the robotic system, 2 as service trocars). The wrist-like movements of the instrument's tip easily enabled the detachment of the right hepatic lobe from the gland and vessel isolation, while the 3-dimensional vision facilitated dissection of the veins from the vena cava. PMID:15259586

  16. PanDaTox: a tool for accelerated metabolic engineering

    SciTech Connect

    Amitai, Gil; Sorek, Rotem

    2012-04-18

    Metabolic engineering is often facilitated by cloning of genes encoding enzymes from various heterologous organisms into E. coli. Such engineering efforts are frequently hampered by foreign genes that are toxic to the E. coli host. We have developed PanDaTox (www.weizmann.ac.il/pandatox), a web-based resource that provides experimental toxicity information for more than 1.5 million genes from hundreds of different microbial genomes. The toxicity predictions, which were extensively experimentally verified, are based on serial cloning of genes into E. coli as part of the Sanger whole genome shotgun sequencing process. PanDaTox can accelerate metabolic engineering projects by allowing researchers to exclude toxic genes from the engineering plan and verify the clonability of selected genes before the actual metabolic engineering experiments are conducted.

  17. 40 CFR 60.49Da - Emission monitoring.

    Code of Federal Regulations, 2011 CFR

    2011-07-01

    ... defined in 40 CFR 72.2, may use, as an alternative to the requirements specified in either paragraph (l... § 60.58b(i)(3) of subpart Eb of this part. (ii) Each 1-hour CO emissions average is calculated using... 40 Protection of Environment 6 2011-07-01 2011-07-01 false Emission monitoring. 60.49Da Section...

  18. 40 CFR 60.49Da - Emission monitoring.

    Code of Federal Regulations, 2012 CFR

    2012-07-01

    ... affected unit that qualifies as a gas-fired or oil-fired unit, as defined in 40 CFR 72.2, may use, as an... § 60.58b(i)(3) of subpart Eb of this part. (ii) Each 1-hour CO emissions average is calculated using... 40 Protection of Environment 7 2012-07-01 2012-07-01 false Emission monitoring. 60.49Da Section...

  19. Surgical treatment of parietal defects with "da Vinci" surgical robot.

    PubMed

    Vasilescu, D; Paun, S

    2012-06-12

    The robotic surgery has come through the development of telemedicine and minimally invasive surgery concepts, being developed in the military medicine by NASA during the years 1970-1980. The purpose of this paper is to briefly present our experience in the new field of the robotic surgery, by analyzing the results obtained over a lot of 20 patients operated with the "da Vinci" robot within the last 5 years in the Clinical Emergency Hospital Bucharest for various abdominal defects. PMID:22802899

  20. Identification of an abundant 56 kDa protein implicated in food allergy as granule-bound starch synthase

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Rice, the staple food of South and East Asian counties, is considered to be hypoallergenic. However, several clinical studies have documented rice-induced allergy in sensitive patients. Rice proteins with molecular weights of 14-16 kDa, 26 kDa, 33 kDa and 56 kDa have been identified as allergens. Re...

  1. Common commercial cosmetic products induce arthritis in the DA rat.

    PubMed Central

    Sverdrup, B; Klareskog, L; Kleinau, S

    1998-01-01

    Many different agents, including mineral oil and silicone, have the capacity to act as immunological adjuvants, i.e., they can contribute to the activation of the immune system. Some adjuvants, including mineral oil, are known to induce arthritis in certain strains of rats after intradermal injection or percutaneous application. The aim of this study was to determine if common commercial cosmetic products containing mineral oil could induce arthritis in the highly susceptible DA (Dark Agouti) rat. Intradermal injection of five out of eight assayed cosmetic products without further additives resulted in arthritis with synovitis. One of the products induced a very aggressive arthritis, which had declined after 5-9 weeks. When this product was also assayed for arthritogenicity upon percutaneous administration, it induced a mild and transient arthritis in 5 out of 10 DA rats, whereas control animals showed no clinical signs of joint involvement. No arthritic reaction was seen in rats after peroral feeding with the most arthritogenic product or by intravaginal application of Freund's adjuvants. Silicone gel implants in DA rats did not cause arthritis. We conclude that mineral oils included in common commercially available products retain their adjuvant properties and are arthritogenic in the presently investigated arthritis-prone rat strain. There is yet no evidence that mineral oils present in cosmetics may contribute to arthritis in humans, but we suggest that this question should be subject to further investigation. Images Figure 1 Figure 2 Figure 3 Figure 4 Figure 5 Figure 6 PMID:9417771

  2. OpenDA-NEMO framework for ocean data assimilation

    NASA Astrophysics Data System (ADS)

    van Velzen, Nils; Altaf, Muhammad Umer; Verlaan, Martin

    2016-03-01

    Data assimilation methods provide a means to handle the modeling errors and uncertainties in sophisticated ocean models. In this study, we have created an OpenDA-NEMO framework unlocking the data assimilation tools available in OpenDA for use with NEMO models. This includes data assimilation methods, automatic parallelization, and a recently implemented automatic localization algorithm that removes spurious correlations in the model based on uncertainties in the computed Kalman gain matrix. We have set up a twin experiment where we assimilate sea surface height (SSH) satellite measurements. From the experiments, we can conclude that the OpenDA-NEMO framework performs as expected and that the automatic localization significantly improves the performance of the data assimilation algorithm by successfully removing spurious correlations. Based on these results, it looks promising to extend the framework with new kinds of observations and work on improving the computational speed of the automatic localization technique such that it becomes feasible to include large number of observations.

  3. Amelioration of Auditory Response by DA9801 in Diabetic Mouse

    PubMed Central

    Hong, Bin Na; Her, You Ri; Castañeda, Rodrigo; Moon, Hyo Won

    2015-01-01

    Diabetes mellitus (DM) is a metabolic disease that involves disorders such as diabetic retinopathy, diabetic neuropathy, and diabetic hearing loss. Recently, neurotrophin has become a treatment target that has shown to be an attractive alternative in recovering auditory function altered by DM. The aim of this study was to evaluate the effect of DA9801, a mixture of Dioscorea nipponica and Dioscorea japonica extracts, in the auditory function damage produced in a STZ-induced diabetic model and to provide evidence of the mechanisms involved in enhancing these protective effects. We found a potential application of DA9801 on hearing impairment in the STZ-induced diabetic model, demonstrated by reducing the deterioration produced by DM in ABR threshold in response to clicks and normalizing wave I–IV latencies and Pa latencies in AMLR. We also show evidence that these effects might be elicited by inducing NGF related through Nr3c1 and Akt. Therefore, this result suggests that the neuroprotective effects of DA9801 on the auditory damage produced by DM may be affected by NGF increase resulting from Nr3c1 via Akt transformation. PMID:25878713

  4. Amelioration of Auditory Response by DA9801 in Diabetic Mouse.

    PubMed

    Lee, Yeong Ro; Hong, Bin Na; Her, You Ri; Castañeda, Rodrigo; Moon, Hyo Won; Kang, Tong Ho

    2015-01-01

    Diabetes mellitus (DM) is a metabolic disease that involves disorders such as diabetic retinopathy, diabetic neuropathy, and diabetic hearing loss. Recently, neurotrophin has become a treatment target that has shown to be an attractive alternative in recovering auditory function altered by DM. The aim of this study was to evaluate the effect of DA9801, a mixture of Dioscorea nipponica and Dioscorea japonica extracts, in the auditory function damage produced in a STZ-induced diabetic model and to provide evidence of the mechanisms involved in enhancing these protective effects. We found a potential application of DA9801 on hearing impairment in the STZ-induced diabetic model, demonstrated by reducing the deterioration produced by DM in ABR threshold in response to clicks and normalizing wave I-IV latencies and Pa latencies in AMLR. We also show evidence that these effects might be elicited by inducing NGF related through Nr3c1 and Akt. Therefore, this result suggests that the neuroprotective effects of DA9801 on the auditory damage produced by DM may be affected by NGF increase resulting from Nr3c1 via Akt transformation. PMID:25878713

  5. OpenDA-NEMO framework for ocean data assimilation

    NASA Astrophysics Data System (ADS)

    van Velzen, Nils; Altaf, Muhammad Umer; Verlaan, Martin

    2016-05-01

    Data assimilation methods provide a means to handle the modeling errors and uncertainties in sophisticated ocean models. In this study, we have created an OpenDA-NEMO framework unlocking the data assimilation tools available in OpenDA for use with NEMO models. This includes data assimilation methods, automatic parallelization, and a recently implemented automatic localization algorithm that removes spurious correlations in the model based on uncertainties in the computed Kalman gain matrix. We have set up a twin experiment where we assimilate sea surface height (SSH) satellite measurements. From the experiments, we can conclude that the OpenDA-NEMO framework performs as expected and that the automatic localization significantly improves the performance of the data assimilation algorithm by successfully removing spurious correlations. Based on these results, it looks promising to extend the framework with new kinds of observations and work on improving the computational speed of the automatic localization technique such that it becomes feasible to include large number of observations.

  6. Basic principles of pharmaceutical science in Ayurvĕda.

    PubMed

    Subhose, Varanasi; Srinivas, Pitta; Narayana, Ala

    2005-01-01

    Pharmaceutical is one of the allied branches of science, which is closely associated with Medical science. Today pharmaceutical chemistry and pharmacognosy are playing important role in treatment for a disease and its prevention. Herbal medicines are being used by about 80% of the world population mostly in the developing countries in the primary health care. There has been an upsurge in demand for the Phyto-pharmaceutical products of Ayurvĕda in western nations, because of the fact that the synthetic drugs are considered to be unsafe. Due to this many national and multinational pharmaceutical companies are now concentrating on manufacturing of Ayurvĕdic Phyto-pharmaceutical products. Ayurvĕda is the Indian traditional system of medicine, which also deals about pharmaceutical science. The Ayurvĕdic knowledge of the pharmaceutical science is scattered in Ayurvĕdic classical texts. Săranghadhara Samhita, which is written by Săranghadhara, explain systematically about the information of the Ayurvĕdic pharmaceutical science and also updated it. Industrialized manufacturing of Ayurvĕdic dosage forms has brought in new challenges like deviation from basic concepts of medicine preparation. Săranghadhara Samrhită the devout text on pharmaceutics in Ayurvĕda comes handy to solve such problems, as the methods described are very lucid and easy to follow. PMID:17333665

  7. Purification and biochemical characterization of a 70 kDa sericin from tropical tasar silkworm, Antheraea mylitta.

    PubMed

    Dash, Rupesh; Ghosh, Sudip K; Kaplan, David L; Kundu, S C

    2007-05-01

    Sericin isolated from the cocoon of the tropical tasar silkmoth Antheraea mylitta showed three major bands, with the lowest 70 kDa. This band was purified by anion exchange chromatography. Immunoblotting with concanavalin-A suggests a glycoprotein and CD analysis of secondary structure includes beta-sheet. Amino acid analysis shows that the protein is enriched in glycine and serine while the mole percentages of these two amino acids are different from sericin of mulberry silkworm. An anti A. mylitta sericin antibody was able to cross-react with sericin from A. assamensis but not the sericin of Bombyx mori and Philosamia ricini. Immunoblot analysis with proteins isolated from middle silk gland of A. mylitta at different developmental stages of larva showed that the 70 kDa sericin is developmentally regulated. These data extend the range of biochemical features found in this unusual family of proteins and may help in developing an improved understanding of their role in forming environmentally stable fibroin fiber-sericin composite structures (cocoons). PMID:17350301

  8. Análise Temporal da Coma de CO+ no Cometa P/Halley

    NASA Astrophysics Data System (ADS)

    Voelzke, M. R.; Schlosser, W.; Schmidt-Kaler, Th.

    1995-08-01

    Observações fotográficas e fotoelétricas da coma de gás ionizado do cometa P/Halley a nível de CO+ em 4250 angstroms fizeram parte do programa de Monitoramento do Halley desenvolvido pela Universidade de Bochum (Ruhr-Universitaet Bochum) na Alemanha, realizado de 17 de fevereiro a 17 de abril de 1986 no European Southern Observatory (ESO) em La Silla (Chile). Nesta faixa espectral é possível observar a contínua formação, bem como o movimento e expansão das estruturas de plasma. Para observar a morfologia destas estruturas foram analisadas 32 placas fotográficas de CO+ (placas de vidro) do cometa P/Halley. Tais placas possuem um campo de visão de 28,6 por 28,6 graus sendo obtidas entre 29 de março e 17 de abril de 1986 com tempos de exposição entre 20 e 120 minutos. Todas as placas foram digitadas com o auxílio de um microdensitômetro PDS 2020 GM (Photometric Data System) do Instituto Astronómico da Westfaelischen Wilhelms-Universitaet em Muenster, Alemanha (um pixel = 25 por 25 micrômetros correspondendo aproximadamente a 46,88 por 46,88 segundos de arco). Após a digitação os dados foram reduzidos à intensidades relativas, sendo que os posssíveis de calibração também foram reduzidos à intensidades absolutas, expressas em termos de densidade colunar utilizando-se dos sistemas de tratamento de imagens MIDAS (Munich Image Data Analysis System; ESO - Image Processing Group, 1988) e IHAP (Image Handling And Processing; Middleburg, 1983). Com o auxílio do método de teta mínimo de Stellingwerf (Stellingwerf, 1978) obteve-se um período de 2,22 +/- 0,09 dias a partir da análise de estruturas na coma de plasma através da subtração de imagens subsequentes. Este método foi comparado com o método de Fourier. Provavelmente exista um segundo ciclo com período aproximado de 3,6 dias. A idéia de subtrair imagens subsequentes é devido ao fato de que os efeitos de rotação são apenas 10% dos fenômenos de distribuição gasosa. Portanto as

  9. Seeking 'energy' vs. pain relief in spas in Brazil (Caldas da Imperatriz) and Portugal (Termas da Sulfurea).

    PubMed

    Quintela, Maria Manuel

    2011-04-01

    This paper is a comparative ethnography of the therapeutic practices at two different spa locations: Caldas da Imperatriz, SC, Brazil, and Termas da Sulfurea in Cabeco de Vide, Portugal. The comparison reveals the existence of contrasting 'explanatory models' held by the spa-goers as well as by the official medical systems. In the Portuguese context this model is highly medicalized; in the Brazilian case, spa treatments are viewed as 'alternative' or 'complementary' therapy and are also related to religious philosophies. Each model corresponds to a different idiom expressing certain experiences and world views, one focusing on 'pains' (dores) and the other on 'energy' (energia), the former leading to the rationale of 'curing', the latter to the notion of 'energizing'. In this paper the author intends to analyze and contrast the categories found in these models, which originate from different conceptions of health, illness and healing for Brazilian and Portuguese spa-goers. PMID:21563001

  10. [The Arabic influence in the "Colóquios dos simples e drogas da India" of Garcia da Orta].

    PubMed

    Ricordel, Joëlle

    2015-09-01

    The "Colóquios dos simples e drogas he cousas medicinais de Índia" (Conversations on the simples, drugs and medicinal substances of India) (1563) of Garcia da Orta is a botanical and pharmacognosy book. The author is a Portuguese physician who studied in the Spanish universities and practiced medicine mainly in India. He studies in short chapters presented in the form of dialogues about sixty simples. Sources to which he refers are indicative of a "classical" training, but also the mark of a curious and open mind to different cultures. The Arabic sources are numerous and mainly concern the identification of substances by abundant synonyms of their names in foreign languages and different medicinal uses that may have been done by the ancient physicians. However, Da Orta is critical with respect to these sources, seeking contradictions and differences of opinion among authors. He confronts them with the oral information collected thanks to a wide network of contacts. PMID:26529894

  11. The 29-kDa proteins phosphorylated ion thrombin-activated human platelets are forms of the estrogen receptor-related 27-kDa heat shock protein

    SciTech Connect

    Mendelsohn, M.E.; Yan Zhu; O'Neill, S. )

    1991-12-15

    Thrombin plays a critical role in platelet activation, hemostasis, and thrombosis. Cellular activation by thrombin leads to the phosphorylation of multiple proteins, most of which are unidentified. The authors have characterized several 29-kDa proteins that are rapidly phosphorylated following exposure of intact human platelets to thrombin. A murine monoclonal antibody raised to an unidentified estrogen receptor-related 29-kDa protein selectively recognized these proteins as well as a more basic, unphosphorylated 27-kDa protein. Cellular activation by thrombin led to a marked shift in the proportion of protein from the 27-kDa unphosphorylated form to the 29-kDa phosphoprotein species. Using this antibody, they isolated and sequenced a human cDNA clone encoding a protein that was identical to the mammalian 27-kDa heat shock protein (HSP27), a protein of uncertain function that is known to be phosphorylated to several forms and to be transcriptionally induced by estrogen. The 29-kDa proteins were confirmed to be phosphorylated forms of HSP27 by immunoprecipitation studies. Thus, the estrogen receptor-related protein is HSP27, and the three major 20-kDa proteins phosphorylated in thrombin-activated platelets are forms of HSP27. These data suggest a role for HSP27 in the signal transduction events of platelet activation.

  12. Hyaluronic Acid (800 kDa) Supplementation of University of Wisconsin Solution Improves Viability of Osteochondral Grafts and Reduces Matrix Metalloproteinase Expression during Cold Preservation

    PubMed Central

    Yamada, Takuya; Uchida, Kentaro; Onuma, Kenji; Inoue, Gen; Aikawa, Jun; Takano, Shotaro; Sekiguchi, Hiroyuki; Fujimaki, Hisako; Miyagi, Masayuki; Takaso, Masashi

    2015-01-01

    Osteochondral allografting is a promising option for the treatment of large cartilage defects. However, because the cell viability of osteochondral tissues (OCTs) gradually reduces during storage at 4°C, methods for maintaining the cell viability of fresh OCTs are needed to improve transplantation outcomes. Here, we evaluated whether the supplementation of preservation solution with one of three different molecular weight forms of hyaluronic acid (HA) improved the viability of rat OCTs during long-term cold storage. The supplementation of University of Wisconsin (UW) solution with 800 kDa significantly improved the cell viability of OCT after 14 days at 4°C compared to nonsupplemented UW solution. In contrast, UW solution supplemented with either 1900 or 6000 kDa HA did not markedly improve the cell viability of the OCT. Real-time PCR analysis revealed that the levels of matrix metalloproteinases 2, 3, and 9 were significantly decreased in OCT stored in UW solution supplemented with 800 kDa HA. Although further studies in human OCT are warranted, these findings demonstrate that the use of 800 kDa HA in place of serum may be a suitable approach for the long-term preservation of osteochondral allografts designated for the repair of large cartilage defects in the clinical setting. PMID:26199955

  13. Neuroprotection by Exendin-4 Is GLP-1 Receptor Specific but DA D3 Receptor Dependent, Causing Altered BrdU Incorporation in Subventricular Zone and Substantia Nigra.

    PubMed

    Harkavyi, A; Rampersaud, N; Whitton, P S

    2013-01-01

    Glucagon-like peptide-1 receptor (GLP-1R) activation by exendin-4 (EX-4) is effective in preclinical models of Parkinson's disease (PD) and appears to promote neurogenesis even in severely lesioned rats. In the present study, we determined the effects of EX-4 on cellular BrdU incorporation in the rat subventricular zone (SVZ) and substantia nigra (SN). We also determined the specificity of this effect with the GLP-1R antagonist EX-(9-39) as well as the potential role of dopamine (DA) D3 receptors. Rats were administered 6-OHDA and 1 week later given EX-4 alone, with EX-(9-39) or nafadotride (D3 antagonist) and BrdU. Seven days later, rats were challenged with apomorphine to evaluate circling. Extracellular DA was measured using striatal microdialysis and subsequently tissue DA measured. Tyrosine hydroxylase and BrdU were verified using immunohistochemistry. Apomorphine circling was reversed by EX-4 in lesioned rats, an effect reduced by EX-4, while both EX-(9-39) and NAF attenuated this. 6-OHDA decreased extracellular and tissue DA, both reversed by EX-4 but again attenuated by EX-(9-39) or NAF. Analysis of BrdU+ cells in the SVZ revealed increases in 6-OHDA-treated rats which were reversed by EX-4 and antagonised by either EX-(9-39) or NAF, while in the SN the opposite profile was seen. PMID:26316987

  14. Neuroprotection by Exendin-4 Is GLP-1 Receptor Specific but DA D3 Receptor Dependent, Causing Altered BrdU Incorporation in Subventricular Zone and Substantia Nigra

    PubMed Central

    Harkavyi, A.; Rampersaud, N.; Whitton, P. S.

    2013-01-01

    Glucagon-like peptide-1 receptor (GLP-1R) activation by exendin-4 (EX-4) is effective in preclinical models of Parkinson's disease (PD) and appears to promote neurogenesis even in severely lesioned rats. In the present study, we determined the effects of EX-4 on cellular BrdU incorporation in the rat subventricular zone (SVZ) and substantia nigra (SN). We also determined the specificity of this effect with the GLP-1R antagonist EX-(9-39) as well as the potential role of dopamine (DA) D3 receptors. Rats were administered 6-OHDA and 1 week later given EX-4 alone, with EX-(9-39) or nafadotride (D3 antagonist) and BrdU. Seven days later, rats were challenged with apomorphine to evaluate circling. Extracellular DA was measured using striatal microdialysis and subsequently tissue DA measured. Tyrosine hydroxylase and BrdU were verified using immunohistochemistry. Apomorphine circling was reversed by EX-4 in lesioned rats, an effect reduced by EX-4, while both EX-(9-39) and NAF attenuated this. 6-OHDA decreased extracellular and tissue DA, both reversed by EX-4 but again attenuated by EX-(9-39) or NAF. Analysis of BrdU+ cells in the SVZ revealed increases in 6-OHDA-treated rats which were reversed by EX-4 and antagonised by either EX-(9-39) or NAF, while in the SN the opposite profile was seen. PMID:26316987

  15. NMR characterization of a 72 kDa transcription factor using differential isotopic labeling.

    PubMed

    Mukherjee, Sulakshana P; Borin, Brendan; Quintas, Pedro O; Dyson, H Jane

    2016-03-01

    NF-κB is a major transcription factor that mediates a number of cellular signaling pathways. Crystal structure analysis gives an incomplete picture of the behavior of the protein, particularly in the free state; free monomers or dimers of NF-κB have never been crystallized. NMR analysis gives insights into the structure and dynamics of the protein in solution, but a necessary first step is the assignment of resonances. The size of the heterodimer of the Rel homology regions of the NF-κB monomers p65 and p50 (72 kDa) prohibits the straightforward use of triple-resonance spectroscopy to obtain the assignments. However, the dynamic nature of the free heterodimer, in particular the independence of the DNA-binding and dimerization domains of each monomer, allows the assignments made on differentially labeled smaller domains to be mapped successfully onto the spectrum of the larger full-length RHR. Problematic areas such as the p65 nuclear localization sequence, which is disordered in the free protein, can be approached by residue-specific labeling and comparison with previously-published spectra of a short peptide with the same sequence. Overall, this NMR analysis of NF-κB has given valuable insights into the highly dynamic nature of the free state, which is likely to play an important role in the functional cycle of NF-κB in the cell. PMID:26647230

  16. Identification, Composition, and Asymmetric Formation Mechanism of Glycidyl Methacrylate/Butyl Methacrylate Copolymers up to 7000 Da from Electrospray Ionization Ultrahigh-Resolution Fourier Transform Ion Cyclotron Resonance Mass Spectrometry.

    PubMed

    Shi, S D; Hendrickson, C L; Marshall, A G; Simonsick, W J; Aaserud, D J

    1998-08-01

    Glycidyl methacrylate (GMA) and butyl methacrylate (BMA) have the same nominal mass (142 Da) but differ in exact mass by 0.036 Da (CH(4) vs O). Therefore, copolymers formed from the two isobaric monomers exhibit a characteristic isobaric distribution due to different monomer compositions. Here, we show that electrospray ionization FT-ICR mass spectrometry at 9.4 T resolves the isobaric components of copolymers as large as 7000 Da with a resolving power (m/Δm(50%)) of ∼500 000 in a gel permeation chromatography fractionated polymer sample. That resolution provides for complete and unequivocal component analysis of such copolymers of the size used for high solid content automobile coatings. All five possible copolymer products predicted by the polymerization mechanism are resolved and identified in the mass spectrum. Two of those polymer series (each with saturated end group) were previously unresolved by mass spectrometry because they differ in mass from the two other unsaturated products by only 0.0089 Da. Finally, analysis of the asymmetrical isobaric distribution for the copolymer n-mers, (GMA)(m)(BMA)(n)(-)(m), 0≤ m ≤ n, in which species with adjacent values of m differ from each other in mass by 36 mDa (i.e., the mass difference, CH(4) vs O, between GMA and BMA) proves that GMA is less reactive than BMA in the polymerization process. PMID:21644659

  17. Detection of cohesive forces in the rubble-pile asteroid (29075) 1950 DA

    NASA Astrophysics Data System (ADS)

    Rozitis, Benjamin; MacLennan, Eric; Emery, Joshua P.

    2014-11-01

    The physical behavior of rubble-pile asteroids has traditionally been described using only gravitational and frictional forces within a granular material. Cohesive forces in the form of small van der Waals forces between constituent grains have recently been predicted to be important for small rubble-pile asteroids (less than 10 kilometers in size), and could potentially explain how small fast spinning asteroids remain intact. It is possible to infer the existence of cohesive forces within a rubble-pile asteroid by determining if it has insufficient self-gravity, dictated by its bulk density, to prevent rotational breakup by centrifugal forces. The kilometer-sized and potentially-hazardous asteroid (29075) 1950 DA is one of the largest known candidates for being held together by cohesive forces, as it has a rotation period of 2.1216 h that is just beyond the critical spin limit of 2.2 h estimated for a cohesionless asteroid. Using the Advanced Thermophysical Model (or ATPM), in combination with the radar shape model, WISE thermal-infrared data, and Yarkovsky orbital drift measurement, we determined the thermal inertia, bulk density, and cohesive strength of (29075) 1950 DA (Rozitis et al., 2014, Nature, 512, 174-176). The thermal inertia value is remarkably low at 24 +20/-14 SI units, which gives a corresponding bulk density of 1.7 ± 0.7 g/cm^3 in the Yarkovsky orbital drift analysis. This bulk density is typical of a rubble-pile asteroid, and a minimum cohesive strength of 64 +12/-20 Pa is therefore required to prevent surface mass shedding and structural failure by centrifugal forces. This strength is comparable to, though somewhat less than, the cohesive forces found between the grains of lunar regolith. Finally, as (29075) 1950 DA has a 1 in 19,800 chance of impacting the Earth in 2880, and has the potential to disrupt like main-belt comet P/2013 R3, it raises new implications for impact mitigation against fast spinning rubble-pile asteroids.

  18. High-throughput quantitative analysis of domoic acid directly from mussel tissue using Laser Ablation Electrospray Ionization - tandem mass spectrometry.

    PubMed

    Beach, Daniel G; Walsh, Callee M; McCarron, Pearse

    2014-12-15

    Eliminating sample extraction or liquid chromatography steps from methods for analysis of the neurotoxin Domoic Acid (DA) in shellfish could greatly increase throughput in food safety testing laboratories worldwide. To this end, we have investigated the use of Laser Ablation Electrospray Ionization (LAESI) with tandem mass spectrometry (MS/MS) detection for DA analysis directly from mussel tissue homogenates without sample extraction, cleanup or separation. DA could be selectively detected directly from mussel tissue homogenates using MS/MS in selected reaction monitoring scan mode. The quantitative capabilities of LAESI-MS/MS for DA analysis from mussel tissue were evaluated by analysis of four mussel tissue reference materials using matrix-matched calibration. Linear response was observed from 1 mg/kg to 40 mg/kg and the method limit of detection was 1 mg/kg. Results for DA analysis in tissue within the linear range were in good agreement with two established methods, LC-UV and LC-MS/MS (recoveries from 103 to 125%). Beyond the linear range, extraction and clean-up were required to achieve good quantitation. Most notable is the extremely rapid analysis time of about 10 s per sample by LAESI-MS/MS, which corresponds to a significant increase in sample throughput compared with existing methodology for routine DA analysis. PMID:25449096

  19. Identification of sequence similarity between 60 kDa and 70 kDa molecular chaperones: evidence for a common evolutionary background?

    PubMed Central

    Flores, A I; Cuezva, J M

    1997-01-01

    Recent findings support the premise that chaperonins (60 kDa stress-proteins) and alpha-subunits of F-type ATPases (alpha-ATPase) are evolutionary related protein families. Two-dimensional gel patterns of synthesized proteins in unstressed and heat-shocked embryonic Drosophila melanogaster SL2 cells revealed that antibodies raised against the alpha-subunit of the F1-ATPase complex from rat liver recognize an inducible p71 member of the 70 kDa stress-responsive protein family. Molecular recognition of this stress-responsive 70 kDa protein by antibodies raised against the F1-ATPase alpha-subunit suggests the possibility of partial sequence similarity within these ATP-binding protein families. A multiple sequence alignment between alpha-ATPases and 60 kDa and 70 kDa molecular chaperones is presented. Statistical evaluation of sequence similarity reveals a significant degree of sequence conservation within the three protein families. The finding suggests a common evolutionary origin for the ATPases and molecular chaperone protein families of 60 kDa and 70 kDa, despite the lack of obvious structural resemblance between them. PMID:9065788

  20. Da Vinci's codex and the anatomy of healthcare.

    PubMed

    Stephens-Borg, Keith

    2012-08-01

    We usually display a laid-back approach to medical jargon throughout our theatre work. The word 'perioperative' is built from the Greek word 'peri' (around) and the Latin 'operari' (to work). Latin and Greek became the prefixed language of choice for Leonardo da Vinci, and his research was pivotal in determining the way in which surgical procedures are documented. Ancient manuscripts aided the unfolding of the secrets of anatomy, and Leonardo revealed that art was the key in expressive detailed explanation. PMID:23248927

  1. Stereoscopic augmented reality for da Vincii™ robotic biliary surgery

    PubMed Central

    Volonté, Francesco; Buchs, Nicolas C.; Pugin, François; Spaltenstein, Joël; Jung, Minoa; Ratib, Osman; Morel, Philippe

    2013-01-01

    INTRODUCTION New laparoscopic techniques put distance between the surgeon and his patient. PRESENTATION OF CASE 3D volume rendered images directly displayed in the da Vinci surgeon's console fill this gap by allowing the surgeon to fully immerse in its intervention. DISCUSSION During the robotic operation the surgeon has a greater control on the procedure because he can stay more focused not being obliged to turn is sight out of his operative field. Moreover, thanks to depth perception of the rendered images he had a precise view of important anatomical structures. CONCLUSION We describe our preliminary experience in the quest of computer-assisted robotic surgery. PMID:23466685

  2. A quasi-passive CMOS pipeline D/A converter

    NASA Technical Reports Server (NTRS)

    Wang, Fong-Jim; Temes, Gabor C.; Law, Simon

    1989-01-01

    A novel pipeline digital-to-analog converter configuration, based on switched-capacitor techniques, is described. An n-bit D/A conversion can be implemented by cascading n + 1 unit cells. The device count of the circuit increases linearly, not exponentially, with the conversion accuracy. The new configuration can be pipelined. Hence, the conversion rate can be increased without requiring a higher clock rate. An experimental 10-bit DAC prototype has been fabricated using a 3-micron CMOS process. The results show that high-speed, high-accuracy, and low-power operation can be achieved without special process or postprocess trimming.

  3. Leonardo da Vinci and the origin of semen

    PubMed Central

    Noble, Denis; DiFrancesco, Dario; Zancani, Diego

    2014-01-01

    It is well known that Leonardo da Vinci made several drawings of the human male anatomy. The early drawings (before 1500) were incorrect in identifying the origin of semen, where he followed accepted teaching of his time. It is widely thought that he did not correct this mistake, a view that is reflected in several biographies. In fact, he made a later drawing (after 1500) in which the description of the anatomy is remarkably accurate and must have been based on careful dissection. In addition to highlighting this fact, acknowledged previously in only one other source, this article reviews the background to Leonardo's knowledge of the relevant anatomy. PMID:27494016

  4. Visual tracking of da Vinci instruments for laparoscopic surgery

    NASA Astrophysics Data System (ADS)

    Speidel, S.; Kuhn, E.; Bodenstedt, S.; Röhl, S.; Kenngott, H.; Müller-Stich, B.; Dillmann, R.

    2014-03-01

    Intraoperative tracking of laparoscopic instruments is a prerequisite to realize further assistance functions. Since endoscopic images are always available, this sensor input can be used to localize the instruments without special devices or robot kinematics. In this paper, we present an image-based markerless 3D tracking of different da Vinci instruments in near real-time without an explicit model. The method is based on different visual cues to segment the instrument tip, calculates a tip point and uses a multiple object particle filter for tracking. The accuracy and robustness is evaluated with in vivo data.

  5. Effects of DA-Phen, a dopamine-aminoacidic conjugate, on alcohol intake and forced abstinence.

    PubMed

    Sutera, Flavia Maria; De Caro, Viviana; Cannizzaro, Carla; Giannola, Libero Italo; Lavanco, Gianluca; Plescia, Fulvio

    2016-09-01

    The mesolimbic dopamine (DA) system plays a key role in drug reinforcement and is involved in the development of alcohol addiction. Manipulation of the DAergic system represents a promising strategy to control drug-seeking behavior. Previous studies on 2-amino-N-[2-(3,4-dihydroxy-phenyl)-ethyl]-3-phenyl-propionamide (DA-Phen) showed in vivo effects as a DA-ergic modulator. This study was aimed at investigate DA-Phen effects on operant behavior for alcohol seeking behavior, during reinstatement following subsequent periods of alcohol deprivation. For this purpose, male Wistar rats were tested in an operant paradigm of self-administration; behavioral reactivity and anxiety like-behavior during acute abstinence were evaluated. A characterization of DA-Phen CNS targeting by its quantification in the brain was also carried out. Our findings showed that DA-Phen administration was able to reduce relapse in alcohol drinking by 50% and reversed the alterations in behavioral reactivity and emotionality observed during acute abstinence. In conclusion, DA-Phen can reduce reinstatement of alcohol drinking in an operant-drinking paradigm following deprivation periods and reverse abstinence-induced behavioral phenotype. DA-Phen activity seems to be mediated by the modulation of the DAergic transmission. However further studies are needed to characterize DA-Phen pharmacodynamic and pharmacokinetic properties, and its potential therapeutic profile in alcohol addiction. PMID:27155501

  6. Pattern of long-term sensorimotor recovery following intrastriatal and--accumbens DA micrografts in a rat model of Parkinson's disease.

    PubMed

    Falkenstein, Gero; Rosenthal, Christoph; Reum, Torsten; Morgenstern, Rudolf; Döbrössy, Máté; Nikkhah, Guido

    2009-07-01

    The functional restorative capacity of fetal dopaminergic (DA) transplants is governed by a number of critical parameters including graft location, survival of DA neurons, and transplantation technique. In addition, there is an ongoing controversy whether "too much" or "too little" survival of DA neurons is responsible for the incomplete functional recovery observed in some transplanted Parkinson's disease (PD) patients. Here we investigated two implantation sites, the nucleus accumbens (NAc) and the caudate-putamen unit (CPU), and two different graft distributions within the CPU, i.e., two 0.75 microL deposits (CPU-2) versus six 0.25 microL deposits (CPU-6) in a rat model of PD. Grafts were derived from E14 rat ventral mesencephalon and the long-term functional outcome was evaluated with a wide range of complex-sensorimotor behavioral tests. The data show that forelimb stepping, balancing behavior, and skilled forelimb reaching behavior was more restored in CPU-6-grafted animals as compared to CPU-2 animals, although the number surviving dopaminergic neurons and dopamine release were similar in the two groups. Furthermore, a correlation analysis revealed a number of inverse relationships between the rate of DA neuron survival and sensorimotor performances, e.g., for skilled forelimb use. DA grafts placed into the NAc induced a partial recovery in drug-induced rotation tests but failed to restore any of the other sensorimotor behaviors tested. Taken together, these data have important implications both for a better understanding of the complex functional graft-host interactions as well as for the further optimization of clinical neural transplantation strategies in neurodegenerative diseases. PMID:19399892

  7. Modeling and Docking Studies on Novel Mutants (K71L and T204V) of the ATPase Domain of Human Heat Shock 70 kDa Protein 1

    PubMed Central

    Elengoe, Asita; Naser, Mohammed Abu; Hamdan, Salehhuddin

    2014-01-01

    The purpose of exploring protein interactions between human adenovirus and heat shock protein 70 is to exploit a potentially synergistic interaction to enhance anti-tumoral efficacy and decrease toxicity in cancer treatment. However, the protein interaction of Hsp70 with E1A32 kDa of human adenovirus serotype 5 remains to be elucidated. In this study, two residues of ATPase domain of human heat shock 70 kDa protein 1 (PDB: 1 HJO) were mutated. 3D mutant models (K71L and T204V) using PyMol software were then constructed. The structures were evaluated by PROCHECK, ProQ, ERRAT, Verify 3D and ProSA modules. All evidence suggests that all protein models are acceptable and of good quality. The E1A32 kDa motif was retrieved from UniProt (P03255), as well as subjected to docking interaction with NBD, K71L and T204V, using the Autodock 4.2 program. The best lowest binding energy value of −9.09 kcal/mol was selected for novel T204V. Moreover, the protein-ligand complex structures were validated by RMSD, RMSF, hydrogen bonds and salt bridge analysis. This revealed that the T204V-E1A32 kDa motif complex was the most stable among all three complex structures. This study provides information about the interaction between Hsp70 and the E1A32 kDa motif, which emphasizes future perspectives to design rational drugs and vaccines in cancer therapy. PMID:24758925

  8. Identification of 30 kDa calsequestrin-binding protein, which regulates calcium release from sarcoplasmic reticulum of rabbit skeletal muscle.

    PubMed Central

    Yamaguchi, N; Kasai, M

    1998-01-01

    In a previous study [Yamaguchi, Kawasaki and Kasai (1995) Biochem. Biophys. Res. Commun. 210, 648-653], we showed that the stilbene derivative 4,4'-di-isothiocyanostilbene-2,2'-disulphonic acid activates the Ca2+ channel in the sarcoplasmic reticulum (SR) in rabbit skeletal muscle, and it does not bind to the channel protein itself but to the SR 30 kDa protein. Furthermore, the 30 kDa protein was shown to bind to calsequestrin (CSQ), which is one of the regulators of the Ca2+ release channel in the SR. In the present study, we determined the partial amino acid sequence of the CSQ-binding 30 kDa protein and, consequently, this protein was proved to be highly similar to ADP/ATP translocase (AAT) expressed in the mitochondria in a variety of cells. By Western-blotting analysis, the CSQ-binding 30 kDa protein was recognized by the antibody raised against bovine cardiac AAT and, furthermore, depolarization-induced Ca2+ release monitored in the rabbit skeletal muscle triads was significantly activated by the antibody. As a result of cloning and sequencing of the cDNA encoding AAT of the rabbit skeletal muscle, the amino acid sequence was found to be the same as that of the CSQ-binding 30 kDa protein determined above. Furthermore, the expressed product of the cDNA encoding AAT in Escherichia coli was proved to bind to CSQ. These results suggest that AAT itself is expressed in the rabbit skeletal muscle SR and regulates the Ca2+ release from the SR; that is, excitation-contraction coupling of the skeletal muscle cell. PMID:9794793

  9. A Possible Solution to the Lyman/Balmer Line Problem in Hot DA White Dwarfs

    NASA Astrophysics Data System (ADS)

    Preval, Simon P.; Barstow, Martin A.; Badnell, Nigel R.; Holberg, Jay B.; Hubeny, Ivan

    2015-06-01

    Arguably, the best method for determining the effective temperature (Teff) and surface gravity (log g) of a DA white dwarf is by fitting the Hydrogen Lyman and Balmer absorption features. However, as has been shown for white dwarfs with Teff>50,000K, the calculated value from the Lyman and Balmer lines are discrepant, which worsens with increasing temperature. Many different solutions have been suggested, ranging from the input physics used to calculate the models, to interstellar reddening. We will focus on the former, and consider three variables. The first is the atomic data used, namely the number of transitions included in line blanketing treatments and the photoionization cross sections. The second is the stark broadening treatment used to synthesise the Lyman and Balmer line profiles, namely the calculations performed by Lemke (1997) and Tremblay & Bergeron (2009). Finally, the third is the atmospheric content. The model grids are calculated with a pure H composition, and a metal polluted composition using the abundances of Preval et al. (2013). We present the preliminary results of our analysis, whereby we have determined the Teff for a small selection of white dwarfs. We plan to extend our analysis by allowing metallicity to vary in future model grids.

  10. Classification of Amazonian rosewood essential oil by Raman spectroscopy and PLS-DA with reliability estimation.

    PubMed

    Almeida, Mariana R; Fidelis, Carlos H V; Barata, Lauro E S; Poppi, Ronei J

    2013-12-15

    The Amazon tree Aniba rosaeodora Ducke (rosewood) provides an essential oil valuable for the perfume industry, but after decades of predatory extraction it is at risk of extinction. The extraction of the essential oil from wood implies the cutting of the tree, and then the study of oil extracted from the leaves is important as a sustainable alternative. The goal of this study was to test the applicability of Raman spectroscopy and Partial Least Square Discriminant Analysis (PLS-DA) as means to classify the essential oil extracted from different parties (wood, leaves and branches) of the Brazilian tree A. rosaeodora. For the development of classification models, the Raman spectra were split into two sets: training and test. The value of the limit that separates the classes was calculated based on the distribution of samples of training. This value was calculated in a manner that the classes are divided with a lower probability of incorrect classification for future estimates. The best model presented sensitivity and specificity of 100%, predictive accuracy and efficiency of 100%. These results give an overall vision of the behavior of the model, but do not give information about individual samples; in this case, the confidence interval for each sample of classification was also calculated using the resampling bootstrap technique. The methodology developed have the potential to be an alternative for standard procedures used for oil analysis and it can be employed as screening method, since it is fast, non-destructive and robust. PMID:24209345