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Sample records for analysis method sam

  1. Integration of sample analysis method (SAM) for polychlorinated biphenyls

    SciTech Connect

    Monagle, M.; Johnson, R.C.

    1996-05-01

    A completely integrated Sample Analysis Method (SAM) has been tested as part of the Contaminant Analysis Automation program. The SAM system was tested for polychlorinated biphenyl samples using five Standard Laboratory Modules{trademark}: two Soxtec{trademark} modules, a high volume concentrator module, a generic materials handling module, and the gas chromatographic module. With over 300 samples completed within the first phase of the validation, recovery and precision data were comparable to manual methods. Based on experience derived from the first evaluation of the automated system, efforts are underway to improve sample recoveries and integrate a sample cleanup procedure. In addition, initial work in automating the extraction of semivolatile samples using this system will also be discussed.

  2. Quality Control Guidelines for SAM Radiochemical Methods

    EPA Pesticide Factsheets

    Learn more about quality control guidelines and recommendations for the analysis of samples using the radiochemistry methods listed in EPA's Selected Analytical Methods for Environmental Remediation and Recovery (SAM).

  3. Quality Control Guidelines for SAM Biotoxin Methods

    EPA Pesticide Factsheets

    Learn more about quality control guidelines and recommendations for the analysis of samples using the pathogen methods listed in EPA's Selected Analytical Methods for Environmental Remediation and Recovery (SAM).

  4. Quality Control Guidelines for SAM Pathogen Methods

    EPA Pesticide Factsheets

    Learn more about quality control guidelines and recommendations for the analysis of samples using the biotoxin methods listed in EPA's Selected Analytical Methods for Environmental Remediation and Recovery (SAM).

  5. Quality Control Guidelines for SAM Chemical Methods

    EPA Pesticide Factsheets

    Learn more about quality control guidelines and recommendations for the analysis of samples using the chemistry methods listed in EPA's Selected Analytical Methods for Environmental Remediation and Recovery (SAM).

  6. SAM Chemical Methods Query

    EPA Pesticide Factsheets

    Laboratories measuring target chemical, radiochemical, pathogens, and biotoxin analytes in environmental samples can use this online query tool to identify analytical methods in EPA's Selected Analytical Methods for Environmental Remediation and Recovery

  7. SAM Radiochemical Methods Query

    EPA Pesticide Factsheets

    Laboratories measuring target radiochemical analytes in environmental samples can use this online query tool to identify analytical methods in EPA's Selected Analytical Methods for Environmental Remediation and Recovery for select radiochemical analytes.

  8. SAM Biotoxin Methods Query

    EPA Pesticide Factsheets

    Laboratories measuring target biotoxin analytes in environmental samples can use this online query tool to identify analytical methods included in EPA's Selected Analytical Methods for Environmental Remediation and Recovery for select biotoxins.

  9. SAM Pathogen Methods Query

    EPA Pesticide Factsheets

    Laboratories measuring target pathogen analytes in environmental samples can use this online query tool to identify analytical methods in EPA's Selected Analytical Methods for Environmental Remediation and Recovery for select pathogens.

  10. SAM Methods Query

    EPA Pesticide Factsheets

    Laboratories measuring target chemical, radiochemical, pathogens, and biotoxin analytes in environmental samples can use this online query tool to identify analytical methods included in EPA's Selected Analytical Methods for Environmental Remediation

  11. General Quality Control (QC) Guidelines for SAM Methods

    EPA Pesticide Factsheets

    Learn more about quality control guidelines and recommendations for the analysis of samples using the methods listed in EPA's Selected Analytical Methods for Environmental Remediation and Recovery (SAM).

  12. A Standard Analysis Method (SAM) for the automated analysis of polychlorinated biphenyls (PCBs) in soils using the chemical analysis automation (CAA) paradigm: Validation and performance

    SciTech Connect

    Rzeszutko, C.; Johnson, C.R.; Monagle, M.; Klatt, L.N.

    1997-11-01

    The Chemical Analysis Automation (CAA) program is developing a standardized modular automation strategy for chemical analysis. In this automation concept, analytical chemistry is performed with modular building blocks that correspond to individual elements of the steps in the analytical process. With a standardized set of behaviors and interactions, these blocks can be assembled in a plug-and-play manner into a complete analysis system. These building blocks, which are referred to as Standard laboratory Modules (SLM), interface to a host control system that orchestrates the entire analytical process, from sample preparation through data interpretation. The integrated system is called a Standard Analysis Method (SAM). A SAM for the automated determination of polychlorinated biphenyls (PCBs) in soils, assembled in a mobile laboratory, is undergoing extensive testing and validation. The SAM consists of the following SLMs: a four-channel Soxhlet extractor, a high-volume concentration, a column clean-up, a gas chromatography, a PCB data-interpretation module, a robot, and a human-computer interface. The SAM is configured to meet the requirements specified in the US Environmental Protection Agency`s (EPA) SW-846 methods 3541/3620A/8082 for the analysis of PCBs in soils. The PCB SAM will be described along with the developmental test plan. Performance data obtained during developmental testing will also be discussed.

  13. A spatial analysis method (SAM) to detect candidate loci for selection: towards a landscape genomics approach to adaptation.

    PubMed

    Joost, S; Bonin, A; Bruford, M W; Després, L; Conord, C; Erhardt, G; Taberlet, P

    2007-09-01

    The detection of adaptive loci in the genome is essential as it gives the possibility of understanding what proportion of a genome or which genes are being shaped by natural selection. Several statistical methods have been developed which make use of molecular data to reveal genomic regions under selection. In this paper, we propose an approach to address this issue from the environmental angle, in order to complement results obtained by population genetics. We introduce a new method to detect signatures of natural selection based on the application of spatial analysis, with the contribution of geographical information systems (GIS), environmental variables and molecular data. Multiple univariate logistic regressions were carried out to test for association between allelic frequencies at marker loci and environmental variables. This spatial analysis method (SAM) is similar to current population genomics approaches since it is designed to scan hundreds of markers to assess a putative association with hundreds of environmental variables. Here, by application to studies of pine weevils and breeds of sheep we demonstrate a strong correspondence between SAM results and those obtained using population genetics approaches. Statistical signals were found that associate loci with environmental parameters, and these loci behave atypically in comparison with the theoretical distribution for neutral loci. The contribution of this new tool is not only to permit the identification of loci under selection but also to establish hypotheses about ecological factors that could exert the selection pressure responsible. In the future, such an approach may accelerate the process of hunting for functional genes at the population level.

  14. Selected Analytical Methods for Environmental Remediation and Recovery (SAM) - Home

    EPA Pesticide Factsheets

    The SAM Home page provides access to all information provided in EPA's Selected Analytical Methods for Environmental Remediation and Recovery (SAM), and includes a query function allowing users to search methods by analyte, sample type and instrumentation.

  15. Social Activity Method (SAM): A Fractal Language for Mathematics

    ERIC Educational Resources Information Center

    Dowling, Paul

    2013-01-01

    In this paper I shall present and develop my organisational language, "social activity method" (SAM), and illustrate some of its applications. I shall introduce a new scheme for "modes of recontextualisation" that enables the analysis of the ways in which one activity--which might be school mathematics or social research or any…

  16. Safety and Waste Management for SAM Chemistry Methods

    EPA Pesticide Factsheets

    The General Safety and Waste Management page offers section-specific safety and waste management details for the chemical analytes included in EPA's Selected Analytical Methods for Environmental Remediation and Recovery (SAM).

  17. Safety and Waste Management for SAM Radiochemical Methods

    EPA Pesticide Factsheets

    The General Safety and Waste Management page offers section-specific safety and waste management details for the radiochemical analytes included in EPA's Selected Analytical Methods for Environmental Remediation and Recovery (SAM).

  18. Safety and Waste Management for SAM Pathogen Methods

    EPA Pesticide Factsheets

    The General Safety and Waste Management page offers section-specific safety and waste management details for the pathogens included in EPA's Selected Analytical Methods for Environmental Remediation and Recovery (SAM).

  19. Radical SAM, A Novel Protein Superfamily Linking Unresolved Steps in Familiar Biosynthetic Pathways with Radical Mechanisms: Functional Characterization Using New Analysis and Information Visualization Methods

    SciTech Connect

    Sofia, Heidi J.; Chen, Guang; Hetzler, Elizabeth G.; Reyes Spindola, Jorge F.; Miller, Nancy E.

    2001-03-01

    A large protein superfamily with over 500 members has been discovered and analyzed using powerful new bioinformatics and information visualization methods. Evidence exists that these proteins generate a 5?-deoxyadenosyl radical by reductive cleavage of S-adenosylmethionine (SAM) through an unusual Fe-S center. Radical SAM superfamily proteins function in DNA precursor, vitamin, cofactor, antibiotic, and herbicide biosynthesis in a collection of basic and familiar pathways. One of the members is interferon-inducible and is considered a candidate drug target for osteoporosis. The identification of this superfamily suggests that radical-based catalysis is important in a number of previously well-studied but unresolved biochemical pathways.

  20. Rio Hondo Sediment Assessment Analysis Using SAM. Numerical Model Investigation

    DTIC Science & Technology

    1991-05-01

    MISCELLANEOUS PAPER HL-91-1 M ~ RIO HONDO SEDIMENT ASSESSMENT ANALYSIS USING SAM Numerical Model Investigation AD-A238 572Ii 1 11byIll lil Nolan K...FUNDING NUMBERS Rio Hondo Sediment Assessment Analysis Using SAM; Numerical Model Investigation 6. AUTHOR(S) Nolan K. Raphelt Michael J. Trawle William A... Rio Hondo through Roswell, NM, was conducted. The investigation represented a sediment assessment level study conducted to test for potential

  1. Social activity method (SAM): A fractal language for mathematics

    NASA Astrophysics Data System (ADS)

    Dowling, Paul

    2013-09-01

    In this paper I shall present and develop my organisational language, social activity method (SAM), and illustrate some of its applications. I shall introduce a new scheme for modes of recontextualisation that enables the analysis of the ways in which one activity - which might be school mathematics or social research or any empirically observed regularity of practice - recontextualises the practice of another and I shall also present, deploy, and develop an existing scheme - domains of action - in an analysis of school mathematics examination papers and in the structuring of what I refer to as the esoteric domain. This domain is here conceived as a hybrid domain of, first, linguistic and extralinguistic resources that are unambiguously mathematical in terms of both expression and content and, second, pedagogic theory - often tacit - that enables the mathematical gaze onto other practices and so recontextualises them. A second and more general theme that runs through the paper is the claim that there is nothing that is beyond semiosis, that there is nothing to which we have direct access, unmediated by interpretation. This state of affairs has implications for mathematics education. Specifically, insofar as an individual's mathematical semiotic system is under continuous development - the curriculum never being graspable all at once - understanding - as a stable semiotic moment - of any aspect or object of mathematics is always localised to the individual and is at best transient, and the sequencing of such moments may well also be more individualised than consistent in some correspondence with the sequencing of the curriculum. This being the case, a concentration on understanding as a goal may well serve to inhibit the pragmatic acquisition and deployment of mathematical technologies, which should be the principal aim of mathematics teaching and learning. The paper is primarily concerned with mathematics education. SAM, however, is a language that is available for

  2. STANDARDIZED ASSESSMENT METHOD (SAM) FOR RIVERINE MACROINVERTEBRATES

    EPA Science Inventory

    During the summer of 2001, twelve sites were sampled for macroinvertebrates, six each on the Great Miami and Kentucky Rivers. Sites were chosen in each river from those sampled in the 1999 methods comparison study to reflect a disturbance gradient. At each site, a total distanc...

  3. Updates to Selected Analytical Methods for Environmental Remediation and Recovery (SAM)

    EPA Pesticide Factsheets

    View information on the latest updates to methods included in EPA's Selected Analytical Methods for Environmental Remediation and Recovery (SAM), including the newest recommended methods and publications.

  4. A standard analysis method (SAM) for the automated analysis of polychlorinated biphenyls (PCBs) in soils using the chemical analysis automation (CAA) paradigm: validation and performance

    SciTech Connect

    Rzeszutko, C.; Johnson, C.R.; Monagle, M.; Klatt, L.N.

    1997-10-01

    The Chemical Analysis Automation (CAA) program is developing a standardized modular automation strategy for chemical analysis. In this automation concept, analytical chemistry is performed with modular building blocks that correspond to individual elements of the steps in the analytical process. With a standardized set of behaviors and interactions, these blocks can be assembled in a `plug and play` manner into a complete analysis system. These building blocks, which are referred to as Standard Laboratory Modules (SLM), interface to a host control system that orchestrates the entire analytical process, from sample preparation through data interpretation. The integrated system is called a Standard Analysis Method (SAME). A SAME for the automated determination of Polychlorinated Biphenyls (PCB) in soils, assembled in a mobile laboratory, is undergoing extensive testing and validation. The SAME consists of the following SLMs: a four channel Soxhlet extractor, a High Volume Concentrator, column clean up, a gas chromatograph, a PCB data interpretation module, a robot, and a human- computer interface. The SAME is configured to meet the requirements specified in U.S. Environmental Protection Agency`s (EPA) SW-846 Methods 3541/3620A/8082 for the analysis of pcbs in soils. The PCB SAME will be described along with the developmental test plan. Performance data obtained during developmental testing will also be discussed.

  5. Local sphere-based co-registration for SAM group analysis in subjects without individual MRI.

    PubMed

    Steinstraeter, O; Teismann, Inga K; Wollbrink, A; Suntrup, S; Stoeckigt, K; Dziewas, R; Pantev, C

    2009-03-01

    Synthetic aperture magnetometry (SAM) is a powerful MEG source localization method to analyze evoked as well as induced brain activity. To gain structural information of the underlying sources, especially in group studies, individual magnetic resonance images (MRI) are required for co-registration. During the last few years, the relevance of MEG measurements on understanding the pathophysiology of different diseases has noticeable increased. Unfortunately, especially in patients and small children, structural MRI scans cannot always be performed. Therefore, we developed a new method for group analysis of SAM results without requiring structural MRI data that derives its geometrical information from the individual volume conductor model constructed for the SAM analysis. The normalization procedure is fast, easy to implement and integrates seamlessly into an existing landmark based MEG-MRI co-registration procedure. This new method was evaluated on different simulated points as well as on a pneumatic index finger stimulation paradigm analyzed with SAM. Compared with an established MRI-based normalization procedure (SPM2) the new method shows only minor errors in single subject results as well as in group analysis. The mean difference between the two methods was about 4 mm for the simulated as well as for finger stimulation data. The variation between individual subjects was generally higher than the error induced by the missing MRIs. The method presented here is therefore sufficient for most MEG group studies. It allows accomplishing MEG studies with subject groups where MRI measurements cannot be performed.

  6. Economic Analysis Case Studies of Battery Energy Storage with SAM

    SciTech Connect

    DiOrio, Nicholas; Dobos, Aron; Janzou, Steven

    2015-11-01

    Interest in energy storage has continued to increase as states like California have introduced mandates and subsidies to spur adoption. This energy storage includes customer sited behind-the-meter storage coupled with photovoltaics (PV). This paper presents case study results from California and Tennessee, which were performed to assess the economic benefit of customer-installed systems. Different dispatch strategies, including manual scheduling and automated peak-shaving were explored to determine ideal ways to use the storage system to increase the system value and mitigate demand charges. Incentives, complex electric tariffs, and site specific load and PV data were used to perform detailed analysis. The analysis was performed using the free, publically available System Advisor Model (SAM) tool. We find that installation of photovoltaics with a lithium-ion battery system priced at $300/kWh in Los Angeles under a high demand charge utility rate structure and dispatched using perfect day-ahead forecasting yields a positive net-present value, while all other scenarios cost the customer more than the savings accrued. Different dispatch strategies, including manual scheduling and automated peak-shaving were explored to determine ideal ways to use the storage system to increase the system value and mitigate demand charges. Incentives, complex electric tariffs, and site specific load and PV data were used to perform detailed analysis. The analysis was performed using the free, publically available System Advisor Model (SAM) tool. We find that installation of photovoltaics with a lithium-ion battery system priced at $300/kWh in Los Angeles under a high demand charge utility rate structure and dispatched using perfect day-ahead forecasting yields a positive net-present value, while all other scenarios cost the customer more than the savings accrued.

  7. Peptide Fragments of Odin-Sam1: Conformational Analysis and Interaction Studies with EphA2-Sam.

    PubMed

    Mercurio, Flavia A; Di Natale, Concetta; Pirone, Luciano; Scognamiglio, Pasqualina L; Marasco, Daniela; Pedone, Emilia M; Saviano, Michele; Leone, Marilisa

    2015-07-27

    Odin is a protein belonging to the ANKS family, and has two tandem Sam domains. The first, Odin-Sam1, binds to the Sam domain of the EphA2 receptor (EphA2-Sam); this interaction could be crucial for the regulation of receptor endocytosis and might have an impact on cancer. Odin-Sam1 associates with EphA2-Sam by adopting a "mid-loop/end-helix" model. In this study three peptide sequences, encompassing the mid-loop interacting portion of Odin-Sam1 and its C-terminal α5 helix, were designed. Their conformational properties were analyzed by CD and NMR. In addition, their abilities to interact with EphA2-Sam were investigated by SPR studies. The peptides adopt a predominantly disordered state in aqueous buffer, but a higher helical content is evident in the presence of the cosolvent trifluoroethanol. Dissociation constants towards EphA2-Sam were in the high micromolar range. The structural findings suggest further routes for the design of potential anti-cancer therapeutics as inhibitors of EphA2-Sam heterotypic interactions.

  8. The Combustion Experiment on the Sample Analysis at Mars (SAM) Instrument Suite on the Curiosity Rover

    NASA Technical Reports Server (NTRS)

    Stern, J. C.; Malespin, C. A.; Eigenbrode, J. L.; Graham, H. V.; Archer, P. D., Jr.; Brunner, A. E.; Freissinet, C.; Franz, H. B.; Fuentes, J.; Glavin, D. P.; Leshin, L. A.; Mahaffy, P. R.; McAdam, A. C.; Ming, D. W.; Navvaro-Gonzales, R.; Niles, P. B.; Steele, A.

    2014-01-01

    The combustion experiment on the Sample Analysis at Mars (SAM) suite on Curiosity will heat a sample of Mars regolith in the presence of oxygen and measure composition of the evolved gases using quadrupole mass spectrometry (QMS) and tunable laser spectrometry (TLS). QMS will enable detection of combustion products such as CO, CO2, NO, and other oxidized species, while TLS will enable precise measurements of the abundance and carbon isotopic composition (delta(sup 13)C) of the evolved CO2 and hydrogen isotopic composition (deltaD) of H2O. SAM will perform a two-step combustion to isolate combustible materials below approx.550 C and above approx.550 C. The combustion experiment on SAM, if properly designed and executed, has the potential to answer multiple questions regarding the origins of volatiles seen thus far in SAM evolved gas analysis (EGA) on Mars. Constraints imposed by SAM and MSL time and power resources, as well as SAM consumables (oxygen gas), will limit the number of SAM combustion experiments, so it is imperative to design an experiment targeting the most pressing science questions. Low temperature combustion experiments will primarily target the quantification of carbon (and nitrogen) contributed by SAM wet chemistry reagants MTBSTFA (N-Methyl-N-tert-butyldimethylsilyltrifluoroacetamide) and DMF (Dimethylformamide), which have been identified in the background of blank and sample runs and may adsorb to the sample while the cup is in the Sample Manipulation System (SMS). In addition, differences between the sample and "blank" may yield information regarding abundance and delta(sup 13)C of bulk (both organic and inorganic) martian carbon. High temperature combustion experiments primarily aim to detect refractory organic matter, if present in Cumberland fines, as well as address the question of quantification and deltaD value of water evolution associated with hydroxyl hydrogen in clay minerals.

  9. Detection and Quantification of Nitrogen Compounds in Martian Solid Samples by the Sample Analysis at Mars (SAM) Instrument Suite

    NASA Technical Reports Server (NTRS)

    Stern, Jennifer C.; Navarro-Gonzalez, Rafael; Freissinet, Caroline; McKay, Christopher P.; Archer, Paul Douglas; Buch, Arnaud; Eigenbrode, Jennifer L.; Franz, Heather; Glavin, Daniel Patrick; Ming, Douglas W/; Steele, Andrew; Szopa, Cyril; Wray, James J.; Conrad, Pamela Gales; Mahaffay, Paul R.

    2013-01-01

    The Sample Analysis at Mars (SAM) instrument suite on the Mars Science Laboratory (MSL) Curiosity Rover detected both reduced and oxidized nitrogen-bearing compounds during the pyrolysis of surface materials from three sites at Gale Crater. Preliminary detections of nitrogen species include NO, HCN, ClCN, CH3CN, and TFMA (trifluoro-Nmethyl-acetamide). On Earth, nitrogen is a crucial bio-element, and nitrogen availability controls productivity in many environments. Nitrogen has also recently been detected in the form of CN in inclusions in the Martian meteorite Tissint, and isotopically heavy nitrogen (delta N-15 approx +100per mille) has been measured during stepped combustion experiments in several SNC meteorites. The detection of nitrogen-bearing compounds in Martian regolith would have important implications for the habitability of ancient Mars. However, confirmation of indigenous Martian nitrogen bearing compounds will require ruling out their formation from the terrestrial derivatization reagents (e.g. N-methyl-N-tert-butyldimethylsilyl-trifluoroacetamide, MTBSTFA and dimethylformamide, DMF) carried for SAM's wet chemistry experiment that contribute to the SAM background. The nitrogen species we detect in the SAM solid sample analyses can also be produced during laboratory pyrolysis experiments where these reagents are heated in the presence of perchlorate, a compound that has also been identified by SAM in Mars solid samples. However, this does not preclude a Martian origin for some of these compounds, which are present in nanomolar concentrations in SAM evolved gas analyses. Analysis of SAM data and laboratory breadboard tests are underway to determine whether nitrogen species are present at higher concentrations than can be accounted for by maximum estimates of nitrogen contribution from MTBSTFA and DMF. In addition, methods are currently being developed to use GC Column 6, (functionally similar to a commercial Q-Bond column), to separate and identify

  10. The Combustion Experiment on the Sample Analysis at Mars (SAM) Instrument Suite on the Curiosity Rover

    NASA Technical Reports Server (NTRS)

    Stern, J. C.; Malespin, C. A.; Eigenbrode, J.; Graham, H. V.; Archer, P. D.; Brunner, A.; Freissinet, C.; Franz, H. B.; Fuentes, J.; Glavin, D. P.; Mahaffy, P. R.; McAdam, A. C.; Ming, D. W.; Niles, P. B.; Steele, A.

    2014-01-01

    The combustion experiment on the Sample Analysis at Mars (SAM) suite on Curiosity will heat a sample of Mars regolith in the presence of oxygen and measure composition of the evolved gases using quadrupole mass spectrometry (QMS) and tunable laser spectrometry (TLS). QMS will enable detection of combustion products such as CO, CO2, NO, and other oxidized species, while TLS will enable precision measurements of the abundance and carbon isotopic composition (delta C-13) of the evolved CO2 and hydrogen isotopic composition (delta D) of H2O. SAM will perform a two-step combustion to isolate combustible materials below approx. 550 C and above approx. 550 C.

  11. Construct Validation of the Louisiana School Analysis Model (SAM) Instructional Staff Questionnaire

    ERIC Educational Resources Information Center

    Bray-Clark, Nikki; Bates, Reid

    2005-01-01

    The purpose of this study was to validate the Louisiana SAM Instructional Staff Questionnaire, a key component of the Louisiana School Analysis Model. The model was designed as a comprehensive evaluation tool for schools. Principle axis factoring with oblique rotation was used to uncover the underlying structure of the SISQ. (Contains 1 table.)

  12. SAM Companion Documents and Sample Collection Procedures

    EPA Pesticide Factsheets

    SAM Companion Documents and Sample Collection Procedures provide information intended to complement the analytical methods listed in Selected Analytical Methods for Environmental Remediation and Recovery (SAM).

  13. Evolved Gas Analyses of Sedimentary Materials in Gale Crater, Mars: Results of the Curiosity Rover's Sample Analysis at Mars (SAM) Instrument from Yellowknife Bay to the Stimson Formation

    NASA Technical Reports Server (NTRS)

    Sutter, B.; McAdam, A. C.; Rampe, E. B.; Ming, D. W.; Mahaffy, P. R.; Navarro-Gonzalez, R.; Stern, J. C.; Eigenbrode, J. L.; Archer, P. D.

    2016-01-01

    The Sample Analysis at Mars (SAM) instrument aboard the Mars Science Laboratory rover has analyzed 10 samples from Gale Crater. All SAM evolved gas analyses have yielded a multitude of volatiles (e.g, H2O, SO2, H2S, CO2, CO, NO, O2, HC1). The objectives of this work are to 1) Characterize the evolved H2O, SO2, CO2, and O2 gas traces of sediments analyzed by SAM through sol 1178, 2) Constrain sediment mineralogy/composition based on SAM evolved gas analysis (SAM-EGA), and 3) Discuss the implications of these results releative to understanding the geochemical history of Gale Crater.

  14. Molecular cloning, characterization and expression analysis of the SAMS gene during adventitious root development in IBA-induced tetraploid black locust.

    PubMed

    Quan, Jine; Zhang, Sheng; Zhang, Chunxia; Meng, Sen; Zhao, Zhong; Xu, Xuexuan

    2014-01-01

    S-Adenosylmethionine synthetase (SAMS) catalyzes the synthesis of S-adenosylmethionine (SAM), a precursor for ethylene and polyamine biosynthesis. Here, we report the isolation of the 1498 bp full-length cDNA sequence encoding tetraploid black locust (Robinia pseudoacacia L.) SAMS (TrbSAMS), which contains an open reading frame of 1179 bp encoding 392 amino acids. The amino acid sequence of TrbSAMS has more than 94% sequence identity to SAMSs from other plants, with a closer phylogenetic relationship to SAMSs from legumes than to SAMS from other plants. The TrbSAMS monomer consists of N-terminal, central, and C-terminal domains. Subcellular localization analysis revealed that the TrbSAMS protein localizes mainly to in the cell membrane and cytoplasm of onion epidermal cells and Arabidopsis mesophyll cell protoplasts. Indole-3-butyric acid (IBA)-treated cuttings showed higher levels of TrbSAMS transcript than untreated control cuttings during root primordium and adventitious root formation. TrbSAMS and its downstream genes showed differential expression in shoots, leaves, bark, and roots, with the highest expression observed in bark. IBA-treated cuttings also showed higher SAMS activity than control cuttings during root primordium and adventitious root formation. These results indicate that TrbSAMS might play an important role in the regulation of IBA-induced adventitious root development in tetraploid black locust cuttings.

  15. Synthia Tonn, SAM Engineer

    NASA Video Gallery

    The Sample Analysis at Mars (SAM) is a suite of instruments developed for use on the Mars Science Laboratory, designed to help find out whether or not Mars ever supported life. This video profiles ...

  16. Possible Detection of Perchlorates by the Sample Analysis at Mars (SAM) Instrument: Comparison with Previous Missions

    NASA Technical Reports Server (NTRS)

    Navarro-Gonzalex, Rafael; Sutter, Brad; Archer, Doug; Ming, Doug; Eigenbrode, Jennifer; Franz, Heather; Glavin, Daniel; McAdam, Amy; Stern, Jennifer; McKay, Christopher; Coll, Patrice; Cabane, Michel; Mahaffy, Paul; Conrad, Pamela; Martin-Torres, Francisco; Zorzano-Mier, Maria; Grotzinger, John

    2013-01-01

    The first chemical analysis of soluble salts in the soil was carried out by the Phoenix Lander in the Martian Arctic [1]. Surprisingly, chlorine was present as magnesium or calcium perchlorate at 0.4 to 0.6 percent. Additional support for the identification of perchlorate came from the evolved gas analysis which detected the release of molecular oxygen at 350-550C [1]. When Mars-like soils from the Atacama Desert were spiked with magnesium perchlorate (1 percent) and heated using the Viking GC-MS protocol, nearly all the organics were combusted but a small amount was chlorinated, forming chloromethane and dichloromethane [2]. These chlorohydrocarbons were detected by the Viking GC-MS experiments when the Martian soil was analyzed but they were considered to be terrestrial contaminants [3]. Reinterpretation of the Viking results suggests <0.1 percent perchlorate and ppm levels of organic carbon at landing site 1 and 2 [2]. The suggestion of perchlorate in the Viking sites [2] has been challenged on the grounds that the detected compounds (CH3Cl and CH2Cl2) were carried from Earth [4]. Recently the Sample Analysis at Mars (SAM) instrument on board the Mars Science Laboratory (MSL) ran four samples from an aeolian bedform named Rocknest. The samples analyzed were portioned from the fifth scoop at this location. The samples were heated to 835C at 35C/min with a He flow. The SAM QMS detected a major oxygen release (300-500C) [5], coupled with the release of chlorinated hydrocarbons (chloromethane, dichloromethane, trichloromethane, and chloromethylpropene) detected both by SAM QMS and GC-MS derived from known Earth organic contaminants in the instrument [6]. Calcium perchlorate appears to be the best candidate for evolved O2 in the Rocknest samples at this time but other Cl species (e.g., chlorates) are possible and must be evaluated. The potential detection of perchlorates in Rocknest material adds weight to the argument that both Viking Landers measured signatures of

  17. In situ analysis of Mars soil and rocks samples with the SAM experiment: laboratory measurements supporting treatment and interpretation of the detection of organics

    NASA Astrophysics Data System (ADS)

    Millan, M.; Szopa, C.; Buch, A.; Glavin, D.; Freissinet, C.; Coll, P.; Cabane, M.; Mahaffy, P.

    2015-10-01

    The Sample Analysis at Mars (SAM) experiment onboard the Curiosity rover detected numerous organic compounds when analyzing the solid samples collected on the way to Mount Sharp. But MTBSTFA, the chemical reactant for the chemical treatment of the refractory molecules present in the solid samples and present in cups of SAM,was shown to be unfortunately present in the Sample Manipulation System(SMS). During the sample analysis, this chemical species reacts with the organic and inorganic molecules present in the samples. This reaction leads to the production and subsequent detection of numerous MTBSTFA derivatives which makes the treatment and the interpretation of the SAM data complex. Moreover, for the first time on Mars, the wet chemistry method was used on a Cumberland sample to help the GC separation and the MS identification of non volatile compounds. To ensure the identification of the organic molecules and try to discriminate organics generated internally to SAM from those present in the samples analyzed, it is mandatory to perform laboratory experimental calibrations under martian operating conditions.

  18. Other Resources Related to SAM

    EPA Pesticide Factsheets

    Learn more about websites and information related to EPA's Selected Analytical Methods for Environmental Remediation and Recovery (SAM), including key EPA collaborators, laboratories, and research centers.

  19. Evolved Gas Analyses of the Murray Formation in Gale Crater, Mars: Results of the Curiosity Rover's Sample Analysis at Mars (SAM) Instrument

    NASA Technical Reports Server (NTRS)

    Sutter, B.; McAdam, A. C.; Rampe, E. B.; Thompson, L. M.; Ming, D. W.; Mahaffy, P. R.; Navarro-Gonzalez, R.; Stern, J. C.; Eigenbrode, J. L.; Archer, P. D.

    2017-01-01

    The Sample Analysis at Mars (SAM) instrument aboard the Mars Science Laboratory rover has analyzed 13 samples from Gale Crater. All SAM-evolved gas analyses have yielded a multitude of volatiles (e.g., H2O, SO2, H2S, CO2, CO, NO, O2, HCl) [1- 6]. The objectives of this work are to 1) Characterize recent evolved SO2, CO2, O2, and NO gas traces of the Murray formation mudstone, 2) Constrain sediment mineralogy/composition based on SAM evolved gas analysis (SAM-EGA), and 3) Discuss the implications of these results relative to understanding the geological history of Gale Crater.

  20. Investigating the Origin of Chlorohydrocarbons Detected by the Sample Analysis at Mars (SAM) Instrument at Rocknest

    NASA Technical Reports Server (NTRS)

    Glavin, D.; Archer, D.; Brunner, A.; Buch, A.; Cabane, M.; Coll, P.; Conrad, P.; Coscia, D.; Dworkin J.; Eigenbrode, J.; Freissinet, C.; Mahaffy, P.; Martin, M.; McKay, C.; Miller, K.; Ming, D.; Navarro-Gonzalez, R.; Steele, A.; Summons, R. E.; Sutter, B.; Szopa, C.; Teinturier, S.

    2013-01-01

    The search for organic compounds on Mars, including molecules of either abiotic or biological origin is one of the key goals of the Mars Science Laboratory (MSL) mission. Previously the Viking and Phoenix Lander missions searched for organic compounds, but did not find any definitive evidence of martian organic material in the soils. The Viking pyrolysis gas chromatography mass spectrometry (GCMS) instruments did not detect any organic compounds of martian or exogenous origin above a level of a few parts-per-billion (ppb) in the near surface regolith at either landing site [1]. Viking did detect chloromethane and dichloromethane at pmol levels (up to 40 ppb) after heating the soil samples up to 500 C (Table 1), although it was originally argued that the chlorohydrocarbons were derived from cleaning solvents used on the instrument hardware, and not from the soil samples themselves [1]. More recently, it was suggested that the chlorohydrocarbons detected by Viking may have been formed by oxidation of indigenous organic matter during pyrolysis of the soil in the presence of perchlorates [2]. Although it is unknown if the Viking soils contained perchlorates, Phoenix did reveal relatively high concentrations (0.6 wt%) of perchlorate salt in the icy regolith [3], therefore, it is possible that the chlorohydrocarbons detected by Viking were produced, at least partially, during the experiments [2,4]. The Sample Analysis at Mars (SAM) instrument suite on MSL analyzed the organic composition of the soil at Rocknest in Gale Crater using a combination of pyrolysis evolved gas analysis (EGA) and GCMS. One empty cup procedural blank followed by multiple EGA-GCMS analyses of the Rocknest soil were carried out. Here we will discuss the results from these SAM measurements at Rocknest and the steps taken to determine the source of the chlorohydrocarbons.

  1. Detection of Organic Constituents Including Chloromethylpropene in the Analyses of the ROCKNEST Drift by Sample Analysis at Mars (SAM)

    NASA Technical Reports Server (NTRS)

    Eigenbrode, J. L.; Glavin, D.; Coll, P.; Summons, R. E.; Mahaffy, P.; Archer, D.; Brunner, A.; Conrad, P.; Freissinet, C.; Martin, M.; McKay, C.; Hurowitz, J.; Evans, J.; Anderson, M.; Jandura, L.; Brown, K.; Logan C.; Kuhn, S.; Anderson, R.; Beegle, L.; Blakkolb, B.; Katz, I.; Limonadi, D.; Rainen, R.; Umland, J.

    2013-01-01

    key challenge in assessing the habitability of martian environments is the detection of organic matter - a requirement of all life as we know it. The Curiosity rover, which landed on August 6, 2012 in Gale Crater of Mars, includes the Sample Analysis at Mars (SAM) instrument suite capable of in situ analysis of gaseous organic components thermally evolved from sediment samples collected, sieved, and delivered by the MSL rover. On Sol 94, SAM received its first solid sample: scooped sediment from Rocknest that was sieved to <150 m particle size. Multiple 10-40 mg portions of the scoop #5 sample were delivered to SAM for analyses. Prior to their introduction, a blank (empty cup) analysis was performed. This blank served 1) to clean the analytical instrument of SAMinternal materials that accumulated in the gas processing system since integration into the rover, and 2) to characterize the background signatures of SAM. Both the blank and the Rocknest samples showed the presence of hydrocarbon components.

  2. Carbon and Sulfur Isotopic Composition of Yellowknife Bay Sediments: Measurements by the Sample Analysis at Mars (SAM) Quadrupole Mass Spectrometer

    NASA Technical Reports Server (NTRS)

    Franz, H. B.; Mahaffy, P. R.; Stern, J. C.; Eigenbrode, J. L.; Steele, A.; Ming, D. W.; McAdam, A. C.; Freissinet, C.; Glavin, D. P.; Archer, P. D.; Brunner, A. E.; Grotzinger,J. P.; Jones, J. H.; Leshin, L. A.; Miller, K.; Morris, R. V.; Navarro-Gonzalez, R.; Niles, P. B.; Owen, T. C.; Summons, R. E.; Sutter, B.; Webster, C. R.

    2014-01-01

    Since landing at Gale Crater in Au-gust 2012, the Sample Analysis at Mars (SAM) instru-ment suite on the Mars Science Laboratory (MSL) “Curiosity” rover has analyzed solid samples from the martian regolith in three locations, beginning with a scoop of aeolian deposits from the Rocknest (RN) sand shadow. Curiosity subsequently traveled to Yellowknife Bay, where SAM analyzed samples from two separate holes drilled into the Sheepbed Mudstone, designated John Klein (JK) and Cumberland (CB). Evolved gas analysis (EGA) of all samples revealed the presence of H2O as well as O-, C- and S-bearing phas-es, in most cases at abundances below the detection limit of the CheMin instrument. In the absence of definitive mineralogical identification by CheMin, SAM EGA data can help provide clues to the mineralogy of volatile-bearing phases through examination of tem-peratures at which gases are evolved from solid sam-ples. In addition, the isotopic composition of these gas-es may be used to identify possible formation scenarios and relationships between phases. Here we report C and S isotope ratios for CO2 and SO2 evolved from the JK and CB mudstone samples as measured with SAM’s quadrupole mass spectrometer (QMS) and draw com-parisons to RN.

  3. \\tLaboratory Environmental Sample Disposal Information Document - Companion to Standardized Analytical Methods for Environmental Restoration Following Homeland Security Events (SAM) – Revision 5.0

    EPA Pesticide Factsheets

    Document is intended to provide general guidelines for use byEPA and EPA-contracted laboratories when disposing of samples and associated analytical waste following use of the analytical methods listed in SAM.

  4. Structural analysis of loci involved in pSAM2 site-specific integration in Streptomyces.

    PubMed

    Boccard, F; Smokvina, T; Pernodet, J L; Friedmann, A; Guérineau, M

    1989-01-01

    pSAM2 is an 11-kb plasmid integrated in the Streptomyces ambofaciens ATCC23877 and ATCC15154 genomes and found additionally as a free replicon in an uv derivative. After transfer into S. ambofaciens DSM40697 (devoid of pSAM2) or into Streptomyces lividans, specific integration of pSAM2 occurred very efficiently. A 58-bp sequence (att) present in both pSAM2 (attP) and S. ambofaciens strain DSM40697 (attB) attachment regions is found at the boundaries (attL and attR) of integrated pSAM2 in S. ambofaciens strain ATCC23877. The S. lividans chromosomal integration zone contained an imperfectly conserved att sequence (attB), and the integration event of pSAM2 was located within a 49-bp sequence of attB. Only one primary functional attB sequence was present in the S. lividans or S. ambofaciens DSM40697 total DNA. The integration zone of S. lividans hybridized with the integration zone of S. ambofaciens DSM40697. The two integration zones were homologous only to the right side of the att sequence. The conserved region contained an open reading frame (ORF A) with a stop codon located 99 bp from the attB sequence in both strains. S. ambofaciens DSM40697 contained DNA sequences related to pSAM2 on the left side of the att site. The att sequence was included in a region conserved in Streptomyces antibioticus, Streptomyces actuosus, Streptomyces bikiniensis, Streptomyces coelicolor, Streptomyces glaucescens, and Streptomyces parvulus. Site-specific integration of a pSAM2 derivative was characterized in another unrelated strain, Streptomyces griseofuscus. This strain contained an imperfectly conserved 58-bp attB sequence, and the integration event took place within a 45-bp sequence of attB. Site-specific integration of pSAM2 in three nonrelated Streptomyces strains suggests the wide host range of pSAM2 integration in Streptomyces.

  5. SAM 2.1—A computer program for plotting and formatting surveying data for estimating peak discharges by the slope-area method

    USGS Publications Warehouse

    Hortness, J.E.

    2004-01-01

    The U.S. Geological Survey (USGS) measures discharge in streams using several methods. However, measurement of peak discharges is often impossible or impractical due to difficult access, inherent danger of making measurements during flood events, and timing often associated with flood events. Thus, many peak discharge values often are calculated after the fact by use of indirect methods. The most common indirect method for estimating peak dis- charges in streams is the slope-area method. This, like other indirect methods, requires measuring the flood profile through detailed surveys. Processing the survey data for efficient entry into computer streamflow models can be time demanding; SAM 2.1 is a program designed to expedite that process. The SAM 2.1 computer program is designed to be run in the field on a portable computer. The program processes digital surveying data obtained from an electronic surveying instrument during slope- area measurements. After all measurements have been completed, the program generates files to be input into the SAC (Slope-Area Computation program; Fulford, 1994) or HEC-RAS (Hydrologic Engineering Center-River Analysis System; Brunner, 2001) computer streamflow models so that an estimate of the peak discharge can be calculated.

  6. The Search for Nitrates on Mars by the Sample Analysis at Mars (SAM) Instrument

    NASA Technical Reports Server (NTRS)

    Navarro-Gonzalez, Rafael; Stern, Jennifer C.; Freissinet, Caroline; McKay, Chirstopher P.; Sutter, Brad; Archer, P. Douglas, Jr.; McAdam, Amy; Franz, Heather; Coll, Partice J.; Glavin, Daniel Patrick; Eigenbrode, Jennifer L.; Wong, Mike; Atreya, Sushiil K.; Wray, James J.; Steele, Andrew; Prats, Benito D.; Szopa, Cyril; Coscia, David; Teinturier, Samuel; Buch, Arnaud; Leshin, Laurie A.; Ming, Douglas W.; Conrad, Pamela Gales; Cabane, Michel; Mahaffy, Paul R.; Grotzinger, John P.

    2013-01-01

    Planetary models suggest that nitrogen was abundant in the early Martian atmosphere as N2 but it was lost by sputtering and photochemical loss to space, impact erosion, and chemical oxidation to nitrates. A nitrogen cycle may exist on Mars where nitrates, produced early in Mars' history, may have been later decomposed back into N2 by the current impact flux. Nitrates are a fundamental source of nitrogen for terrestrial microorganisms, and they have evolved metabolic pathways to perform both oxidation and reduction to drive a complete biological nitrogen cycle. Therefore, the characterization of nitrogen in Martian soils is important to assess habitability of the Martian environment, particularly with respect to the presence of nitrates. The only previous mission that was designed to search for soil nitrates was the Phoenix mission but N-containing species were not detected by TEGA or the MECA WCL. Nitrates have been tentatively identified in Nakhla meteorites, and if nitrogen was oxidized on Mars, this has important implications for the habitability potential of Mars. Here we report the results from the Sample Analysis at Mars (SAM) instrument suite aboard the Curiosity rover during the first year of surface operations in Gale Crater. Samples from the Rocknest aeolian deposit and sedimentary rocks (John Klein) were heated to approx 835degC under helium flow and the evolved gases were analyzed by MS and GC-MS. Two and possibly three peaks may be associated with the release of m/z 30 at temperatures ranging from 180degC to 500degC. M/z 30 has been tentatively identified as NO; other plausible contributions include CH2O and an isotopologue of CO, 12C18O. NO, CH2O, and CO may be reaction products of reagents (MTBSTFA/DMF) carried from Earth for the wet chemical derivatization experiments with SAM and/or derived from indigenous soil nitrogenated organics. Laboratory analyses indicate that it is also possible that <550degC evolved NO is produced via reaction of HCl with

  7. Sulphur-bearing Compounds Detected by MSL SAM Evolved Gas Analysis of Materials from Yellowknife Bay, Gale Crater, Mars

    NASA Technical Reports Server (NTRS)

    McAdam, A. C.; Franz, H. B.; Archer, P. D. Jr.; Sutter, B.; Eigenbrode, J. L.; Freissinet, C.; Atreya, S. K.; Bish, D. L.; Blake, D. F.; Brunner, A.; Mahaffy, P. R.; Ming, D. W.; Morris, R. V.; Navarro-Gonzalez, R.; Rampe, E. B.; Steele, A.; Wray, J. J.

    2014-01-01

    The Sample Analysis at Mars (SAM) and Chemistry and Mineralogy (CheMin) instruments on the Mars Science Laboratory (MSL) analysed several subsamples of sample fines (<150 µm) from three sites in Yellowknife Bay, an aeolian bedform termed Rocknest (hereafter "RN") and two samples drilled from the Sheepbed mudstone at sites named John Klein ("JK") and Cumberland ("CB"). SAM's evolved gas analysis (EGA) mass spectrometry detected H2O, CO2, O2, H2, SO2, H2S, HCl, NO, OCS, CS2 and other trace gases. The identity of evolved gases and temperature (T) of evolution can support mineral detection by CheMin and place constraints on trace volatile-bearing phases present below the CheMin detection limit or difficult to characterize with XRD (e.g., X-ray amorphous phases). Here, we focus on potential constraints on phases that evolved SO2, H2S, OCS, and CS2 during thermal analysis.

  8. Detection and Quantification of Nitrogen Compounds in the First Drilled Martian Solid Samples by the Sample Analysis at Mars (SAM) Instrument Suite on the Mars Science Laboratory (MSL)

    NASA Technical Reports Server (NTRS)

    Stern, J. C.; Navarro-Gonzales, R.; Freissinet, C.; McKay, C. P.; Archer, P. D., Jr.; Buch, A.; Brunner, A. E.; Coll, P.; Eigenbrode, J. L.; Franz, H. B.; Glavin, D. P.; McAdam, A. C.; Ming, D.; Steele, A.; Sutter, B.; Szopa, C.; Wray, J. J.; Conrad, P.; Mahaffy, P. R.

    2014-01-01

    The Sample Analysis at Mars (SAM) instrument suite on the Mars Science Laboratory (MSL) Curiosity Rover detected both reduced and oxidized nitrogen-bearing compounds during the pyrolysis of surface materials at Yellowknife Bay in Gale Crater. Preliminary detections of nitrogen species include NO, HCN, ClCN, CH3CN, and TFMA (trifluoro-N-methyl-acetamide). Confirmation of indigenous Martian N-bearing compounds requires quantifying N contribution from the terrestrial derivatization reagents (e.g. N-methyl-N-tertbutyldimethylsilyltrifluoroacetamide, MTBSTFA and dimethylformamide, DMF) carried for SAM's wet chemistry experiment that contribute to the SAM background. Nitrogen species detected in the SAM solid sample analyses can also be produced during laboratory pyrolysis experiments where these reagents are heated in the presence of perchlorate, a compound that has also been identified by SAM in Mars solid samples.

  9. Detection and Quantification of Nitrogen Compounds in the First Drilled Martian Solid Samples by the Sample Analysis at Mars (SAM) Instrument Suite on the Mars Science Laboratory (MSL)

    NASA Technical Reports Server (NTRS)

    Stern, Jennifer C.; Navarro-Gonzalez, Rafael; Freissinet, Caroline; McKay, Christopher P.; Archer, P. Douglas, Jr.; Buch, Arnaud; Coll, Patrice; Eigenbrode, Jennifer L.; Franz, Heather B.; Glavin, Daniel P.; Ming, Douglas W.; Steele, Andrew; Szopa, Cyril; Wray, James J.; Conrad, Pamela G.; Mahaffy, Paul R.

    2014-01-01

    The Sampl;e Analysis at Mars (sam) instrument suite on the Mars Science Laboratory (MSL) Curiosity Rover detected both reduced and oxidized nitrogen bearing compounds during the pyrolysis of surface materials from the three sites at Gale Crater. Preliminary detections of nitrogen species include No, HCN, ClCN, and TFMA ((trifluoro-N-methyl-acetamide), Confirmation of indigenous Martian nitrogen-bearing compounds requires quantifying N contribution from the terrestrial derivatization reagents carried for SAM's wet chemistry experiment that contribute to the SAM background. Nitrogen species detected in the SAM solid sample analyses can also be produced during laboratory pyrolysis experiments where these reagents are heated in the presence of perchlorate a compound that has also been identified by SAM in Mars solid samples.

  10. Distributed processing and analysis of physics data in the D0 SAM system at Fermilab

    SciTech Connect

    Igor V. Terekhov

    2001-08-30

    SAM (Sequential Access through Meta-data) is the data access system for the D0 high energy physics (HEP) experiment at Fermilab. The system is being developed and used to handle the Petabyte-scale experiment data. The D0 applications, like virtually all HEP applications, are data-intensive, which poses special problems for the data management and job control facilities in the distributed environment. The fundamental problem is to bring the user applications and the data together, and SAM attacks the problems from both sides. First, we describe how the system moves the data through the distributed disk cache. Second, we describe how SAM interacts with the batch system to synchronize parallel user jobs with the data availability. All the design solutions herein have been implemented in a real system that handles the mission-critical data of the D0 experiment; thus, we present our work from the standpoint of real experience.

  11. Detection of Reduced Nitrogen Compounds at Rocknest Using the Sample Analysis At Mars (SAM) Instrument on the Mars Science Laboratory (MSL)

    NASA Technical Reports Server (NTRS)

    Stern, J. C.; Steele, A.; Brunner, A.; Coll, P.; Eigenbrode, J.; Franz, H. B.; Freissinet, C.; Glavin, D.; Jones, J. H.; Navarro-Gonzalez, R.; Mahaffy, P. R.; McAdam, A. C.; McKay, C.; Wray, J.

    2013-01-01

    The Sample Analysis at Mars (SAM) instrument suite on the Mars Science Laboratory (MSL) Curiosity Rover detected nitrogen-bearing compounds during the pyrolysis of Rocknest material at Gale Crater. Hydrogen cyanide and acetonitrile were identified by the quadrupole mass spectrometer (QMS) both in direct evolved gas analysis (EGA). SAM carried out four separate analyses from Rocknest Scoop 5. A significant low temperature release was present in Rocknest runs 1-4, while a smaller high temperature release was also seen in Rocknest runs 1-3. Here we evaluate whether these compounds are indigenous to Mars or a pyrolysis product resulting from known terrestrial materials that are part of the SAM derivatization.

  12. Thermal and Evolved Gas Analysis of Calcite Under Reduced Operating Pressures: Implications for the 2011 MSL Sample Analysis at Mars (SAM) Instrument

    NASA Technical Reports Server (NTRS)

    Lauer, H. V. Jr.; Ming, D. W.; Sutter, B.; Mahaffy, P. R.

    2010-01-01

    The Mars Science Laboratory (MSL) is scheduled for launch in 2011. The science objectives for MSL are to assess the past or present biological potential, to characterize the geology, and to investigate other planetary processes that influence habitability at the landing site. The Sample Analysis at Mars (SAM) is a key instrument on the MSL payload that will explore the potential habitability at the landing site [1]. In addition to searching for organic compounds, SAM will have the capability to characterized evolved gases as a function of increasing temperature and provide information on the mineralogy of volatile-bearing phases such as carbonates, sulfates, phyllosilicates, and Fe-oxyhydroxides. The operating conditions in SAM ovens will be maintained at 30 mb pressure with a He carrier gas flowing at 1 sccm. We have previously characterized the thermal and evolved gas behaviors of volatile-bearing species under reduced pressure conditions that simulated operating conditions of the Thermal and Evolved Gas Analyzer (TEGA) that was onboard the 2007 Mars Phoenix Scout Mission [e.g., 2-8]. TEGA ovens operated at 12 mb pressure with a N2 carrier gas flowing at 0.04 sccm. Another key difference between SAM and TEGA is that TEGA was able to perform differential scanning calorimetry whereas SAM only has a pyrolysis oven. The operating conditions for TEGA and SAM have several key parameter differences including operating pressure (12 vs 30 mb), carrier gas (N2 vs. He), and carrier gas flow rate (0.04 vs 1 sccm). The objectives of this study are to characterize the thermal and evolved gas analysis of calcite under SAM operating conditions and then compare it to calcite thermal and evolved gas analysis under TEGA operating conditions.

  13. In situ Analysis of Organic Matter in Martian Soil: Laboratory Measurements Under Martian Operating Conditions Supporting Treatment and Interpretation of SAM GC-MS Data

    NASA Astrophysics Data System (ADS)

    Millan, M.; Szopa, C.; Coll, P.; Buch, A.; Cabane, M.; Coscia, D.; Glavin, D. P.; Freissinet, C.

    2014-07-01

    This work presents laboratory measurements under martian operating conditions in comparison with the SAM GC-MS data provided by the Curiosity rover. Their treatment and interpretation supports the in situ analysis of organic matter on Mars.

  14. Sam's progress with learning mathematics.

    PubMed

    Haslam, Lynne

    2007-07-01

    Sam is 18 years old and has Down syndrome. He achieved a grade in the standard assessment of mathematics (GCSE) at 16 years of age. This paper describes the part played in his success in school by the Kumon method of teaching mathematics, identifies the benefits of the small steps and lots of practice built in to the method and illustrates the way Sam applied his Kumon learning in school.

  15. The Investigation of Perchlorate/Iron Phase Mixtures as A Possible Source of Oxygen Detected by the Sample Analysis at Mars (SAM) Instrument in Gale Crater, Mars

    NASA Technical Reports Server (NTRS)

    Sutter, B.; Heil, E.; Morris, R. V.; Archer, P. D.; Ming, D. W.; Niles, P. B.; Eigenbrode, J. L.; Franz, H.; Freissinet C.; Glavin, D. P.; McAdam, A. C.; Mahaffy, P.; Martin-Torres, F. Javier; Navarro-Gonzalez, R.; Paz-Zorzano, Maria; Stern, J. C.; McKay, C. P.

    2015-01-01

    The Sample Analysis at Mars (SAM) instrument onboard the Curiosity rover detected O2 and HCl gas releases from the Rocknest (RN) eolian bedform and the John Klein (JK) and Cumberland (CB) drill hole materials in Gale Crater. Chlorinated hydrocarbons have also been detected by the SAM quadrupole mass spectrometer (QMS) and gas chromatography/mass spectrometer (GCMS). These detections along with the detection of perchlorate (ClO4-) by the Mars Phoenix Lander's Wet Chemistry Laboratory (WCL) suggesting perchlorate is a possible candidate for evolved O2 and chlorine species. Laboratory thermal analysis of individual per-chlorates has yet to provide an unequivocal temperature match to the SAM O2 and HCl release data. These detections along with the detection of perchlorate (ClO4-) by the Mars Phoenix Lander's Wet Chemistry Laboratory suggested perchlorate is a possible candidate for evolved O2 and chlorine species. Laboratory thermal analysis of pure perchlorates has yet to provide an unequivocal temperature match to the SAM O2 and HCl release data. Analog laboratory analysis of iron mineralogy detected in Gale materials that was physically mixed with Ca- and Mg-perchlorate has been shown to catalyze lower O2 release temperatures and approach some SAM O2 release data. Instead of physical mixtures used in previous work, the work presented here utilized perchlorate solutions added to Fe phases. This technique allowed for perchlorate to come in closer contact with the Fe-phase and may more closely mimic Mars conditions where humidity can increase enough to cause deliquescence of the highly hygroscopic perchlorate phases. The objective of this work is to: 1) Utilize a laboratory SAM analog instrument to evaluate the O2 release temperatures from Mg- and Ca-perchlorates solutions applied to Fephases detetected in Gale Crate; and 2) Determine if perchlorate solutions can provide improved matches with the SAM O2 temperature release profiles.

  16. Structure of the chromosomal insertion site for pSAM2: functional analysis in Escherichia coli.

    PubMed

    Raynal, A; Tuphile, K; Gerbaud, C; Luther, T; Guérineau, M; Pernodet, J L

    1998-04-01

    The element pSAM2 from Streptomyces ambofaciens integrates into the chromosome through site-specific recombination between the element (attP) and the chromosomal (attB) sites. These regions share an identity segment of 58bp extending from the anti-codon loop through the 3' end of a tRNA(Pro) gene. To facilitate the study of the attB site, the int and xis genes, expressed from an inducible promoter, and attP from pSAM2 were cloned on plasmids in Escherichia coil. Compatible plasmids carrying the different attB regions to be tested were introduced in these E. coli strains. Under these conditions, Int alone could promote site-specific integration; Int and Xis were both required for site-specific excision. This experimental system was used to study the sequences required in attB for efficient site-specific recombination. A 26 bp sequence, centred on the anti-codon loop region and not completely included in the identity segment, retained all the functionality of attB; shorter sequences allowed integration with lower efficiencies. By comparing the 26-bp-long attB with attP, according to the Lambda model, we propose that B and B', C and C' core-type Int binding sites consist of 9 bp imperfect inverted repeats separated by a 5 bp overlap region.

  17. Isotopic Composition of Carbon Dioxide Released from Confidence Hills Sediment as Measured by the Sample Analysis at Mars (SAM) Quadrupole Mass Spectrometer

    NASA Technical Reports Server (NTRS)

    Franz, H. B.; Mahaffy, P. R.; Stern, J.; Archer, P., Jr.; Conrad, P.; Eigenbrode, J.; Freissinet, C.; Glavin, D.; Grotzinger, J. P.; Jones, J.; Ming, D.; McAdam, A.; Morris, R.; Navarro-Gozalez, R.; Owen, T.; Steele, A.; Summons, R.; Sutter, B.; Webster, C. R.

    2015-01-01

    In October 2014, the Mars Science Laboratory (MSL) "Curiosity" rover drilled into the sediment at the base of Mount Sharp in a location namsed Cionfidence Hills (CH). CH marked the fifth sample pocessed by the Sample Analysis at Mars (SAM) instrument suite since Curiosity arrived in Gale Crater, with previous analyses performed at Rocknest (RN), John Klein (JK), Cumberland (CB), and Windjana (WJ). Evolved gas analysis (EGA) of all samples has indicated H2O as well as O-, C- and S-bearing phases in the samples, often at abundances that would be below the detection limit of the CheMin instrument. By examining the temperatures at which gases are evolved from samples, SAM EGA data can help provide clues to the mineralogy of volatile-bearing phases when their identities are unclear to CheMin. SAM may also detect gases evolved from amorphous material in solid samples, which is not suitable for analysis by CheMin. Finally, the isotopic composition of these gases may suggest possible formation scenarios and relationships between phases. We will discuss C isotope ratios of CO2 evolved from the CH sample as measured with SAM's quadrupole mass spectrometer (QMS) and draw comparisons to samples previously analyzed by SAM.

  18. Detecting Organic Compounds Released from Iron Oxidizing Bacteria using Sample Analysis at Mars (SAM) Like Instrument Protocols

    NASA Technical Reports Server (NTRS)

    Glavin, D. P.; Popa, R.; Martin, M. G.; Freissinet, C.; Fisk, M. R.; Dworkin, J. P.; Mahaffy, P. R.

    2012-01-01

    Mars is a planet of great interest for Astrobiology since its past environmental conditions are thought to have been favourable for the emergence life. At present, the Red Planet is extremely cold and dry and the surface is exposed to intense UV and ionizing radiation, conditions generally considered to be incompatible with life as we know it on Earth. It was proposed that the shallow subsurface of Mars, where temperatures can be above freezing and liquid water can exist on rock surfaces, could harbor chemolithoautotrophic bacteria such as the iron oxidizing microorganism Pseudomonas sp. HerB. The Mars Science Laboratory (MSL) mission will provide the next opportunity to carry out in situ measurements for organic compounds of possible biological origin on Mars. One instrument onboard MSL, called the Sample Analysis at Mars (SAM) instrument suite, will carry out a broad and sensitive search for organic compounds in surface samples using either high temperature pyrolysis or chemical extraction followed by gas chromatography mass spectrometry. We present gas chromatograph mass spectrometer (GC/MS) data on crushed olivine rock powders that have been inoculated with Pseudomonas sp. HerB at different concentrations ranging from approx 10(exp 2) to 10(exp 7) cells per gram. The inoculated olivine samples were heated under helium carrier gas flow at 500 C and the pyrolysis products concentrated using a SAM-like hydrocarbon trap set at -20 C followed by trap heating and analysis by GC/Ms. In addition, the samples were also extracted using a low temperature "one-pot" chemical extraction technique using N-methyl, N-(tert-butyldimethylsilyl) trifluoroacetamide (MTBSTFA) as the silylating agent prior to GC/MS analysis. We identified several aldehydes, thiols, and alkene nitriles after pyrolysis GC/MS analysis of the bacteria that were not found in the olivine control samples that had not been inoculated with bacteria. The distribution of pyrolysis products extracted from the

  19. The Detection of Evolved Oxygen from the Rocknest Eolian Bedform Material by the Sample Analysis at Mars(SAM) instrument at the Mars Curiosity Landing Site

    NASA Technical Reports Server (NTRS)

    Sutter, B.; Archer, D.; Ming, D.; Eigenbrode, J. L.; Franz, H.; Glavin, D. P.; McAdam, A.; Mahaffy, P.; Stern, J.; Navarro-Gonzalex, R.; McKay, C.

    2013-01-01

    The Sample Analysis at Mars (SAM) instrument onboard the Curiosity rover detected an O2 gas release from the Rocknest eolain bedform (Fig. 1). The detection of perchlorate (ClO4-) by the Mars Phoenix Lander s Wet Chemistry Laboratory (WCL) [1] suggests that perchlorate is a possible candidate for evolved O2 release detected by SAM. The perchlorate would also serve as a source of chlorine in the chlorinated hydrocarbons detected by the SAM quadrupole mass spectrometer (QMS) and gas chromatography/mass spectrometer (GCMS) [2,3]. Chlorates (ClO3-) [4,5] and/or superoxides [6] may also be sources of evolved O2 from the Rocknest materials. The work objectives are to 1) evaluate the O2 release temperatures from Rocknest materials, 2) compare these O2 release temperatures with a series of perchlorates and chlorates, and 3) evaluate superoxide O2- sources and possible perchlorate interactions with other Rocknest phases during QMS analysis.

  20. Basic Information for EPA's Selected Analytical Methods for Environmental Remediation and Recovery (SAM)

    EPA Pesticide Factsheets

    Contains basic information on the role and origins of the Selected Analytical Methods including the formation of the Homeland Security Laboratory Capacity Work Group and the Environmental Evaluation Analytical Process Roadmap for Homeland Security Events

  1. Detecting Organic Compounds Released from Iron Oxidizing Bacteria using Sample Analysis at Mars (SAM)-like Instrument Protocols

    NASA Astrophysics Data System (ADS)

    Glavin, D. P.; Popa, R.; Martin, M. G.; Freissinet, C.; Fisk, M. R.; Dworkin, J. P.; Mahaffy, P. R.

    2012-12-01

    Mars is a planet of great interest for Astrobiology since its past environmental conditions are thought to have been favourable for the emergence life. At present, the Red Planet is extremely cold and dry and the surface is exposed to intense UV and ionizing radiation, conditions generally considered to be incompatible with life as we know it on Earth. It was proposed that the shallow subsurface of Mars, where temperatures can be above freezing and liquid water can exist on rock surfaces, could harbor chemolithoautotrophic bacteria such as the iron oxidizing microorganism Pseudomonas sp. HerB [Popa et al. 2012]. The Mars Science Laboratory (MSL) mission will provide the next opportunity to carry out in situ measurements for organic compounds of possible biological origin on Mars. One instrument onboard MSL, called the Sample Analysis at Mars (SAM) instrument suite, will carry out a broad and sensitive search for organic compounds in surface samples using either high temperature pyrolysis or chemical extraction followed by gas chromatography mass spectrometry [Mahaffy et al. 2012]. We present gas chromatograph mass spectrometer (GC/MS) data on crushed olivine rock powders that have been inoculated with Pseudomonas sp. HerB at different concentrations ranging from ~102 to 107 cells per gram. The inoculated olivine samples were heated under helium carrier gas flow at 500°C and the pyrolysis products concentrated using a SAM-like hydrocarbon trap set at -20°C followed by trap heating and analysis by GC/MS. In addition, the samples were also extracted using a low temperature "one-pot" chemical extraction technique using N-methyl, N-(tert-butyldimethylsilyl) trifluoroacetamide (MTBSTFA) as the silylating agent prior to GC/MS analysis [Stalport et al. 2012]. We identified several aldehydes, thiols, and alkene nitriles after pyrolysis GC/MS analysis of the bacteria that were not found in the olivine control samples that had not been inoculated with bacteria. The

  2. Possible Detection of Nitrates on Mars by the Sample Analysis at Mars (SAM) Instrument

    NASA Technical Reports Server (NTRS)

    Navarro-Gonzalez, R.; Stern, J.; Sutter, B.; Archer, D.; McAdam, A.; Franz, H. B.; McKay, C. P.; Coll, P.; Cabane, M.; Ming, D. W.; Brunner, A. E.; Glavin, D.; Eigenbrode, J. L.; Jones, J. H.; Freissinet, C.; Leshin, L.; Wong, M.; Atreya, S.; Wray, J. J.; Steele, A.; Buch, A.; Prats, B. D.; Szopa, C.; Conrad, P.; Mahaffy, P.

    2013-01-01

    Planetary models suggest that nitrogen was abundant in the early Martian atmosphere as dinitrogen (N2). However, it has been lost by sputtering and photochemical loss to space [1, 2], impact erosion [3], and chemical oxidation to nitrates [4]. Nitrates, produced early in Mars history, are later decomposed back into N2 by the current impact flux [5], making possible a nitrogen cycle on Mars. It is estimated that a layer of about 3 m of pure NaNO3 should be distributed globally on Mars [5]. Nitrates are a fundamental source for nitrogen to terrestrial microorganisms. Therefore, the detection of soil nitrates is important to assess habitability in the Martian environment. The only previous mission that was designed to search for soil nitrates was the Phoenix mission but was unable to detect evolved N-containing species by TEGA and the MECA WCL [6]. Nitrates have been tentatively identified in the Nakhla meteorite [7]. The purpose of this work is to determine if nitrates were detected in first solid sample (Rocknest) in Gale Crater examined by the SAM instrument.

  3. Mesospheric effects of solar ultraviolet variations - Further analysis of SME IR ozone and Nimbus 7 SAMS temperature data

    NASA Technical Reports Server (NTRS)

    Hood, L. L.; Huang, Z.; Bougher, S. W.

    1991-01-01

    In order to improve the constraints on models of the mesospheric response to solar UV variations, an analysis is conducted of the Solar Mesosphere Explorer (SME) IR ozone data and Nimbus 7 stratosphere and mesosphere sounder (SAMS) temperature data. Maximum low-altitude ozone and temperature-response amplitudes occur at about the same altitude, where a strong coupling between photochemical and thermal components of the mesospheric response is suggested by the simultaneous positive temperature and negative ozone response maxima. Increased Lyman-alpha dissociation of water vapor and temperature feedback are theorized to account for the negative ozone response. HO(x) chemical heating can increase as ozone destruction increases, and can therefore account for the positive temperature response.

  4. Analysis of the interactions between host factor Sam68 and viral elements during foot-and-mouth disease virus infection

    Technology Transfer Automated Retrieval System (TEKTRAN)

    The nuclear protein Src-associated protein of 68 kDa in mitosis (Sam68) is known to bind RNA and be involved in cellular processes triggered in response to environmental stresses, including virus infection. Interestingly, Sam68, is a multi-functional protein implicated in the life cycle of retroviru...

  5. SAM-like Evolved Gas Analysis of Mars Analog Samples from the Arctic Mars Analog Svalbard Expedition: Implications for Analyses by the Mars Science Laboratory

    NASA Astrophysics Data System (ADS)

    McAdam, A.; Stern, J. C.; Mahaffy, P. R.; Blake, D. F.; Morris, R. V.; Ming, D. W.; Bristow, T.; Steele, A.; Amundsen, H.

    2012-12-01

    The Arctic Mars Analog Svalbard Expeditions (AMASE) have investigated a range of geologic settings on Svalbard, using methodologies and techniques being developed for Mars missions, such as the Mars Science Laboratory (MSL). The Sample Analysis at Mars (SAM) instrument suite on MSL consists of a quadrupole mass spectrometer (QMS), a gas chromatograph (GC), and a tunable laser spectrometer (TLS), which analyze gases created by pyrolysis of samples. During AMASE, a Hiden Evolved Gas Analysis-Mass Spectrometer (EGA-QMS) system represented the EGA-QMS capability of SAM. Another MSL instrument, CheMin, will use x-ray diffraction (XRD) and x-ray fluorescence (XRF) to perform quantitative mineralogical characterization of samples. Field-portable versions of CheMin were used during AMASE. Here we discuss the SAM-like EGA-QMS analyses of a selected subset of samples acquired during several field seasons, together with AMASE CheMin team results. The results enable insight into organic content, organic-mineral associations, and mineralogy. Organic materials evolved from all samples over a range of temperatures. In general, this can indicate that the organics have a range of thermal maturity and/or are bound in different ways to their matrix. Most often, organics that were outside of mineral grains were the dominant pool of organic material inferable from the EGA-QMS, but organics encapsulated within mineral grains, including possibly methane, were also inferred. Organic-mineral associations can influence organic preservation potential and detection. Constraints on these associations, and overall sample organic chemistry, enabled by our SAM-like EGA-QMS analog analyses demonstrate the potential to understand the organic chemical characteristics in materials sampled by MSL, even when utilizing EGA-QMS, the simplest type of solid sample experiment SAM will perform. Any organic chemical information inferred from EGA-QMS analysis could then also be followed by detailed SAM EGA

  6. Microbial Habitability in Gale Crater: Sample Analysis at Mars (SAM) Instrument Detection of Microbial Essential Carbon and Nitrogen

    NASA Technical Reports Server (NTRS)

    Sutter, B.; Ming, D. W.; Eigenbrode, J. E.; Steele, A.; Stern, J. C.; Gonzalez, R. N.; McAdam, A. C.; Mahaffy, P. R.

    2016-01-01

    Chemical analyses of Mars soils and sediments from previous landed missions have demonstrated that Mars surface materials possessed major (e.g., P, K, Ca, Mg, S) and minor (e.g., Fe, Mn, Zn, Ni, Cl) elements essential to support microbial life. However, the detection of microbial essential organic-carbon (C) and nitrate have been more elusive until the Mars Science Laboratory (MSL) rover mission. Nitrate and organic-C in Gale Crater, Mars have been detected by the Sample Analysis at Mars (SAM) instrument onboard the MSL Curiosity rover. Eolian fines and drilled sedimentary rock samples were heated in the SAM oven from approximately 30 to 860 degrees Centigrade where evolved gases (e.g., nitrous oxide (NO) and CO2) were released and analyzed by SAM’s quadrupole mass spectrometer (MS). The temperatures of evolved NO was assigned to nitrate while evolved CO2 was assigned to organic-C and carbonate. The CO2 releases in several samples occurred below 450 degrees Centigrade suggesting organic-C dominated in those samples. As much as 7 micromoles NO3-N per gram and 200 micromoles CO2-C per gram have been detected in the Gale Crater materials. These N and C levels coupled with assumed microbial biomass (9 x 10 (sup -7) micrograms per cell) C (0.5 micrograms C per micrograms cell) and N (0.14 micrograms N per micrograms cell) requirements, suggests that less than 1 percent and less than 10 percent of Gale Crater C and N, respectively, would be required if available, to accommodate biomass requirements of 1 by 10 (sup 5) cells per gram sediment. While nitrogen is the limiting nutrient, the potential exists that sufficient N and organic-C were present to support limited heterotrophic microbial populations that may have existed on ancient Mars.

  7. Curiosity's Sample Analysis at Mars (SAM) Investigation: Overview of Results from the First 120 Sols on Mars

    NASA Technical Reports Server (NTRS)

    Mahaffy, P. R.; Cabane, M.; Webster, C. R.; Archer, P. D.; Atreya, S. K.; Benna, M.; Brinckerhoff, W. B.; Brunner, A. E.; Buch, A.; Coll, P.; Conrad, P. G.; Coscia, D.; Dobson, N.; Dworkin, J. P.; Eigenbrode, J. L.; Farley, K. A.; Flesch, G.; Franz, H. B.; Freissinet, C.; Gorevan, S.; Glavin, D. P.; Grotzinger, J. P.; Harpold, D. N.; Hengemihle, J.; Jaeger, F.

    2013-01-01

    During the first 120 sols of Curiosity s landed mission on Mars (8/6/2012 to 12/7/2012) SAM sampled the atmosphere 9 times and an eolian bedform named Rocknest 4 times. The atmospheric experiments utilized SAM s quadrupole mass spectrometer (QMS) and tunable laser spectrometer (TLS) while the solid sample experiments also utilized the gas chromatograph (GC). Although a number of core experiments were pre-programmed and stored in EEProm, a high level SAM scripting language enabled the team to optimize experiments based on prior runs.

  8. Search for nitrates on Mars by the Sample Analysis at Mars (SAM) Instrument

    NASA Astrophysics Data System (ADS)

    Navarro-Gonzalez, Rafael

    One of the main goals of the Mars Science Laboratory is to determine whether the planet ever had environmental conditions capable of supporting microbial life. Nitrogen is a fundamental element for life, and is present in structural (e.g., proteins), catalytic (e.g., enzymes and ribozymes), energy transfer (e.g., ATP) and information storage (RNA and DNA) bio-molecules. Planetary models suggest that nitrogen was abundant in the early Martian atmosphere as dinitrogen (N _{2}). However, a fraction of N _{2} has been lost to space by sputtering and photochemical processes [1, 2], impact erosion [3], and chemical oxidation to nitrates [4, 5]. Nitrates produced early in Mars’ history by photochemistry may later decompose back into N _{2} by the current impact flux [6]. It is estimated that the Martian surface could contain soil nitrates at levels of 0.3 wt.% N, if mixed homogenously [6], or a layer of pure NaNO _{3} of about 3 m thickness [5] distributed globally. Nitrates are a fundamental source for nitrogen for terrestrial microorganisms. Therefore, the detection of soil nitrates is important to assess habitability in the Martian environment. The only previous attempt to search for soil nitrates was by TEGA and the MECA WCL on the Phoenix mission but no evolved N-containing species were detected [7]. Nitrates have been tentatively identified in two Martian meteorites: Nakhla [8] and EETA79001 [9]. SAM is capable of detecting nitrates by their thermal decomposition into nitric oxide, NO. SAM analyzed samples from Rocknest soil and two drill holes located at John Klein (JK) and Cumberland (CB) mudstones in the Sheepbed member of the Yellowknife Bay formation in Gale Crater. There appear to be several peaks associated with the release of m/z 30 in the temperature range from 150(°) °C to 600(°) °C. M/z 30 can be attributed to nitric oxide; however, other possible chemical interferences may be present, such as ethane (C _{2}H _{6}), formaldehyde (HCHO), diazene (N

  9. Search for nitrates on Mars by the Sample Analysis at Mars (SAM) Instrument

    NASA Astrophysics Data System (ADS)

    Navarro-Gonzalez, Rafael; Stern, Jennifer; Freissinet, Caroline; Franz, Heather; McKay, Christopher; Coll, Patrice; Sutter, Brad; Archer, Doug; McAdam, Amy; Cabane, Michel; Ming, Douglas; Glavin, Daniel; Eigenbrode, Jennifer; Leshin, Laurie; Wong, Michael; Atreya, Sushil; Wray, James; Steele, Andrew; Buch, Arnaud; Prats, Benito

    2014-05-01

    One of the main goals of the Mars Science Laboratory is to determine whether the planet ever had environmental conditions capable of supporting microbial life. Nitrogen is a fundamental element for life, and is present in structural (e.g., proteins), catalytic (e.g., enzymes and ribozymes), energy transfer (e.g., ATP) and information storage (RNA and DNA) bio-molecules. Planetary models suggest that nitrogen was abundant in the early Martian atmosphere as dinitrogen (N2). However, a fraction of N2 has been lost to space by sputtering and photochemical processes [1, 2], impact erosion [3], and chemical oxidation to nitrates [4, 5]. Nitrates produced early in Mars' history by photochemistry may later decompose back into N2 by the current impact flux [6]. It is estimated that the Martian surface could contain soil nitrates at levels of 0.3 wt.% N, if mixed homogenously [6], or a layer of pure NaNO3 of about 3 m thickness [5] distributed globally. Nitrates are a fundamental source for nitrogen for terrestrial microorganisms. Therefore, the detection of soil nitrates is important to assess habitability in the Martian environment. The only previous attempt to search for soil nitrates was by TEGA and the MECA WCL on the Phoenix mission but no evolved N-containing species were detected [7]. Nitrates have been tentatively identified in two Martian meteorites: Nakhla [8] and EETA79001 [9]. SAM is capable of detecting nitrates by their thermal decomposition into nitric oxide, NO. SAM analyzed samples from Rocknest soil and two drill holes located at John Klein (JK) and Cumberland (CB) mudstones in the Sheepbed member of the Yellowknife Bay formation in Gale Crater. There appear to be several peaks associated with the release of m/z 30 in the temperature range from 150° C to 600° C. m/z 30 can be attributed to nitric oxide; however, other possible chemical interferences may be present and are assessed. The origin of nitric oxide is discussed and its thermal evolution is

  10. The Investigation of Chlorates as a Possible Source of Oxygen and Chlorine Detected by the Sample Analysis at Mars (SAM) Instrument in Gale Crater, Mars

    NASA Technical Reports Server (NTRS)

    Sutter, B.; Archer, D. P.; Ming, D. W.; Niles, P. B.; Eigenbrode, J. L.; Franz, H.; Glavin, D. P.; McAdam, A. C.; Mahaffy, P; Stern, J. C.; Navarro-Gonzalez, R.; McKay, C. .P.

    2014-01-01

    The Sample Analysis at Mars (SAM) instrument onboard the Curiosity rover detect-ed O2 and HCl gas releases from the Rocknest (RN) eolian bedform and the John Klein (JK) and Cumberland (CB) drill hole materials in Gale Crater. Chlorinated hydrocarbons have also been detected by the SAM quadrupole mass spectrometer (QMS) and gas chromatography/mass spectrometer (GCMS). These detections along with the detection of perchlorate (ClO4-) by the Mars Phoenix Lander’s Wet Chemistry Laboratory (WCL) suggesting perchlorate is a possible candidate for evolved O2 and chlorine species. Laboratory thermal analysis of perchlorates has yet to provide an unequivocal temperature match to the SAM O2 and HCl release data. Iron mineralogy found in the Rocknest materials when mixed with Ca-perchlorate does cause O2 release temperatures to be closer match to the SAM O2 release data but more work is required in evaluating the catalytic effects of Fe mineralogy on perchlorate decomposition. Chlorates (ClO3-) are relevant Mars materials and potential O2 and Cl sources. The objective of this work is to evaluate the thermal decomposition of select chlorate (ClO3-) salts as possible sources of the O2 and HCl releases in the Gale Crater materials.

  11. SAM in a Nutshell.

    ERIC Educational Resources Information Center

    Givens, Larry R.

    2000-01-01

    Explains what the Association of Higher Education Facilities Officers' Strategic Assessment Model (SAM) is and how to use it to achieve organizational excellence through continuous improvement. Showing features of both the Malcolm Baldrige programs and the Balanced Scorecard, the SAM components are described along with an explanation of the four…

  12. Surface analysis of gold nanoparticles functionalized with thiol-modified glucose SAMs for biosensor applications.

    NASA Astrophysics Data System (ADS)

    Spampinato, Valentina; Parracino, Mariaantonietta; La Spina, Rita; Rossi, Francois; Ceccone, Giacomo

    2016-02-01

    In this work, Time of Flight Secondary Ion Mass Spectrometry (ToF-SIMS), Principal Component Analysis (PCA) and X-ray Photoelectron Spectroscopy (XPS) have been used to characterize the surface chemistry of gold substrates before and after functionalization with thiol-modified glucose self-assembled monolayers and subsequent biochemical specific recognition of maltose binding protein (MBP). The results indicate that the surface functionalization is achieved both on flat and nanoparticles gold substrates thus showing the potential of the developed system as biodetection platform. Moreover, the method presented here has been found to be a sound and valid approach to characterize the surface chemistry of nanoparticles functionalized with large molecules. Both techniques were proved to be very useful tools for monitoring all the functionalization steps, including the investigation of the biological behaviour of the glucose-modified particles in presence of the maltose binding protein.

  13. Surface Analysis of Gold Nanoparticles Functionalized with Thiol-Modified Glucose SAMs for Biosensor Applications

    PubMed Central

    Spampinato, Valentina; Parracino, Maria Antonietta; La Spina, Rita; Rossi, Francois; Ceccone, Giacomo

    2016-01-01

    In this work, Time of Flight Secondary Ion Mass Spectrometry (ToF-SIMS), Principal Component Analysis (PCA) and X-ray Photoelectron Spectroscopy (XPS) have been used to characterize the surface chemistry of gold substrates before and after functionalization with thiol-modified glucose self-assembled monolayers and subsequent biochemical specific recognition of maltose binding protein (MBP). The results indicate that the surface functionalization is achieved both on flat and nanoparticles gold substrates thus showing the potential of the developed system as biodetection platform. Moreover, the method presented here has been found to be a sound and valid approach to characterize the surface chemistry of nanoparticles functionalized with large molecules. Both techniques were proved to be very useful tools for monitoring all the functionalization steps, including the investigation of the biological behavior of the glucose-modified particles in the presence of the maltose binding protein. PMID:26973830

  14. Heterotypic Sam-Sam association between Odin-Sam1 and Arap3-Sam: binding affinity and structural insights.

    PubMed

    Mercurio, Flavia A; Marasco, Daniela; Pirone, Luciano; Scognamiglio, Pasqualina L; Pedone, Emilia M; Pellecchia, Maurizio; Leone, Marilisa

    2013-01-02

    Arap3 is a phosphatidylinositol 3 kinase effector protein that plays a role as GTPase activator (GAP) for Arf6 and RhoA. Arap3 contains a sterile alpha motif (Sam) domain that has high sequence homology with the Sam domain of the EphA2-receptor (EphA2-Sam). Both Arap3-Sam and EphA2-Sam are able to associate with the Sam domain of the lipid phosphatase Ship2 (Ship2-Sam). Recently, we reported a novel interaction between the first Sam domain of Odin (Odin-Sam1), a protein belonging to the ANKS (ANKyrin repeat and Sam domain containing) family, and EphA2-Sam. In our latest work, we applied NMR spectroscopy, surface plasmon resonance (SPR) and isothermal titration calorimetry (ITC) to characterize the association between Arap3-Sam and Odin-Sam1. We show that these two Sam domains interact with low micromolar affinity. Moreover, by means of molecular docking techniques, supported by NMR data, we demonstrate that Odin-Sam1 and Arap3-Sam might bind with a topology that is common to several Sam-Sam complexes. The revealed structural details form the basis for the design of potential peptide antagonists that could be used as chemical tools to investigate functional aspects related to heterotypic Arap3-Sam associations.

  15. The influence of mineralogy on recovering organic acids from Mars analogue materials using the “one-pot” derivatization experiment on the Sample Analysis at Mars (SAM) instrument suite

    NASA Astrophysics Data System (ADS)

    Stalport, F.; Glavin, D. P.; Eigenbrode, J. L.; Bish, D.; Blake, D.; Coll, P.; Szopa, C.; Buch, A.; McAdam, A.; Dworkin, J. P.; Mahaffy, P. R.

    2012-07-01

    The search for complex organic molecules on Mars, including important biomolecules such as amino acids and carboxylic acids, will require a chemical extraction and a derivatization step to transform these organic compounds into species that are sufficiently volatile to be detected by gas chromatography mass spectrometry (GCMS). We have developed a "one-pot" extraction and chemical derivatization protocol using N-methyl-N-(tert-butyldimethylsilyl) trifluoroacetamide (MTBSTFA) and dimethylformamide (DMF) for the Sample Analysis at Mars (SAM) experiment instrument suite on NASA's the Mars Science Laboratory (MSL) mission. The temperature and duration of the derivatization reaction, pre-concentration of chemical derivatives, and gas chromatographic separation parameters have been optimized under SAM instrument design constraints. MTBSTFA/DMF extraction and derivatization at 300 °C for several minutes of a variety of terrestrial Mars analog materials facilitated the detection of amino acids and carboxylic acids in a surface soil sample collected from the Atacama Desert and a carbonate-rich stromatolite sample from Svalbard. However, the rapid reaction of MTBSTFA with water in several analog materials that contained high abundances of hydrated minerals, and the possible deactivation of derivatized compounds by iron oxides, as detected by XRD/XRF using the CheMin field unit Terra, proved to be highly problematic for the direct extraction of organics using MTBSTFA. The combination of pyrolysis and two different wet-chemical derivatization methods employed by SAM should enable a wide range of organic compounds to be detected by GCMS if present on Mars.

  16. The Influence of Mineralogy on Recovering Organic Acids from Mars Analogue Materials Using the One-Pot Derivatization Experiment on the Sample Analysis at Mars(SAM) Instrument Suite

    NASA Technical Reports Server (NTRS)

    Stalport, Fabien; Glavin, Daniel P.; Eigenbrode, J. L.; Bish, D.; Blake, D.; Coll, P.; Szopa, C.; Buch, A.; McAdam, A.; Dworkin, J. P.; Mahaffy, P. R.

    2012-01-01

    The search for complex organic molecules on Mars, including important biomolecules such as amino acids and carboxylic acids, will require a chemical extraction and a derivatization step to transform these organic compounds into species that are sufficiently volatile to be detected by gas chromatography mass spectrometry (GCMS). We have developed a ''one-pot'' extraction and chemical derivatization protocol using N-methyl-N-(tert-butyldimethylsilyl) trifluoroacetamide (MTBSTFA) and dimethylformamide (DMF) for the Sample Analysis at Mars (SAM) experiment instrument suite on NASA's the Mars Science Laboratory (MSL) mission. The temperature and duration of the derivatization reaction, pre-concentration of chemical derivatives, and gas chromatographic separation parameters have been optimized under SAM instrument design constraints. MTBSTFA/DMF extraction and derivatization at 300 1C for several minutes of a variety of terrestrial Mars analog materials facilitated the detection of amino acids and carboxylic acids in a surface soil sample collected from the Atacama Desert and a carbonate-rich stromatolite sample from Svalbard. However, the rapid reaction of MTBSTFA with water in several analog materials that contained high abundances of hydrated minerals, and the possible deactivation of derivatized compounds by iron oxides, as detected by XRD/XRF using the CheMin field unit Terra, proved to be highly problematic for the direct extraction of organics using MTBSTFA. The combination of pyrolysis and two different wet-chemical derivatization methods employed by SAM should enable a wide range of organic compounds to be detected by GCMS if present on Mars.

  17. Fluorocarbon Contamination from the Drill on the Mars Science Laboratory: Potential Science Impact on Detecting Martian Organics by Sample Analysis at Mars (SAM)

    NASA Technical Reports Server (NTRS)

    Eigenbrode, J. L.; McAdam, A.; Franz, H.; Freissinet, C.; Bower, H.; Floyd, M.; Conrad, P.; Mahaffy, P.; Feldman, J.; Hurowitz, J.; Evans, J.; Anderson, M.; Jandura, L.; Brown, K.; Logan, C.; Kuhn, S.; Anderson, R.; Beegle, L.; Limonadi, D.; Rainen, R.; Umland, J.

    2013-01-01

    Polytetrafluoroethylene (PTFE or trade name: Teflon by Dupont Co.) has been detected in rocks drilled during terrestrial testing of the Mars Science Laboratory (MSL) drilling hardware. The PTFE in sediments is a wear product of the seals used in the Drill Bit Assemblies (DBAs). It is expected that the drill assembly on the MSL flight model will also shed Teflon particles into drilled samples. One of the primary goals of the Sample Analysis at Mars (SAM) instrument suite on MSL is to test for the presence of martian organics in samples. Complications introduced by the potential presence of PTFE in drilled samples to the SAM evolved gas analysis (EGA or pyrolysisquadrupole mass spectrometry, pyr-QMS) and pyrolysis- gas chromatography mass spectrometry (Pyr- GCMS) experiments was investigated.

  18. Identification of Genes Discriminating Multiple Sclerosis Patients from Controls by Adapting a Pathway Analysis Method

    PubMed Central

    Zhang, Lei; Wang, Linlin; Tian, Pu

    2016-01-01

    The focus of analyzing data from microarray experiments has shifted from the identification of associated individual genes to that of associated biological pathways or gene sets. In bioinformatics, a feature selection algorithm is usually used to cope with the high dimensionality of microarray data. In addition to those algorithms that use the biological information contained within a gene set as a priori to facilitate the process of feature selection, various gene set analysis methods can be applied directly or modified readily for the purpose of feature selection. Significance analysis of microarray to gene-set reduction analysis (SAM-GSR) algorithm, a novel direction of gene set analysis, is one of such methods. Here, we explore the feature selection property of SAM-GSR and provide a modification to better achieve the goal of feature selection. In a multiple sclerosis (MS) microarray data application, both SAM-GSR and our modification of SAM-GSR perform well. Our results show that SAM-GSR can carry out feature selection indeed, and modified SAM-GSR outperforms SAM-GSR. Given pathway information is far from completeness, a statistical method capable of constructing biologically meaningful gene networks is of interest. Consequently, both SAM-GSR algorithms will be continuously revaluated in our future work, and thus better characterized. PMID:27846233

  19. Identification of Phyllosilicates in Mudstone Samples Using Water Releases Detected by the Sample Analysis at Mars (SAM) Instrument in Gale Crater, Mars

    NASA Technical Reports Server (NTRS)

    Hogancamp, J. V. (Clark); Ming, D. W.; McAdam, A. C.; Archer, P. D.; Morris, R. V.; Bristow, T. F.; Rampe, E. B.; Mahaffy, P. R.; Gellert, R.

    2017-01-01

    The Sample Analysis at Mars (SAM) instrument on board the Curiosity Rover has detected high temperature water releases from mud-stones in the areas of Yellowknife Bay, Pahrump Hills, Naukluft Plateau, and Murray Buttes in Gale crater. Dehydroxylation of phyllosilicates may have caused the high temperature water releases observed in these samples. Because each type of phyllosilicate undergoes dehydroxylation at distinct temperatures, these water releases can be used to help constrain the type of phyllosilicate present in each sample.

  20. The Search for Organic Compounds of Martian Origin in Gale Crater by the Sample Analysis at Mars (SAM) Instrument on Curiosity

    NASA Technical Reports Server (NTRS)

    Glavin, Daniel; Freissinet, Caroline; Mahaffy, Paul; Miller, Kristen; Eigenbrode, Jennifer; Summons, Roger; Archer, Douglas, Jr.; Brunner, Anna; Martin, Mildred; Buch, Arrnaud; Cabane, Michel; Coll, Patrice; Conrad, Pamela; Dworkin, Jason; Grotzinger, John; Ming, Douglas; Navarro-Gonzales, Rafael; Steele, Andrew; Szopa, Cyril

    2014-01-01

    One of the key objectives of the Mars Science Laboratory rover and the Sample Analysis at Mars (SAM) instrument suite is to determine the inventory of organic and inorganic volatiles in the atmosphere and surface regolith and rocks to help assess the habitability potential of Gale Crater. The SAM instrument on the Curiosity rover can detect volatile organic compounds thermally evolved from solid samples using a combination of evolved gas analysis (EGA) and gas chromatography mass spectrometry (GCMS) (Mahaffy et al. 2012). The first solid samples analyzed by SAM, a scoop of windblown dust and sand at Rocknest, revealed several chloromethanes and a C4-chlorinated hydrocarbon derived primarily from reactions between a martian oxychlorine phase (e.g. perchlorate) and terrestrial carbon from N-methyl-N-(tertbutyldimethylsilyl)- trifluoroacetamide (MTBSTFA) vapor present in the SAM instrument background (Glavin et al. 2013). After the analyses at Rocknest, Curiosity traveled to Yellowknife Bay and drilled two separate holes in a fluvio-lacustrine sediment (the Sheepbed unit) designated John Klein and Cumberland. Analyses of the drilled materials by both SAM and the CheMin X-Ray Diffraction instrument revealed a mudstone consisting of 20 wt% smectite clays (Ming et al. 2013; Vaniman et al. 2013), which on Earth are known to aid the concentration and preservation of organic matter. Oxychlorine compounds were also detected in the Sheepbed mudstone during pyrolysis; however, in contrast to Rocknest, much higher levels of chloromethanes were released from the Sheepbed materials, suggesting an additional, possibly martian source of organic carbon (Ming et al. 2013). In addition, elevated abundances of chlorobenzene and a more diverse suite of chlorinated alkanes including dichloropropane and dichlorobutane detected in Cumberland compared to Rocknest suggest that martian or meteoritic organic carbon sources may be preserved in the mudstone (Freissinet et al. 2013

  1. SAM Photovoltaic Model Technical Reference

    SciTech Connect

    Gilman, P.

    2015-05-27

    This manual describes the photovoltaic performance model in the System Advisor Model (SAM). The U.S. Department of Energy’s National Renewable Energy Laboratory maintains and distributes SAM, which is available as a free download from https://sam.nrel.gov. These descriptions are based on SAM 2015.1.30 (SSC 41).

  2. Possible detection of perchlorates by the Sample Analysis at Mars (SAM) Instrument: Comparison with previous missions

    NASA Astrophysics Data System (ADS)

    Navarro-Gonzalez, Rafael; Sutter, Brad; Archer, Doug; Ming, Doug; Eigenbrode, Jennifer; Franz, Heather; Glavin, Daniel; McAdam, Amy; Stern, Jennifer; McKay, Christopher; Coll, Patrice; Cabane, Michel; Conrad, Pamela; Mahaffy, Paul; Martín-Torres, Francisco; Zorzano-Mier, Maria; Grotzinger, John; MSL Science Team

    2013-04-01

    The first chemical analysis of soluble salts in the soil was carried out by the Phoenix Lander in the Martian Arctic [1]. Surprisingly, chlorine was present as magnesium or calcium perchlorate at 0.4 to 0.6 percent. Additional support for the identification of perchlorate came from the evolved gas analysis which detected the release of molecular oxygen at 350-550C [1]. When Mars-like soils from the Atacama Desert were spiked with magnesium perchlorate (1 precent) and heated using the Viking GC-MS protocol, nearly all the organics were combusted but a small amount was chlorinated, forming chloromethane and dichloromethane [2]. These chlorohydrocarbons were detected by the Viking GC-MS experiments when the Martian soil was analyzed but they were considered to be terrestrial contaminants [3]. Reinterpretation of the Viking results suggests

  3. Carbon and Sulfur Isotopic Composition of Rocknest Soil as Determined with the Sample Analysis at Mars(SAM) Quadrupole Mass Spectrometer

    NASA Technical Reports Server (NTRS)

    Franz, H. B.; McAdam, C.; Stern, J. C.; Archer, P. D., Jr.; Sutter, B.; Grotzinger, J. P.; Jones, J. H.; Leshin, L. A.; Mahaffy, P. R.; Ming, D. W.; Morris, R. V.; Niles, P. B.; Owen, T. C.; Raaen, E.; Steele, A.; Webster, C. R.

    2013-01-01

    The Sample Analysis at Mars (SAM) instrument suite on the Mars Science Laboratory (MSL) Curiosity rover got its first taste of solid Mars in the form of loose, unconsolidated materials (soil) acquired from an aeolian bedform designated Rocknest. Evolved gas analysis (EGA) revealed the presence of H2O as well as O-, C- and S-bearing phases in these samples. CheMin did not detect crystalline phases containing these gaseous species but did detect the presence of X-ray amorphous materials. In the absence of definitive mineralogical identification by CheMin, SAM EGA data can provide clues to the nature and/or mineralogy of volatile-bearing phases through examination of temperatures at which gases are evolved from solid samples. In addition, the isotopic composition of these gases, particularly when multiple sources contribute to a given EGA curve, may be used to identify possible formation scenarios and relationships between phases. Here we report C and S isotope ratios for CO2 and SO2 evolved from Rocknest soil samples as measured with SAM's quadrupole mass spectrometer (QMS).

  4. In situ analysis of martian regolith with the SAM experiment during the first mars year of the MSL mission: Identification of organic molecules by gas chromatography from laboratory measurements

    NASA Astrophysics Data System (ADS)

    Millan, M.; Szopa, C.; Buch, A.; Coll, P.; Glavin, D. P.; Freissinet, C.; Navarro-Gonzalez, R.; François, P.; Coscia, D.; Bonnet, J. Y.; Teinturier, S.; Cabane, M.; Mahaffy, P. R.

    2016-09-01

    The Sample Analysis at Mars (SAM) instrument onboard the Curiosity rover, is specifically designed for in situ molecular and isotopic analyses of martian surface materials and atmosphere. It contributes to the Mars Science Laboratory (MSL) missions primary scientific goal to characterize the potential past, present or future habitability of Mars. In all of the analyses of solid samples delivered to SAM so far, chlorinated organic compounds have been detected above instrument background levels and identified by gas chromatography coupled to mass spectrometry (GC-MS) (Freissinet et al., 2015; Glavin et al., 2013). While some of these may originate from reactions between oxychlorines and terrestrial organic carbon present in the instrument background (Glavin et al., 2013), others have been demonstrated to originate from indigenous organic carbon present in samples (Freissinet et al., 2015). We present here laboratory calibrations that focused on the analyses performed with the MXT-CLP GC column (SAM GC-5 channel) used for nearly all of the GC-MS analyses of the martian soil samples carried out with SAM to date. Complementary to the mass spectrometric data, gas chromatography allows us to separate and identify the species analyzable in a nominal SAM-GC run time of about 21 min. To characterize the analytical capabilities of this channel within the SAM Flight Model (FM) operating conditions on Mars, and their implications on the detection of organic matter, it is required to perform laboratory experimental tests and calibrations on spare model components. This work assesses the SAM flight GC-5 column efficiency, confirms the identification of the molecules based on their retention time, and enables a better understanding of the behavior of the SAM injection trap (IT) and its release of organic molecules. This work will enable further optimization of the SAM-GC runs for additional samples to be analyzed during the MSL mission.

  5. Adapting SAM for CDF

    SciTech Connect

    D. Bonham et al.

    2003-10-13

    The CDF and D0 experiments probe the high-energy frontier and as they do so have accumulated hundreds of Terabytes of data on the way to petabytes of data over the next two years. The experiments have made a commitment to use the developing Grid based on the SAM system to handle these data. The D0 SAM has been extended for use in CDF as common patterns of design emerged to meet the similar requirements of these experiments. The process by which the merger was achieved is explained with particular emphasis on lessons learned concerning the database design patterns plus realization of the use cases.

  6. Detection of Nitric Oxide by the Sample Analysis at Mars (SAM) Instrument Implications for the Presence of Nitrates

    NASA Technical Reports Server (NTRS)

    Navarro-Gonzalez, R.; Stern, J.; Freissinet, C.; Franz, H. B.; Eigenbrode, J. L..; McKay, C. P.; Coll, P.; Sutter, B.; Archer, D.; McAdam, A.; Cabane, M.; Ming, D. W.; Glavin, D.; Leshin, L.; Wong, M.; Atreya, S.; Wray, J. J.; Steele, A.; Buch, A.; Prats, B. D.; Szopa, C.; Coscia, D.; Teinturier, S.; Conrad, P.; Owen, T. C.; Mahaffy, P.; Grotzinger, J. P.

    2014-01-01

    One of the main goals of the Mars Science Laboratory is to determine whether the planet ever had environmental conditions able to support microbial life. Nitrogen is a fundamental element for life, and is present in structural (e.g., proteins), catalytic (e.g., enzymes and ribozymes), energy transfer (e.g., ATP) and information storage (RNA and DNA) biomolecules. Planetary models suggest that molecular nitrogen was abundant in the early Martian atmosphere, but was rapidly lost to space by photochemistry, sputtering impact erosion, and oxidized and deposited to the surface as nitrate. Nitrates are a fundamental source for nitrogen to terrestrial microorganisms. Therefore, the detection of nitrates in soils and rocks is important to assess the habitability of a Martian environment. SAM is capable of detecting nitrates by their thermal decomposition into nitric oxide, NO. Here we analyze the release of NO from soils and rocks examined by the SAM instrument at Gale crater, and discuss its origin.

  7. System Advisor Model, SAM 2014.1.14: General Description

    SciTech Connect

    Blair, N.; Dobos, A. P.; Freeman, J.; Neises, T.; Wagner, M.; Ferguson, T.; Gilman, P.; Janzou, S.

    2014-02-01

    This document describes the capabilities of the U.S. Department of Energy and National Renewable Energy Laboratory's System Advisor Model (SAM), Version 2013.9.20, released on September 9, 2013. SAM is a computer model that calculates performance and financial metrics of renewable energy systems. Project developers, policy makers, equipment manufacturers, and researchers use graphs and tables of SAM results in the process of evaluating financial, technology, and incentive options for renewable energy projects. SAM simulates the performance of photovoltaic, concentrating solar power, solar water heating, wind, geothermal, biomass, and conventional power systems. The financial model can represent financial structures for projects that either buy and sell electricity at retail rates (residential and commercial) or sell electricity at a price determined in a power purchase agreement (utility). SAM's advanced simulation options facilitate parametric and sensitivity analyses, and statistical analysis capabilities are available for Monte Carlo simulation and weather variability (P50/P90) studies. SAM can also read input variables from Microsoft Excel worksheets. For software developers, the SAM software development kit (SDK) makes it possible to use SAM simulation modules in their applications written in C/C++, C#, Java, Python, and MATLAB. NREL provides both SAM and the SDK as free downloads at http://sam.nrel.gov. Technical support and more information about the software are available on the website.

  8. Detection of Evolved Carbon Dioxide in the Rocknest Eolian Bedform by the Sample Analysis at Mars(SAM) Instrument at the Mars Curiosity Landing Site

    NASA Technical Reports Server (NTRS)

    Sutter, B.; Archer, D.; McAdam, A.; Franz, H.; Ming, D. W.; Eigenbrode, J. L.; Glavin, D. P.; Mahaffy, P.; Stern, J.; Navarro-Gonzalez, R.

    2013-01-01

    The Sample Analysis at Mars (SAM) instrument detected four releases of carbon dioxide (CO2) that ranged from 100 to 700 C from the Rocknest eolian bedform material (Fig. 1). Candidate sources of CO2 include adsorbed CO2, carbonate(s), combusted organics that are either derived from terrestrial contamination and/or of martian origin, occluded or trapped CO2, and other sources that have yet to be determined. The Phoenix Lander s Thermal Evolved Gas Analyzer (TEGA) detected two CO2 releases (400-600, 700-840 C) [1,2]. The low temperature release was attributed to Fe- and/or Mg carbonates [1,2], per-chlorate interactions with carbonates [3], nanophase carbonates [4] and/or combusted organics [1]. The high temperature CO2 release was attributed to a calcium bearing carbonate [1,2]. No evidence of a high temperature CO2 release similar to the Phoenix material was detected in the Rocknest materials by SAM. The objectives of this work are to evaluate the temperature and total contribution of each Rocknest CO2 release and their possible sources. Four CO2 releases from the Rocknest material were detected by SAM. Potential sources of CO2 are adsorbed CO2, (peak 1) and Fe/Mg carbonates (peak 4). Only a fraction of peaks 2 and 3 (0.01 C wt.%) may be partially attributed to combustion of organic contamination. Meteoritic organics mixed in the Rocknest bedform could be present, but the peak 2 and 3 C concentration (approx.0.21 C wt. %) is likely too high to be attributed solely to meteoritic organic C. Other inorganic sources of C such as interactions of perchlorates and carbonates and sources yet to be identified will be evaluated to account for CO2 released from the thermal decomposition of Rocknest material.

  9. Validation of SAM 2 and SAGE satellite

    NASA Technical Reports Server (NTRS)

    Kent, G. S.; Wang, P.-H.; Farrukh, U. O.; Yue, G. K.

    1987-01-01

    Presented are the results of a validation study of data obtained by the Stratospheric Aerosol and Gas Experiment I (SAGE I) and Stratospheric Aerosol Measurement II (SAM II) satellite experiments. The study includes the entire SAGE I data set (February 1979 - November 1981) and the first four and one-half years of SAM II data (October 1978 - February 1983). These data sets have been validated by their use in the analysis of dynamical, physical and chemical processes in the stratosphere. They have been compared with other existing data sets and the SAGE I and SAM II data sets intercompared where possible. The study has shown the data to be of great value in the study of the climatological behavior of stratospheric aerosols and ozone. Several scientific publications and user-oriented data summaries have appeared as a result of the work carried out under this contract.

  10. Influence of the sample mineralogy on the nature of the organic compounds detected by the SAM experiment analysis condition at Gale Crater.

    NASA Astrophysics Data System (ADS)

    Belmahdi, I.; Buch, A.; François, P.; Szopa, C.; Eigenbrode, J.; Coll, P.; Dequaire, T.; Millan, M.; Tenturier, S.; Bonnet, J. Y.; Mahaffy, P.; Cabane, M.

    2015-10-01

    Sample Analysis at Mars (SAM) is one of the instruments of the MSL mission. It is devoted to analyze the composition in volatile species contained in solid samples collected by the Curiosity rover. To do it, it is composed of 3 complementary analyzers : the Tunable Laser Spectrometer (TLS), the Gas Chromatography (GC) and the Mass Spectrometer (MS)(Mahaffy et al., 2012).Solid samples can be treated by different ways to extract the volatile compounds and inject them in the analyzers :(a)a pyrolysis system, (b)wet chemistry:MTBSTFA and TMAH (c)the hydrocarbon trap (silica beads, Tenax® TA and Carbosieve G)and the injector trap (Tenax® GR) (Mahaffy et al., 2012).

  11. Mineral classification map using MF and SAM techniques: A case study in the Nohwa Island, Korea

    SciTech Connect

    Son, Young-Sun; Yoon, Wang-Jung

    2015-03-10

    The purpose of this study is to map pyprophyllite distribution at surface of the Nohwa deposit, Korea by using Advanced Spaceborne Thermal Emission and Reflectance Radiometer (ASTER) data. For this, combined Spectral Angle Mapper (SAM), and Matched Filtering (MF) technique based on mathematical algorithm was applied. The regional distribution of high-grade and low-grade pyrophyllite in the Nohwa deposit area could be differentiated by this method. The results of this study show that ASTER data analysis using combination of SAM and MF techniques will assist in exploration of pyrophyllite at the exposed surface.

  12. Possible Origin of Chlorobenzene Detected by SAM Instrument at Gale Crater, Mars: Synergy of Iron Oxides and Perchlorate and Consequences for Organic Matter Analysis

    NASA Astrophysics Data System (ADS)

    Francois, P.; Coll, P.; Szopa, C.; Georgelin, T.; Buch, A.; Freissinet, C.; Belmahdi, I.; McAdam, A.; Eigenbrode, J.; Glavin, D.; Kashyap, S.; Navarro-Gonzalez, A. R.; Mahaffy, P.; Cabane, M.

    2014-07-01

    Chlorobenzene, potentially of martian origin, has been detected by the SAM experiment onboard Curiosity rover. We explore its potential formation by a synergy between oxychlorine phases and iron oxides in the presence of a carbon source.

  13. Curiosity Shakes, Bakes, and Tastes Mars with SAM

    NASA Video Gallery

    NASA's Curiosity rover analyzed its first solid sample of Mars with a variety of instruments, including the Sample Analysis at Mars (SAM) instrument suite. Developed at NASA's Goddard Space Flight ...

  14. Iron-rich Carbonates as the Potential Source of Evolved CO2 Detected by the Sample Analysis at Mars (SAM) instrument in Gale Crater.

    NASA Astrophysics Data System (ADS)

    Sutter, B.; Heil, E.; Rampe, E. B.; Morris, R. V.; Ming, D. W.; Archer, P. D., Jr.; Eigenbrode, J. L.; Franz, H. B.; Glavin, D. P.; McAdam, A.; Navarro-Gonzalez, R.; Mahaffy, P. R.; Stern, J. C.; Mertzman, S. A.

    2015-12-01

    The Sample Analysis at Mars (SAM) instrument detected at least 4 distinct CO2 release during the pyrolysis of a sample scooped from the Rocknest (RN) eolian deposit. The highest peak CO2 release temperature (478-502°C) has been attributed to either a Fe-rich carbonate or nano-phase Mg-carbonate. The objective of this experimental study was to evaluate the thermal evolved gas analysis (T/EGA) characteristics of a series of terrestrial Fe-rich carbonates under analog SAM operating conditions to compare with the RN CO2 releases. Natural Fe-rich carbonates (<53μm) with varying Fe amounts (Fe0.66X0.34- to Fe0.99X0.01-CO3, where X refers to Mg and/or Mn) were selected for T/EGA. The carbonates were heated from 25 to 715°C (35°C min-1) and evolved CO2 was measured as a function of temperature. The highest Fe containing carbonates (e.g., Fe0.99X0.01-CO3) yielded CO2 peak temperatures between 466-487°C, which is consistent with the high temperature RN CO2 release. The lower Fe-bearing carbonates (e.g., Fe0.66X0.34CO3) did not have peak CO2 release temperatures that matched the RN peak CO2 temperatures; however, their entire CO2 releases did occur within RN temperature range of the high temperature CO2 release. Results from this laboratory analog analysis demonstrate that the high temperature RN CO2 release is consistent with Fe-rich carbonate (~0.7 to 1 wt.% FeCO3). The similar RN geochemistry with other materials in Gale Crater and elsewhere on Mars (e.g., Gusev Crater, Meridiani) suggests that up to 1 wt. % Fe-rich carbonate may occur throughout the Gale Crater region and could be widespread on Mars. The Rocknest Fe-carbonate may have formed from the interaction of reduced Fe phases (e.g., Fe2+ bearing olivine) with atmospheric CO2 and transient water. Alternatively, the Rocknest Fe-carbonate could be derived by eolian processes that have eroded distally exposed deep crustal material that possesses Fe-carbonate that may have formed through metamorphic and

  15. Iron-Rich Carbonates as the Potential Source of Evolved CO2 Detected by the Sample Analysis at Mars (SAM) Instrument in Gale Crater

    NASA Technical Reports Server (NTRS)

    Sutter, B.; Heil, E.; Rampe, E. B.; Morris, R. V.; Ming, D. W.; Archer, P. D.; Eigenbrode, J. L.; Franz, H. B.; Glavin, D. P.; McAdam, A. C.; Navarro-Gonzalez, R.; Niles, P. B.; Mahaffy, P. R.; Stern, J. C.; Mertzman, S.

    2015-01-01

    The Sample Analysis at Mars (SAM) instrument detected at least 4 distinct CO2 release during the pyrolysis of a sample scooped from the Rocknest (RN) eolian deposit. The highest peak CO2 release temperature (478-502 C) has been attributed to either a Fe-rich carbonate or nano-phase Mg-carbonate. The objective of this experimental study was to evaluate the thermal evolved gas analysis (T/EGA) characteristics of a series of terrestrial Fe-rich carbonates under analog SAM operating conditions to compare with the RN CO2 releases. Natural Fe-rich carbonates (<53 microns) with varying Fe amounts (Fe(0.66)X(0.34)- to Fe(0.99)X(0.01)-CO3, where X refers to Mg and/or Mn) were selected for T/EGA. The carbonates were heated from 25 to 715 C (35 C/min) and evolved CO2 was measured as a function of temperature. The highest Fe containing carbonates (e.g., Fe(0.99)X(0.01)-CO3) yielded CO2 peak temperatures between 466-487 C, which is consistent with the high temperature RN CO2 release. The lower Fe-bearing carbonates (e.g., Fe(0.66)X(0.34)CO3) did not have peak CO2 release temperatures that matched the RN peak CO2 temperatures; however, their entire CO2 releases did occur within RN temperature range of the high temperature CO2 release. Results from this laboratory analog analysis demonstrate that the high temperature RN CO2 release is consistent with Fe-rich carbonate (approx.0.7 to 1 wt.% FeCO3). The similar RN geochemistry with other materials in Gale Crater and elsewhere on Mars (e.g., Gusev Crater, Meridiani) suggests that up to 1 wt. % Fe-rich carbonate may occur throughout the Gale Crater region and could be widespread on Mars. The Rocknest Fe-carbonate may have formed from the interaction of reduced Fe phases (e.g., Fe2+ bearing olivine) with atmospheric CO2 and transient water. Alternatively, the Rocknest Fe-carbonate could be derived by eolian processes that have eroded distally exposed deep crustal material that possesses Fe-carbonate that may have formed through

  16. Faces of Marshall: Sam Ortega

    NASA Video Gallery

    Several Marshall employees were interviewed as part of Marshall's 50th Anniversary activities. Engineer Sam Ortega tells his story of how he came to work as an engineer at Marshall and how sewing a...

  17. DNA adenine methylation of sams1 gene in symbiont-bearing Amoeba proteus.

    PubMed

    Jeon, Taeck J

    2008-10-01

    The expression of amoeba sams genes is switched from sams1 to sams2 when amoebae are infected with Legionella jeonii. To elucidate the mechanism for the inactivation of host sams1 gene by endosymbiotic bacteria, methylation states of the sams1 gene of D and xD amoebae was compared in this study. The sams1 gene of amoebae was methylated at an internal adenine residue of GATC site in symbiont-bearing xD amoebae but not in symbiont-free D amoebae, suggesting that the modification might have caused the inactivation of sams1 in xD amoebae. The sams1 gene of xD amoebae was inactivated at the transcriptional level. Analysis of DNA showed that adenine residues in L. jeonii sams were also methylated, implying that L. jeonii bacteria belong to a Dam methylase-positive strain. In addition, both SAM and Met appeared to act as negative regulators for the expression of sams1 whereas the expression of sams2 was not affected in amoebae.

  18. SAM 2 and SAGE data management and processing

    NASA Technical Reports Server (NTRS)

    Osborn, M. T.; Trepte, C. R.

    1987-01-01

    The data management and processing supplied by ST Systems Corporation (STX) for the Stratospheric Aerosol Measurement 2 (SAM 2) and Stratospheric Aerosol and Gas Experiment (SAGE) experiments for the years 1983 to 1986 are described. Included are discussions of data validation, documentation, and scientific analysis, as well as the archival schedule met by the operational reduction of SAM 2 and SAGE data. Work under this contract resulted in the archiving of the first seven years of SAM 2 data and all three years of SAGE data. A list of publications and presentations supported was also included.

  19. In-Orbit Calibration of a SAMS Triaxial Sensor Head

    NASA Technical Reports Server (NTRS)

    Chestney, Louis S.; Sicker, Ronald J.

    1996-01-01

    This report describes the results of in orbit calibration data collected for a Space Acceleration Measurement System (SAMS) Triaxial Sensor Head (TS H) and the methods used to process the data for bias and gravity levels.

  20. General Safety and Waste Management Related to SAM

    EPA Pesticide Factsheets

    The General Safety and Waste Management page offers section-specific safety and waste management details for chemicals, radiochemicals, pathogens, and biotoxins included in EPA's Selected Analytical Methods for Environmental Remediation and Recovery (SAM).

  1. System Advisor Model, SAM 2011.12.2: General Description

    SciTech Connect

    Gilman, P.; Dobos, A.

    2012-02-01

    This document describes the capabilities of the U.S. Department of Energy and National Renewable Energy Laboratory's System Advisor Model (SAM), Version 2011.12.2, released on December 2, 2011. SAM is software that models the cost and performance of renewable energy systems. Project developers, policy makers, equipment manufacturers, and researchers use graphs and tables of SAM results in the process of evaluating financial, technology, and incentive options for renewable energy projects. SAM simulates the performance of solar, wind, geothermal, biomass, and conventional power systems. The financial model can represent financing structures for projects that either buy and sell electricity at retail rates (residential and commercial) or sell electricity at a price determined in a power purchase agreement (utility). Advanced analysis options facilitate parametric, sensitivity, and statistical analyses, and allow for interfacing SAM with Microsoft Excel or with other computer programs. SAM is available as a free download at http://sam.nrel.gov. Technical support and more information about the software are available on the website.

  2. Summary Status of the Space Acceleration Measurement System (SAMS), September 1993

    NASA Technical Reports Server (NTRS)

    DeLombard, Richard

    1994-01-01

    The Space Acceleration Measurement System (SAMS) was developed to measure the microgravity acceleration environment to which NASA science payloads are exposed during microgravity science missions on the shuttle. Six flight units have been fabricated to date. The inaugural flight of a SAMS unit was on STS-40 in June 1991 as part of the First Spacelab Life Sciences mission. Since that time, SAMS has flown on six additional missions and gathered eighteen gigabytes of data representing sixty-eight days of microgravity environment. The SAMS units have been flown in the shuttle middeck and cargo bay, in the Spacelab module, and in the Spacehab module. This paper summarizes the missions and experiments which SAMS has supported. The quantity of data and the utilization of the SAMS data is described. Future activities are briefly described for the SAMS project and the Microgravity Measurement and Analysis project (MMAP) to support science experiments and scientists with microgravity environment measurement and analysis.

  3. Data handling with SAM and art at the NOνA experiment

    NASA Astrophysics Data System (ADS)

    Aurisano, A.; Backhouse, C.; Davies, G. S.; Illingworth, R.; Mayer, N.; Mengel, M.; Norman, A.; Rocco, D.; Zirnstein, J.

    2015-12-01

    During operations, NOvA produces between 5,000 and 7,000 raw files per day with peaks in excess of 12,000. These files must be processed in several stages to produce fully calibrated and reconstructed analysis files. In addition, many simulated neutrino interactions must be produced and processed through the same stages as data. To accommodate the large volume of data and Monte Carlo, production must be possible both on the Fermilab grid and on off-site farms, such as the ones accessible through the Open Science Grid. To handle the challenge of cataloging these files and to facilitate their off-line processing, we have adopted the SAM system developed at Fermilab. SAM indexes files according to metadata, keeps track of each file's physical locations, provides dataset management facilities, and facilitates data transfer to off-site grids. To integrate SAM with Fermilab's art software framework and the NOvA production workflow, we have developed methods to embed metadata into our configuration files, art files, and standalone ROOT files. A module in the art framework propagates the embedded information from configuration files into art files, and from input art files to output art files, allowing us to maintain a complete processing history within our files. Embedding metadata in configuration files also allows configuration files indexed in SAM to be used as inputs to Monte Carlo production jobs. Further, SAM keeps track of the input files used to create each output file. Parentage information enables the construction of self-draining datasets which have become the primary production paradigm used at NOvA. In this paper we will present an overview of SAM at NOvA and how it has transformed the file production framework used by the experiment.

  4. Data handling with SAM and art at the NOvA experiment

    DOE PAGES

    Aurisano, A.; Backhouse, C.; Davies, G. S.; ...

    2015-12-23

    During operations, NOvA produces between 5,000 and 7,000 raw files per day with peaks in excess of 12,000. These files must be processed in several stages to produce fully calibrated and reconstructed analysis files. In addition, many simulated neutrino interactions must be produced and processed through the same stages as data. To accommodate the large volume of data and Monte Carlo, production must be possible both on the Fermilab grid and on off-site farms, such as the ones accessible through the Open Science Grid. To handle the challenge of cataloging these files and to facilitate their off-line processing, we havemore » adopted the SAM system developed at Fermilab. SAM indexes files according to metadata, keeps track of each file's physical locations, provides dataset management facilities, and facilitates data transfer to off-site grids. To integrate SAM with Fermilab's art software framework and the NOvA production workflow, we have developed methods to embed metadata into our configuration files, art files, and standalone ROOT files. A module in the art framework propagates the embedded information from configuration files into art files, and from input art files to output art files, allowing us to maintain a complete processing history within our files. Embedding metadata in configuration files also allows configuration files indexed in SAM to be used as inputs to Monte Carlo production jobs. Further, SAM keeps track of the input files used to create each output file. Parentage information enables the construction of self-draining datasets which have become the primary production paradigm used at NOvA. In this study we will present an overview of SAM at NOvA and how it has transformed the file production framework used by the experiment.« less

  5. Technical Manual for the SAM Physical Trough Model

    SciTech Connect

    Wagner, M. J.; Gilman, P.

    2011-06-01

    NREL, in conjunction with Sandia National Lab and the U.S Department of Energy, developed the System Advisor Model (SAM) analysis tool for renewable energy system performance and economic analysis. This paper documents the technical background and engineering formulation for one of SAM's two parabolic trough system models in SAM. The Physical Trough model calculates performance relationships based on physical first principles where possible, allowing the modeler to predict electricity production for a wider range of component geometries than is possible in the Empirical Trough model. This document describes the major parabolic trough plant subsystems in detail including the solar field, power block, thermal storage, piping, auxiliary heating, and control systems. This model makes use of both existing subsystem performance modeling approaches, and new approaches developed specifically for SAM.

  6. Rapid Radiochemical Method for Radium-226 in Building ...

    EPA Pesticide Factsheets

    Technical Fact Sheet Analysis Purpose: Qualitative analysis Technique: Alpha spectrometry Method Developed for: Radium-226 in building materials Method Selected for: SAM lists this method for qualitative analysis of radium-226 in concrete or brick building materials Summary of subject analytical method which will be posted to the SAM website to allow access to the method.

  7. Rapid Radiochemical Method for Total Radiostrontium (Sr-90) ...

    EPA Pesticide Factsheets

    Technical Fact Sheet Analysis Purpose: Qualitative analysis Technique: Beta counting Method Developed for: Strontium-89 and strontium-90 in building materials Method Selected for: SAM lists this method for qualitative analysis of strontium-89 and strontium-90 in concrete or brick building materials Summary of subject analytical method which will be posted to the SAM website to allow access to the method.

  8. Functional Analysis of CP2-Like Domain and SAM-Like Domain in TFCP2L1, Novel Pluripotency Factor of Embryonic Stem Cells.

    PubMed

    Kim, Chang Min; Jang, Tae-Ho; Park, Hyun Ho

    2016-06-01

    TFCP2L1 is a transcription factor that facilitates establishment and maintenance of pluripotency in embryonic stem cells by forming a complex transcriptional network with other transcription factors (OCT4, SOX2, and NANOG). TFCP2L1 contains two distinct domains, the CP2-like domain at the N-terminus and the SAM-like domain at the C-terminus. In this study, we found that TFCP2L1 is hexamerized in solution via the C-terminal SAM-like domain. We also found that homo-oligomerization of SAM-like domain is dependent on the concentration of the proteins. Finally, we found that TFCP2L1 binds directly to DNA via the N-terminal CP2-like domain.

  9. In situ analysis of Mars soil sample with the sam gcms instrumentation onboard Curiosity : interpretation and comparison of measurements done at Rocknest and Yelloknife bay sites

    NASA Astrophysics Data System (ADS)

    Szopa, Cyril; Coll, Patrice; Cabane, Michel; Coscia, David; Buch, Arnaud; Francois, Pascaline; Millan, Maeva; Teinturier, Sammy; Navarro-Gonzales, Rafael; Glavin, Daniel; Freissinet, Caro; Steele, Andrew; Eigenbrode, Jen; Mahaffy, Paul

    2014-05-01

    The characterisation of the chemical and mineralogical composition of regolith samples collected with the Curiosity rover is a primary objective of the SAM experiment. These data should provide essential clues on the past habitability of Gale crater. Amongst the SAM suite of instruments [1], SAM-GC (Gas Chromatograph) is devoted to identify and quantify volatiles evolved from the thermal (heating up to about 900°C)/chemical (derivatization procedure) treatment of any soil sample collected by the Curiosity rover. With the aim to search for potential organic molecules outgassed from the samples, a SAM-GC analytical channel composed of thermal-desorption injector and a MXT-CLP chromatographic column was chosen to achieve all the measurements done up today, as it was designed for the separation of a wide range of volatile organic molecules. Three solid samples have been analyzed with GCMS, one sand sample collected at the Rocknest site, and two rock samples (John Klein and Cumberland respectively) collected at the Yellowknife Bay site using the Curiosity driller. All the measurements were successful and they produced complex chromatograms with both detectors used for SAM GC, i.e. a thermal conductivity detector and the SAM quandrupole mass spectrometer. Their interpretation already revealed the presence of an oxychlorine phase present in the sample which is at the origin of chlorohydrocarbons clearly identified [2] but this represents only a fraction of the GCMS signal recorded [3,4]. This work presents a systematic comparison of the GCMS measurements done for the different samples collected, supported by reference data obtained in laboratory with different spare models of the gas chromatograph, with the aim to bring new elements of interpretation of the SAM measurements. References: [1] Mahaffy, P. et al. (2012) Space Sci Rev, 170, 401-478. [2] Glavin, D. et al. (2013), JGR. [3] Leshin L. et al. (2013), Science, [4] Ming D. et al. (2013), Science, 32, 64

  10. The Investigation of Magnesium Perchlorate/Iron Phase-mineral Mixtures as a Possible Source of Oxygen and Chlorine Detected by the Sample Analysis at Mars (SAM) Instrument in Gale Crater, Mars

    NASA Technical Reports Server (NTRS)

    Sutter, B.; Heil, E.; Archer, P. D.; Ming, D. W.; Eigenbrode, J. L.; Franz, H. B.; Glavin, D. P.; McAdam, A. C.; Mahaffy, P. R.; Niles, P. B.; Stern, J. C.; Navarro-Gonzalez, R.; McKay, C. P.

    2014-01-01

    The Sample Analysis at Mars (SAM) instrument onboard the Curiosity rover detect-ed O2 and HCl gas releases from the Rocknest (RN) eolian bedform and the John Klein (JK) and Cumber-land (CB) drill hole materials in Gale Crater (Fig. 1) [1,2]. Chlorinated hydrocarbons have also been detect-ed by the SAM quadrupole mass spectrometer (QMS) and gas chromatography/mass spectrometer (GCMS) [1,2,3,4]. These detections along with the detection of perchlorate (ClO4(-)) by the Mars Phoenix Lander's Wet Chemistry Laboratory (WCL) [5] suggesting perchlo-rate is a possible candidate for evolved O2 and chlorine species. Laboratory thermal analysis of individual per-chlorates has yet to provide an unequivocal tempera-ture match to the SAM O2 and HCl release data [1,2]. Catalytic reactions of Fe phases in the Gale Crater ma-terial with perchlorates can potentially reduce the de-composition temperatures of these otherwise pure per-chlorate/chlorate phases [e.g., 6,7]. Iron mineralogy found in the Rocknest materials when mixed with Ca-perchlorate was found to cause O2 release temperatures to be closer match to the SAM O2 release data and enhance HCl gas releases. Exact matches to the SAM data has unfortnunately not been achieved with Ca-perchlorate-Fe-phase mixtures [8]. The effects of Fe-phases on magnesium perchlorate thermal decomposi-tion release of O2 and HCl have not been evaluated and may provide improved matches to the SAM O2 and HCl release data. This work will evaluate the thermal decomposition of magnesium perchlorate mixed with fayalite/magnetite phase and a Mauna Kea palagonite (HWMK 919). The objectives are to 1) summarize O2 and HCl releases from the Gale Crater materials, and 2) evaluate the O2 and HCl releases from the Mg-perchlorate + Fe phase mixtures to determine if Mg-perchlorate mixed with Fe-phases can explain the Gale Crater O2 and HCl releases.

  11. Substation alarm multiplexing system (SAMS)

    SciTech Connect

    ElBadaly, H.; Gaughan, J.; Ward, G.; Amengual, S.

    1996-03-01

    This paper describes an on going R&D project to develop, design, install, and assess the field performance of an advanced substation alarm system. SAMS provides a highly fault-tolerant system for the reporting of equipment alarms. SAMS separates and identifies each of the multiple alarm contacts, transmits an alarm condition over existing substation two-wire system, and displays the alarm source, and its associated technical information, on a touch-screen monitor inside the substation control room, and a remote central location and on a hand held terminal which may be carried anywhere within the substation. SAMS is currently installed at the Sherman Creek substation in the Bronx for the purpose of a three month field evaluation.

  12. The Investigation of Chlorate/Iron-Phase Mixtures as a Possible Source of Oxygen and Chlorine Detected by the Sample Analysis at Mars (SAM) Instrument in Gale Crater, Mars

    NASA Technical Reports Server (NTRS)

    Clark, J.; Sutter, B.; Morris, R. V.; Archer, P. D.; Ming, D. W.; Niles, P.; Mahaffy, P.; Navarro-Gonzalez, R.

    2016-01-01

    The Sample Analysis at Mars (SAM) instrument on board the Curiosity Rover has detected oxygen and HCl gas releases from all analyzed Gale Crater sediments. The presence of perchlorate ClO4(sup-) and/or chlorates ClO3(sup-) are potential sources of the aforementioned O2 releases. The detections of O2 and HCl gas releases and chlorinated hydrocarbons by SAM coupled with the detection of perchlorates by Phoenix Lander's 2008 Wet Chemistry Laboratory all suggest that perchlorates, and possibly chorates, may be present in the Gale Crater sediments. Previous laboratory studies have attempted to replicate these O2 releases by heating perchlorates and chlorates in instruments operated similarly to those in the SAM instrument. Early studies found that pure perchlorates release O2 at temperatures higher than those observed in SAM data. Subsequently, studies were done to test the effects of mixing iron-phase minerals, analogous to those detected on Mars by ChemMin, with perchlorates. The iron in these minerals acts as a catalyst and causes O2 to be released from the perchlorate at a lower temperature. These studies found that perchlorate solutions mixed with either Hawaii palagonite or ferrihydrite produce O2 releases at temperatures similar to the Rocknest (RN) windblown deposit and the John Klein (JK) drill sample from the Sheepbed mudstone. The study also determined that perchlorate mixtures with magnetite, hematite, fayalite-magnetite, ilmentite, and pyrrhotite produce O2 releases at temperatures similar to the Confidence Hills (CH) drill sample from the Murray mudstone. Oxygen re-leases from pure chlorates were recently compared with the SAM data. Laboratory analyses determined that Ca-chlorate produces O2 and HCl peaks that are similar to those detected in RN and JK materials. Currently, no perchlorate/chlorate mixture with iron-phase minerals can explain the O2 releases from either the Cumberland (CB) drill sample from the Sheepbed mudstone or Windjana (WJ) drill

  13. Rapid Radiochemical Method for Plutonium-238 and ...

    EPA Pesticide Factsheets

    Technical Fact Sheet Technique: Alpha spectrometry Method Developed for: Plutonium-238 and plutonium-239 in building materials Method Selected for: SAM lists this method for qualitative analysis of plutonium-238 and -239 in concrete or brick building materials. Summary of subject analytical method which will be posted to the SAM website to allow access to the method.

  14. SAM Technical Contacts

    EPA Pesticide Factsheets

    These technical contacts are available to help with questions regarding method deviations, modifications, sample problems or interferences, quality control requirements, the use of alternative methods, or the need to address analytes or sample types.

  15. SAM Overview: The Habitability of Mars

    NASA Video Gallery

    Featuring an interview with Paul Mahaffy, SAM's Principal Investigator, this video gives a general overview of SAM's mission aboard the Mars Science Laboratory, otherwise known as the Curiosity rover.

  16. High expression level and nuclear localization of Sam68 are associated with progression and poor prognosis in colorectal cancer

    PubMed Central

    2013-01-01

    Background Src-associated in mitosis (Sam68; 68 kDa) has been implicated in the oncogenesis and progression of several human cancers. The aim of this study was to investigate the clinicopathologic significance of Sam68 expression and its subcellular localization in colorectal cancer (CRC). Methods Sam68 expression was examined in CRC cell lines, nine matched CRC tissues and adjacent noncancerous tissues using reverse transcription (RT)-PCR, quantitative RT-PCR and Western blotting. Sam68 protein expression and localization were determined in 224 paraffin-embedded archived CRC samples using immunohistochemistry. Statistical analyses were applied to evaluate the clinicopathologic significance. Results Sam68 was upregulated in CRC cell lines and CRC, as compared with normal tissues; high Sam68 expression was detected in 120/224 (53.6%) of the CRC tissues. High Sam68 expression correlated significantly with poor differentiation (P = 0.033), advanced T stage (P < 0.001), N stage (P = 0.023) and distant metastasis (P = 0.033). Sam68 nuclear localization correlated significantly with poor differentiation (P = 0.002) and T stage (P =0.021). Patients with high Sam68 expression or Sam68 nuclear localization had poorer overall survival than patients with low Sam68 expression or Sam68 cytoplasmic localization. Patients with high Sam68 expression had a higher risk of recurrence than those with low Sam68 expression. Conclusions Overexpression of Sam68 correlated highly with cancer progression and poor differentiation in CRC. High Sam68 expression and Sam68 nuclear localization were associated with poorer overall survival. PMID:23937454

  17. The Investigation of Chlorate and Perchlorate/Saponite Mixtures as a Possible Source of Oxygen and Chlorine Detected by the Sample Analysis at Mars (SAM) Instrument in Gale Crater

    NASA Technical Reports Server (NTRS)

    Clark, J.; Sutter, B.; Min, D. W.; Mahaffy, P.

    2016-01-01

    The Sample Analysis at Mars (SAM) instrument on board the Curiosity Rover has detected O2 and HCl gas releases from all analyzed Gale Crater sediments, which are attributed to the presence of perchlorates and/or chlorates in martian sediment. Previous SAM analog laboratory analyses found that most pure perchlorates and chlorates release O2 and HCl at different temperatures than those observed in the SAM data. Subsequent studies examined the effects of perchlorate and chlorate mixtures with Gale Crater analog iron phases, which are known to catalyze oxychlorine decomposition. Several mixtures produced O2 releases at similar temperatures as Gale Crater materials, but most of these mixtures did not produce significant HCl releases comparable to those detected by the SAM instrument. In order to better explain the Gale Crater HCl releases, perchlorates and chlorates were mixed with Gale Crater analog saponite, which is found at abundances from 8 to 20 wt % in the John Klein and Cumberland drill samples. Mixtures of chlorates or perchlorates with calcium-saponite or ferrian-saponite were heated to 1000 deg C in a Labsys EVO differential scanning calorimeter/mass spectrometer configured to operate similarly to the SAM oven/quadrupole mass spectrometer system. Our results demonstrate that all chlorate and perchlorate mixtures produce significant HCl releases below 1000 deg C as well as depressed oxygen peak release temperatures when mixed with saponite. The type of saponite (calcium or ferrian saponite) did not affect the evolved gas results significantly. Saponite/Mg-perchlorate mixtures produced two HCl releases similar to the Cumberland drilled sample. Mg-chlorate mixed with saponite produced HCl releases similar to the Big Sky drilled sample in an eolian sandstone. A mixture of Ca-perchlorate and saponite produced HCl and oxygen releases similar to the Buckskin mudstone drilled sample and the Gobabeb 2 eolian dune material. Ca-chlorate mixed with saponite produced both

  18. SAMS Acceleration Measurements on MIR

    NASA Technical Reports Server (NTRS)

    Moskowitz, Milton E.; Hrovat, Kenneth; Finkelstein, Robert; Reckart, Timothy

    1997-01-01

    During NASA Increment 3 (September 1996 to January 1997), about 5 gigabytes of acceleration data were collected by the Space Acceleration Measurement System (SAMS) onboard the Russian Space Station, Mir. The data were recorded on 11 optical disks and were returned to Earth on STS-81. During this time, SAMS data were collected in the Priroda module to support the following experiments: the Mir Structural Dynamics Experiment (MiSDE) and Binary Colloidal Alloy Tests (BCAT). This report points out some of the salient features of the microgravity environment to which these experiments were exposed. Also documented are mission events of interest such as the docked phase of STS-81 operations, a Progress engine burn, attitude control thruster operation, and crew exercise. Also included are a description of the Mir module orientations, and the panel notations within the modules. This report presents an overview of the SAMS acceleration measurements recorded by 10 Hz and 100 Hz sensor heads. Variations in the acceleration environment caused by unique activities such as crew exercise and life-support fans are presented. The analyses included herein complement those presented in previous mission summary reports published by the Principal Investigator Microgravity Services (PIMS) group.

  19. Data handling with SAM and art at the NOvA experiment

    SciTech Connect

    Aurisano, A.; Backhouse, C.; Davies, G. S.; Illingworth, R.; Mayer, N.; Mengel, M.; Norman, A.; Rocco, D.; Zirnstein, J.

    2015-12-23

    During operations, NOvA produces between 5,000 and 7,000 raw files per day with peaks in excess of 12,000. These files must be processed in several stages to produce fully calibrated and reconstructed analysis files. In addition, many simulated neutrino interactions must be produced and processed through the same stages as data. To accommodate the large volume of data and Monte Carlo, production must be possible both on the Fermilab grid and on off-site farms, such as the ones accessible through the Open Science Grid. To handle the challenge of cataloging these files and to facilitate their off-line processing, we have adopted the SAM system developed at Fermilab. SAM indexes files according to metadata, keeps track of each file's physical locations, provides dataset management facilities, and facilitates data transfer to off-site grids. To integrate SAM with Fermilab's art software framework and the NOvA production workflow, we have developed methods to embed metadata into our configuration files, art files, and standalone ROOT files. A module in the art framework propagates the embedded information from configuration files into art files, and from input art files to output art files, allowing us to maintain a complete processing history within our files. Embedding metadata in configuration files also allows configuration files indexed in SAM to be used as inputs to Monte Carlo production jobs. Further, SAM keeps track of the input files used to create each output file. Parentage information enables the construction of self-draining datasets which have become the primary production paradigm used at NOvA. In this study we will present an overview of SAM at NOvA and how it has transformed the file production framework used by the experiment.

  20. Sam.

    ERIC Educational Resources Information Center

    Wilson, James C.

    1988-01-01

    A father writes about his six-year-old son born with hydrocephalus. He describes such day-to-day experiences as going to a baseball game and the grocery store, reactions of friends and strangers to his son's social interactions, and a special day at preschool. The boy's medical treatment, including surgeries, are also described. (VW)

  1. Sam37 is crucial for formation of the mitochondrial TOM–SAM supercomplex, thereby promoting β-barrel biogenesis

    PubMed Central

    Wenz, Lena-Sophie; Ellenrieder, Lars; Qiu, Jian; Bohnert, Maria; Zufall, Nicole; van der Laan, Martin; Becker, Thomas

    2015-01-01

    Biogenesis of mitochondrial β-barrel proteins requires two preprotein translocases, the general translocase of the outer membrane (TOM) and the sorting and assembly machinery (SAM). TOM and SAM form a supercomplex that promotes transfer of β-barrel precursors. The SAM core complex contains the channel protein Sam50, which cooperates with Sam35 in precursor recognition, and the peripheral membrane protein Sam37. The molecular function of Sam37 has been unknown. We report that Sam37 is crucial for formation of the TOM–SAM supercomplex. Sam37 interacts with the receptor domain of Tom22 on the cytosolic side of the mitochondrial outer membrane and links TOM and SAM complexes. Sam37 thus promotes efficient transfer of β-barrel precursors to the SAM complex. We conclude that Sam37 functions as a coupling factor of the translocase supercomplex of the mitochondrial outer membrane. PMID:26416958

  2. SAM 2 balloon test (stratospheric aerosol measurement)

    NASA Technical Reports Server (NTRS)

    Pepin, T. J.

    1976-01-01

    As a parallel effort to the LACATE balloon experiment a small optical system was constructed to enable a balloon test of a diode filter system similar to the type planned for the Nimbus-G SAM II experiment. The system was called the SAM II Balloon Test. Results of the balloon flight are summarized.

  3. Wind Technology Modeling Within the System Advisor Model (SAM) (Poster)

    SciTech Connect

    Blair, N.; Dobos, A.; Ferguson, T.; Freeman, J.; Gilman, P.; Whitmore, J.

    2014-05-01

    This poster provides detail for implementation and the underlying methodology for modeling wind power generation performance in the National Renewable Energy Laboratory's (NREL's) System Advisor Model (SAM). SAM's wind power model allows users to assess projects involving one or more large or small wind turbines with any of the detailed options for residential, commercial, or utility financing. The model requires information about the wind resource, wind turbine specifications, wind farm layout (if applicable), and costs, and provides analysis to compare the absolute or relative impact of these inputs. SAM is a system performance and economic model designed to facilitate analysis and decision-making for project developers, financers, policymakers, and energy researchers. The user pairs a generation technology with a financing option (residential, commercial, or utility) to calculate the cost of energy over the multi-year project period. Specifically, SAM calculates the value of projects which buy and sell power at retail rates for residential and commercial systems, and also for larger-scale projects which operate through a power purchase agreement (PPA) with a utility. The financial model captures complex financing and rate structures, taxes, and incentives.

  4. The Discovery of Polar Stratospheric Clouds by SAM II

    NASA Astrophysics Data System (ADS)

    Poole, L. R.; McCormick, M. P.

    2005-12-01

    Until the advent of spaceborne observations, clouds were thought to occur very rarely in the extremely dry stratosphere. This view changed dramatically following the launch of the Stratospheric Aerosol Measurement (SAM) II instrument on the Nimbus 7 spacecraft in October 1978. SAM II was a single channel solar photometer designed to measure stratospheric aerosol extinction profiles at a wavelength of 1.0 micron at latitudes from 64-80 degrees in both hemispheres. An analysis of SAM II data from the Arctic for January 1979 revealed a number of profiles in which the extinction was 1-2 orders of magnitude larger than expected. Careful study showed that these large extinction values were not artifacts, but were indeed due to dramatic reductions in the amount of solar radiance reaching the instrument. Further analyses showed that these so-called polar stratospheric clouds (PSCs) were observed only when the local stratospheric temperature was very low (185-200 K). The interest in PSCs was primarily academic until the discovery of the Antarctic ozone hole in 1985, which was quickly followed by studies associating this ozone depletion with the release of active chlorine through heterogeneous chemical reactions catalyzed by PSC particles. A large body of research over the ensuing two decades has firmly established this link. In this paper, we will recount the serendipitous discovery of PSCs in SAM II data more than 25 years ago and highlight other advances in our understanding of PSCs that have stemmed from spaceborne observations.

  5. Sam68 is Overexpressed in Epithelial Ovarian Cancer and Promotes Tumor Cell Proliferation

    PubMed Central

    Dong, Lijuan; Che, Hailuo; Li, Mingmei; Li, Xuepeng

    2016-01-01

    Background Epithelial ovarian cancer (EOC) is the deadliest gynecological malignancy, and evidence is accumulating on how molecular markers may be associated with the origin and process of EOC. Sam68 (Src-associated in mitosis, of 68 kD), is a K homology domain RNA-binding protein that has been investigated as a risk factor in multiple types of tumors. The aim of the present study was to investigate the contribution of the Sam68 gene in the pathogenesis of EOC. Material/Methods Western blot assay and real-time quantitative PCR methods were performed to examine Sam68 expression in EOC tissue specimens. The association of Sam68 expression with clinic-pathologic variables of EOC was evaluated. Then gain-of-function and loss-of-function strategies were adopted to examine the regulation of Sam68 on the proliferation of EOC OVCAR-3 cells using CCK-8 and colony forming assays. Results Sam68 was overexpressed in both mRNA and protein levels in EOC tumor tissue (n=152) in an association with malignant factors of EOC such as International Federation of Gynecology and Obstetrics (FIGO) stage, residual tumor size (cm), histological grade, and lymph node metastasis. In vitro results demonstrated that Sam68 overexpression was upregulated while Sam68 knockdown downregulated the proliferation of EOC OVCAR-3 cells via regulation of cell growth and colony formation. Conclusions Sam68 was overexpressed in EOC tissue in association with such cancer malignant factors of FIGO stage, histological grade, and lymph node metastasis, and also positively regulated the proliferation of EOC cells. Our research suggests that Sam68 might accelerate cell cycle progression, and present as a prognostic marker for EOC. PMID:27623016

  6. Patterning NHS-terminated SAMs on germanium.

    PubMed

    Morris, Carleen J; Shestopalov, Alexander A; Gold, Brian H; Clark, Robert L; Toone, Eric J

    2011-05-17

    Here we report a simple, robust approach to patterning functional SAMs on germanium. The protocol relies on catalytic soft-lithographic pattern transfer from an elastomeric stamp bearing pendant immobilized sulfonic acid moieties to an NHS-functionalized bilayer molecular system comprising a primary ordered alkyl monolayer and a reactive ester secondary overlayer. The catalytic polyurethane-acrylate stamp was used to form micrometer-scale features of chemically distinct SAMs on germanium. The methodology represents the first example of patterned SAMs on germanium, a semiconductor material.

  7. STS-134 Crew Talks With Sam Ting

    NASA Video Gallery

    The STS-134 crew talks with Sam Ting, principal investigator for the Alpha Magnetic Spectrometer, following the installation of the particle physics detector on the International Space Station duri...

  8. NES Live Video Chat: Engineer Sam Ortega

    NASA Video Gallery

    The NES project invited all K-12 students to participate in a one-hour-long NASA video webchat on April 19, 2011 with NASA engineer Sam Ortega. Ortega answered questions about building and testing ...

  9. First use of SAM onboard calibration gas cell

    NASA Astrophysics Data System (ADS)

    Malespin, C.; Trainer, M. G.; Manning, H. L.; Franz, H. B.; Conrad, P. G.; Raaen, E.; Webster, C. R.; Flesch, G.; Eigenbrode, J. L.; Wong, M. H.; Mahaffy, P. R.

    2015-12-01

    The Sample Analysis at Mars (SAM) instrument (Mahaffy et al 2012) suite on Curiosity completed its first measurement of the onboard calibration gas cell on MSL Mission Sol 1042. The cell consists of a gas mixture of four primary gases, along with trace fluorinated hydrocarbon high mass calibrants. The mix is comprised of approximately 25% CO2, N2, Xe and Ar, where the 129Xe has been given a three times enrichment relative to terrestrial xenon in order to distinguish it isotopically from Martian atmospheric Xe. Analysis of the calibration cell is intended to identify changes in instrument performance between pre-launch calibrations and operations on Mars, for any of the three main subsystems in SAM: the Quadrupole Mass Spectrometer (QMS), Tunable Laser Spectrometer (TLS), and Gas Chromatograph (GC). Here we present the experimental approach, results, and implications for instrument performance after almost three years of measurements on Mars.

  10. Identification of trans-acting factors regulating SamDC expression in Oryza sativa

    SciTech Connect

    Basu, Supratim; Roychoudhury, Aryadeep; Sengupta, Dibyendu N.

    2014-03-07

    Highlights: • Identification of cis elements responsible for SamDC expression by in silico analysis. • qPCR analysis of SamDC expression to abiotic and biotic stress treatments. • Detection of SamDC regulators using identified cis-elements as probe by EMSA. • Southwestern Blot analysis to predict the size of the trans-acting factors. - Abstract: Abiotic stress affects the growth and productivity of crop plants; to cope with the adverse environmental conditions, plants have developed efficient defense machinery comprising of antioxidants like phenolics and flavonoids, and osmolytes like polyamines. SamDC is a key enzyme in the polyamine biosynthesis pathway in plants. In our present communication we have done in silico analysis of the promoter region of SamDC to look for the presence of different cis-regulatory elements contributing to its expression. Based on the presence of different cis-regulatory elements we completed comparative analysis of SamDC gene expression in rice lamina of IR-29 and Nonabokra by qPCR in response to the abiotic stress treatments of salinity, drought, cold and the biotic stress treatments of ABA and light. Additionally, to explore the role of the cis-regulatory elements in regulating the expression of SamDC gene in plants we comparatively analyzed the binding of rice nuclear proteins prepared from IR-29 and Nonabokra undergoing various stress treatments. The intensity of the complex formed was low and inducible in IR-29 in contrast to Nonabokra. Southwestern blot analysis helped in predicting the size of the trans-acting factors binding to these cis-elements. To our knowledge this is the first report on the comprehensive analysis of SamDC gene expression in rice and identification of the trans-acting factors regulating its expression.

  11. Effect of the Presence of Chlorates and Perchlorates on the Pyrolysis of Organic Compounds: Implications for Measurements Done with the SAM Experiment Onboard the Curiosity Rover

    NASA Technical Reports Server (NTRS)

    Millan, M.; Szopa, C.; Buch, A.; Belmahdi, I.; Coll, P.; Glavin, D. P.; Freissinet, C.; Archer, P. D., Jr.; Sutter, B.; Summons, R. E.; Mahaffy, P.

    2016-01-01

    The Mars Science Laboratory (MSL) Curiosity Rover carries a suite of instruments, one of which is the Sample Analysis at Mars (SAM) experiment. SAM is devoted to the in situ molecular analysis of gases evolving from solid samples collected by Curiosity on Mars surface/sub-surface. Among its three analytical devices, SAM has a gaschromatograph coupled to a quadrupole mass spectrometer (GC-QMS). The GC-QMS is devoted to the separation and identification of organic and inorganic material. Before proceeding to the GC-QMS analysis, the solid sample collected by Curiosity is subjected to a thermal treatment thanks to the pyrolysis oven to release the volatiles into the gas processing system. Depending on the sample, a derivatization method by wet chemistry: MTBSTFA of TMAH can also be applied to analyze the most refractory compounds. The GC is able to separate the organic molecules which are then detected and identified by the QMS (Figure 1). For the second time after the Viking landers in 1976, SAM detected chlorinated organic compounds with the pyrolysis GC-QMS experiment. The detection of perchlorates salts (ClO4-) in soil at the Phoenix Landing site suggests that the chlorohydrocarbons detected could come from the reaction of organics with oxychlorines. Indeed, laboratory pyrolysis experiments have demonstrated that oxychlorines decomposed into molecular oxygen and volatile chlorine (HCl and/or Cl2) when heated which then react with the organic matter in the solid samples by oxidation and/or chlorination processes.

  12. Characterization of pra, a gene for replication control in pSAM2, the integrating element of Streptomyces ambofaciens.

    PubMed

    Sezonov, G; Hagège, J; Pernodet, J L; Friedmann, A; Guérineau, M

    1995-08-01

    pSAM2 is a genetic element found integrated in Streptomyces ambofaciens (B2) and additionally in a replicating form in two mutants B3 and B4. The presence of the pSAM2 replicating form in these mutants was the result of mutations located on pSAM2 in the pra locus, named pra3 and pra4, respectively. The pra gene is not directly involved in replication, but its inactivation led to the disappearance of the pSAM2 free form; therefore, it was considered as a replication regulator. The pra3 and pra4 mutations were located in the pra promoter and were shown to be point substitutions that increase the promoter strength. The replication regulator role of pra was demonstrated by the fact that its constitutive expression in cells harbouring pSAM2B2, which is normally only integrated, led to the appearance of the pSAM2 replicating form. Northern analysis showed that the pra gene transcript can be detected only for the replicating mutants B3 and B4 and that the three adjacent genes korSA, pra and traSA were transcribed separately. As replication of pSAM2 is not needed for its maintenance but is an indispensable stage of its transfer, the pra gene, described formally as an activator of pSAM2 replication, is patently involved in pSAM2 transfer.

  13. SAM Chlorine Observations at Gale Crater

    NASA Astrophysics Data System (ADS)

    Conrad, P. G.; Farley, K. A.; Vasconcelos, P. M.; Malespin, C.; Franz, H.; McAdam, A.; Sutter, B.; Stern, J. C.; Clark, B. C.; Atreya, S. K.; Mahaffy, P. R.; Martín-Torres, J.; Zorzano, M. P.

    2014-12-01

    The Sample Analysis at Mars investigation has detected Cl-bearing phases of various oxidation states in its thermally evolved gas measurements of both a wind drift deposit of fines and three different rock samples delivered as sieved drill powders to the instrument suite. In addition to HCl (Leshin et al, 2013; Ming et al, 2013) and chlorinated hydrocarbon detections (Glavin et al, 2013; Freissinet et al, in review), oxygen releases consistent with the decomposition of perchlorate salts are also observed. We have also measured chlorine isotope ratios of the four different solid samples, which yielded variable and more negative δ37Cl than typically observed in SNC meteorite analyses. We summarize our chlorine observations in the context of other gases observed in the SAM solid sample analyses, including water, sulfur- and nitrogen-bearing compounds, and REMS observations of Relative Humidity and Temperature, and compare with knowledge of martian chlorine obtained from the SNC meteorites. Finally, we examine the implications of surface/atmosphere Cl interactions and isotopic ratios for the rise and decline of habitable surface environments on Mars. This research was supported by the National Aeronautics and Space Administration (NASA) Mars Science Laboratory mission.

  14. Obituary: Sam Roweis (1972-2010)

    NASA Astrophysics Data System (ADS)

    Hogg, David

    2011-12-01

    Computer scientist and statistical astronomer Sam Roweis took his own life in New York City on 2010 January 12. He was a brilliant and accomplished researcher in the field of machine learning, and a strong advocate for the use of computational statistics for automating discovery and scientific data analysis. He made several important contributions to astronomy and was working on adaptive astronomical data analysis at the time of his death. Roweis obtained his PhD in 1999 from the California Institute of Technology, where he worked on a remarkable range of subjects, including DNA computing, modeling of dynamical systems, signal processing, and speech recognition. During this time he unified and clarified some of the most important data analysis techniques, including Principal Component Analysis, Hidden Markov Models, and Expectation Maximization. His work was aimed at making data analysis and modeling faster, but also better justified scientifically. The last years of his PhD were spent in Princeton NJ, where he came in contact with a young generation of cosmologists thinking about microwave background and large-scale structure data. In a postdoc at University College London, Roweis co-created the Locally Linear Embedding (LLE) algorithm; a simple but flexible technique for mapping a large data set onto a low-dimensional manifold. The LLE paper obtained more than 2700 citations in 9 years, launched a new sub-field of machine learning known as "manifold learning," and inspired work in data visualization, search, and applied mathematics. In 2001, Roweis took a faculty job at the University of Toronto Computer Science Department. He continued working on data analysis methods that have probabilistic interpretation and therefore scientific applicability, but at the same time have good performance on large data sets. He was awarded a Sloan Fellowship, a Canada Research Chair, and a fellowship of the Canadian Institute for Advanced Research, among other honors and awards

  15. Surface adhesion and confinement variation of Bacillus subtilis on SAM surfaces

    NASA Astrophysics Data System (ADS)

    Swiger, Lauren; Pasquale, Rose; Calabrese, Joseph; Senevirathne, Indrajith

    2012-02-01

    Controlled surface adhesion of non - pathogenic gram positive strain, Bacillus subtilis is interesting as a model system due to possible development of respective biosensors for prevention and detection of the pathogenic variants B. anthracis and B. cereus. Further as a study for bio-machine interfacing systems. Self Assembled Monolayers (SAM) with engineered surfaces of linear thiols on Au(111) were used as the substrate. Sub cultured B. subtilis were used for the analysis. The SAM layered surfaces were dipped in 2 -- 5 Log/ml B. subtilis solution. Subsequent surface adhesion at different bacterial dilutions on surfaces will be discussed, and correlated with quantitative and qualitative adhesion properties of bacteria on the engineered SAM surfaces. The bacteria adhered SAM surfaces were investigated using intermittent contact, noncontact, lateral force and contact modes of Atomic Force Microscopy (AFM).

  16. Surface adhesion and confinement variation of Staphylococcus aurius on SAM surfaces

    NASA Astrophysics Data System (ADS)

    Amroski, Alicia; Olsen, Morgan; Calabrese, Joseph; Senevirathne, Reshani; Senevirathne, Indrajith

    2012-02-01

    Controlled surface adhesion of non - pathogenic gram positive strain, Staphylococcus aureus is interesting as a model system due to possible development of respective biosensors for prevention and detection of the pathogenic strain methicillin resistant Staphylococcus aureus (MRSA) and further as a study for bio-machine interfacing. Self Assembled Monolayers (SAM) with engineered surfaces of linear thiols on Au(111) were used as the substrate. Sub cultured S. aureus were used for the analysis. The SAM layered surfaces were dipped in 2 -- 4 Log/ml S. aureus solution. Subsequent surface adhesion at different bacterial dilutions on surfaces will be discussed, and correlated with quantitative and qualitative adhesion properties of bacteria on the engineered SAM surfaces. The bacteria adhered SAM surfaces were investigated using intermittent contact, noncontact, lateral force and contact modes of Atomic Force Microscopy (AFM).

  17. Sam, Brookhaven, and the Physical Review

    NASA Astrophysics Data System (ADS)

    Blume, Martin

    2010-03-01

    Sam Goudsmit came to Brookhaven National Laboratory in 1948, just after the first year of operation of the new institution, and after a year of his postwar appointment as Professor of Physics at Northwestern University. He was named an associate editor of the Physical Review at that time, under the then Managing Editor John T. Tate of the University of Minnesota. Tate had been Editor since 1926, and had presided over the growth of Physical Review to leadership of publication in the world of physics. Tate died in 1950, and after a search under an interim Editor Sam was, in 1951, named Managing Editor. In 1952 he became Chair of the Brookhaven Physics Department, founded Physical Review Letters, and served as department chair until 1960, when he stepped down but remained an Associate Chair. I will discuss my own interactions with Sam during this later period, when I learned of his many faceted talents and accomplishments.

  18. Bringing a Chemical Laboratory Named Sam to Mars on the 2011 Curiosity Rover

    NASA Astrophysics Data System (ADS)

    Mahaffy, P. R.; Bleacher, L.; Jones, A.; Atreya, S. K.; Manning, H. L.; Cabane, M.; Webster, C. R.; Sam Team

    2010-12-01

    Introduction: An important goal of upcoming missions to Mars is to understand if life could have developed there. The task of the Sample Analysis at Mars (SAM) suite of instruments [1] and the other Curiosity investigations [2] is to move us steadily toward that goal with an assessment of the habitability of our neighboring planet through a series of chemical and geological measurements. SAM is designed to search for organic compounds and inorganic volatiles and measure isotope ratios. Other instruments on Curiosity will provide elemental analysis and identify minerals. SAM will analyze both atmospheric samples and gases evolved from powdered rocks that may have formed billions of years ago with Curiosity providing access to interesting sites scouted by orbiting cameras and spectrometers. SAM Instrument Suite: SAM’s instruments are a Quadrupole Mass Spectrometer (QMS), a 6-column Gas Chromatograph (GC), and a 2-channel Tunable Laser Spectrometer (TLS). SAM can identify organic compounds in Mars rocks to sub-ppb sensitivity and secure precise isotope ratios for C, H, and O in carbon dioxide and water and measure trace levels of methane and its carbon 13 isotope. The SAM gas processing system consists of valves, heaters, pressure sensors, gas scrubbers and getters, traps, and gas tanks used for calibration or combustion experiments [2]. A variety of calibrant compounds interior and exterior to SAM will allow the science and engineering teams to assess SAM’s performance. SAM has been calibrated and tested in a Mars-like environment. Keeping Educators and the Public Informed: The Education and Public Outreach (EPO) goals of the SAM team are to make this complex chemical laboratory and its data widely available to educators, students, and the public. Formal education activities include developing templates for professional development workshops for educators to teach them about SAM and Curiosity, incorporating data into Mars Student Data Teams, and writing articles

  19. Basis for ligand discrimination between ON and OFF state riboswitch conformations: the case of the SAM-I riboswitch.

    PubMed

    Boyapati, Vamsi Krishna; Huang, Wei; Spedale, Jessica; Aboul-Ela, Fareed

    2012-06-01

    Riboswitches are RNA elements that bind to effector ligands and control gene expression. Most consist of two domains. S-Adenosyl Methionine (SAM) binds the aptamer domain of the SAM-I riboswitch and induces conformational changes in the expression domain to form an intrinsic terminator (transcription OFF state). Without SAM the riboswitch forms the transcription ON state, allowing read-through transcription. The mechanistic link between the SAM/aptamer recognition event and subsequent secondary structure rearrangement by the riboswitch is unclear. We probed for those structural features of the Bacillus subtilis yitJ SAM-I riboswitch responsible for discrimination between the ON and OFF states by SAM. We designed SAM-I riboswitch RNA segments forming "hybrid" structures of the ON and OFF states. The choice of segment constrains the formation of a partial P1 helix, characteristic of the OFF state, together with a partial antiterminator (AT) helix, characteristic of the ON state. For most choices of P1 vs. AT helix lengths, SAM binds with micromolar affinity according to equilibrium dialysis. Mutational analysis and in-line probing confirm that the mode of SAM binding by hybrid structures is similar to that of the aptamer. Altogether, binding measurements and in-line probing are consistent with the hypothesis that when SAM is present, stacking interactions with the AT helix stabilize a partially formed P1 helix in the hybrids. Molecular modeling indicates that continuous stacking between the P1 and the AT helices is plausible with SAM bound. Our findings raise the possibility that conformational intermediates may play a role in ligand-induced aptamer folding.

  20. The SAMS: Smartphone Addiction Management System and verification.

    PubMed

    Lee, Heyoung; Ahn, Heejune; Choi, Samwook; Choi, Wanbok

    2014-01-01

    While the popularity of smartphones has given enormous convenience to our lives, their pathological use has created a new mental health concern among the community. Hence, intensive research is being conducted on the etiology and treatment of the condition. However, the traditional clinical approach based surveys and interviews has serious limitations: health professionals cannot perform continual assessment and intervention for the affected group and the subjectivity of assessment is questionable. To cope with these limitations, a comprehensive ICT (Information and Communications Technology) system called SAMS (Smartphone Addiction Management System) is developed for objective assessment and intervention. The SAMS system consists of an Android smartphone application and a web application server. The SAMS client monitors the user's application usage together with GPS location and Internet access location, and transmits the data to the SAMS server. The SAMS server stores the usage data and performs key statistical data analysis and usage intervention according to the clinicians' decision. To verify the reliability and efficacy of the developed system, a comparison study with survey-based screening with the K-SAS (Korean Smartphone Addiction Scale) as well as self-field trials is performed. The comparison study is done using usage data from 14 users who are 19 to 50 year old adults that left at least 1 week usage logs and completed the survey questionnaires. The field trial fully verified the accuracy of the time, location, and Internet access information in the usage measurement and the reliability of the system operation over more than 2 weeks. The comparison study showed that daily use count has a strong correlation with K-SAS scores, whereas daily use times do not strongly correlate for potentially addicted users. The correlation coefficients of count and times with total K-SAS score are CC = 0.62 and CC =0.07, respectively, and the t-test analysis for the

  1. EPA Method 300.1, Revision 1.0: Determination of Inorganic Anions in Drinking Water by Ion Chromatography

    EPA Pesticide Factsheets

    SAM lists this method for preparation and analysis of aqueous liquid and drinking water samples for fluoride. This method can be adapted for analysis of solid and air samples when appropriate sample preparation techniques have been applied.

  2. [Research on identification of cabbages and weeds combining spectral imaging technology and SAM taxonomy].

    PubMed

    Zu, Qin; Zhang, Shui-fa; Cao, Yang; Zhao, Hui-yi; Dang, Chang-qing

    2015-02-01

    Weeds automatic identification is the key technique and also the bottleneck for implementation of variable spraying and precision pesticide. Therefore, accurate, rapid and non-destructive automatic identification of weeds has become a very important research direction for precision agriculture. Hyperspectral imaging system was used to capture the hyperspectral images of cabbage seedlings and five kinds of weeds such as pigweed, barnyard grass, goosegrass, crabgrass and setaria with the wavelength ranging from 1000 to 2500 nm. In ENVI, by utilizing the MNF rotation to implement the noise reduction and de-correlation of hyperspectral data and reduce the band dimensions from 256 to 11, and extracting the region of interest to get the spectral library as standard spectra, finally, using the SAM taxonomy to identify cabbages and weeds, the classification effect was good when the spectral angle threshold was set as 0. 1 radians. In HSI Analyzer, after selecting the training pixels to obtain the standard spectrum, the SAM taxonomy was used to distinguish weeds from cabbages. Furthermore, in order to measure the recognition accuracy of weeds quantificationally, the statistical data of the weeds and non-weeds were obtained by comparing the SAM classification image with the best classification effects to the manual classification image. The experimental results demonstrated that, when the parameters were set as 5-point smoothing, 0-order derivative and 7-degree spectral angle, the best classification result was acquired and the recognition rate of weeds, non-weeds and overall samples was 80%, 97.3% and 96.8% respectively. The method that combined the spectral imaging technology and the SAM taxonomy together took full advantage of fusion information of spectrum and image. By applying the spatial classification algorithms to establishing training sets for spectral identification, checking the similarity among spectral vectors in the pixel level, integrating the advantages of

  3. Contribution of sams-1 and pmt-1 to lipid homoeostasis in adult Caenorhabditis elegans.

    PubMed

    Li, Yingxiu; Na, Keun; Lee, Hyoung-Joo; Lee, Eun-Young; Paik, Young-Ki

    2011-05-01

    Accumulation of lipids inside the cell is primarily caused by disorders of lipid metabolism. S-adenosylmethionine synthetase (SAMS) produces SAM, an important methyl donor in various phospholipid methyltransferase reactions catalysed by phosphoethanolamine N-methyltransferase (PMT-1). A gel-based, quantitative proteomic analysis of the RNA interference (RNAi)-mediated inactivation of the pod-2 gene, which encodes acetyl-CoA carboxylase, showed a substantial down-regulation of SAMS-1. Consequently, RNAi of either sams-1 or pmt-1 caused a significant increase in lipid droplet size in the intestine of Caenorhabditis elegans. Lipid droplets exhibited increased triacylglycerol (TG) and decreased phosphatidylcholine (PC) levels, suggesting a reciprocal relationship between TG and PC regulation. These lipid-associated phenotypes were rescued by choline feeding. Among the five fat metabolism-related genes examined, two genes were highly induced by inactivation of sams-1 or pmt-1: pod-2 and stearoyl-CoA desaturase (fat-7). Thus, both SAMS-1 and PMT-1 were shown to contribute to the homoeostasis of TG and PC levels in C. elegans, which would provide an important survival strategy under harsh environmental conditions.

  4. Essay: Physical Review Letters; Sam Goudsmit's Vision.

    PubMed

    Adair, Robert K

    2008-01-18

    Sam Goudsmit implemented his vision of converting the Letters section of Physical Review into a distinct journal fifty years ago. Physical Review Letters was designed to publish "only papers that really deserve rapid communication." The new journal became so successful with physicists throughout the world that Physical Review Letters now publishes 3500 Letters per year.

  5. Sam's Journey to "Reach for the Stars"

    ERIC Educational Resources Information Center

    Mayer, Sue

    2007-01-01

    In this article, the author shares her experiences as a parent of a child with Down syndrome. Although her son Sam's first years were filled with numerous hospitalizations and visits to pediatricians, which she feared would further delay his development, she soon discovered an organization known as the National Association of Child Development…

  6. Structural Basis for Methyl Transfer by a Radical SAM Enzyme

    SciTech Connect

    Boal, Amie K.; Grove, Tyler L.; McLaughlin, Monica I.; Yennawar, Neela H.; Booker, Squire J.; Rosenzweig, Amy C.

    2014-10-02

    The radical S-adenosyl-l-methionine (SAM) enzymes RlmN and Cfr methylate 23S ribosomal RNA, modifying the C2 or C8 position of adenosine 2503. The methyl groups are installed by a two-step sequence involving initial methylation of a conserved Cys residue (RlmN Cys{sup 355}) by SAM. Methyl transfer to the substrate requires reductive cleavage of a second equivalent of SAM. Crystal structures of RlmN and RlmN with SAM show that a single molecule of SAM coordinates the [4Fe-4S] cluster. Residue Cys{sup 355} is S-methylated and located proximal to the SAM methyl group, suggesting the SAM that is involved in the initial methyl transfer binds at the same site. Thus, RlmN accomplishes its complex reaction with structural economy, harnessing the two most important reactivities of SAM within a single site.

  7. Expanding Radical SAM Chemistry by Using Radical Addition Reactions and SAM Analogues.

    PubMed

    Ji, Xinjian; Li, Yongzhen; Xie, Liqi; Lu, Haojie; Ding, Wei; Zhang, Qi

    2016-09-19

    Radical S-adenosyl-l-methionine (SAM) enzymes utilize a [4Fe-4S] cluster to bind SAM and reductively cleave its carbon-sulfur bond to produce a highly reactive 5'-deoxyadenosyl (dAdo) radical. In almost all cases, the dAdo radical abstracts a hydrogen atom from the substrates or from enzymes, thereby initiating a highly diverse array of reactions. Herein, we report a change of the dAdo radical-based chemistry from hydrogen abstraction to radical addition in the reaction of the radical SAM enzyme NosL. This change was achieved by using a substrate analogue containing an olefin moiety. We also showed that two SAM analogues containing different nucleoside functionalities initiate the radical-based reactions with high efficiencies. The radical adduct with the olefin produced in the reaction was found to undergo two divergent reactions, and the mechanistic insights into this process were investigated in detail. Our study demonstrates a promising strategy in expanding radical SAM chemistry, providing an effective way to access nucleoside-containing compounds by using radical SAM-dependent reactions.

  8. In Situ Analysis of Mars Soil and Rocks Sample with the Sam Gcms Instrumentation Onboard Curiosity : Interpretation and Comparison of Measurements Done during the First Martian Year of Curiosity on Mars

    NASA Astrophysics Data System (ADS)

    Szopa, C.; Coll, P. J.; Cabane, M.; Buch, A.; Coscia, D.; Millan, M.; Francois, P.; Belmahadi, I.; Teinturier, S.; Navarro-Gonzalez, R.; Glavin, D. P.; Freissinet, C.; Steele, A.; Eigenbrode, J. L.; Mahaffy, P. R.

    2014-12-01

    The characterisation of the chemical and mineralogical composition of solid surface samples collected with the Curiosity rover is a primary objective of the SAM experiment. These data should provide essential clues on the past habitability of Gale crater. Amongst the SAM suite of instruments [1], SAM-GC (Gas Chromatograph) is devoted to identify and quantify volatiles evolved from the thermal (heating up to about 900°C)/chemical (derivatization procedure) treatment of any soil sample collected by the Curiosity rover. With the aim to search for potential organic molecules outgassed from the samples, SAM-GC analytical channels composed of thermal-desorption injector, and a MXT-CLP or a MXT-Q chromatographic column was chosen to achieve all the measurements done up today, with the aim to separate of a wide range of volatile inorganic and organic molecules. Four solid samples have been analyzed with GCMS, one sand sample collected at the Rocknest site, two rock samples (John Klein and Cumberland respectively) collected at the Yellowknife Bay site using the Curiosity driller, and one rock sample collected at the Kimberly site. All the measurements were successful and they produced complex chromatograms with both detectors used for SAM GC, i.e. a thermal conductivity detector and the SAM quandrupole mass spectrometer. Their interpretation already revealed the presence of an oxychlorine phase present in the sample which is at the origin of chlorohydrocarbons clearly identified [2] but this represents only a fraction of the GCMS signal recorded [3,4]. This work presents a systematic comparison of the GCMS measurements done for the different samples collected, supported by reference data obtained in laboratory with different spare models of the gas chromatograph, with the aim to bring new elements of interpretation of the SAM measurements. References: [1] Mahaffy, P. et al. (2012) Space Sci Rev, 170, 401-478. [2] Glavin, D. et al. (2013), JGR. [3] Leshin L. et al. (2013

  9. Comprehensive rotorcraft analysis methods

    NASA Technical Reports Server (NTRS)

    Stephens, Wendell B.; Austin, Edward E.

    1988-01-01

    The development and application of comprehensive rotorcraft analysis methods in the field of rotorcraft technology are described. These large scale analyses and the resulting computer programs are intended to treat the complex aeromechanical phenomena that describe the behavior of rotorcraft. They may be used to predict rotor aerodynamics, acoustic, performance, stability and control, handling qualities, loads and vibrations, structures, dynamics, and aeroelastic stability characteristics for a variety of applications including research, preliminary and detail design, and evaluation and treatment of field problems. The principal comprehensive methods developed or under development in recent years and generally available to the rotorcraft community because of US Army Aviation Research and Technology Activity (ARTA) sponsorship of all or part of the software systems are the Rotorcraft Flight Simulation (C81), Dynamic System Coupler (DYSCO), Coupled Rotor/Airframe Vibration Analysis Program (SIMVIB), Comprehensive Analytical Model of Rotorcraft Aerodynamics and Dynamics (CAMRAD), General Rotorcraft Aeromechanical Stability Program (GRASP), and Second Generation Comprehensive Helicopter Analysis System (2GCHAS).

  10. EPA Method 245.1: Determination of Mercury in Water by Cold Vapor Atomic Absorption Spectrometry

    EPA Pesticide Factsheets

    SAM lists this method for preparation and analysis of aqueous liquid and drinking water samples. This method will determine mercuric chloride and methoxyethylmercuric acetate as total mercury using cold vapor atomic absorption spectrometry.

  11. Active Region Soft X-Ray Spectra as Observed Using Sounding Rocket Measurements from the Solar Aspect Monitor (SAM), - a Modified SDO/EVE Instrument

    NASA Astrophysics Data System (ADS)

    Wieman, S. R.; Didkovsky, L. V.; Woods, T. N.; Jones, A. R.; Caspi, A.; Warren, H. P.

    2015-12-01

    Observations of solar active regions (ARs) in the soft x-ray spectral range (0.5 to 3.0 nm) were made on sounding rocket flight NASA 36.290 using a modified Solar Aspect Monitor (SAM), a pinhole camera on the EUV Variability Experiment (EVE) sounding rocket instrument. The suite of EVE rocket instruments is designed for under-flight calibrations of the orbital EVE on SDO. While the sounding rocket EVE instrument is for the most part a duplicate of the EVE on SDO, the SAM channel on the rocket version was modified in 2012 to include a free-standing transmission grating so that it could provide spectrally resolved images of the solar disk with the best signal to noise ratio for the brightest features on it, such as ARs. Calibrations of the EVE sounding rocket instrument at the National Institute of Standards and Technology Synchrotron Ultraviolet Radiation Facility (NIST SURF) have provided a measurement of the SAM absolute spectral response function and a mapping of wavelength separation in the grating diffraction pattern. For solar observations, this spectral separation is on a similar scale to the spatial size of the AR on the CCD, so dispersed AR images associated with emission lines of similar wavelength tend to overlap. Furthermore, SAM shares a CCD detector with MEGS-A, a separate EVE spectrometer channel, and artifacts of the MEGS-A signal (a set of bright spectral lines) appear in the SAM images. For these reasons some processing and analysis of the solar images obtained by SAM must be performed in order to determine spectra of the observed ARs. We present a method for determining AR spectra from the SAM rocket images and report initial soft X-ray spectra for two of the major active regions (AR11877 and AR11875) observed on flight 36.290 on 21 October 2013 at about 18:30 UT. We also compare our results with concurrent measurements from other solar soft x-ray instrumentation.

  12. On LAM's and SAM's for Halley's rotation

    NASA Technical Reports Server (NTRS)

    Peale, Stanton J.

    1992-01-01

    Non principal axis rotation for comet Halley is inferred from dual periodicities evident in the observations. The modes where the spin axis precesses around the axis of minimum moment of inertia (long axis mode or LAM) and where it precesses around the axis of maximum moment of inertia (short axis mode or SAM) are described from an inertial point of view. The currently favored LAM model for Halley's rotation state satisfies observational and dynamical constraints that apparently no SAM can satisfy. But it cannot reproduce the observed post perihelion brightening through seasonal illumination of localized sources on the nucleus, whereas a SAM can easily produce post or pre perihelion brightening by this mechanism. However, the likelihood of a LAM rotation for elongated nuclei of periodic comets such as Halley together with Halley's extreme post perihelion behavior far from the Sun suggest that Halley's post perihelion brightening may be due to effects other than seasonal illumination of localized sources, and therefore such brightening may not constrain its rotation state.

  13. Drug delivery from therapeutic self-assembled monolayers (T-SAMs) on 316L stainless steel.

    PubMed

    Mahapatro, Anil; Johnson, Dave M; Patel, Devang N; Feldman, Marc D; Ayon, Arturo A; Agrawal, C Mauli

    2008-01-01

    Delivery of therapeutic agents from self-assembled monolayers (SAMs) on 316L stainless steel (SS) has been demonstrated as a viable method to deliver drugs for localized coronary artery stent application. SAMs are highly-ordered, nano-sized molecular coatings, adding 1-10 nm thickness to a surface. Hydroxyl terminated alkanethiol SAMs of 11-mercapto-1-undecanol (-OH SAM) were formed on 316L SS with 48 hr immersion in ethanolic solutions. Attachment of ibuprofen (a model drug) to the functional SAMs was carried out in toluene for 5 hrs at 60 degrees C using Novozume-435 as a biocatalyst. SAM formation and subsequent attachment of ibuprofen was characterized collectively using X-ray photoelectron spectroscopy (XPS), Fourier transform infrared spectroscopy (FTIR), and contact angle (CA) measure-ments. The quantitative in vitro release of ibuprofen into a "physiological" buffer solution was characterized using reverse phase HPLC. Drug release kinetics showed that 14.1 microg of ibuprofen eluted over a period of 35 days with 2.7microg being eluted in the first day and the remaining being eluted over a period of 35 days. The drug release kinetics showed an increase in ibuprofen elution that occurred during first 14 days (2.7microg in 1 day to 9.5 microg in 14 days), following which there was a decrease in the rate of elution. Thus, functional SAMs on 316L SS could be used as tethers for drug attachment and could serve as a drug delivery mechanism from stainless steel implants such as coronary artery stents.

  14. Bringing a Chemical Laboratory Named Sam to Mars on the 2011 Curiosity Rover

    NASA Technical Reports Server (NTRS)

    Mahaffy, P. R.; Bleacher, L.; Jones, A.; Conrad, P. G.; Cabane, M.; Webster, C. R.; Atreya, S. A.; Manning, H.

    2010-01-01

    An important goal of upcoming missions to Mars is to understand if life could have developed there. The task of the Sample Analysis at Mars (SAM) suite of instruments [1] and the other Curiosity investigations [2] is to move us steadily toward that goal with an assessment of the habitability of our neighboring planet through a series of chemical and geological measurements. SAM is designed to search for organic compounds and inorganic volatiles and measure isotope ratios. Other instruments on Curiosity will provide elemental analysis and identify minerals. SAM will analyze both atmospheric samples and gases evolved from powdered rocks that may have formed billions of years ago with Curiosity providing access to interesting sites scouted by orbiting cameras and spectrometers.

  15. Introducing the aerosol-climate model MAECHAM5-SAM2

    NASA Astrophysics Data System (ADS)

    Hommel, R.; Timmreck, C.; Graf, H. F.

    2009-04-01

    We are presenting a new global aerosol model MAECHAM5-SAM2 to study the aerosol dynamics in the UTLS under background and volcanic conditions. The microphysical core modul SAM2 treats the formation, the evolution and the transport of stratospheric sulphuric acid aerosol. The aerosol size distribution and the weight percentage of the sulphuric acid solution is calculated dependent on the concentrations of H2SO4 and H2O, their vapor pressures, the atmospheric temperature and pressure. The fixed sectional method is used to resolve an aerosol distribution between 1 nm and 2.6 micron in particle radius. Homogeneous nucleation, condensation and evaporation, coagulation, water-vapor growth, sedimentation and sulphur chemistry are included. The module is applied in the middle-atmosphere MAECHAM5 model, resolving the atmosphere up to 0.01 hPa (~80 km) in 39 layers. It is shown here that MAECHAM5-SAM2 well represents in-situ measured size distributions of stratospheric background aerosol in the northern hemisphere mid-latitudes. Distinct differences can be seen when derived integrated aerosol parameters (surface area, effective radius) are compared with aerosol climatologies based on the SAGE II satellite instrument (derived by the University of Oxford and the NASA AMES laboratory). The bias between the model and the SAGE II data increases as the moment of the aerosol size distribution decreases. Thus the modeled effective radius show the strongest bias, followed by the aerosol surface area density. Correspondingly less biased are the higher moments volume area density and the mass density of the global stratospheric aerosol coverage. This finding supports the key finding No. 2 of the SPARC Assessment of Stratospheric Aerosol Properties (2006), where it was shown that during periods of very low aerosol load in the stratosphere, the consistency between in-situ and satellite measurements, which exist in a volcanically perturbed stratosphere, breaks down and significant

  16. SAM Sample preparation and its impact on the detection of organic compounds on Mars

    NASA Astrophysics Data System (ADS)

    Buch, Arnaud; Szopa, Cyril; Coll, Patrice; Freissinet, Caroline; Glavin, Daniel; Belmahdi, Imene; François, Pascaline; Millan, Maeva; Eigenbrode, Jennifer; navarro, Rafael; Stern, Jennifer; Pinnick, Veronica; Coscia, David; Teinturier, Samuel; Miller, Kristen; Summons, Roger; Mahaffy, Paul

    2014-05-01

    The wet chemistry experiments on the Sample Analysis at Mars (SAM) [1] experiment in the Curiosity rover of the Mars Science Laboratory mission supports extraction of polar organic compounds from solid samples that improves their detection either by increasing the release of chemical species from solid sample matrices, or by changing their chemical structure to make compounds more amenable to gas chromatography mass spectrometry (GCMS). The wet chemistry approach provides an alternative to the nominal inert-thermal desorption/pyrolysis analytical protocol used by SAM [1] that is more aptly suited for polar components. SAM, includes two different wet chemistry experiments: MTBSTFA derivatization [2-3] and TMAH thermochemolysis [4]. Here we report on the nature of the MTBSTFA derivatization experiment on SAM, the detection of MTBSTFA products in the SAM evolved gas analysis and GCMS experiments, and the implications of this detection. Solid sample were heated up to approximately 840°C at a rate of 35°C/min under He flow. For GC analyses, the majority of the gas released was trapped on a hydrocarbon trap (Tenax®) over a specific temperature range. Adsorbed volatiles on the GC injection trap (IT) were then released into the GC column (CLP-MXT 30m x 0.25mm x 0.25µm) by rapidly heating the IT to 300°C. Then, in order better understand the part of compounds detected coming from internal reaction we have performed several lab experiments to mimic the SAM device. We have investigated the thermal degradation of Tenax®, and possible interaction with MTBSTFA and perchlorate in the SAM trap (Tenax®) to better constrain interpretations of SAM results on Mars. References: [1] Mahaffy, P. et al. (2012) Space Sci Rev, 170, 401-478. [2] Buch, A. et al. (2009) J chrom. A, 43, 143-151. [3] Stalport, F. et al. (2012) Planet. Space Sci. 67: 1-13 [4] Geffroy-Rodier, C. et al. (2009) JAAP, 85, 454-459. Acknowledgements: SAM-GC team acknowledges support from the French Space Agency

  17. EPA Method 524.2: Measurement of Purgeable Organic Compounds in Water by Capillary Column Gas Chromatography/Mass Spectrometry

    EPA Pesticide Factsheets

    SAM lists this method for preparation and analysis of water samples. This method determines carbon disulfide and 1,2-dichloroethane in drinking water and acrylonitrile and methyl acrylonitrile in drinking and aqueous/liquid samples.

  18. EPA Method 200.8: Determination of Trace Elements in Waters and Wastes by Inductively Coupled Plasma-Mass Spectrometry

    EPA Pesticide Factsheets

    SAM lists this method for preparation and analysis of aqueous liquid and drinking water samples. This method will determine metal-containing compounds only as the total metal (e.g., total arsenic), inductively coupled plasma-mass spectrometry.

  19. SAM-Like Evolved Gas Analyses of Phyllosilicate Minerals and Applications to SAM Analyses of the Sheepbed Mudstone, Gale Crater, Mars

    NASA Technical Reports Server (NTRS)

    McAdam, A. C.; Franz, H. B.; Mahaffy, P. R.; Eigenbrode, J. L.; Stern, J. C.; Brunner, B.; Sutter, B.; Archer, P. D.; Ming , D. W.; Morris, R. V.; Bish, D. L.; Atreya, S. K.

    2014-01-01

    While in Yellowknife Bay, the Mars Science Laboratory Curiosity rover collected two drilled samples, John Klein (hereafter "JK") and Cumberland ("CB"), from the Sheepbed mudstone, as well as a scooped sample from the Rocknest aeolian bedform ("RN"). These samples were sieved by Curiosity's sample processing system and then several subsamples of these materials were delivered to the Sample Analysis at Mars (SAM) instrument suite and the CheMin X-ray diffraction/X-ray fluorescence instrument. CheMin provided the first in situ X-ray diffraction-based evidence of clay minerals on Mars, which are likely trioctahedral smectites (e.g., Fe-saponite) and comprise 20 wt% of the mudstone samples [1]. SAM's evolved gas analysis (EGA) mass spectrometry analyses of JK and CB subsamples, as well as RN subsamples, detected H2O, CO2, O2, H2, SO2, H2S, HCl, NO, OCS, CS2 and other trace gases evolved during pyrolysis. The identity of evolved gases and temperature( s) of evolution can augment mineral detection by CheMin and place constraints on trace volatile-bearing phases present below the CheMin detection limit or those phases difficult to characterize with XRD (e.g., X-ray amorphous phases). Here we will focus on the SAM H2O data, in the context of CheMin analyses, and comparisons to laboratory SAM-like analyses of several phyllosilicate minerals including smectites.

  20. Searching for Reduced Carbon on the Surface of Mars: The SAM Combustion Experiment

    NASA Technical Reports Server (NTRS)

    Stern, J. C.; Malespin, C. A.; Mahaffy, P. R.; Webster, C. R.; Eigenbrode, J. L.; Archer, P. D., Jr.; Brunner, A. E.; Freissinet, C.; Franz, H. B.; Glavin, D. P.; Graham, H. V.; McAdam, A. C.; Ming, D. W.; Navarro-Gonzalez, R.; Niles, P. B.; Steele, A.; Sutter, B.; Trainer, M. G.

    2014-01-01

    The search for reduced carbon has been a major focus of past and present missions to Mars. Thermal evolved gas analysis was used by the Viking and Phoenix landers and is currently in use by the Sample Analysis at Mars (SAM) instrument suite on the Mars Science Laboratory (MSL) to characterize volatiles evolved from solid samples, including those associated with reduced organic species. SAM has the additional capability to perform a combustion experiment, in which a sample of Mars regolith is heated in the presence of oxygen and the composition of the evolved gases is measured using quadrupole mass spectrometry (QMS) and tunable laser spectrometry (TLS) [1]. Organics detection on the Martian surface has been complicated by oxidation and destruction during heating by soil oxidants [2], including oxychlorine compounds, and terrestrial organics in the SAM background contributed by one of the SAM wet chemistry reagents MTBSTFA (N-Methyl-N-tertbutyldimethylsilyl- trifluoroacetamide) [3,4]. Thermal Evolved Gas Analysis (TEGA) results from Phoenix show a mid temperature CO2 release between 400 C - 680 C speculated to be carbonate, CO2 adsorbed to grains, or combustion of organics by soil oxidants [5]. Low temperature CO2 evolutions (approx. 200 C - 400 C) were also present at all three sites in Gale Crater where SAM Evolved Gas Analysis (EGA) was performed, and potential sources include combustion of terrestrial organics from SAM, as well as combustion and/or decarboxylation either indigenous martian or exogenous organic carbon [4,6]. By performing an experiment to intentionally combust all reduced materials in the sample, we hope to compare the bulk abundance of CO2 and other oxidized species evolved by combustion to that evolved during an EGA experiment to estimate how much CO2 could be contributed by reduced carbon sources. In addition, C, O, and H isotopic compositions of CO2 and H2O measured by TLS can contribute information regarding the potential sources of these

  1. The survey of autobiographical memory (SAM): a novel measure of trait mnemonics in everyday life.

    PubMed

    Palombo, Daniela J; Williams, Lynne J; Abdi, Hervé; Levine, Brian

    2013-06-01

    Compared to the abundance of laboratory-based memory tasks, few measures exist to assess self-reported memory function. This need is particularly important for naturalistic mnemonic capacities, such as autobiographical memory (recall of events and facts from one's past), because it is difficult to reliably assess in the laboratory. Furthermore, naturalistic mnemonic capacities may show stable individual differences that evade the constraints of laboratory testing. The Survey of Autobiographical Memory (SAM) was designed to assess such trait mnemonics, or the dimensional characterization of self-reported mnemonic characteristics. The SAM comprises items assessing self-reported episodic autobiographical, semantic, and spatial memory, as well as future prospection. In a large sample of healthy young adults, the latent dimensional structure of the SAM was characterized with multiple correspondence analysis (MCA). This analysis revealed dimensions corresponding to general mnemonic abilities (i.e., good vs poor memory across subtypes), spatial memory, and future prospection. While episodic and semantic items did not separate in this data-driven analysis, these categories did show expected dissociations in relation to depression history and to laboratory-based measures of recollection. Remote spatial memory as assessed by the SAM showed the expected advantage for males over females. Spatial memory was also related to autobiographical memory performance. Brief versions of the SAM are provided for efficient research applications. Individual differences in memory function are likely related to other health-related factors, including personality, psychopathology, dementia risk, brain structure and function, and genotype. In conjunction with laboratory or performance based assessments, the SAM can provide a useful measure of naturalistic self-report trait mnemonics for probing these relationships.

  2. The crystal structure of a novel SAM-dependent methyltransferase PH1915 from Pyrococcus horikoshii.

    SciTech Connect

    Sun, W.; Xu, X.; Pavlova, M.; Edwards, A.; Joachimiak, A.; Savchenko, A.; Christendat, D.; Biosciences Division; Univ. of Toronto; Univ. Health Network

    2005-01-01

    The S-adenosyl-L-methionine (SAM)-dependent methyltransferases represent a diverse and biologically important class of enzymes. These enzymes utilize the ubiquitous methyl donor SAM as a cofactor to methylate proteins, small molecules, lipids, and nucleic acids. Here we present the crystal structure of PH1915 from Pyrococcus horikoshii OT3, a predicted SAM-dependent methyltransferase. This protein belongs to the Cluster of Orthologous Group 1092, and the presented crystal structure is the first representative structure of this protein family. Based on sequence and 3D structure analysis, we have made valuable functional insights that will facilitate further studies for characterizing this group of proteins. Specifically, we propose that PH1915 and its orthologs are rRNA- or tRNA-specific methyltransferases.

  3. Detection of Organics at Mars: How Wet Chemistry Onboard SAM Helps

    NASA Technical Reports Server (NTRS)

    Buch, A.; Freissinet, Caroline; Szopa, C.; Glavin, D.; Coll, P.; Cabane, M.; Eigenbrode, J.; Navarro-Gonzalez, R.; Coscia, D.; Teinturier, S.; Mahaffy, P.

    2013-01-01

    For the first time in the history of space exploration, a mission of interest to astrobiology could be able to analyze refractory organic compounds in the soil of Mars. Wet chemistry experiment allow organic components to be altered in such a way that improves there detection either by releasing the compounds from sample matricies or by changing the chemical structure to be amenable to analytical conditions. The latter is particular important when polar compounds are present. Sample Analysis at Mars (SAM), on the Curiosity rover of the Mars Science Laboratory mission, has onboard two wet chemistry experiments: derivatization and thermochemolysis. Here we report on the nature of the MTBSTFA derivatization experiment on SAM, the detection of MTBSTFA in initial SAM results, and the implications of this detection.

  4. Results from the Curiosity Rover's SAM Investigation at Gale Crater and links to Habitability of Mars

    NASA Astrophysics Data System (ADS)

    Coll, P. J.; Mahaffy, P. R.; Webster, C. R.; Cabane, M.; Atreya, S. K.; Conrad, P. G.; Navarro-gonzalez, R.; SAM; MSL Science Teams

    2013-05-01

    The Mars Science Laboratory Mission (MSL) has as its goal an exploration of the potential of the ancient Gale Crater to support life. The Sample Analysis at Mars (SAM) instrument suite (3) contributes to this exploration of habitability with (1) a search for organic compounds in rocks and soils, (2) a determination of the composition of inorganic volatiles compounds in the atmosphere or extracted from solid materials, and (3) measurements of the isotopic composition of several of these volatiles. The initial exploration of the region near the landing point has revealed a diverse geology and SAM has made measurements of both atmospheric and solid samples. Additional prime exploration targets are the clay and sulfate layers in the central mound (Mt. Sharp) of Gale crater. SAM is located in the interior of the Curiosity rover. Nine other instruments complete the payload including an XRD/XRF instrument and a variety of imaging, laser induced breakdown spectroscopy, and elemental analysis instrumentation. Several of these instruments serve to locate sampling sites and interrogate candidate materials before solid sample is collected either with a drill or a scoop for delivery to SAM and the XRD/XRF instruments. SAM's instruments are a quadrupole mass spectrometer (QMS), a tunable laser spectrometer (TLS), and a 6-column gas chromatograph (GC) coupled through a solid sample transport system and a gas processing and enrichment system. SAM atmospheric runs include a determination of: new volume mixing ratios for the 5 major isotopic constituents; an upper limit for the volume mixing ratio of methane; C and O isotope ratios in CO2; D/H in water; and the 40Ar/36Ar ratio. Major evolved gases from fines scooped from an eolian drift were H2O, CO2, O2, SO2, and a number of minor species. Chlorine containing compounds in this material were tentatively identified as perchlorates.

  5. EPA Method 903.1: Radium-226 in Drinking Water Radon Emanation Technique

    EPA Pesticide Factsheets

    SAM lists this method to provide for the analysis of drinking water samples that contain Radium-226, and is based on the emanation and scintillation counting of Radon-222, the immediate decay product of Radium-226.

  6. Method 200.7: Determination of Metals and Trace Elements in Water and Wastes by Inductively Coupled Plasma-Atomic Emission Spectrometry

    EPA Pesticide Factsheets

    SAM lists this method for preparation and analysis of aqueous liquid and drinking water samples. This method will determine metal-containing compounds as the total metal (e.g., total arsenic), using inductively coupled plasma-atomic emission spectrometry.

  7. SOAR Adaptive Module (SAM): Seeing Improvement with a UV Laser

    NASA Astrophysics Data System (ADS)

    Tokovinin, Andrei; Cantarutti, Rolando; Tighe, Roberto; Schurter, Patricio; Martinez, Manuel; Thomas, Sandrine; van der Bliek, Nicole

    2016-12-01

    The adaptive module of the 4.1 m SOAR telescope, SOAR Adaptive Module (SAM), corrects ground-layer turbulence using an ultraviolet laser guide star. It has been commissioned in 2013 and it is in regular science operation since 2014. SAM works with the CCD imager covering a 3‧ field or with the speckle camera. It operates routinely and stably, delivering resolution in the I band equal to the free-atmosphere seeing. This paper describes the SAM system as a whole, providing essential reference for its users and technical information of interest to instrumentalists. Operation of the instrument, its performance, and science projects done with SAM so far are reviewed.

  8. What can we learn from Wet Chemistry onboard the Mars Science Laboratory SAM Suite?

    NASA Astrophysics Data System (ADS)

    Buch, A.; Szopa, C.; Coll, P.; Eigenbrode, J.; Coscia, D.; Navarro Gonzalez, R.; Cabane, M.; MSL Science Team

    2013-09-01

    Direct pyrolysis of Mars soil samples has been used up today today to analyse their content in volatile molecules. However, this technique has been shown to have limitation for the analysis of a few chemical families, or macromolecules. The SAM experiment is the first space instrument onboarding a device based on wet chemistry to overcome this limitation.

  9. Evidence for Perchlorates and the Origin of Chlorinated Hydrocarbons Detected by SAM at the Rocknest Aeolian Deposit in Gale Crater

    NASA Technical Reports Server (NTRS)

    Glavin, Daniel P.; Freissinet, Caroline; Miller, Kristen E.; Eigenbrode, Jennifer L.; Brunner, Anna E.; Buch, Arnaud; Sutter, Brad; Archer, P. Douglas, Jr.; Atreya, Sushil K.; Brinckerhoff, William B.; Cabane, Michel; Coll, Patrice; Conrad, Pamela G.; Coscia, David; Dworkin, Jason P.; Franz, Heather B.; Grotzinger, John P.; Leshin, Laurie A.; Martin, Mildred G.; McKay, Christopher; Ming, Douglas W.; Navarro-Gonzalez, Rafael; Pavlov, Alexander; Steele, Andrew; Summons, Roger E.; Szopa, Cyril; Teinturier, Samuel; Mahaffy, Paul R.

    2013-01-01

    A single scoop of the Rocknest aeolian deposit was sieved (less than 150 micrometers), and four separate sample portions, each with a mass of approximately 50 mg, were delivered to individual cups inside the Sample Analysis at Mars (SAM) instrument by the Mars Science Laboratory rover's sample acquisition system. The samples were analyzed separately by the SAM pyrolysis evolved gas and gas chromatograph mass spectrometer analysis modes. Several chlorinated hydrocarbons including chloromethane, dichloromethane, trichloromethane, a chloromethylpropene, and chlorobenzene were identified by SAM above background levels with abundances of approximately 0.01 to 2.3 nmol. The evolution of the chloromethanes observed during pyrolysis is coincident with the increase in O2 released from the Rocknest sample and the decomposition of a product of N-methyl-N-(tert-butyldimethylsilyl)-trifluoroacetamide (MTBSTFA), a chemical whose vapors were released from a derivatization cup inside SAM. The best candidate for the oxychlorine compounds in Rocknest is a hydrated calcium perchlorate (Ca(ClO4)2·nH2O), based on the temperature release of O2 that correlates with the release of the chlorinated hydrocarbons measured by SAM, although other chlorine-bearing phases are being considered. Laboratory analog experiments suggest that the reaction of Martian chlorine from perchlorate decomposition with terrestrial organic carbon from MTBSTFA during pyrolysis can explain the presence of three chloromethanes and a chloromethylpropene detected by SAM. Chlorobenzene may be attributed to reactions of Martian chlorine released during pyrolysis with terrestrial benzene or toluene derived from 2,6-diphenylphenylene oxide (Tenax) on the SAM hydrocarbon trap. At this time we do not have definitive evidence to support a nonterrestrial carbon source for these chlorinated hydrocarbons, nor do we exclude the possibility that future SAM analyses will reveal the presence of organic compounds native to the

  10. Evidence for perchlorates and the origin of chlorinated hydrocarbons detected by SAM at the Rocknest aeolian deposit in Gale Crater

    NASA Astrophysics Data System (ADS)

    Glavin, Daniel P.; Freissinet, Caroline; Miller, Kristen E.; Eigenbrode, Jennifer L.; Brunner, Anna E.; Buch, Arnaud; Sutter, Brad; Archer, P. Douglas; Atreya, Sushil K.; Brinckerhoff, William B.; Cabane, Michel; Coll, Patrice; Conrad, Pamela G.; Coscia, David; Dworkin, Jason P.; Franz, Heather B.; Grotzinger, John P.; Leshin, Laurie A.; Martin, Mildred G.; McKay, Christopher; Ming, Douglas W.; Navarro-González, Rafael; Pavlov, Alexander; Steele, Andrew; Summons, Roger E.; Szopa, Cyril; Teinturier, Samuel; Mahaffy, Paul R.

    2013-10-01

    A single scoop of the Rocknest aeolian deposit was sieved (< 150 µm), and four separate sample portions, each with a mass of ~50 mg, were delivered to individual cups inside the Sample Analysis at Mars (SAM) instrument by the Mars Science Laboratory rover's sample acquisition system. The samples were analyzed separately by the SAM pyrolysis evolved gas and gas chromatograph mass spectrometer analysis modes. Several chlorinated hydrocarbons including chloromethane, dichloromethane, trichloromethane, a chloromethylpropene, and chlorobenzene were identified by SAM above background levels with abundances of ~0.01 to 2.3 nmol. The evolution of the chloromethanes observed during pyrolysis is coincident with the increase in O2 released from the Rocknest sample and the decomposition of a product of N-methyl-N-(tert-butyldimethylsilyl)-trifluoroacetamide (MTBSTFA), a chemical whose vapors were released from a derivatization cup inside SAM. The best candidate for the oxychlorine compounds in Rocknest is a hydrated calcium perchlorate (Ca(ClO4)2·nH2O), based on the temperature release of O2 that correlates with the release of the chlorinated hydrocarbons measured by SAM, although other chlorine-bearing phases are being considered. Laboratory analog experiments suggest that the reaction of Martian chlorine from perchlorate decomposition with terrestrial organic carbon from MTBSTFA during pyrolysis can explain the presence of three chloromethanes and a chloromethylpropene detected by SAM. Chlorobenzene may be attributed to reactions of Martian chlorine released during pyrolysis with terrestrial benzene or toluene derived from 2,6-diphenylphenylene oxide (Tenax) on the SAM hydrocarbon trap. At this time we do not have definitive evidence to support a nonterrestrial carbon source for these chlorinated hydrocarbons, nor do we exclude the possibility that future SAM analyses will reveal the presence of organic compounds native to the Martian regolith.

  11. Molten Salt Power Tower Cost Model for the System Advisor Model (SAM)

    SciTech Connect

    Turchi, C. S.; Heath, G. A.

    2013-02-01

    This report describes a component-based cost model developed for molten-salt power tower solar power plants. The cost model was developed by the National Renewable Energy Laboratory (NREL), using data from several prior studies, including a contracted analysis from WorleyParsons Group, which is included herein as an Appendix. The WorleyParsons' analysis also estimated material composition and mass for the plant to facilitate a life cycle analysis of the molten salt power tower technology. Details of the life cycle assessment have been published elsewhere. The cost model provides a reference plant that interfaces with NREL's System Advisor Model or SAM. The reference plant assumes a nominal 100-MWe (net) power tower running with a nitrate salt heat transfer fluid (HTF). Thermal energy storage is provided by direct storage of the HTF in a two-tank system. The design assumes dry-cooling. The model includes a spreadsheet that interfaces with SAM via the Excel Exchange option in SAM. The spreadsheet allows users to estimate the costs of different-size plants and to take into account changes in commodity prices. This report and the accompanying Excel spreadsheet can be downloaded at https://sam.nrel.gov/cost.

  12. The Sample at Mars Analysis (SAM) Detections of CO2 and CO in Sedimentary Material from Gale Crater, Mars: Implications for the Presence of Organic Carbon and Microbial Habitability on Mars

    NASA Technical Reports Server (NTRS)

    Sutter, Brad

    2016-01-01

    Sedimentary rock samples heated to 860 C in the SAM instrument evolved CO2 and CO indicating the presence of organic-carbon(C) in Gale Crater materials. Martian or exogenous (meteoritic, interplanetary dust) CO2 and CO could be derived from combustion of simple organics (less than 300 C), complex refractory organics/amorphous carbon (300-600 C), and/or magmatic carbon (greater than 600 C) as result of thermal decomposition of Gale Crater perchlorates, and sulfates present that produce O2. Oxidized organic compounds could also evolve CO2 and CO over broad temperature range (150 to 800 C) and such organics are expected on Mars via exogenous sources. Alternatively, organic-C could also have been oxidized to carboxylic acids [e.g, mellitic acid (RCOOH), acetate (CH3CO2(-)), and oxalates ((2)C2O4(-))] by oxidative radiolytic weathering, or other oxidation processes. The presence of oxidized organics is consistent with the limited detection of reduced organic-C phases by the SAM-gas chromatography. Organic-C content as determined by CO2 and CO contents could range between 800 and 2400 ppm C indicating that substantial organic-C component is present in Gale Crater. There are contributions from SAM background however, even in worse case scenarios, this would only account for as much as half of the detected CO2 and CO. Nevertheless, if organic-C levels were assumed to have existed in a reduced form on ancient Mars and this was bioavailable C, then less than 1% of C in Gale Crater sediments could have supported an exclusively heterotrophic microbial population of 1 x 10(exp 5) cells/g sediment (assumes 9 x 10(exp -7) microgram/cell and 0.5 micrograms C/microgram cell). While other essential nutrients (e.g., S and P) could be limiting, organic-C contents, may have been sufficient to support limited heterotrophic microbial populations on ancient Mars.

  13. EPA Method EMSL-33: Isotopic Determination of Plutonium, Uranium, and Thorium in Water, Soil, Air, and Biological Tissue

    EPA Pesticide Factsheets

    SAM lists this method to provide for the analysis of isotopic plutonium, uranium and thorium, together or individually, in drinking water, aqueous/liquid, soil/sediment, surface wipe and/or air filter samples by alpha spectrometry.

  14. Theodore Roosevelt Chloroforming Uncle Sam "In the Hopeless Ward".

    PubMed

    Drew, Benjamin A; Bause, George S

    2016-10-01

    In March of 1905 in Judge magazine, Louis Dalrymple published his political cartoon of Theodore Roosevelt chloroforming "Uncle Sam." Having sampled a host of Democratic remedies, the 125-year-old Sam can expect that Roosevelt's chloroform will either cure him with major Republican surgery or kill him with Osler-linked euthanasia.

  15. Nuclear Protein Sam68 Interacts with the Enterovirus 71 Internal Ribosome Entry Site and Positively Regulates Viral Protein Translation

    PubMed Central

    Zhang, Hua; Song, Lei; Cong, Haolong

    2015-01-01

    ABSTRACT Enterovirus 71 (EV71) recruits various cellular factors to assist in the replication and translation of its genome. Identification of the host factors involved in the EV71 life cycle not only will enable a better understanding of the infection mechanism but also has the potential to be of use in the development of antiviral therapeutics. In this study, we demonstrated that the cellular factor 68-kDa Src-associated protein in mitosis (Sam68) acts as an internal ribosome entry site (IRES) trans-acting factor (ITAF) that binds specifically to the EV71 5′ untranslated region (5′UTR). Interaction sites in both the viral IRES (stem-loops IV and V) and the heterogeneous nuclear ribonucleoprotein K homology (KH) domain of Sam68 protein were further mapped using an electrophoretic mobility shift assay (EMSA) and biotin RNA pulldown assay. More importantly, dual-luciferase (firefly) reporter analysis suggested that overexpression of Sam68 positively regulated IRES-dependent translation of virus proteins. In contrast, both IRES activity and viral protein translation significantly decreased in Sam68 knockdown cells compared with the negative-control cells treated with short hairpin RNA (shRNA). However, downregulation of Sam68 did not have a significant inhibitory effect on the accumulation of the EV71 genome. Moreover, Sam68 was redistributed from the nucleus to the cytoplasm and interacts with cellular factors, such as poly(rC)-binding protein 2 (PCBP2) and poly(A)-binding protein (PABP), during EV71 infection. The cytoplasmic relocalization of Sam68 in EV71-infected cells may be involved in the enhancement of EV71 IRES-mediated translation. Since Sam68 is known to be a RNA-binding protein, these results provide direct evidence that Sam68 is a novel ITAF that interacts with EV71 IRES and positively regulates viral protein translation. IMPORTANCE The nuclear protein Sam68 is found as an additional new host factor that interacts with the EV71 IRES during infection

  16. Student Activities in Meteorology (SAM), June 1994

    SciTech Connect

    Meier, B.L.; Passarelli, E.

    1994-06-01

    In an effort to inspire student interest in science and technology, scientists from the Forecast Systems Laboratory, a laboratory within the National Oceanic and Atmospheric Administration's (NOAA) Environmental Research Laboratories, and classroom teachers from the Boulder Valley School District collaborated to produce a series of classroom science activities on meteorology and atmospheric science. We call this series 'Student Activities in Meteorology,' or SAM. The goal is to provide activities that are interesting to students, and at the same time convenient and easy to use for teachers. The activity topics chosen are to incorporate trend setting scientific research and cutting edge technology. Several of the activities focus on the meteorological concerns of the Denver metropolitan area because many of NOAA's research labs are located in Boulder, where much of the research and testing for the region is performed. We believe that these activities are versatile and can be easily integrated into current science, environmental studies, health, social studies, and math curricula.

  17. Initial SAM calibration gas experiments on Mars: Quadrupole mass spectrometer results and implications

    NASA Astrophysics Data System (ADS)

    Franz, Heather B.; Trainer, Melissa G.; Malespin, Charles A.; Mahaffy, Paul R.; Atreya, Sushil K.; Becker, Richard H.; Benna, Mehdi; Conrad, Pamela G.; Eigenbrode, Jennifer L.; Freissinet, Caroline; Manning, Heidi L. K.; Prats, Benito D.; Raaen, Eric; Wong, Michael H.

    2017-04-01

    The Sample Analysis at Mars (SAM) instrument suite of the Mars Science Laboratory (MSL) Curiosity rover is equipped to analyze both martian atmospheric gases and volatiles released by pyrolysis of solid surface materials, with target measurements including chemical and isotopic composition (Mahaffy et al., 2012). To facilitate assessment of instrument performance and validation of results obtained on Mars, SAM houses a calibration cell containing CO2, Ar, N2, Xe, and several fluorinated hydrocarbon compounds (Franz et al., 2014; Mahaffy et al., 2012). This report describes the first two experiments utilizing this calibration cell on Mars and gives results from analysis of data acquired with the SAM Quadrupole Mass Spectrometer (QMS). These data support the accuracy of isotope ratios obtained with the QMS (Conrad et al., 2016; Mahaffy et al., 2013) and provide ground-truth for reassessment of analytical constants required for atmospheric measurements, which were reported in previous contributions (Franz et al., 2015, 2014). The most significant implication of the QMS data involves reinterpretation of pre-launch contamination previously believed to affect only CO abundance measurements (Franz et al., 2015) to affect N2 abundances, as well. The corresponding adjustment to the N2 calibration constant presented here brings the atmospheric volume mixing ratios for Ar and N2 retrieved by SAM into closer agreement with those reported by the Viking mission (Owen et al., 1977; Oyama and Berdahl, 1977).

  18. Constraints on the Mineralogy of Gale Crater Mudstones from MSL SAM Evolved Water

    NASA Technical Reports Server (NTRS)

    McAdam, A. C.; Sutter, B.; Franz, H. B.; Hogancamp, J. V. (Clark); Knudson, C. A.; Andrejkovicova, S.; Archer, P. D.; Eigenbrode, J. L.; Ming, D. W.; Mahaffy, P. R.

    2017-01-01

    The Sample Analysis at Mars (SAM) and Chemistry and Mineralogy (CheMin) instruments on the Mars Science Laboratory (MSL) have analysed more than 150 micron fines from 14 sites at Gale Crater. Here we focus on the mudstone samples. Two were drilled from sites John Klein (JK) and Cumberland (CB) in the Sheepbed mudstone. Six were drilled from Murray Formation mudstone: Confidence Hills (CH), Mojave (MJ), Telegraph Peak (TP), Buckskin (BK), Oudam (OU), Marimba (MB). SAM's evolved gas analysis mass spectrometry (EGA-MS) detected H2O, CO2, O2, H2, SO2, H2S, HCl, NO, and other trace gases, including organic fragments. The identity and evolution temperature of evolved gases can support CheMin mineral detection and place constraints on trace volatile-bearing phases or phases difficult to characterize with X-ray diffraction (e.g., amorphous phases). Here we will focus on SAM H2O data and comparisons to SAM-like analyses of key reference materials.

  19. Rapid Method for Sodium Hydroxide/Sodium Peroxide Fusion ...

    EPA Pesticide Factsheets

    Technical Fact Sheet Analysis Purpose: Qualitative analysis Technique: Alpha spectrometry Method Developed for: Plutonium-238 and plutonium-239 in water and air filters Method Selected for: SAM lists this method as a pre-treatment technique supporting analysis of refractory radioisotopic forms of plutonium in drinking water and air filters using the following qualitative techniques: • Rapid methods for acid or fusion digestion • Rapid Radiochemical Method for Plutonium-238 and Plutonium 239/240 in Building Materials for Environmental Remediation Following Radiological Incidents. Summary of subject analytical method which will be posted to the SAM website to allow access to the method.

  20. Radical SAM-Mediated Methylation of Ribosomal RNA

    PubMed Central

    Stojkovic, Vanja; Fujimori, Danica Galonić

    2015-01-01

    Post-transcriptional modifications of RNA play an important role in a wide range of biological processes. In ribosomal RNA (rRNA), methylation of nucleotide bases is the predominant modification. In recent years, methylation of adenosine 2503 (A2503) in bacterial 23S rRNA has attracted significant attention due to both the unusual regioselectivity of the methyl group incorporation, as well as the pathophysiological roles of the resultant methylations. Specifically, A2503 is methylated at the C2 and C8 positions of the adenine ring, and the introduced modifications have a profound impact on translational fidelity and antibiotic resistance, respectively. These modifications are performed by RlmN and Cfr, two members, of the recently discovered class of radical S-adenosylmethionine (radical SAM) methylsynthases. Here, we present several methods that can be used to evaluate the activity of these enzymes, under both in vivo and in vitro conditions. PMID:26253978

  1. Evaluating the Effectiveness of Self-Administration of Medication (SAM) Schemes in the Hospital Setting: A Systematic Review of the Literature

    PubMed Central

    Richardson, Suzanna J.; Brooks, Hannah L.; Bramley, George; Coleman, Jamie J.

    2014-01-01

    Background Self-administration of medicines is believed to increase patients' understanding about their medication and to promote their independence and autonomy in the hospital setting. The effect of inpatient self-administration of medication (SAM) schemes on patients, staff and institutions is currently unclear. Objective To systematically review the literature relating to the effect of SAM schemes on the following outcomes: patient knowledge, patient compliance/medication errors, success in self-administration, patient satisfaction, staff satisfaction, staff workload, and costs. Design Keyword and text word searches of online databases were performed between January and March 2013. Included articles described and evaluated inpatient SAM schemes. Case studies and anecdotal studies were excluded. Results 43 papers were included for final analysis. Due to the heterogeneity of results and unclear findings it was not possible to perform a quantitative synthesis of results. Participation in SAM schemes often led to increased knowledge about drugs and drug regimens, but not side effects. However, the effect of SAM schemes on patient compliance/medication errors was inconclusive. Patients and staff were highly satisfied with their involvement in SAM schemes. Conclusions SAM schemes appear to provide some benefits (e.g. increased patient knowledge), but their effect on other outcomes (e.g. compliance) is unclear. Few studies of high methodological quality using validated outcome measures exist. Inconsistencies in both measuring and reporting outcomes across studies make it challenging to compare results and draw substantive conclusions about the effectiveness of SAM schemes. PMID:25463269

  2. Fabrication and tribological properties of self-assembled monolayer of n-alkyltrimethoxysilane on silicon: Effect of SAM alkyl chain length

    NASA Astrophysics Data System (ADS)

    Huo, Lixia; Du, Pengcheng; Zhou, Hui; Zhang, Kaifeng; Liu, Peng

    2017-02-01

    It is well known that the self-assembled organic molecules on a solid surface exhibit the friction-reducing performance. However, the effect of the molecular size of the self-assembled organic molecules has not been established. In the present work, self-assembled monolayers (SAMs) of n-alkyltrimethoxysilanes with different alkyl chain lengths (C6, C12, or C18) were fabricated on silicon substrate. The water contact angles of the SAMs increased from 26.8° of the hydroxylated silicon substrate to near 60° after self-assembly. The atomic force microscopy (AFM) analysis results showed that the mean roughness (Ra) of the SAMs decreased with increasing the alkyl chain length. The tribological properties of the SAMs sliding against Al2O3 ball were evaluated on an UMT-2 tribometer, and the worn surfaces of the samples were analyzed by means of Nano Scratch Tester and surface profilometry. It was found that lowest friction coefficient and smallest width of wear were achieved with the SAMs of C12 alkyl chain (C12-SAM). The superior friction reduction and wear resistance of the SAMs in comparison with the bare silicon substrate are attributed to good adhesion of the self-assembled films to the substrate, especially the C12-SAM with desirable alkyl chain length.

  3. Characterisation of Desulfovibrio vulgaris haem b synthase, a radical SAM family member.

    PubMed

    Lobo, Susana A L; Lawrence, Andrew D; Romão, Célia V; Warren, Martin J; Teixeira, Miguel; Saraiva, Lígia M

    2014-07-01

    An alternative route for haem b biosynthesis is operative in sulfate-reducing bacteria of the Desulfovibrio genus and in methanogenic Archaea. This pathway diverges from the canonical one at the level of uroporphyrinogen III and progresses via a distinct branch, where sirohaem acts as an intermediate precursor being converted into haem b by a set of novel enzymes, named the alternative haem biosynthetic proteins (Ahb). In this work, we report the biochemical characterisation of the Desulfovibrio vulgaris AhbD enzyme that catalyses the last step of the pathway. Mass spectrometry analysis showed that AhbD promotes the cleavage of S-adenosylmethionine (SAM) and converts iron-coproporphyrin III via two oxidative decarboxylations to yield haem b, methionine and the 5'-deoxyadenosyl radical. Electron paramagnetic resonance spectroscopy studies demonstrated that AhbD contains two [4Fe-4S](2+/1+) centres and that binding of the substrates S-adenosylmethionine and iron-coproporphyrin III induces conformational modifications in both centres. Amino acid sequence comparisons indicated that D. vulgaris AhbD belongs to the radical SAM protein superfamily, with a GGE-like motif and two cysteine-rich sequences typical for ligation of SAM molecules and iron-sulfur clusters, respectively. A structural model of D. vulgaris AhbD with putative binding pockets for the iron-sulfur centres and the substrates SAM and iron-coproporphyrin III is discussed.

  4. Complementing Gender Analysis Methods.

    PubMed

    Kumar, Anant

    2016-01-01

    The existing gender analysis frameworks start with a premise that men and women are equal and should be treated equally. These frameworks give emphasis on equal distribution of resources between men and women and believe that this will bring equality which is not always true. Despite equal distribution of resources, women tend to suffer and experience discrimination in many areas of their lives such as the power to control resources within social relationships, and the need for emotional security and reproductive rights within interpersonal relationships. These frameworks believe that patriarchy as an institution plays an important role in women's oppression, exploitation, and it is a barrier in their empowerment and rights. Thus, some think that by ensuring equal distribution of resources and empowering women economically, institutions like patriarchy can be challenged. These frameworks are based on proposed equality principle which puts men and women in competing roles. Thus, the real equality will never be achieved. Contrary to the existing gender analysis frameworks, the Complementing Gender Analysis framework proposed by the author provides a new approach toward gender analysis which not only recognizes the role of economic empowerment and equal distribution of resources but suggests to incorporate the concept and role of social capital, equity, and doing gender in gender analysis which is based on perceived equity principle, putting men and women in complementing roles that may lead to equality. In this article the author reviews the mainstream gender theories in development from the viewpoint of the complementary roles of gender. This alternative view is argued based on existing literature and an anecdote of observations made by the author. While criticizing the equality theory, the author offers equity theory in resolving the gender conflict by using the concept of social and psychological capital.

  5. The Sample at Mars Analysis (SAM) Detections of CO2 and CO in Sedimentary Material from Gale Crater, Mars: Implications for the Presence of Organic Carbon and Microbial Habitability on Mars

    NASA Technical Reports Server (NTRS)

    Sutter, Brad; Eigenbrode, Jennifer L.; Steele, Andrew; Ming, Douglas W.

    2016-01-01

    Sedimentary rock samples heated to 860 degrees Centigrade in the SAM (Sample at Mars) instrument evolved CO2 and CO indicating the presence of organic-carbon(C) in Gale Crater materials. Martian or exogenous (meteoritic, interplanetary dust) CO2 and CO could be derived from combustion of simple organics (less than 300 degrees Centigrade), complex refractory organics/amorphous carbon (300-600 degrees Centigrade), and/or magmatic carbon (greater than 600 degrees Centigrade) as result of thermal decomposition of Gale Crater perchlorates, and sulfates present that produce O2. Oxidized organic compounds could also evolve CO2 and CO over broad temperature range (150 to 800 degrees Centigrade) and such organics are expected on Mars via exogenous sources. Alternatively, organic-C could also have been oxidized to carboxylic acids [e.g, mellitic acid (RCOOH), acetate (CH3CO2-), and oxalates (C2O42-)] by oxidative radiolytic weathering, or other oxidation processes. The presence of oxidized organics is consistent with the limited detection of reduced organic-C phases by the SAM-gas chromatography. Organic-C content as determined by CO2 and CO contents could range between 800 and 2400 parts per million C indicating that substantial organic-C component is present in Gale Crater. There are contributions from SAM background however, even in worst-case scenarios, this would only account for as much as half of the detected CO2 and CO. Nevertheless, if organic-C levels were assumed to have existed in a reduced form on ancient Mars and this was bioavailable C, then less than 1 percent of C in Gale Crater sediments could have supported an exclusively heterotrophic microbial population of 1 by 10 (sup 5) cells per gram sediment (assumes 9 by 10 (sup -7) microgram per cell and 0.5 micrograms C per microgram cell). While other essential nutrients (e.g., S and P) could be limiting, organic-C contents, may have been sufficient to support limited heterotrophic microbial populations on

  6. Evidence for Perchlorates and the Origin of Chlorinated Hydrocarbons Detected by SAM at the Rocknest Aeolian Deposit in Gale Crater

    NASA Technical Reports Server (NTRS)

    Glavin, Daniel P.; Freissinet, Caroline; Miller, Kristen E.; Eigenbrode, Jennifer L.; Brunner, Anna E.; Buch, Arnaud; Sutter, Brad; Archer, P. Douglas, Jr.; Atreya, Sushil K.; Brinckerhoff, William B.; Cabane, Michael; Coll, Patrice; Conrad, Pamela G.; Coscia, David; Dworkin, Jason P.; Franz, Heather B.; Grotzinger, John P.; Leshin, Laurie A.; Martin, Mildred G.; McKay, Christopher; Ming, Douglas W.; Navarro-Gonzalez, Rafael; Pavlov, Alexander; Steele, Andrew; Summons, Roger E.; Szopa, Cyril; Teinturier, Samuel; Mahaffy, Paul R.

    2013-01-01

    Four individual sample portions from a single scoop of the Rocknest aeolian deposit were sieved ( 150 m) and delivered to the Sample Analysis at Mars (SAM) instrument by the Mars Science Laboratory rover's sample acquisition system. The samples were analyzed separately by the SAM pyrolysis evolved gas and gas chromatography mass spectrometry analysis modes. Several chlorinated hydrocarbons including chloromethane, dichloromethane, trichloromethane, a chloromethylpropene, and chlorobenzene were identified by SAM above background levels with abundances of 0.01 to 2.3 nanomole.The evolution of the chloromethanes observed during pyrolysis is coincident with the increase in O2 released from the Rocknest sample and the decomposition of a product of N-methyl-N- (tert-butyldimethylsilyl)trifluoroacetamide (MTBSTFA), a chemical that leaked from a derivatization cup inside SAM.The best candidate for the oxychloride phase in Rocknest is a hydrated calcium perchlorate (Ca(ClO4)2nH2O), based on the temperature release of O2 that correlates with the release of the chlorinated species measured by SAM, although other chlorine bearing phases are being considered. Laboratory pyrolysis experiments suggest that reaction of martian chlorine with organic carbon from MTBSTFA can explain the presence of the chloromethanes and a chloromethylpropene also detected by SAM.However, we cannot exclude the possibility that traces of organic carbon of either martian or exogenous origin contributed to some of the chloromethanes measured by SAM. Although the alteration history and exposure age of the Rocknest deposit is unknown, it is possible that oxidative degradation of complex organic matter by ionizing radiation or other chemical processes in Rocknest has occurred.

  7. Rapid Method for Sodium Hydroxide Fusion of Concrete and ...

    EPA Pesticide Factsheets

    Technical Fact Sheet Analysis Purpose: Qualitative analysis Technique: Alpha spectrometry Method Developed for: Americium-241, plutonium-238, plutonium-239, radium-226, strontium-90, uranium-234, uranium-235 and uranium-238 in concrete and brick samples Method Selected for: SAM lists this method for qualitative analysis of americium-241, plutonium-238, plutonium-239, radium-226, strontium-90, uranium-234, uranium-235 and uranium-238 in concrete or brick building materials. Summary of subject analytical method which will be posted to the SAM website to allow access to the method.

  8. Crystal structures of the SAM-III/S[subscript MK] riboswitch reveal the SAM-dependent translation inhibition mechanism

    SciTech Connect

    Lu, C.; Smith, A.M.; Fuchs, R.T.; Ding, F.; Rajashankar, K.; Henkin, T.M.; Ke, A.

    2010-01-07

    Three distinct classes of S-adenosyl-L-methionine (SAM)-responsive riboswitches have been identified that regulate bacterial gene expression at the levels of transcription attenuation or translation inhibition. The SMK box (SAM-III) translational riboswitch has been identified in the SAM synthetase gene in members of the Lactobacillales. Here we report the 2.2-{angstrom} crystal structure of the Enterococcus faecalis SMK box riboswitch. The Y-shaped riboswitch organizes its conserved nucleotides around a three-way junction for SAM recognition. The Shine-Dalgarno sequence, which is sequestered by base-pairing with the anti-Shine-Dalgarno sequence in response to SAM binding, also directly participates in SAM recognition. The riboswitch makes extensive interactions with the adenosine and sulfonium moieties of SAM but does not appear to recognize the tail of the methionine moiety. We captured a structural snapshot of the SMK box riboswitch sampling the near-cognate ligand S-adenosyl-L-homocysteine (SAH) in which SAH was found to adopt an alternative conformation and fails to make several key interactions.

  9. Methods of Cosmochemical Analysis

    NASA Astrophysics Data System (ADS)

    Lahiri, S.; Maiti, M.

    Some radionuclides, like 10Be (T 1/2 = 1.5 Ma), 14C (T 1/2 = 5,730 years), 26Al (T 1/2 = 0.716 Ma), 53Mn (T 1/2 = 3.7 Ma), and 60Fe (T 1/2 = 1.5 Ma), 146Sm (T 1/2 = 103 Ma), 182Hf (T 1/2 = 9 Ma), 244Pu (T 1/2 = 80 Ma) are either being produced continuously by the interaction of cosmic rays (CR) or might have been produced in supernovae millions of years ago. Analysis of these radionuclides in ultratrace scale has strong influence in almost all branches of sciences, starting from archaeology to biology, nuclear physics to astrophysics. However, measurement of these radionuclides appeared as a borderline problem exploiting their decay properties because of scarcity in natural archives and long half-life. The one and only way seemed to be that of mass measurement. Accelerator mass spectrometry (AMS) is the best suited for this purpose. Apart from AMS, other mass measurement techniques like inductively coupled plasma-mass spectrometry (ICP-MS), thermal ionization mass spectrometry (TIMS), resonant laser ionization mass spectrometry (RIMS), secondary ionization mass spectrometry (SIMS) have also been used with limited sensitivity and approach.

  10. Inversion of solar extinction data from the Apollo-Soyuz Test Project Stratospheric Aerosol Measurement (ASTP/SAM) experiment

    NASA Technical Reports Server (NTRS)

    Pepin, T. J.

    1977-01-01

    The inversion methods are reported that have been used to determine the vertical profile of the extinction coefficient due to the stratospheric aerosols from data measured during the ASTP/SAM solar occultation experiment. Inversion methods include the onion skin peel technique and methods of solving the Fredholm equation for the problem subject to smoothing constraints. The latter of these approaches involves a double inversion scheme. Comparisons are made between the inverted results from the SAM experiment and near simultaneous measurements made by lidar and balloon born dustsonde. The results are used to demonstrate the assumptions required to perform the inversions for aerosols.

  11. Traditional Methods for Mineral Analysis

    NASA Astrophysics Data System (ADS)

    Ward, Robert E.; Carpenter, Charles E.

    This chapter describes traditional methods for analysis of minerals involving titrimetric and colorimetric procedures, and the use of ion selective electrodes. Other traditional methods of mineral analysis include gravimetric titration (i.e., insoluble forms of minerals are precipitated, rinse, dried, and weighed) and redox reactions (i.e., mineral is part of an oxidation-reduction reaction, and product is quantitated). However, these latter two methods will not be covered because they currently are used little in the food industry. The traditional methods that will be described have maintained widespread usage in the food industry despite the development of more modern instrumentation such as atomic absorption spectroscopy and inductively coupled plasma-atomic emission spectroscopy (Chap. 24). Traditional methods generally require chemicals and equipment that are routinely available in an analytical laboratory and are within the experience of most laboratory technicians. Additionally, traditional methods often form the basis for rapid analysis kits (e.g., Quantab®; for salt determination) that are increasingly in demand. Procedures for analysis of minerals of major nutritional or food processing concern are used for illustrative purposes. For additional examples of traditional methods refer to references (1-6). Slight modifications of these traditional methods are often needed for specific foodstuffs to minimize interferences or to be in the range of analytical performance. For analytical requirements for specific foods see the Official Methods of Analysis of AOAC International (5) and related official methods (6).

  12. Early Results from the Curiosity Rover's SAM Investigation at Gale Crater

    NASA Astrophysics Data System (ADS)

    Mahaffy, Paul; Webster, Chris; Cabane, Michael; Coll, Patrice

    2013-04-01

    The goals of the Mars Science Laboratory Mission (1, 2) are to explore the potential of the Gale Crater landing site to support life either in the distant past or the present. The contribution of the Sample Analysis at Mars (SAM) instrument suite (3) in this exploration of habitability is (A) to search for organic compounds in rocks and soils, (B) to determine the composition of inorganic volatiles compounds in the atmosphere or extracted from solid materials, and (C) to measure the isotopic composition of several of these volatiles. While prime exploration targets of MSL's Curiosity Rover are the layers in the central mound (Mt. Sharp) of Gale crater the initial exploration of region near the landing point has revealed a diverse geology and the early part of the mission has been spent both commissioning the 10 Curiosity instruments and the Rover subsystems and making first time measurements of both atmospheric and solid samples. SAM is located in the interior of MSL's Curiosity rover next to the XRD/XRF CheMin instrument. A variety of imaging, laser induced breakdown spectroscopy, and elemental analysis instrumentation serves to locate sampling sites and interogate candidate materials before solid sample is collected either with a drill or a scoop for delivery to SAM and CheMin. SAM's instruments are a quadrupole mass spectrometer (QMS), a tunable laser spectrometer (TLS), and a 6-column gas chromatograph (GC). These are coupled through a solid sample transport system and a gas processing and enrichment system. The SAM suite is able to measure a suite of light isotopes and to analyze volatiles directly from the atmosphere or thermally released from solid samples. Early results from SAM atmospheric runs include a determination of: new volume mixing ratios for the 5 major isotopic constituents showing Ar approximately equal to N2; an upper limit of 3.5 ppb for the volume mixing ratio of methane; C and O isotope ratios showing both heavier than terrestrial averages

  13. Early Evolved Gas Results from the Curiosity Rover’s SAM Investigation at Gale Crater

    NASA Astrophysics Data System (ADS)

    Mahaffy, Paul R.; Franz, H.; McAdam, A.; Brunner, A.; Eigenbrode, J.; Stern, J.; SAM Science Team; MSL Science Team

    2013-10-01

    The Mars Science Laboratory Mission is designed to explore the habitability of the selected landing site at Gale crater. The Sample Analysis at Mars (SAM) instrument suite contributes to this study with a search for organic compounds, an analysis of the composition of inorganic volatiles, and measurements of the isotopic composition light elements. Both atmospheric and solid samples are analyzed. The layers in the central mound (Mt. Sharp) of Gale crater are important targets for the MSL mission. However, in situ measurements made during the past year of interesting regions close to the Bradbury landing site have revealed a diverse geology and several primary mission objectives have already been realized. SAM is located in the interior of the Curiosity rover. The MSL cameras, a laser induced breakdown spectrometer, and elemental analysis instrumentation serves to locate sampling sites and interogate candidate materials before solid sample is collected either with a drill or a scoop for delivery to SAM and the XRD instrument CheMin. SAM integrates a quadrupole mass spectrometer (QMS), a tunable laser spectrometer (TLS), and a 6-column gas chromatograph (GC) with a solid sample transport system and a gas processing and enrichment system. Results of SAM atmospheric composition analyses have already been reported (1,2). To date, multiple SAM evolved gas experiments have examined samples from fines scooped from an aeolian drift and from two drilled samples of a mudstone. Major evolved gases are H2O, CO2, O2, SO2, H2S, H2, and a number of minor species. These data help confirm the likely presence of perchlorates, the presence of phylosillicates, and both reduced and oxidized compounds evolved from the same sample. 1) P.R. Mahaffy et al., Abundance and Isotopic Composition of Gases in the Martian Atmosphere from the Curiosity Rover, Science 343, (2013). 2) C.R. Webster et al., Isotope Ratios of H, C and O in Martian Atmospheric Carbon Dioxide and Water Measured by the

  14. Development of a "one-pot" sample preparation procedure for the in situ analysis by GC/MS of textraterrestrial environnements : application to the Sample Analysis at Mars experiment (SAM for MSL 2009)

    NASA Astrophysics Data System (ADS)

    Buch, A.; Sternberg, R.; Mettetal, F.; Szopa, C.; Coscia, D.; Rodier, C.; Coll, P.; Cabane, M.; Raulin, F.; Sam Team

    In the frame of the MSL2009 exploratory mission to Mars a new one-pot one step method to analyse in-situ the martian soil has been developed The goal is to detect if they exist the key compounds of the origin of life such as carboxylic acids amino acids and nucleobases Before their analysis by GC MS all the targeted compounds should be extracted and derivatized With a classical procedure 1 extraction and derivatization are carried out in a two steps process which needs separation and evaporation of the extraction solvent in order to preconcentrate the extracted compounds Moreover the derivatizing agent used MTBSTFA could react with the solvent of extraction With the new procedure extraction and derivatization are carried out in a one-pot and one step procedure by heating the sample prior to the derivatization Once heated the sample is introduced in a reactor and heated in the range of 200 r C to 500 r C during about 20 minutes Then the derivatizing agent is deposited on the soil and the derivatization is performed at 75 r C during 30 minutes The gaseous phase thus obtained in the reactor is flushed by the carrier gas He in the column of the GCMS through a six-port sampling valve This sample preparation method has been tested on soil samples collected from the Atacama desert in Chile described as one of the best Mars-like analog given the presence of oxidizing materials trace quantities of organic compounds and extremely low levels of culturable bacteria 2 All the targeted compounds already detected by the

  15. Wide Range Vacuum Pumps for the SAM Instrument on the MSL Curiosity Rover

    NASA Technical Reports Server (NTRS)

    Sorensen, Paul; Kline-Schoder, Robert; Farley, Rodger

    2014-01-01

    Creare Incorporated and NASA Goddard Space Flight Center developed and space qualified two wide range pumps (WRPs) that were included in the Sample Analysis at Mars (SAM) instrument. This instrument was subsequently integrated into the Mars Science Laboratory (MSL) "Curiosity Rover," launched aboard an Atlas V rocket in 2011, and landed on August 6, 2012, in the Gale Crater on Mars. The pumps have now operated for more than 18 months in the Gale Crater and have been evacuating the key components of the SAM instrument: a quadrupole mass spectrometer, a tunable laser spectrometer, and six gas chromatograph columns. In this paper, we describe the main design challenges and the ways in which they were solved. This includes the custom design of a miniaturized, high-speed motor to drive the turbo drag pump rotor, analysis of rotor dynamics for super critical operation, and bearing/lubricant design/selection.

  16. Probabilistic methods for rotordynamics analysis

    NASA Technical Reports Server (NTRS)

    Wu, Y.-T.; Torng, T. Y.; Millwater, H. R.; Fossum, A. F.; Rheinfurth, M. H.

    1991-01-01

    This paper summarizes the development of the methods and a computer program to compute the probability of instability of dynamic systems that can be represented by a system of second-order ordinary linear differential equations. Two instability criteria based upon the eigenvalues or Routh-Hurwitz test functions are investigated. Computational methods based on a fast probability integration concept and an efficient adaptive importance sampling method are proposed to perform efficient probabilistic analysis. A numerical example is provided to demonstrate the methods.

  17. Analogue Experiments Identify Possible Precursor Compounds for Chlorohydrocarbons Detected in SAM

    NASA Astrophysics Data System (ADS)

    Miller, K.; Summons, R. E.; Eigenbrode, J. L.; Freissinet, C.; Glavin, D. P.; Martin, M. G.; Team, M.

    2013-12-01

    Since landing at Gale Crater on August 6, 2012, the Sample Analysis at Mars (SAM) instrument suite, aboard the Curiosity Rover, has conducted multiple analyses of scooped and drilled samples and has identified a suite of chlorohydrocarbons including chloromethane, dichloromethane, trichloromethane, chloromethylpropene, and chlorobenzene (Glavin et al., 2013; Leshin et al., 2013). These compounds were identified after samples were pyrolysed at temperatures up to ~835°C through a combination of Evolved Gas Analysis (EGA) and Gas Chromatography Mass Spectrometry (GCMS). Since these chlorinated species were well above the background levels determined by empty cup blanks analyzed prior to solid sample analyses, thermal degradation of oxychlorine phases, such as perchlorate, present in the Martian soil, are the most likely source of chlorine needed to generate these chlorohydrocarbons. Laboratory analogue experiments show that terrestrial organics internal to SAM, such as N-methyl-N(tert-butyldimethylsilyl)trifluoroacetamide (MTBSTFA), a derivatization agent, can react with perchlorates to produce all of the chlorohydrocarbons detected by SAM. However, in pyrolysis-trap-GCMS laboratory experiments with MTBSTFA, C4 compounds are the predominant chlorohydrocarbon observed, whereas on SAM the C1 chlorohydrocarbons dominate (Glavin et al., 2013). This, in addition to the previous identification of chloromethane and dichloromethane by the 1976 Viking missions (Biemann et al., 1977), suggest that there could be another, possibly Martian, source of organic carbon contributing to the formation of the C1 chlorohydrocarbons, or other components of the solid samples analyzed by SAM are having a catalytic effect on chlorohydrocarbon generation. Laboratory analogue experiments investigated a suite of organic compounds that have the potential to accumulate on Mars (Benner et al., 2000) and thus serve as sources of carbon for the formation of chlorohydrocarbons detected by the SAM and

  18. High Temperature Life Testing of 80Ni-20Cr Wire in a Simulated Mars Atmosphere for the Sample Analysis at Mars (SAM) Instrument Suit Gas Processing System (GPS) Carbon Dioxide Scrubber

    NASA Technical Reports Server (NTRS)

    Gundersen, Cynthia; Hoffman, Christopher; Munoz, Bruno; Steohenson, Timothy; Thomas, Walter

    2008-01-01

    In support of the GPS for the SAM instrument suite built by GSFC, a life test facility was developed to test the suitability of 80Ni-20Cr wire, 0.0056 inches in diameter, for use as a heater element for the carbon dioxide scrubber. The wire would be required to operate at 1000 C in order to attain the 800 C required for regeneration of the getter. The wire also would need to operate in the Mars atmosphere, which consists mostly of CO2 at pressures between 4 and 12 torr. Data on the high temperature degradation mechanism of 80Ni-20Cr in low pressure CO2, together with the effects of thermal cycling, were unknown. In addition, the influence of work hardening of the wire during assembly and the potential for catastrophic grain growth also were unknown. Verification of the wire reliability as defined by the mission goals required the construction of a test facility that would accurately simulate the duty cycles in a simulated Mars atmosphere. The experimental set-up, along with the test protocol and results will be described.

  19. High Temperature Life Testing of 80Ni-20Cr Wire in a Simulated Mars Atmosphere for the Sample Analysis at Mars (SAM) Instrument Suite Gas Processing System (GPS) Carbon Dioxide Scrubber

    NASA Technical Reports Server (NTRS)

    Hoffman, Christopher; Munoz, Bruno; Gundersen, Cynthia; Thomas, Walter, III; Stephenson, Timothy

    2008-01-01

    In support of the GPS for the SAM instrument suite built by NASA/GSFC, a life test facility was developed to test the suitability of 80Ni-20Cr alloy wire, 0.0142 cm diameter, for use as a heater element for the carbon dioxide scrubber. The element would be required to operate at 1000 C in order to attain the 800 C required for regeneration of the getter. The element also would need to operate in the Mars atmosphere, which consists mostly of CO2 at pressures between 4 and 12 torr. Data on the high temperature degradation mechanism of 80Ni- 20Cr in low pressure CO2, coupled with the effects of thermal cycling, were unknown. In addition, the influence of work hardening of the wire during assembly and the potential for catastrophic grain growth also were unknown. Verification of the element reliability as defined by the mission goals required the construction of a test facility that would accurately simulate the duty cycles in a simulated Mars atmosphere. The experimental set-up, along with the test protocol and results will be described.

  20. Study of the resistance of SAMs on aluminium to acidic and basic solutions using dynamic contact angle measurement.

    PubMed

    Liakos, Ioannis L; Newman, Roger C; McAlpine, Eoghan; Alexander, Morgan R

    2007-01-30

    We report the development of a method to determine the aqueous stability of self-assembled monolayers (SAMs) using the Wilhelmy plate dynamic contact angle (DCA) experiment. The DCA is measured in solutions over a range of pH values for alkyl carboxylic and alkyl phosphonic acid SAMs formed on magnetron-sputtered aluminum. The change in DCA on repeated immersion is used as a measure of the degradation of the SAMs by hydrolytic attack. The short and intermediate chain length alkyl acids are not stable in water of neutral pH, whereas molecules with the longest alkyl chains show considerably greater stability in neutral and both high and low pH solutions. The packing density inferred from the DCA and the contact angle hysteresis suggests the C18CO2H monolayer to be slightly less well packed than that of the C18P(=O)(OH)2; this is consistent with related friction force microscopy and infrared reflection absorption spectroscopy findings published elsewhere (Foster, T. T.; Alexander, M. R.; Leggett, G. J.; McAlpine, E. Langmuir 2006, 22, 9254-9259). The resistance of the SAMs to acid and alkaline environments is discussed in the context of aluminum oxide solubility, SAM packing density, and the resistance of the interfacial phosphate and carboxylate functionalities to different aqueous conditions.

  1. Effect of S-adenosyl-L-methionine (SAM), an allosteric activator of cystathionine-β-synthase (CBS) on colorectal cancer cell proliferation and bioenergetics in vitro

    PubMed Central

    Módis, Katalin; Coletta, Ciro; Asimakopoulou, Antonia; Szczesny, Bartosz; Chao, Celia; Papapetropoulos, Andreas; Hellmich, Mark R.; Szabo, Csaba

    2014-01-01

    Recent data show that colon cancer cells selectively overexpress cystathionine-β-synthase (CBS), which produces hydrogen sulfide (H2S), to maintain cellular bioenergetics, support tumor growth and stimulate angiogenesis and vasorelaxation in the tumor microenvironment. The purpose of the current study was to investigate the effect of the allosteric CBS activator S-adenosyl-L-methionine (SAM) on the proliferation and bioenergetics of the CBS-expressing colon cancer cell line HCT116. The non-transformed, non-tumorigenic colon epithelial cell line NCM356 was used as control. For assessment of cell proliferation, the xCELLigence system was used. Bioenergetic function was measured by Extracellular Flux Analysis. Experiments using human recombinant CBS or HCT116 homogenates complemented the cell-based studies. SAM markedly enhanced CBS-mediated H2S production in vitro, especially when a combination of cysteine and homocysteine was used as substrates. Addition of SAM (0.1 – 3 mM) to HCT116 cells induced a concentration-dependent increase H2S production. SAM exerted time-and concentration-dependent modulatory effects on cell proliferation. At 0.1–1 mM SAM increased HCT116 proliferation between 0–12 h, while the highest SAM concentration (3 mM) inhibited proliferation. Over a longer time period (12–24 h), only the lowest concentration of SAM used (0.1 mM) stimulated cell proliferation; higher SAM concentrations produced a concentration-dependent inhibition. The short-term stimulatory effects of SAM were attenuated by the CBS inhibitor aminooxyacetic acid (AOAA) or by stable silencing of CBS. In contrast, the inhibitory effects of SAM on cell proliferation was unaffected by CBS inhibition or CBS silencing. In contrast to HCT116 cells, the lower rate of proliferation of the low-CBS expressor NCM356 cells was unaffected by SAM. Short-term (1h) exposure of HCT116 cells to SAM induced a concentration-dependent increase in oxygen consumption and bioenergetic function at

  2. SAMS Acceleration Measurements on Mir from June to November 1995

    NASA Technical Reports Server (NTRS)

    DeLombard, Richard; Hrovat, Ken; Moskowitz, Milton; McPherson, Kevin

    1996-01-01

    The NASA Microgravity Science and Applications Division (MSAD) sponsors science experiments on a variety of microgravity carriers, including sounding rockets, drop towers, parabolic aircraft, and Orbiter missions. The MSAD sponsors the Space Acceleration Measurement System (SAMS) to support microgravity science experiments with acceleration measurements to characterize the microgravity environment to which the experiments were exposed. The Principal Investigator Microgravity Services project at the NASA Lewis Research Center supports principal investigators of microgravity experiments as they evaluate the effects of varying acceleration levels on their experiments. In 1993, a cooperative effort was started between the United States and Russia involving science utilization of the Russian Mir space station by scientists from the United States and Russia. MSAD is currently sponsoring science experiments participating in the Shuttle-Mir Science Program in cooperation with the Russians on the Mir space station. Included in the complement of MSAD experiments and equipment is a SAMS unit In a manner similar to Orbiter mission support, the SAMS unit supports science experiments from the U.S. and Russia by measuring the microgravity environment during experiment operations. The initial SAMS supported experiment was a Protein Crystal Growth (PCG) experiment from June to November 1995. SAMS data were obtained during the PCG operations on Mir in accordance with the PCG Principal Investigator's requirements. This report presents an overview of the SAMS data recorded to support this PCG experiment. The report contains plots of the SAMS 100 Hz sensor head data as an overview of the microgravity environment, including the STS-74 Shuttle-Mir docking.

  3. Comparison of Hartmann analysis methods.

    PubMed

    Canovas, Carmen; Ribak, Erez N

    2007-04-01

    Analysis of Hartmann-Shack wavefront sensors for the eye is traditionally performed by locating and centroiding the sensor spots. These centroids provide the gradient, which is integrated to yield the ocular aberration. Fourier methods can replace the centroid stage, and Fourier integration can replace the direct integration. The two--demodulation and integration--can be combined to directly retrieve the wavefront, all in the Fourier domain. Now we applied this full Fourier analysis to circular apertures and real images. We performed a comparison between it and previous methods of convolution, interpolation, and Fourier demodulation. We also compared it with a centroid method, which yields the Zernike coefficients of the wavefront. The best performance was achieved for ocular pupils with a small boundary slope or far from the boundary and acceptable results for images missing part of the pupil. The other Fourier analysis methods had much higher tolerance to noncentrosymmetric apertures.

  4. Zen and Behavior Analysis

    PubMed Central

    Bass, Roger

    2010-01-01

    Zen's challenge for behavior analysis is to explain a repertoire that renders analysis itself meaningless—a result following not from scientific or philosophical arguments but rather from a unique verbal history generated by Zen's methods. Untying Zen's verbal knots suggests how meditation's and koans' effects on verbal behavior contribute to Enlightenment and Samādhi. The concept of stimulus singularity is introduced to account for why, within Zen's frame of reference, its methods can be studied but its primary outcomes (e.g., Samādhi and Satori) cannot be described in any conventional sense. PMID:22479128

  5. Major Volatiles from MSL SAM Evolved Gas Analyses: Yellowknife Bay Through Lower Mount Sharp

    NASA Technical Reports Server (NTRS)

    McAdam, A. C.; Archer, P. D., Jr.; Sutter, B.; Franz, H. B.; Eigenbrode, J. L.; Ming, D. W.; Morris, R. V.; Niles, P. B.; Stern, J. C.; Freissinet, C.; Glavin, D. P.; Atreya, S. K.; Bish, D. L.; Blake, D. F.; Mahaffy, P. R.; Navarro-Gonzalez, R.; McKay, C. P.; Wilhelm, M. B.

    2015-01-01

    The Sample Analysis at Mars (SAM) and Chemistry and Mineralogy (CheMin) instruments on the Mars Science Laboratory (MSL) analysed several subsamples of <150 µm fines from five sites at Gale Crater. Three were in Yellowknife Bay: the Rocknest aeolian bedform ("RN") and drilled Sheepbed mudstone from sites John Klein ("JK") and Cumberland ("CB"). One was drilled from the Windjana ("WJ") site on a sandstone of the Kimberly formation investigated on route to Mount Sharp. Another was drilled from the Confidence Hills ("CH") site on a sandstone of the Murray Formation at the base of Mt. Sharp (Pahrump Hills). Outcrops are sedimentary rocks that are largely of fluvial or lacustrine origin, with minor aeolian deposits.. SAM's evolved gas analysis (EGA) mass spectrometry detected H2O, CO2, O2, H2, SO2, H2S, HCl, NO, and other trace gases, including organic fragments. The identity and evolution temperature (T) of evolved gases can support CheMin mineral detection and place constraints on trace volatile-bearing phases or phases difficult to characterize with XRD (e.g., X-ray amorphous phases). They can also give constraints on sample organic chemistry. Here, we discuss trends in major evolved volatiles from SAM EGA analyses to date.

  6. Background and Artifacts Generated by the by the Sample Preparation Experiment on SAM

    NASA Astrophysics Data System (ADS)

    Belmahdi, Imene; Buch, Arnaud; Szopa, Cyril; Freissinet, Caroline; Glavin, Daniel; Coll, Patrice; Cabane, Michel; Millan, Maeva; Eigenbrode, Jennifer; Navarro-Gonzalez, Rafael; Stern, Jennifer; Coscia, David; Bonnet, Jean-Yves; Teinturier, Samuel; Morisson, Marietta; Stambouli, Moncef; Dequaire, Tristan; Mahaffy, Paul

    2016-04-01

    Sample Analysis at Mars (SAM) is one of the instruments of the Mars Science Laboratory mission. Three analytical devices composed the SAM experiment: the Tunable Laser Spectrometer (TLS), the Gas Chromatography (GC) and the Mass Spectrometer (MS). To adapt the nature of a sample to the analytical devices used, a sample preparation and gas processing system implemented with (a) a pyrolysis system, (b) wet chemistry: MTBSTFA and TMAH (c) the hydrocarbon trap (silica beads, Tenax® TA and Carbosieve G) and the injection trap (Tenax® GR composed of Tenax® TA and 30% of graphite) are employed to concentrate volatiles released from the sample prior to GC-MS analysis. Our study investigates several propositions for chlorinated hydrocarbon formation detected in the SAM background by looking for: (a) all products coming from the interaction of Tenax® and perchlorates present on Mars, (b) also between some soil sample and perchlorates and (c) sources of chlorinated hydrocarbon precursors. Here we report on the detection of chlorohydrocarbon compounds and their potential origin.

  7. SAMSVM: A tool for misalignment filtration of SAM-format sequences with support vector machine.

    PubMed

    Yang, Jianfeng; Ding, Xiaofan; Sun, Xing; Tsang, Shui-Ying; Xue, Hong

    2015-12-01

    Sequence alignment/map (SAM) formatted sequences [Li H, Handsaker B, Wysoker A et al., Bioinformatics 25(16):2078-2079, 2009.] have taken on a main role in bioinformatics since the development of massive parallel sequencing. However, because misalignment of sequences poses a significant problem in analysis of sequencing data that could lead to false positives in variant calling, the exclusion of misaligned reads is a necessity in analysis. In this regard, the multiple features of SAM-formatted sequences can be treated as vectors in a multi-dimension space to allow the application of a support vector machine (SVM). Applying the LIBSVM tools developed by Chang and Lin [Chang C-C, Lin C-J, ACM Trans Intell Syst Technol 2:1-27, 2011.] as a simple interface for support vector classification, the SAMSVM package has been developed in this study to enable misalignment filtration of SAM-formatted sequences. Cross-validation between two simulated datasets processed with SAMSVM yielded accuracies that ranged from 0.89 to 0.97 with F-scores ranging from 0.77 to 0.94 in 14 groups characterized by different mutation rates from 0.001 to 0.1, indicating that the model built using SAMSVM was accurate in misalignment detection. Application of SAMSVM to actual sequencing data resulted in filtration of misaligned reads and correction of variant calling.

  8. OARE and SAMS on STS-94/MSL-1

    NASA Technical Reports Server (NTRS)

    Moskowitz, Milton; Hrovat, Kenneth; McPherson, Kevin; Tschen, Peter; DeLombard, Richard; Nati, Maurizio

    1998-01-01

    Four microgravity acceleration measurement instruments were included on MSL-1 to measure the accelerations and vibrations to which science experiments were exposed during their operation on the mission. The data were processed and presented to the principal investigators in a variety of formats to aid their assessment of the microgravity environment during their experiment operations. Two accelerometer systems managed by the NASA Lewis Research Center (LeRC) supported the MSL-1 mission: the Orbital Acceleration Research Experiment (OARE), and the Space Acceleration Measurement System (SAMS). In addition, the Microgravity Measurement Assembly (MMA) and the Quasi- Steady Acceleration Measurement (QSAM) system, both sponsored by the Microgravity Research Division, collected acceleration data as a part of the MSL-1 mission. The NIMA was funded and designed by the European Space Agency in the Netherlands (ESA/ESTEC), and the QSAM system was funded and designed by the German Space Agency (DLR). The Principal Investigator Microgravity Services (PIMS) project at the NASA Lewis Research Center (LeRC) supports Principal Investigators (PIs) of the Microgravity science community as they evaluate the effects of acceleration on their experiments. PIMS primary responsibility is to support NASA-sponsored investigators in the area of acceleration data analysis and interpretation. A mission summary report was prepared and published by PIMS in order to furnish interested experiment investigators with a guide for evaluating the acceleration environment during the MSL-1 mission.

  9. Toward a prediction of the redox properties of electroactive SAMs: a free energy calculation by molecular simulation.

    PubMed

    Filippini, Gaëlle; Goujon, Florent; Bonal, Christine; Malfreyt, Patrice

    2010-10-14

    We report free energy calculations of FcC(6)S-/C(4)S-Au and FcC(6)S-/C(12)S-Au binary self-assembled monolayers (SAMs) formed by one ferrocenylhexanethiolate chain and alkylthiolate chains. We demonstrate that the free energy perturbation methods are able to reproduce the positive shift of the redox potential when the coadsorbed butanethiolate C(4)S chains are replaced by dodecanethiolate C(12)S chains. The different contributions to the Ewald summation involved in the perturbation process are thoroughly described. We complete the study by a microscopic description of the binary SAMs before and after oxidation. The molecular dynamics (MD) simulations evidence that the formation of the ion-pair between the ferricinium and a single perchlorate anion of the supporting electrolyte is more favored in FcC(6)S-/C(12)S-Au SAM.

  10. SAM68: Signal Transduction and RNA Metabolism in Human Cancer

    PubMed Central

    Frisone, Paola; Pradella, Davide; Di Matteo, Anna; Belloni, Elisa; Ghigna, Claudia; Paronetto, Maria Paola

    2015-01-01

    Alterations in expression and/or activity of splicing factors as well as mutations in cis-acting splicing regulatory sequences contribute to cancer phenotypes. Genome-wide studies have revealed more than 15,000 tumor-associated splice variants derived from genes involved in almost every aspect of cancer cell biology, including proliferation, differentiation, cell cycle control, metabolism, apoptosis, motility, invasion, and angiogenesis. In the past decades, several RNA binding proteins (RBPs) have been implicated in tumorigenesis. SAM68 (SRC associated in mitosis of 68 kDa) belongs to the STAR (signal transduction and activation of RNA metabolism) family of RBPs. SAM68 is involved in several steps of mRNA metabolism, from transcription to alternative splicing and then to nuclear export. Moreover, SAM68 participates in signaling pathways associated with cell response to stimuli, cell cycle transitions, and viral infections. Recent evidence has linked this RBP to the onset and progression of different tumors, highlighting misregulation of SAM68-regulated splicing events as a key step in neoplastic transformation and tumor progression. Here we review recent studies on the role of SAM68 in splicing regulation and we discuss its contribution to aberrant pre-mRNA processing in cancer. PMID:26273626

  11. SAM, the Starfire Optical Range Atmospheric Monitor

    NASA Astrophysics Data System (ADS)

    Spillar, Earl J.; Shoemake, Marjorie A.; Slavin, Ann C.

    2011-10-01

    We describe the Starfire Optical Range (SOR) Atmospheric Monitor (SAM). SAM is a 40 cm telescope feeding a Shack-Hartmann wave-front sensor with 20 subapertures across the telescope aperture, which in turn feeds a 1 kHz CCD camera. The unique features of SAM include the ability to work through both day and night and the ability to estimate r0 values down to 1.5 cm at 750 nm. Because SAM can measure 200 tilts simultaneously in 1 ms, it is able to detect rapid changes in turbulence parameters. It will be able to estimate the Fried parameter r0, the Greenwood parameter fg, scintillation, and a rough profile simultaneously. After describing the basic design and construction of SAM and our algorithm for estimating r0, we describe the initial capabilities of the system. We show some initial data regarding the diurnal variation of r0 at the SOR, simulations of SAM’s performance, and a validation against another system. We conclude with future plans for the system.

  12. Analytical techniques for retrieval of atmospheric composition with the quadrupole mass spectrometer of the Sample Analysis at Mars instrument suite on Mars Science Laboratory

    NASA Astrophysics Data System (ADS)

    B. Franz, Heather; G. Trainer, Melissa; H. Wong, Michael; L. K. Manning, Heidi; C. Stern, Jennifer; R. Mahaffy, Paul; K. Atreya, Sushil; Benna, Mehdi; G. Conrad, Pamela; N. Harpold, Dan; A. Leshin, Laurie; A. Malespin, Charles; P. McKay, Christopher; Thomas Nolan, J.; Raaen, Eric

    2014-06-01

    The Sample Analysis at Mars (SAM) instrument suite is the largest scientific payload on the Mars Science Laboratory (MSL) Curiosity rover, which landed in Mars' Gale Crater in August 2012. As a miniature geochemical laboratory, SAM is well-equipped to address multiple aspects of MSL's primary science goal, characterizing the potential past or present habitability of Gale Crater. Atmospheric measurements support this goal through compositional investigations relevant to martian climate evolution. SAM instruments include a quadrupole mass spectrometer, a tunable laser spectrometer, and a gas chromatograph that are used to analyze martian atmospheric gases as well as volatiles released by pyrolysis of solid surface materials (Mahaffy et al., 2012). This report presents analytical methods for retrieving the chemical and isotopic composition of Mars' atmosphere from measurements obtained with SAM's quadrupole mass spectrometer. It provides empirical calibration constants for computing volume mixing ratios of the most abundant atmospheric species and analytical functions to correct for instrument artifacts and to characterize measurement uncertainties. Finally, we discuss differences in volume mixing ratios of the martian atmosphere as determined by SAM (Mahaffy et al., 2013) and Viking (Owen et al., 1977; Oyama and Berdahl, 1977) from an analytical perspective. Although the focus of this paper is atmospheric observations, much of the material concerning corrections for instrumental effects also applies to reduction of data acquired with SAM from analysis of solid samples. The Sample Analysis at Mars (SAM) instrument measures the composition of the martian atmosphere. Rigorous calibration of SAM's mass spectrometer was performed with relevant gas mixtures. Calibration included derivation of a new model to correct for electron multiplier effects. Volume mixing ratios for Ar and N2 obtained with SAM differ from those obtained with Viking. Differences between SAM and Viking

  13. Parabolic Trough Collector Cost Update for the System Advisor Model (SAM)

    SciTech Connect

    Kurup, Parthiv; Turchi, Craig S.

    2015-11-01

    This report updates the baseline cost for parabolic trough solar fields in the United States within NREL's System Advisor Model (SAM). SAM, available at no cost at https://sam.nrel.gov/, is a performance and financial model designed to facilitate decision making for people involved in the renewable energy industry. SAM is the primary tool used by NREL and the U.S. Department of Energy (DOE) for estimating the performance and cost of concentrating solar power (CSP) technologies and projects. The study performed a bottom-up build and cost estimate for two state-of-the-art parabolic trough designs -- the SkyTrough and the Ultimate Trough. The SkyTrough analysis estimated the potential installed cost for a solar field of 1500 SCAs as $170/m2 +/- $6/m2. The investigation found that SkyTrough installed costs were sensitive to factors such as raw aluminum alloy cost and production volume. For example, in the case of the SkyTrough, the installed cost would rise to nearly $210/m2 if the aluminum alloy cost was $1.70/lb instead of $1.03/lb. Accordingly, one must be aware of fluctuations in the relevant commodities markets to track system cost over time. The estimated installed cost for the Ultimate Trough was only slightly higher at $178/m2, which includes an assembly facility of $11.6 million amortized over the required production volume. Considering the size and overall cost of a 700 SCA Ultimate Trough solar field, two parallel production lines in a fully covered assembly facility, each with the specific torque box, module and mirror jigs, would be justified for a full CSP plant.

  14. Experience producing simulated events for the DZero experiment on the SAM-Grid

    SciTech Connect

    Garzoglio, G.; Terekhov, I.; Snow, J.; Jain, S.; Nishandar, A.; /Texas U., Arlington

    2004-12-01

    Most of the simulated events for the DZero experiment at Fermilab have been historically produced by the ''remote'' collaborating institutions. One of the principal challenges reported concerns the maintenance of the local software infrastructure, which is generally different from site to site. As the understanding of the distributed computing community over distributively owned and shared resources progresses, the adoption of grid technologies to address the production of Monte Carlo events for high energy physics experiments becomes increasingly interesting. SAM-Grid is a software system developed at Fermilab, which integrates standard grid technologies for job and information management with SAM, the data handling system of the DZero and CDF experiments. During the past few months, this grid system has been tailored for the Monte Carlo production of DZero. Since the initial phase of deployment, this experience has exposed an interesting series of requirements to the SAM-Grid services, the standard middleware, the resources and their management and to the analysis framework of the experiment. As of today, the inefficiency due to the grid infrastructure has been reduced to as little as 1%. In this paper, we present our statistics and the ''lessons learned'' in running large high energy physics applications on a grid infrastructure.

  15. A magnesium-induced triplex pre-organizes the SAM-II riboswitch

    PubMed Central

    Roy, Susmita; Lammert, Heiko; Dayie, T. Kwaku; Sanbonmatsu, Karissa Y.

    2017-01-01

    Our 13C- and 1H-chemical exchange saturation transfer (CEST) experiments previously revealed a dynamic exchange between partially closed and open conformations of the SAM-II riboswitch in the absence of ligand. Here, all-atom structure-based molecular simulations, with the electrostatic effects of Manning counter-ion condensation and explicit magnesium ions are employed to calculate the folding free energy landscape of the SAM-II riboswitch. We use this analysis to predict that magnesium ions remodel the landscape, shifting the equilibrium away from the extended, partially unfolded state towards a compact, pre-organized conformation that resembles the ligand-bound state. Our CEST and SAXS experiments, at different magnesium ion concentrations, quantitatively confirm our simulation results, demonstrating that magnesium ions induce collapse and pre-organization. Agreement between theory and experiment bolsters microscopic interpretation of our simulations, which shows that triplex formation between helix P2b and loop L1 is highly sensitive to magnesium and plays a key role in pre-organization. Pre-organization of the SAM-II riboswitch allows rapid detection of ligand with high selectivity, which is important for biological function. PMID:28248966

  16. Description of ferrocenylalkylthiol SAMs on gold by molecular dynamics simulations.

    PubMed

    Goujon, F; Bonal, C; Limoges, B; Malfreyt, P

    2009-08-18

    Molecular dynamics simulations of mixed monolayers consisting of Fc(CH2)12S-/C10S-Au SAMs are carried out to calculate structural (density profiles, angular distributions, positions of atoms) and energetic properties. The purpose of this paper is to explore the possible inhomogeneity of the neutral ferrocene moieties within the monolayer. Five systems have been studied using different grafting densities for the ferrocenylalkylthiolates. The angular distributions are described in terms of the relative contributions from isolated and clustered ferrocene moieties in the binary SAMs. It is shown that the energetic contributions strongly depend on the state of the ferrocene. The ability of molecular dynamics simulations to enable better understanding the SAM structure is illustrated in this work.

  17. The Study of Active Monitoring in Sweden (SAMS): A randomized study comparing two different follow-up schedules for active surveillance of low-risk prostate cancer

    PubMed Central

    Carlsson, Stefan; Holmberg, Erik; Holmberg, Lars; Johansson, Eva; Josefsson, Andreas; Nilsson, Annika; Nyberg, Maria; Robinsson, David; Sandberg, Jonas; Sandblom, Dag; Stattin, Pär

    2013-01-01

    Objective Only a minority of patients with low-risk prostate cancer needs treatment, but the methods for optimal selection of patients for treatment are not established. This article describes the Study of Active Monitoring in Sweden (SAMS), which aims to improve those methods. Material and methods SAMS is a prospective, multicentre study of active surveillance for low-risk prostate cancer. It consists of a randomized part comparing standard rebiopsy and follow-up with an extensive initial rebiopsy coupled with less intensive follow-up and no further scheduled biopsies (SAMS-FU), as well as an observational part (SAMS-ObsQoL). Quality of life is assessed with questionnaires and compared with patients receiving primary curative treatment. SAMS-FU is planned to randomize 500 patients and SAMS-ObsQoL to include at least 500 patients during 5 years. The primary endpoint is conversion to active treatment. The secondary endpoints include symptoms, distant metastases and mortality. All patients will be followed for 10–15 years. Results Inclusion started in October 2011. In March 2013, 148 patients were included at 13 Swedish urological centres. Conclusions It is hoped that the results of SAMS will contribute to fewer patients with indolent, low-risk prostate cancer receiving unnecessary treatment and more patients on active surveillance who need treatment receiving it when the disease is still curable. The less intensive investigational follow-up in the SAMS-FU trial would reduce the healthcare resources allocated to this large group of patients if it replaced the present standard schedule. PMID:23883427

  18. Integration, Validation, and Application of a PV Snow Coverage Model in SAM

    SciTech Connect

    Ryberg, David; Freeman, Janine

    2015-09-01

    Due to the increasing deployment of PV systems in snowy climates, there is significant interest in a method capable of estimating PV losses resulting from snow coverage that has been verified for a wide variety of system designs and locations. A scattering of independent snow coverage models have been developed over the last 15 years; however, there has been very little effort spent on verifying these models beyond the system design and location on which they were based. Moreover, none of the major PV modeling software products have incorporated any of these models into their workflow. In response to this deficiency, we have integrated the methodology of the snow model developed in the paper by Marion et al. [1] into the National Renewable Energy Laboratory's (NREL) System Advisor Model (SAM). In this work we describe how the snow model is implemented in SAM and discuss our demonstration of the model's effectiveness at reducing error in annual estimations for two PV arrays. Following this, we use this new functionality in conjunction with a long term historical dataset to estimate average snow losses across the United States for a typical PV system design. The open availability of the snow loss estimation capability in SAM to the PV modeling community, coupled with our results of the nation-wide study, will better equip the industry to accurately estimate PV energy production in areas affected by snowfall.

  19. Method of multivariate spectral analysis

    DOEpatents

    Keenan, Michael R.; Kotula, Paul G.

    2004-01-06

    A method of determining the properties of a sample from measured spectral data collected from the sample by performing a multivariate spectral analysis. The method can include: generating a two-dimensional matrix A containing measured spectral data; providing a weighted spectral data matrix D by performing a weighting operation on matrix A; factoring D into the product of two matrices, C and S.sup.T, by performing a constrained alternating least-squares analysis of D=CS.sup.T, where C is a concentration intensity matrix and S is a spectral shapes matrix; unweighting C and S by applying the inverse of the weighting used previously; and determining the properties of the sample by inspecting C and S. This method can be used to analyze X-ray spectral data generated by operating a Scanning Electron Microscope (SEM) with an attached Energy Dispersive Spectrometer (EDS).

  20. Imaging and clinical findings in segmental arterial mediolysis (SAM).

    PubMed

    Alhalabi, Kinan; Menias, Christine; Hines, Robert; Mamoun, Ihsan; Naidu, Sailendra

    2017-02-01

    Segmental arterial mediolysis (SAM) is an uncommon, non-atherosclerotic, non-inflammatory arteriopathy that tends to affect the medium-sized splanchnic branches of the aorta along with renal, carotid, cerebral, and coronary arteries. The clinical presentation ranges from asymptomatic to severe, life-threatening intra-abdominal hemorrhage and shock. SAM overlaps clinically and radiologically with other inflammatory vasculitides. This article describes the pathologic-radiologic correlation, imaging findings, and the management of the disease. Radiologists should be familiar with this disease entity as imaging plays a crucial role in the diagnosis.

  1. Technoeconomic Modeling of Battery Energy Storage in SAM

    SciTech Connect

    DiOrio, Nicholas; Dobos, Aron; Janzou, Steven; Nelson, Austin; Lundstrom, Blake

    2015-09-01

    Detailed comprehensive lead-acid and lithium-ion battery models have been integrated with photovoltaic models in an effort to allow System Advisor Model (SAM) to offer the ability to predict the performance and economic benefit of behind the meter storage. In a system with storage, excess PV energy can be saved until later in the day when PV production has fallen, or until times of peak demand when it is more valuable. Complex dispatch strategies can be developed to leverage storage to reduce energy consumption or power demand based on the utility rate structure. This document describes the details of the battery performance and economic models in SAM.

  2. Method of photon spectral analysis

    DOEpatents

    Gehrke, R.J.; Putnam, M.H.; Killian, E.W.; Helmer, R.G.; Kynaston, R.L.; Goodwin, S.G.; Johnson, L.O.

    1993-04-27

    A spectroscopic method to rapidly measure the presence of plutonium in soils, filters, smears, and glass waste forms by measuring the uranium L-shell x-ray emissions associated with the decay of plutonium. In addition, the technique can simultaneously acquire spectra of samples and automatically analyze them for the amount of americium and [gamma]-ray emitting activation and fission products present. The samples are counted with a large area, thin-window, n-type germanium spectrometer which is equally efficient for the detection of low-energy x-rays (10-2,000 keV), as well as high-energy [gamma] rays (>1 MeV). A 8,192- or 16,384 channel analyzer is used to acquire the entire photon spectrum at one time. A dual-energy, time-tagged pulser, that is injected into the test input of the preamplifier to monitor the energy scale, and detector resolution. The L x-ray portion of each spectrum is analyzed by a linear-least-squares spectral fitting technique. The [gamma]-ray portion of each spectrum is analyzed by a standard Ge [gamma]-ray analysis program. This method can be applied to any analysis involving x- and [gamma]-ray analysis in one spectrum and is especially useful when interferences in the x-ray region can be identified from the [gamma]-ray analysis and accommodated during the x-ray analysis.

  3. Method of photon spectral analysis

    DOEpatents

    Gehrke, Robert J.; Putnam, Marie H.; Killian, E. Wayne; Helmer, Richard G.; Kynaston, Ronnie L.; Goodwin, Scott G.; Johnson, Larry O.

    1993-01-01

    A spectroscopic method to rapidly measure the presence of plutonium in soils, filters, smears, and glass waste forms by measuring the uranium L-shell x-ray emissions associated with the decay of plutonium. In addition, the technique can simultaneously acquire spectra of samples and automatically analyze them for the amount of americium and .gamma.-ray emitting activation and fission products present. The samples are counted with a large area, thin-window, n-type germanium spectrometer which is equally efficient for the detection of low-energy x-rays (10-2000 keV), as well as high-energy .gamma. rays (>1 MeV). A 8192- or 16,384 channel analyzer is used to acquire the entire photon spectrum at one time. A dual-energy, time-tagged pulser, that is injected into the test input of the preamplifier to monitor the energy scale, and detector resolution. The L x-ray portion of each spectrum is analyzed by a linear-least-squares spectral fitting technique. The .gamma.-ray portion of each spectrum is analyzed by a standard Ge .gamma.-ray analysis program. This method can be applied to any analysis involving x- and .gamma.-ray analysis in one spectrum and is especially useful when interferences in the x-ray region can be identified from the .gamma.-ray analysis and accommodated during the x-ray analysis.

  4. First results from the CheMin, DAN and SAM instruments on Mars Science Laboratory

    NASA Astrophysics Data System (ADS)

    Blake, D. F.; Mahaffy, P. R.; Mitrofanov, I.

    2012-12-01

    One of the principal goals of the Mars Science Laboratory rover Curiosity is to identify and characterize the early habitable environments of Mars, as recorded in the stratified rocks and soil of Gale crater. The suite of instruments aboard Curiosity will make measurements useful for determining the presence and lateral/vertical distribution of hydrated phases, the mineralogy and "preservation potential" of sediments and rocks, and the identity and isotopic composition of organic and other carbon containing molecules, should such be present. Three of Curiosity's instruments, DAN ("Dynamic Albedo of Neutrons," a soil hydrogen detector), CheMin ("Chemistry and Mineralogy," a mineralogy instrument) and SAM ("Surface Analysis at Mars," an organic molecule and isotopic analysis instrument) are uniquely suited to this purpose. DAN consists of a pulsed neutron generator and neutron detector that will measure the hydrogen content (i.e., hydrated phases, water ice) in the upper meter of the soil. Both passive and active measurements will be obtained, resulting in a meter-scale resolution transect map of near-surface hydrogen along the path of the rover. These measurements will provide context for the mineralogical and organic measurements of drilled and scooped samples analyzed by CheMin and SAM. CheMin, a powder X-ray Diffraction (pXRD) instrument, will determine the mineralogy of scooped soils and powders obtained from drilled rocks. Hydrated minerals will be identified, along with whole-rock mineralogy for characterizing the environment of formation and preservation potential for organic molecules. SAM consists of a sample handling system, a gas chromatograph, a mass spectrometer, and a tunable laser spectrometer. SAM will accept the same powdered rock and soil samples as CheMin, and will measure and identify organic carbon in these samples as well as evolved inorganic gases such as CO2, CH4, and H2O. Isotopic composition of noble gases and several light elements are

  5. Detecting Complex Organic Compounds Using the SAM Wet Chemistry Experiment on Mars

    NASA Astrophysics Data System (ADS)

    Freissinet, C.; Buch, A.; Glavin, D. P.; Brault, A.; Eigenbrode, J. L.; Kashyap, S.; Martin, M. G.; Miller, K.; Mahaffy, P. R.; Team, M.

    2013-12-01

    The search for organic molecules on Mars can provide important first clues of abiotic chemistry and/or extinct or extant biota on the planet. Gas Chromatography Mass Spectrometry (GC-MS) is currently the most relevant space-compatible analytical tool for the detection of organic compounds. Nevertheless, GC separation is intrinsically restricted to volatile molecules, and many molecules of astrobiological interest are chromatographically refractory or polar. To analyze these organics such as amino acids, nucleobases and carboxylic acids in the Martian regolith, an additional derivatization step is required to transform them into volatile derivatives that are amenable to GC analysis. As part of the Sample Analysis at Mars (SAM) experiment onboard Mars Science Laboratory (MSL) Curiosity rover, a single-step protocol of extraction and chemical derivatization with the silylating reagent N-methyl-N-(tert-butyldimethylsilyl)-trifluoroacetamide (MTBSTFA) has been developed to reach a wide range of astrobiology-relevant refractory organic molecules (Mahaffy et al. 2012; Stalport et al. 2012). Seven cups in the SAM instrument are devoted to MTBSTFA derivatization. However, this chemical reaction adds a protective silyl group in place of each labile hydrogen, which makes the molecule non-identifiable in common mass spectra libraries. Therefore, we have created an extended library of mass spectra of MTBSTFA derivatized compounds of interest, considering their potential occurrence in Mars soils. We then looked specifically for MTBSTFA derivatized compounds using the existing and the newly created library, in various Mars analog soils. To enable a more accurate interpretation of the in situ derivatization GC-MS results that will be obtained by SAM, the lab experiments were performed as close as possible to the SAM flight instrument experimental conditions. Our first derivatization experiments display promising results, the laboratory system permitting an extraction and detection

  6. Multivariate analysis methods for spectroscopic blood analysis

    NASA Astrophysics Data System (ADS)

    Wood, Michael F. G.; Rohani, Arash; Ghazalah, Rashid; Vitkin, I. Alex; Pawluczyk, Romuald

    2012-01-01

    Blood tests are an essential tool in clinical medicine with the ability diagnosis or monitor various diseases and conditions; however, the complexities of these measurements currently restrict them to a laboratory setting. P&P Optica has developed and currently produces patented high performance spectrometers and is developing a spectrometer-based system for rapid reagent-free blood analysis. An important aspect of this analysis is the need to extract the analyte specific information from the measured signal such that the analyte concentrations can be determined. To this end, advanced chemometric methods are currently being investigated and have been tested using simulated spectra. A blood plasma model was used to generate Raman, near infrared, and optical rotatory dispersion spectra with glucose as the target analyte. The potential of combined chemometric techniques, where multiple spectroscopy modalities are used in a single regression model to improve the prediction ability was investigated using unfold partial least squares and multiblock partial least squares. Results show improvement in the predictions of glucose levels using the combined methods and demonstrate potential for multiblock chemometrics in spectroscopic blood analysis.

  7. 77 FR 67813 - Sam Rayburn Dam Project Power Rate

    Federal Register 2010, 2011, 2012, 2013, 2014

    2012-11-14

    ... Southwestern Power Administration Sam Rayburn Dam Project Power Rate AGENCY: Southwestern Power Administration, DOE. ACTION: Notice of Rate Order Approving an Extension of Power Rate on an Interim Basis. SUMMARY..., Assistant Administrator, Southwestern Power Administration, Department of Energy, Williams Center Tower...

  8. The fSAM Model of False Recall

    ERIC Educational Resources Information Center

    Kimball, Daniel R.; Smith, Troy A.; Kahana, Michael J.

    2007-01-01

    The authors report a new theory of false memory building upon existing associative memory models and implemented in fSAM, the first fully specified quantitative model of false recall. Participants frequently intrude unstudied critical words while recalling lists comprising their strongest semantic associates but infrequently produce other…

  9. SAMS Acceleration Measurement on Mir From March to September 1996

    NASA Technical Reports Server (NTRS)

    Moskowitz, Milton E.; Hrovat, Ken; Truong, Duc; Reckart, Timothy

    1997-01-01

    During NASA Increment 2 (March to September 1996), over 15 gigabytes of acceleration data were collected by the Space Acceleration Measurement System (SAMS) onboard the Russian Space Station, Mir. The data were recorded on 55 optical disks and were returned to Earth on STS-79. During this time, SAMS data were collected in the Kristall and Kvant modules, and in the Priroda module to support the following experiments: the Queen's University Experiments in Liquid Diffusion (QUELD), the Technological Evaluation of the MIM (TEM), the Forced Flow Flame Spreading Test (FFFT), and Candle Flames in Microgravity (CFM). This report points out some of the salient features of the microgravity environment to which these experiments were exposed. Also documented are mission events of interest such as the docked phase of STS-76 operations, an extravehicular activity (EVA) to install and deploy solar panels on the Kvant module, a Progress engine burn to raise Mir's altitude, and an on-orbit SAMS calibration procedure. Also included are a description of the Mir module orientations, and the panel notations within the modules. This report presents an overview of the SAMS acceleration measurements recorded by 10 Hz and 100 Hz sensor heads. Variations in the acceleration environment caused by unique activities such as crew exercise and life-support fans are presented. The analyses included herein complement those presented in previous mission summary reports published by the Principal Investigator Microgravity Services (PIMS) group.

  10. Laser Induced Temperature Field on Surfaces: Application to SAM Patterning

    NASA Astrophysics Data System (ADS)

    Shadnam, Mohammad Reza; Amirfazli, Alidad

    2004-03-01

    Laser is used to thermally desorb a self assembeled monolayer (SAM) from a gold substrate. This process is a key step in making patterned surfaces. In many applications making curvilinear features is useful. Heating of a surface by a CW laser along a nonlinear trajectory is considered using Green's functions. Temperature profiles are calculated for heating along circular-arc trajectories of different curvatures. The effect of heating trajectory's radius of curvature and heating spot's velocity (Laser scanning rate) on resulting surface temperature is studied. It is shown that within the range of parameters considered, the induced surface temperature profiles are symmetric. It is also shown that change of heating trajectory's radius of curvature by one order of magnitude at heating velocity of 0.1 mm/s changes the induced surface temperatures by 12 K; this temperature increase will be 36 K at 1 mm/s. The effect of such temperature increases are discussed in terms of laser processing of SAM coated surfaces. For a case of heating along straight line, the kinetics of SAM desorption is coupled with heat diffusion equation to predict the percentage of SAM desorped and determine the feature size. The resulting surface chemical composition profiles are compared with experimental measurements and good agreement is reported.

  11. Astronaut Curtis Brown works with SAMS on Shuttle Atlantis middeck

    NASA Technical Reports Server (NTRS)

    1994-01-01

    On the Space Shuttle Atlantis' mid-deck, astronaut Curtis L. Brown, pilot, works with the Space Acceleration Measurement System (SAMS), which is making its eleventh Shuttle flight. This system supports the Protein Crystal Growth (PCG) experiments onboard by collecting and recording data characterizing the microgravity environment in the Shuttle mid-deck.

  12. Information System through ANIS at CeSAM

    NASA Astrophysics Data System (ADS)

    Moreau, C.; Agneray, F.; Gimenez, S.

    2015-09-01

    ANIS (AstroNomical Information System) is a web generic tool developed at CeSAM to facilitate and standardize the implementation of astronomical data of various kinds through private and/or public dedicated Information Systems. The architecture of ANIS is composed of a database server which contains the project data, a web user interface template which provides high level services (search, extract and display imaging and spectroscopic data using a combination of criteria, an object list, a sql query module or a cone search interfaces), a framework composed of several packages, and a metadata database managed by a web administration entity. The process to implement a new ANIS instance at CeSAM is easy and fast : the scientific project has to submit data or a data secure access, the CeSAM team installs the new instance (web interface template and the metadata database), and the project administrator can configure the instance with the web ANIS-administration entity. Currently, the CeSAM offers through ANIS a web access to VO compliant Information Systems for different projects (HeDaM, HST-COSMOS, CFHTLS-ZPhots, ExoDAT,...).

  13. The Seismic Aftershock Monitoring System (SAMS) for OSI - Experiences from IFE14

    NASA Astrophysics Data System (ADS)

    Gestermann, Nicolai; Sick, Benjamin; Häge, Martin; Blake, Thomas; Labak, Peter; Joswig, Manfred

    2016-04-01

    An on-site inspection (OSI) is the third of four elements of the verification regime of the Comprehensive Nuclear-Test-Ban Treaty (CTBT). The sole purpose of an OSI is to confirm whether a nuclear weapon test explosion or any other nuclear explosion has been carried out in violation of the treaty and to gather any facts which might assist in identifying any possible violator. It thus constitutes the final verification measure under the CTBT if all other available measures are not able to confirm the nature of a suspicious event. The Provisional Technical Secretariat (PTS) carried out the Integrated Field Exercise 2014 (IFE14) in the Dead Sea Area of Jordan from 3 November to 9. December 2014. It was a fictitious OSI whose aim was to test the inspection capabilities in an integrated manner. The technologies allowed during an OSI are listed in the Treaty. The aim of the Seismic Aftershock Monitoring System (SAMS) is to detect and localize aftershocks of low magnitudes of the triggering event or collapses of underground cavities. The locations of these events are expected in the vicinity of a possible previous explosion and help to narrow down the search area within an inspection area (IA) of an OSI. The success of SAMS depends on the main elements, hardware, software, deployment strategy, the search logic and not least the effective use of personnel. All elements of SAMS were tested and improved during the Built-Up Exercises (BUE) which took place in Austria and Hungary. IFE14 provided more realistic climatic and hazardous terrain conditions with limited resources. Significant variations in topography of the IA of IFE14 in the mountainous Dead Sea Area of Jordan led to considerable challenges which were not expected from experiences encountered during BUE. The SAMS uses mini arrays with an aperture of about 100 meters and with a total of 4 elements. The station network deployed during IFE14 and results of the data analysis will be presented. Possible aftershocks of

  14. Evidence for Smectite Clays from MSL SAM Analyses of Mudstone at Yellowknife Bay, Gale Crater, Mars

    NASA Astrophysics Data System (ADS)

    McAdam, A.; Franz, H.; Mahaffy, P. R.; Eigenbrode, J. L.; Stern, J. C.; Brunner, A.; Sutter, B.; Archer, P. D.; Ming, D. W.; Morris, R. V.; Atreya, S. K.; Team, M.

    2013-12-01

    Drilled samples of mudstone from the Sheepbed unit at Yellowknife Bay were analyzed by MSL instruments including the Sample Analysis at Mars (SAM) and Chemistry and Mineralogy (CheMin) instruments in MSL's Analytical Laboratory. CheMin analyses revealed the first in situ X-ray diffraction based evidence of clay minerals on Mars, which are likely trioctahedral smectites (e.g., saponite) and comprise ~20% of the mudstone sample (e.g., Bristow et al., this meeting). SAM analyses, which heated the mudstone samples to 1000oC and monitored volatiles evolved to perform in situ evolved gas analysis mass spectrometry (EGA-MS), resulted in a H2O trace exhibiting a wide evolution at temperatures <500oC, and an evolution peak at higher temperatures near ~750oC. The low temperature H2O evolution has many potential contributors, including adsorbed H2O, smectite interlayer H2O, and structural H2O/OH from bassanite and akaganeite (identified by CheMin) and H2O/OH from amorphous phases in the sample. The high temperature H2O is consistent with the evolution of H2O from the dehydroxylation of the smectite clay mineral. Comparison to EGA-MS data collected under SAM-like conditions on a variety of clay mineral reference materials indicate that a trioctahedral smectite, such as saponite, is most consistent with the high temperature H2O evolution observed. There may also be SAM EGA-MS evidence for a small high temperature H2O evolution from scoop samples from the Yellowknife Bay Rocknest sand shadow bedform. As in the mudstone samples, this evolution may indicate the detection of smectite clays, and the idea that minor clays may be present in Rocknest materials that could be expected to be at least partially derived from local sources is reasonable. But, because smectite clays were not definitively observed in CheMin analyses of Rocknest materials, they must be present at much lower abundances than the ~20% observed in the mudstone samples. This potential detection underscores the

  15. Evidence for Smectite Clays from MSL SAM Analyses of Mudstone at Yellowknife Bay, Gale Crater, Mars

    NASA Technical Reports Server (NTRS)

    McAdam, Amy; Franz, Heather; Mahaffy, Paul R.; Eigenbrode, Jennifer L.; Stern, Jennifer C.; Brunner, Anna; Archer, Paul Douglas; Ming, Douglas W.; Morris, Richard V.; Atreya, Sushil K.

    2013-01-01

    Drilled samples of mudstone from the Sheepbed unit at Yellowknife Bay were analyzed by MSL instruments including the Sample Analysis at Mars (SAM) and Chemistry and Mineralogy (CheMin) instruments in MSL's Analytical Laboratory. CheMin analyses revealed the first in situ X-ray diffraction based evidence of clay minerals on Mars, which are likely trioctahedral smectites (e.g., saponite) and comprise approx 20% of the mudstone sample (e.g., Bristow et al., this meeting). SAM analyses, which heated the mudstone samples to 1000 C and monitored volatiles evolved to perform in situ evolved gas analysis mass spectrometry (EGA-MS), resulted in a H2O trace exhibiting a wide evolution at temperatures < 500 C, and an evolution peak at higher temperatures near approx 750 C. The low temperature H2O evolution has many potential contributors, including adsorbed H2O, smectite interlayer H2O, and structural H2O/OH from bassanite and akaganeite (identified by CheMin) and H2O/OH from amorphous phases in the sample. The high temperature H2O is consistent with the evolution of H2O from the dehydroxylation of the smectite clay mineral. Comparison to EGA-MS data collected under SAM-like conditions on a variety of clay mineral reference materials indicate that a trioctahedral smectite, such as saponite, is most consistent with the high temperature H2O evolution observed. There may also be SAM EGA-MS evidence for a small high temperature H2O evolution from scoop samples from the Yellowknife Bay Rocknest sand shadow bedform. As in the mudstone samples, this evolution may indicate the detection of smectite clays, and the idea that minor clays may be present in Rocknest materials that could be expected to be at least partially derived from local sources is reasonable. But, because smectite clays were not definitively observed in CheMin analyses of Rocknest materials, they must be present at much lower abundances than the approx 20% observed in the mudstone samples. This potential detection

  16. EFFECTS OF POLYCYCLIC AROMATIC HYDROCARBON OF SAM-COATED ELECTRODES USING FERRYICYANIDE AS THE REDOX INDICATOR

    EPA Science Inventory

    Electrochemical responses on self-assembled monolayer (SAM)-coated polycrystalline gold electrodes were investigated using cyclic voltammetry and square wave voltammetry with a three electrode system. Experimental results show potential in the application of pyrene-imprinted SAM...

  17. Selective Plasma Deposition of Fluorocarbon Films on SAMs

    NASA Technical Reports Server (NTRS)

    Crain, Mark M., III; Walsh, Kevin M.; Cohn, Robert W.

    2006-01-01

    A dry plasma process has been demonstrated to be useful for the selective modification of self-assembled monolayers (SAMs) of alkanethiolates. These SAMs are used, during the fabrication of semiconductor electronic devices, as etch masks on gold layers that are destined to be patterned and incorporated into the devices. The selective modification involves the formation of fluorocarbon films that render the SAMs more effective in protecting the masked areas of the gold against etching by a potassium iodide (KI) solution. This modification can be utilized, not only in the fabrication of single electronic devices but also in the fabrication of integrated circuits, microelectromechanical systems, and circuit boards. In the steps that precede the dry plasma process, a silicon mold in the desired pattern is fabricated by standard photolithographic techniques. A stamp is then made by casting polydimethylsiloxane (commonly known as silicone rubber) in the mold. The stamp is coated with an alkanethiol solution, then the stamp is pressed on the gold layer of a device to be fabricated in order to deposit the alkanethiol to form an alkanethiolate SAM in the desired pattern (see figure). Next, the workpiece is exposed to a radio-frequency plasma generated from a mixture of CF4 and H2 gases. After this plasma treatment, the SAM is found to be modified, while the exposed areas of gold remain unchanged. This dry plasma process offers the potential for forming masks superior to those formed in a prior wet etching process. Among the advantages over the wet etching process are greater selectivity, fewer pin holes in the masks, and less nonuniformity of the masks. The fluorocarbon films formed in this way may also be useful as intermediate layers for subsequent fabrication steps and as dielectric layers to be incorporated into finished products.

  18. Flow methods in chiral analysis.

    PubMed

    Trojanowicz, Marek; Kaniewska, Marzena

    2013-11-01

    The methods used for the separation and analytical determination of individual isomers are based on interactions with substances exhibiting optical activity. The currently used methods for the analysis of optically active compounds are primarily high-performance separation methods, such as gas and liquid chromatography using chiral stationary phases or chiral selectors in the mobile phase, and highly efficient electromigration techniques, such as capillary electrophoresis using chiral selectors. Chemical sensors and biosensors may also be designed for the analysis of optically active compounds. As enantiomers of the same compound are characterised by almost identical physico-chemical properties, their differentiation/separation in one-step unit operation in steady-state or dynamic flow systems requires the use of highly effective chiral selectors. Examples of such determinations are reviewed in this paper, based on 105 references. The greatest successes for isomer determination involve immunochemical interactions, enantioselectivity of the enzymatic biocatalytic processes, and interactions with ion-channel receptors or molecularly imprinted polymers. Conducting such processes under dynamic flow conditions may significantly enhance the differences in the kinetics of such processes, leading to greater differences in the signals recorded for enantiomers. Such determinations in flow conditions are effectively performed using surface-plasmon resonance and piezoelectric detections, as well as using common spectroscopic and electrochemical detections.

  19. Isothiourea-Mediated Organocatalytic Michael Addition-Lactonization on a Surface: Modification of SAMs on Silicon Oxide Substrates.

    PubMed

    Chisholm, Ross; Parkin, John D; Smith, Andrew D; Hähner, Georg

    2016-04-05

    Tailoring the functionality of self-assembled monolayers (SAMs) can be achieved either by depositing prefunctionalized molecules with the appropriate terminal groups or by chemical modification of an existing SAM in situ. The latter approach is particularly advantageous to allow for diversity of surface functionalization from a single SAM and if the incorporation of bulky groups is desired. In the present study an organocatalytic isothiourea-mediated Michael addition-lactonization process analogous to a previously reported study in solution is presented. An achiral isothiourea, 3,4-dihydro-2H-pyrimido[2,1-b]benzothiazole (DHPB), promotes the intermolecular Michael addition-lactonization of a trifluoromethylenone terminated SAM and a variety of arylacetic acids affording C(6)-trifluoromethyldihydropyranones tethered to the surface. X-ray photoelectron spectroscopy, atomic force microscopy, contact angle, and ellipsometry analysis were conducted to confirm the presence of the substituted dihydropyranone. A model study of this approach was also performed in solution to probe the reaction diastereoselectivity as it cannot be measured directly on the surface.

  20. Voltametric analysis apparatus and method

    DOEpatents

    Almon, Amy C.

    1993-01-01

    An apparatus and method for electrochemical analysis of elements in solution. An auxiliary electrode 14, a reference electrode 18, and five working electrodes 20, 22, 26, 28, and 30 are positioned in a container 12 containing a sample solution 34. The working electrodes are spaced apart evenly from each other and auxiliary electrode 14 to minimize any inter-electrode interference that may occur during analysis. An electric potential is applied between auxiliary electrode 14 and each of the working electrodes 20, 22, 26, 28, and 30. Simultaneous measurements taken of the current flow through each of the working electrodes for each given potential in a potential range are used for identifying chemical elements present in sample solution 34 and their respective concentrations. Multiple working electrodes enable a more positive identification to be made by providing unique data characteristic of chemical elements present in the sample solution.

  1. Voltametric analysis apparatus and method

    SciTech Connect

    Almon, A.C.

    1991-12-31

    An apparatus and method are disclosed for electrochemical analysis of elements in solution. An auxiliary electrode a reference electrode and five working electrodes are positioned in a container containing a sample solution. The working electrodes are spaced apart evenly from each other and auxiliary electrode to minimize any inter-electrode interference that may occur during analysis. An electric potential is applied between auxiliary electrode and each of the working electrodes. Simultaneous measurements taken of the current flow through each of the working electrodes for each given potential in a potential range are used for identifying chemical elements present in sample solution and their respective concentrations. Multiple working electrodes enable a more positive identification to be made by providing unique data characteristic of chemical elements present in the sample solution.

  2. Voltammetric analysis apparatus and method

    DOEpatents

    Almon, A.C.

    1993-06-08

    An apparatus and method is described for electrochemical analysis of elements in solution. An auxiliary electrode, a reference electrode, and five working electrodes are positioned in a container containing a sample solution. The working electrodes are spaced apart evenly from each other and the auxiliary electrode to minimize any inter-electrode interference that may occur during analysis. An electric potential is applied between the auxiliary electrode and each of the working electrodes. Simultaneous measurements taken of the current flow through each of the working electrodes for each given potential in a potential range are used for identifying chemical elements present in the sample solution and their respective concentrations. Multiple working electrodes enable a more positive identification to be made by providing unique data characteristic of chemical elements present in the sample solution.

  3. Influence of Oxychlorine Phases During the Pyrolysis of Organic Molecules: Implications for the Quest of Organics on Mars with the SAM Experiment Onboard the Curiosity Rover

    NASA Technical Reports Server (NTRS)

    Millan, M.; Szopa, C.; Buch, A.; Belmahdi, I.; Glavin, D. P.; Freissinet, C.; Eigenbrode, J. L.; Archer, P. D., Jr,; Sutter, B.; Mahaffy, P.

    2017-01-01

    One among the main objectives of the Sample Analysis at Mars (SAM) experiment is the in situ molecular analysis of gases evolving from solid samples heated up to approximately 850 degrees Centigrade, and collected by Curiosity on Mars surface/sub-surface in Gale crater. With this aim, SAM uses a gas-chromatograph coupled to a quadrupole mass spectrometer (GC-QMS) devoted to separate, detect and identify both volatile inorganic and organic compounds. SAM detected chlorinated organic molecules produced in evolved gas analysis (EGA) experiments. Several of these were also detected by the Viking experiments in 1976. SAM also detected oxychlorine compounds that were present at the Phoenix landing site. The oxychlorines may be prevelant over much of the martian surface. The C1 to C3 aliphatic chlorohydrocarbons (chloromethane and di- and trichloromethane) detected by SAM were attributed to reaction products occurring between the oxychlorines phases and the organic compounds coming from SAM instrument background. But SAM also showed the presence of a large excess of chlorobenzene and C2 to C4 dichloroalkanes among the volatile species released by the Cumberland sample of the Sheepbed mudstone. For the first time in the history of the Mars exploration, this proved the presence of Mars indigenous organic material at the Mars' surface. However, the identification of the precursor organic compounds of these chlorohydrocarbons is difficult due to the complexity of the reactions occurring during the sample pyrolysis. Laboratory pyrolysis experiments have demonstrated that oxychlorines phases such as perchlorates and chlorates, decomposed into dioxygen and volatile chlorine bearing molecules (HCl and/or Cl2) during the pyrolysis. These chemical species can then react with the organic molecules present in the martian solid samples through oxidation, chlorination and oxychlorination processes.

  4. Genome Mining for Radical SAM Protein Determinants Reveals Multiple Sactibiotic-Like Gene Clusters

    PubMed Central

    Murphy, Kiera; O'Sullivan, Orla; Rea, Mary C.; Cotter, Paul D.; Ross, R. Paul; Hill, Colin

    2011-01-01

    Thuricin CD is a two-component bacteriocin produced by Bacillus thuringiensis that kills a wide range of clinically significant Clostridium difficile. This bacteriocin has recently been characterized and consists of two distinct peptides, Trnβ and Trnα, which both possess 3 intrapeptide sulphur to α-carbon bridges and act synergistically. Indeed, thuricin CD and subtilosin A are the only antimicrobials known to possess these unusual structures and are known as the sactibiotics (sulplur to alpha carbon-containing antibiotics). Analysis of the thuricin CD-associated gene cluster revealed the presence of genes encoding two highly unusual SAM proteins (TrnC and TrnD) which are proposed to be responsible for these unusual post-translational modifications. On the basis of the frequently high conservation among enzymes responsible for the post-translational modification of specific antimicrobials, we performed an in silico screen for novel thuricin CD–like gene clusters using the TrnC and TrnD radical SAM proteins as driver sequences to perform an initial homology search against the complete non-redundant database. Fifteen novel thuricin CD–like gene clusters were identified, based on the presence of TrnC and TrnD homologues in the context of neighbouring genes encoding potential bacteriocin structural peptides. Moreover, metagenomic analysis revealed that TrnC or TrnD homologs are present in a variety of metagenomic environments, suggesting a widespread distribution of thuricin-like operons in a variety of environments. In-silico analysis of radical SAM proteins is sufficient to identify novel putative sactibiotic clusters. PMID:21760885

  5. PROPOSED STANDARDIZED ASSESSMENT METHODS (SAMS) FOR ELECTROFISHING LARGE RIVERS

    EPA Science Inventory

    The effects of electrofishing design and sampling distance were studied at 49 sites across four boatable rivers ranging in drainage area from 13,947 to 23,041 km2 in the Ohio River basin. Two general types of sites were sampled: Run-of-the-River (Free-flowing sites or with smal...

  6. Forest Classification Accuracy as Influenced by Multispectral Scanner Spatial Resolution. [Sam Houston National Forest, Texas

    NASA Technical Reports Server (NTRS)

    Nalepka, R. F. (Principal Investigator); Sadowski, F. E.; Sarno, J. E.

    1976-01-01

    The author has identified the following significant results. A supervised classification within two separate ground areas of the Sam Houston National Forest was carried out for two sq meters spatial resolution MSS data. Data were progressively coarsened to simulate five additional cases of spatial resolution ranging up to 64 sq meters. Similar processing and analysis of all spatial resolutions enabled evaluations of the effect of spatial resolution on classification accuracy for various levels of detail and the effects on area proportion estimation for very general forest features. For very coarse resolutions, a subset of spectral channels which simulated the proposed thematic mapper channels was used to study classification accuracy.

  7. Flood Mitigation Planning Using HEC-SAM.

    DTIC Science & Technology

    1980-06-01

    the HEC who contributed substantially include R. Pat Webb--responsible for most of the developmental work and day-to-day servicing, Shelle Barkin --data...23 pages. #48 Direct Runoff Hydroqraph Parameters Versus Urbanization, David L. Gundlach, September 1976, 10 pages. #49 Experience of HEC in...Sedimentation, David T. Williams, October 1977, 39 pages. #51 Design of Flood Control Improvements by Systems Analysis: A Case Study, Howard 0. Reese, Arnold

  8. Aircraft accidents : method of analysis

    NASA Technical Reports Server (NTRS)

    1929-01-01

    This report on a method of analysis of aircraft accidents has been prepared by a special committee on the nomenclature, subdivision, and classification of aircraft accidents organized by the National Advisory Committee for Aeronautics in response to a request dated February 18, 1928, from the Air Coordination Committee consisting of the Assistant Secretaries for Aeronautics in the Departments of War, Navy, and Commerce. The work was undertaken in recognition of the difficulty of drawing correct conclusions from efforts to analyze and compare reports of aircraft accidents prepared by different organizations using different classifications and definitions. The air coordination committee's request was made "in order that practices used may henceforth conform to a standard and be universally comparable." the purpose of the special committee therefore was to prepare a basis for the classification and comparison of aircraft accidents, both civil and military. (author)

  9. Flow analysis system and method

    NASA Technical Reports Server (NTRS)

    Hill, Wayne S. (Inventor); Barck, Bruce N. (Inventor)

    1998-01-01

    A non-invasive flow analysis system and method wherein a sensor, such as an acoustic sensor, is coupled to a conduit for transmitting a signal which varies depending on the characteristics of the flow in the conduit. The signal is amplified and there is a filter, responsive to the sensor signal, and tuned to pass a narrow band of frequencies proximate the resonant frequency of the sensor. A demodulator generates an amplitude envelope of the filtered signal and a number of flow indicator quantities are calculated based on variations in amplitude of the amplitude envelope. A neural network, or its equivalent, is then used to determine the flow rate of the flow in the conduit based on the flow indicator quantities.

  10. An ADC for the SAM on the SOAR Telescope

    NASA Astrophysics Data System (ADS)

    Tighe, Roberto; Tokovinin, Andrei; Schurter, Patricio; Martínez, Manuel; Cantarutti, Rolando

    2016-08-01

    SAM (Soar Adaptive-optics Module), the SOAR (Southern Observatory for Astrophysical Research) GLAO facility is in service since 2011, with a UV, 355nm Laser Guide Star (LGS). The atmospheric wavefront error is therefore measured at 355nm and the star images are corrected in the visible range (BVRI bands). An ADC is required for High Resolution imaging at low telescope elevation, especially at shorter wavelengths of the visible spectrum. The ADC is based on 80mm diameter rotating prisms. This compact unit, fully automated, can be inserted or removed from the tightly constrained SAM collimated beam space-envelope, it adjusts to the parallactic angle and corrects the atmospheric dispersion. Here we present the optical and opto-mechanical design, the control design, the operational strategy and performance results obtained from extensive use in on-sky HR Speckle Imaging.

  11. Hybrid methods for rotordynamic analysis

    NASA Technical Reports Server (NTRS)

    Noah, Sherif T.

    1986-01-01

    Effective procedures are presented for the response analysis of the Space Shuttle Main Engine turbopumps under transient loading conditions. Of particular concern is the determination of the nonlinear response of the systems to rotor imbalance in presence of bearing clearances. The proposed procedures take advantage of the nonlinearities involved being localized at only a few rotor/housing coupling joints. The methods include those based on integral formulations for the incremental solutions involving the transition matrices of the rotor and housing. Alternatively, a convolutional representation of the housing displacements at the coupling points is proposed which would allow performing the transient analysis on a reduced model of the housing. The integral approach is applied to small dynamical models to demonstrate the efficiency of the approach. For purposes of assessing the numerical integration results for the nonlinear rotor/housing systems, a numerical harmonic balance procedure is developed to enable determining all possible harmonic, subharmonic, and nonperiodic solutions of the systems. A brief account of the Fourier approach is presented as applied to a two degree of freedon rotor-support system.

  12. Computational methods for global/local analysis

    NASA Technical Reports Server (NTRS)

    Ransom, Jonathan B.; Mccleary, Susan L.; Aminpour, Mohammad A.; Knight, Norman F., Jr.

    1992-01-01

    Computational methods for global/local analysis of structures which include both uncoupled and coupled methods are described. In addition, global/local analysis methodology for automatic refinement of incompatible global and local finite element models is developed. Representative structural analysis problems are presented to demonstrate the global/local analysis methods.

  13. Spill Assessment Model (SAM) Procedure for Manual Field Calculations.

    DTIC Science & Technology

    1980-04-01

    SPECIFICALLY, THE PART OF SAM UTILIZED AS THE BASIS FOR THE FIELD CALCULATIONS ADDRESSES ONLY INSTANTANEOUS POINT SOURCE DISCHARGES INTO A FLOWING RIVER. FOR...instantaneous point source discharges into a flowing river. For field use, the primary requirement is to assess the maximum concentrations which may result...different classes of chemicals, reference sources such as the Chemical Hazard Response Information ,’stem (CHRIS) of the U.S. Coast Guard should be

  14. Technical Manual for the SAM Biomass Power Generation Model

    SciTech Connect

    Jorgenson, J.; Gilman, P.; Dobos, A.

    2011-09-01

    This technical manual provides context for the implementation of the biomass electric power generation performance model in the National Renewable Energy Laboratory's (NREL's) System Advisor Model (SAM). Additionally, the report details the engineering and scientific principles behind the underlying calculations in the model. The framework established in this manual is designed to give users a complete understanding of behind-the-scenes calculations and the results generated.

  15. The ALICE Glance Shift Accounting Management System (SAMS)

    NASA Astrophysics Data System (ADS)

    Martins Silva, H.; Abreu Da Silva, I.; Ronchetti, F.; Telesca, A.; Maidantchik, C.

    2015-12-01

    ALICE (A Large Ion Collider Experiment) is an experiment at the CERN LHC (Large Hadron Collider) studying the physics of strongly interacting matter and the quark-gluon plasma. The experiment operation requires a 24 hours a day and 7 days a week shift crew at the experimental site, composed by the ALICE collaboration members. Shift duties are calculated for each institute according to their correlated members. In order to ensure the full coverage of the experiment operation as well as its good quality, the ALICE Shift Accounting Management System (SAMS) is used to manage the shift bookings as well as the needed training. ALICE SAMS is the result of a joint effort between the Federal University of Rio de Janeiro (UFRJ) and the ALICE Collaboration. The Glance technology, developed by the UFRJ and the ATLAS experiment, sits at the basis of the system as an intermediate layer isolating the particularities of the databases. In this paper, we describe the ALICE SAMS development process and functionalities. The database has been modelled according to the collaboration needs and is fully integrated with the ALICE Collaboration repository to access members information and respectively roles and activities. Run, period and training coordinators can manage their subsystem operation and ensure an efficient personnel management. Members of the ALICE collaboration can book shifts and on-call according to pre-defined rights. ALICE SAMS features a user profile containing all the statistics and user contact information as well as the Institutes profile. Both the user and institute profiles are public (within the scope of the collaboration) and show the credit balance in real time. A shift calendar allows the Run Coordinator to plan data taking periods in terms of which subsystems shifts are enabled or disabled and on-call responsible people and slots. An overview display presents the shift crew present in the control room and allows the Run Coordination team to confirm the presence

  16. Mercury astronauts at the Sam Houston Colosseum, Houston, Texas

    NASA Technical Reports Server (NTRS)

    1962-01-01

    The original seven Mercury astronauts, each wearing new cowboy hats and a badge in the shape of a star, are pictured on stage at the Sam Houston Colosseum. A large crowd was on hand to welcome them to Houston, Texas. Left to right are astronauts M. Scott Carpenter, L. Gordon Cooper Jr., John H. Glenn Jr., Virgil I. Grissom, Walter M. Schirra Jr., Alan B. Shepard Jr., and Donald K. Slayton. Sen. John Tower (R.-Texas) is seen in far right background.

  17. Reliability and cost analysis methods

    NASA Technical Reports Server (NTRS)

    Suich, Ronald C.

    1991-01-01

    In the design phase of a system, how does a design engineer or manager choose between a subsystem with .990 reliability and a more costly subsystem with .995 reliability? When is the increased cost justified? High reliability is not necessarily an end in itself but may be desirable in order to reduce the expected cost due to subsystem failure. However, this may not be the wisest use of funds since the expected cost due to subsystem failure is not the only cost involved. The subsystem itself may be very costly. We should not consider either the cost of the subsystem or the expected cost due to subsystem failure separately but should minimize the total of the two costs, i.e., the total of the cost of the subsystem plus the expected cost due to subsystem failure. This final report discusses the Combined Analysis of Reliability, Redundancy, and Cost (CARRAC) methods which were developed under Grant Number NAG 3-1100 from the NASA Lewis Research Center. CARRAC methods and a CARRAC computer program employ five models which can be used to cover a wide range of problems. The models contain an option which can include repair of failed modules.

  18. Analysis Methods of Magnesium Chips

    NASA Astrophysics Data System (ADS)

    Ohmann, Sven; Ditze, André; Scharf, Christiane

    2015-11-01

    The quality of recycled magnesium from chips depends strongly on their exposure to inorganic and organic impurities that are added during the production processes. Different kinds of magnesium chips from these processes were analyzed by several methods. In addition, the accuracy and effectiveness of the methods are discussed. The results show that the chips belong either to the AZ91, AZ31, AM50/60, or AJ62 alloy. Some kinds of chips show deviations from the above-mentioned normations. Different impurities result mainly from transition metals and lime. The water and oil content does not exceed 25%, and the chip size is not more than 4 mm in the diameter. The sieve analysis shows good results for oily and wet chips. The determination of oil and water shows better results for the application of a Soxhlet compared with the addition of lime and vacuum distillation. The most accurate values for the determination of water and oil are obtained by drying at 110°C (for water) and washing with acetone (for oil) by hand.

  19. CE-SAM: a conversational interface for ISR mission support

    NASA Astrophysics Data System (ADS)

    Pizzocaro, Diego; Parizas, Christos; Preece, Alun; Braines, Dave; Mott, David; Bakdash, Jonathan Z.

    2013-05-01

    There is considerable interest in natural language conversational interfaces. These allow for complex user interactions with systems, such as fulfilling information requirements in dynamic environments, without requiring extensive training or a technical background (e.g. in formal query languages or schemas). To leverage the advantages of conversational interactions we propose CE-SAM (Controlled English Sensor Assignment to Missions), a system that guides users through refining and satisfying their information needs in the context of Intelligence, Surveillance, and Reconnaissance (ISR) operations. The rapidly-increasing availability of sensing assets and other information sources poses substantial challenges to effective ISR resource management. In a coalition context, the problem is even more complex, because assets may be "owned" by different partners. We show how CE-SAM allows a user to refine and relate their ISR information needs to pre-existing concepts in an ISR knowledge base, via conversational interaction implemented on a tablet device. The knowledge base is represented using Controlled English (CE) - a form of controlled natural language that is both human-readable and machine processable (i.e. can be used to implement automated reasoning). Users interact with the CE-SAM conversational interface using natural language, which the system converts to CE for feeding-back to the user for confirmation (e.g. to reduce misunderstanding). We show that this process not only allows users to access the assets that can support their mission needs, but also assists them in extending the CE knowledge base with new concepts.

  20. Sam68: a new STAR in the male fertility firmament.

    PubMed

    Sette, Claudio; Messina, Valeria; Paronetto, Maria Paola

    2010-01-01

    Male infertility accounts for approximately 50% of the cases of sterile human couples, and in many instances the genetic or molecular defects involved remain unknown. Studies conducted in animal models have elucidated the key role played by RNA-binding proteins and by the posttranscriptional regulation of gene expression during spermatogenesis. Ablation of proteins involved in each of the steps required for the processing and the utilization of messenger RNAs impairs the production of fertile spermatozoa. Recent evidence indicates that the RNA-binding protein Sam68 is absolutely required for the correct progression of spermatogenesis and for male fertility in the mouse. Sam68 belongs to the evolutionary conserved signal transduction and activation of RNA (STAR) family of RNA-binding proteins. The members of this family have been demonstrated to play crucial roles in cell differentiation and development, including male and female gametogenesis. In this review we will summarize the observations gathered on the functions of STAR proteins in different organisms, with particular emphasis on the role of Sam68 in male fertility.

  1. Mechanistic Enzymology of the Radical SAM Enzyme DesII.

    PubMed

    Ruszczycky, Mark W; Liu, Hung-Wen

    2015-04-01

    DesII is a member of the radical SAM family of enzymes that catalyzes radical-mediated transformations of TDP-4-amino-4,6-didexoy-D-glucose as well as other sugar nucleotide diphosphates. Like nearly all radical SAM enzymes, the reactions begin with the reductive homolysis of SAM to produce a 5'-deoxyadenosyl radical which is followed by regiospecific hydrogen atom abstraction from the substrate. What happens next, however, depends on the nature of the substrate radical so produced. In the case of the biosynthetically relevant substrate, a radical-mediated deamination ensues; however, when this amino group is replaced with a hydroxyl, one instead observes dehydrogenation. The factors that govern the fate of the initially generated substrate radical as well as the mechanistic details underlying these transformations have been a key focus of research into the chemistry of DesII. This review will discuss recent discoveries pertaining to the enzymology of DesII, how it may relate to understanding other radical-mediated lyases and dehydrogenases and the working hypotheses currently being investigated regarding the mechanism of DesII catalysis.

  2. SAMS Acceleration Measurements on Mir (NASA Increment 4)

    NASA Technical Reports Server (NTRS)

    DeLombard, Richard

    1998-01-01

    During NASA Increment 4 (January to May 1997), about 5 gigabytes of acceleration data were collected by the Space Acceleration Measurements System (SAMS) onboard the Russian Space Station, Mir. The data were recorded on 28 optical disks which were returned to Earth on STS-84. During this increment, SAMS data were collected in the Priroda module to support the Mir Structural Dynamics Experiment (MiSDE), the Binary Colloidal Alloy Tests (BCAT), Angular Liquid Bridge (ALB), Candle Flames in Microgravity (CFM), Diffusion Controlled Apparatus Module (DCAM), Enhanced Dynamic Load Sensors (EDLS), Forced Flow Flame Spreading Test (FFFr), Liquid Metal Diffusion (LMD), Protein Crystal Growth in Dewar (PCG/Dewar), Queen's University Experiments in Liquid Diffusion (QUELD), and Technical Evaluation of MIM (TEM). This report points out some of the salient features of the microgravity environment to which these experiments were exposed. Also documented are mission events of interest such as the docked phase of STS-84 operations, a Progress engine bum, Soyuz vehicle docking and undocking, and Progress vehicle docking. This report presents an overview of the SAMS acceleration measurements recorded by 10 Hz and 100 Hz sensor heads. The analyses included herein complement those presented in previous summary reports prepared by the Principal Investigator Microgravity Services (PIMS) group.

  3. Insights into the structure, function and evolution of the radical-SAM 23S rRNA methyltransferase Cfr that confers antibiotic resistance in bacteria

    PubMed Central

    Kaminska, Katarzyna H.; Purta, Elzbieta; Hansen, Lykke H.; Bujnicki, Janusz M.; Vester, Birte; Long, Katherine S.

    2010-01-01

    The Cfr methyltransferase confers combined resistance to five classes of antibiotics that bind to the peptidyl tranferase center of bacterial ribosomes by catalyzing methylation of the C-8 position of 23S rRNA nucleotide A2503. The same nucleotide is targeted by the housekeeping methyltransferase RlmN that methylates the C-2 position. Database searches with the Cfr sequence have revealed a large group of closely related sequences from all domains of life that contain the conserved CX3CX2C motif characteristic of radical S-adenosyl-l-methionine (SAM) enzymes. Phylogenetic analysis of the Cfr/RlmN family suggests that the RlmN subfamily is likely the ancestral form, whereas the Cfr subfamily arose via duplication and horizontal gene transfer. A structural model of Cfr has been calculated and used as a guide for alanine mutagenesis studies that corroborate the model-based predictions of a 4Fe–4S cluster, a SAM molecule coordinated to the iron–sulfur cluster (SAM1) and a SAM molecule that is the putative methyl group donor (SAM2). All mutations at predicted functional sites affect Cfr activity significantly as assayed by antibiotic susceptibility testing and primer extension analysis. The investigation has identified essential amino acids and Cfr variants with altered reaction mechanisms and represents a first step towards understanding the structural basis of Cfr activity. PMID:20007606

  4. Wet Chemistry on SAM: How it Helps to Detect Organics on Mars

    NASA Astrophysics Data System (ADS)

    Buch, Arnaud; Freissinet, Caroline; Szopa, Cyril; Glavin, Danny; Coll, Patrice; Cabane, Michel; Eigenbrode, Jen; Navarro-Gonzalez, Rafael; Stern, Jen; Coscia, David; Teinturier, Samuel; Dworkin, Jason; Mahaffy, Paul; MSL Science Team

    2013-04-01

    For the first time in the history of space exploration, a mission of interest to astrobiology could be able to analyze refractory organic compounds in the soil of Mars with wet chemistry. This analytical technique modifies organic components in such a way that improves their detection, either by releasing the compounds from sample matrices, or by changing the chemical structure to be amenable to analytical conditions. The latter effect is particularly important when polar compounds are present. Sample Analysis at Mars (SAM), on the Curiosity rover of the Mars Science Laboratory mission, onboards two wet chemistry experiments: derivatization [1-2] and thermochemolysis [3-4]. Here we report on the nature of the MTBSTFA derivatization experiment in SAM, the detection of MTBSTFA in the first SAM analyzes, and the implications of this detection. Chemical derivatization of polar molecular compounds is achieved by the MTBSTFA (N-Methyl-N-tert-butyldimethylsilyltrifluoroacetamide) / DMF (Dimethylformamide) silylation reaction in order to transform refractory polar compounds into a more volatile form that can be analyzed and detected by GCMS. The first samples of Martian soil (Rocknest, Gale crater) have been analyzed by evolved gas analysis (EGA) and via GC using thermal conductivity (TCD) and MS detection. The samples have been heated up to approximately 840°C with a heating rate of 35°C/min under He flow. The evolved gas was analyzed directly by the QMS in EGA mode. For GC analyses, the majority of the gas released was trapped on a hydrocarbon trap (silica beads, Tenax TA, Carbosieve G) over a specific temperature range. Trapped volatiles were then released by heating the trap to ~300 °C and sent to the GC under He flow. The first results obtained when running an analysis with an empty cup (no solid sample) showed the presence of MTBSTFA in the system. MTBSTFA was first detected in the EGA-QMS analysis blank then by GC-TCD-QMS analysis. This means that MTBSTFA is part

  5. Status Report on NEAMS System Analysis Module Development

    SciTech Connect

    Hu, R.; Fanning, T. H.; Sumner, T.; Yu, Y.

    2015-12-01

    Under the Reactor Product Line (RPL) of DOE-NE’s Nuclear Energy Advanced Modeling and Simulation (NEAMS) program, an advanced SFR System Analysis Module (SAM) is being developed at Argonne National Laboratory. The goal of the SAM development is to provide fast-running, improved-fidelity, whole-plant transient analyses capabilities. SAM utilizes an object-oriented application framework MOOSE), and its underlying meshing and finite-element library libMesh, as well as linear and non-linear solvers PETSc, to leverage modern advanced software environments and numerical methods. It also incorporates advances in physical and empirical models and seeks closure models based on information from high-fidelity simulations and experiments. This report provides an update on the SAM development, and summarizes the activities performed in FY15 and the first quarter of FY16. The tasks include: (1) implement the support of 2nd-order finite elements in SAM components for improved accuracy and computational efficiency; (2) improve the conjugate heat transfer modeling and develop pseudo 3-D full-core reactor heat transfer capabilities; (3) perform verification and validation tests as well as demonstration simulations; (4) develop the coupling requirements for SAS4A/SASSYS-1 and SAM integration.

  6. Reactions Involving Calcium and Magnesium Sulfates as Potential Sources of Sulfur Dioxide During MSL SAM Evolved Gas Analyses

    NASA Technical Reports Server (NTRS)

    McAdam, A. C.; Knudson, C. A.; Sutter, B.; Franz, H. B.; Archer, P. D., Jr.; Eigenbrode, J. L.; Ming, D. W.; Morris, R. V.; Hurowitz, J. A.; Mahaffy, P. R.; Navarro-Gonzalez, R.

    2016-01-01

    The Sample Analysis at Mars (SAM) and Chemistry and Mineralogy (CheMin) instruments on the Mars Science Laboratory (MSL) have analyzed several subsamples of <150 micron fines from ten sites at Gale Crater. Three were in Yellowknife Bay: the Rocknest aeolian bedform (RN) and drilled Sheepbed mudstone from sites John Klein (JK) and Cumberland (CB). One was drilled from the Windjana (WJ) site on a sandstone of the Kimberly formation. Four were drilled from sites Confidence Hills (CH), Mojave (MJ), Telegraph Peak (TP) and Buckskin (BK) of the Murray Formation at the base of Mt. Sharp. Two were drilled from sandstones of the Stimson formation targeting relatively unaltered (Big Sky, BY) and then altered (Greenhorn, GH) material associated with a light colored fracture zone. CheMin analyses provided quantitative sample mineralogy. SAM's evolved gas analysis mass spectrometry (EGA-MS) detected H2O, CO2, O2, H2, SO2, H2S, HCl, NO, and other trace gases. This contribution will focus on evolved SO2. All samples evolved SO2 above 500 C. The shapes of the SO2 evolution traces with temperature vary between samples but most have at least two "peaks' within the wide high temperature evolution, from approx. 500-700 and approx. 700-860 C (Fig. 1). In many cases, the only sulfur minerals detected with CheMin were Ca sulfates (e.g., RN and GH), which should thermally decompose at temperatures above those obtainable by SAM (>860 C). Sulfides or Fe sulfates were detected by CheMin (e.g., CB, MJ, BK) and could contribute to the high temperature SO2 evolution, but in most cases they are not present in enough abundance to account for all of the SO2. This additional SO2 could be largely associated with x-ray amorphous material, which comprises a significant portion of all samples. It can also be attributed to trace S phases present below the CheMin detection limit, or to reactions which lower the temperatures of SO2 evolution from sulfates that are typically expected to thermally decompose

  7. Systematic biochemical characterization of the SAM domains in Eph receptor family from Mus Musculus.

    PubMed

    Wang, Yue; Li, Qingxia; Zheng, Yunhua; Li, Gang; Liu, Wei

    2016-05-13

    The Eph receptor family is the largest subfamily of receptor tyrosine kinases and well-known for their pivotal roles in axon guidance, synaptogenesis, artery/venous differentiation and tumorigenesis, etc. Activation of the Eph receptor needs multimerization of the receptors. The intracellular C-terminal SAM domain of Eph receptor was reported to mediate self-association of Eph receptors via the homo SAM-SAM interaction. In this study, we systematically expressed and purified the SAM domain proteins of all fourteen Eph receptors of Mus musculus in Escherichia coli. The FPLC (fast protein liquid chromatography) results showed the recombinant SAM domains were highly homogeneous. Using CD (circular dichroism) spectrometry, we found that the secondary structure of all the SAM domains was typically alpha helical folded and remarkably similar. The thermo-stability tests showed that they were quite stable in solution. SEC-MALS (size exclusion chromatography coupled with multiple angle light scattering) results illustrated 200 μM Eph SAM domains behaved as good monomers in the size-exclusion chromatography. More importantly, DLS (dynamic light scattering) results revealed the overwhelming majority of SAM domains was not multimerized in solution either at 200 μM or 2000 μM protein concentration, which indicating the SAM domain alone was not sufficient to mediate the polymerization of Eph receptor. In summary, our studies provided the systematic biochemical characterizations of the Eph receptor SAM domains and implied their roles in Eph receptor mediated signaling pathways.

  8. Exploration of the Habitability of Mars with the SAM Suite Investigation on the 2009 Mars Science Laboratory

    NASA Technical Reports Server (NTRS)

    Mahaffy, P. R.; Cabane, M.; Webster, C. R.

    2008-01-01

    The 2009 Mars Science Laboratory (MSL) with a substantially larger payload capability that any other Mars rover, to date, is designed to quantitatively assess a local region on Mars as a potential habitat for present or past life. Its goals are (1) to assess past or present biological potential of a target environment, (2) to characterize geology and geochemistry at the MSL landing site, and (3) to investigate planetary processes that influence habitability. The Sample Analysis at Mars (SAM) Suite, in its final stages of integration and test, enables a sensitive search for organic molecules and chemical and isotopic analysis of martian volatiles. MSL contact and remote surface and subsurface survey Instruments establish context for these measurements and facilitate sample identification and selection. The SAM instruments are a gas chromatograph (GC), a mass spectrometer (MS), and a tunable laser spectrometer (TLS). These together with supporting sample manipulation and gas processing devices are designed to analyze either the atmospheric composition or gases extracted from solid phase samples such as rocks and fines. For example, one of the core SAM experiment sequences heats a small powdered sample of a Mars rock or soil from ambient to -1300 K in a controlled manner while continuously monitoring evolved gases. This is followed by GCMS analysis of released organics. The general chemical survey is complemented by a specific search for molecular classes that may be relevant to life including atmospheric methane and its carbon isotope with the TLS and biomarkers with the GCMS.

  9. Characterization of the Candida albicans Amino Acid Permease Family: Gap2 Is the Only General Amino Acid Permease and Gap4 Is an S-Adenosylmethionine (SAM) Transporter Required for SAM-Induced Morphogenesis

    PubMed Central

    Kraidlova, Lucie; Schrevens, Sanne; Tournu, Hélène; Van Zeebroeck, Griet; Sychrova, Hana

    2016-01-01

    ABSTRACT Amino acids are key sources of nitrogen for growth of Candida albicans. In order to detect and take up these amino acids from a broad range of different and changing nitrogen sources inside the host, this fungus must be able to adapt via its expression of genes for amino acid uptake and further metabolism. We analyzed six C. albicans putative general amino acid permeases based on their homology to the Saccharomyces cerevisiae Gap1 general amino acid permease. We generated single- and multiple-deletion strains and found that, based on growth assays and transcriptional or posttranscriptional regulation, Gap2 is the functional orthologue to ScGap1, with broad substrate specificity. Expression analysis showed that expression of all GAP genes is under control of the Csy1 amino acid sensor, which is different from the situation in S. cerevisiae, where the expression of ScGAP1 is not regulated by Ssy1. We show that Gap4 is the functional orthologue of ScSam3, the only S-adenosylmethionine (SAM) transporter in S. cerevisiae, and we report that Gap4 is required for SAM-induced morphogenesis. IMPORTANCE Candida albicans is a commensal organism that can thrive in many niches in its human host. The environmental conditions at these different niches differ quite a bit, and this fungus must be able to sense these changes and adapt its metabolism to them. Apart from glucose and other sugars, the uptake of amino acids is very important. This is underscored by the fact that the C. albicans genome encodes 6 orthologues of the Saccharomyces. cerevisiae general amino acid permease Gap1 and many other amino acid transporters. In this work, we characterize these six permeases and we show that C. albicans Gap2 is the functional orthologue of ScGap1 and that C. albicans Gap4 is an orthologue of ScSam3, an S-adenosylmethionine (SAM) transporter. Furthermore, we show that Gap4 is required for SAM-induced morphogenesis, an important virulence factor of C. albicans. PMID

  10. Methods of Building Cost Analysis.

    ERIC Educational Resources Information Center

    Building Research Inst., Inc., Washington, DC.

    Presentation of symposium papers includes--(1) a study describing techniques for economic analysis of building designs, (2) three case studies of analysis techniques, (3) procedures for measuring the area and volume of buildings, and (4) an open forum discussion. Case studies evaluate--(1) the thermal economics of building enclosures, (2) an…

  11. Benchmark Simulations of the Thermal-Hydraulic Responses during EBR-II Inherent Safety Tests using SAM

    SciTech Connect

    Hu, Rui; Sumner, Tyler S.

    2016-01-01

    An advanced system analysis tool SAM is being developed for fast-running, improved-fidelity, and wholeplant transient analyses at Argonne National Laboratory under DOE-NE’s Nuclear Energy Advanced Modeling and Simulation (NEAMS) program. As an important part of code development, companion validation activities are being conducted to ensure the performance and validity of the SAM code. This paper presents the benchmark simulations of two EBR-II tests, SHRT-45R and BOP- 302R, whose data are available through the support of DOE-NE’s Advanced Reactor Technology (ART) program. The code predictions of major primary coolant system parameter are compared with the test results. Additionally, the SAS4A/SASSYS-1 code simulation results are also included for a code-to-code comparison.

  12. GABAergic inhibition shapes SAM responses in rat auditory thalamus.

    PubMed

    Cai, R; Caspary, D M

    2015-07-23

    Auditory thalamus (medial geniculate body [MGB]) receives ascending inhibitory GABAergic inputs from inferior colliculus (IC) and descending GABAergic projections from the thalamic reticular nucleus (TRN) with both inputs postulated to play a role in shaping temporal responses. Previous studies suggested that enhanced processing of temporally rich stimuli occurs at the level of MGB, with our recent study demonstrating enhanced GABA sensitivity in MGB compared to IC. The present study used sinusoidal amplitude-modulated (SAM) stimuli to generate modulation transfer functions (MTFs), to examine the role of GABAergic inhibition in shaping the response properties of MGB single units in anesthetized rats. Rate MTFs (rMTFs) were parsed into "bandpass (BP)", "mixed (Mixed)", "highpass (HP)" or "atypical" response types, with most units showing the Mixed response type. GABAA receptor blockade with iontophoretic application of the GABAA receptor (GABAAR) antagonist gabazine (GBZ) selectively altered the response properties of most MGB neurons examined. Mixed and HP units showed significant GABAAR-mediated SAM-evoked rate response changes at higher modulation frequencies (fms), which were also altered by N-methyl-d-aspartic acid (NMDA) receptor blockade (2R)-amino-5-phosphonopentanoate (AP5). BP units, and the lower arm of Mixed units responded to GABAAR blockade with increased responses to SAM stimuli at or near the rate best modulation frequency (rBMF). The ability of GABA circuits to shape responses at higher modulation frequencies is an emergent property of MGB units, not observed at lower levels of the auditory pathway and may reflect activation of MGB NMDA receptors (Rabang and Bartlett, 2011; Rabang et al., 2012). Together, GABAARs exert selective rate control over selected fms, generally without changing the units' response type. These results showed that coding of modulated stimuli at the level of auditory thalamus is at least, in part, strongly controlled by GABA

  13. Paramagnetic Intermediates Generated by Radical S-Adenosylmethionine (SAM) Enzymes

    PubMed Central

    2015-01-01

    Conspectus A [4Fe–4S]+ cluster reduces a bound S-adenosylmethionine (SAM) molecule, cleaving it into methionine and a 5′-deoxyadenosyl radical (5′-dA•). This step initiates the varied chemistry catalyzed by each of the so-called radical SAM enzymes. The strongly oxidizing 5′-dA• is quenched by abstracting a H-atom from a target species. In some cases, this species is an exogenous molecule of substrate, for example, l-tyrosine in the [FeFe] hydrogenase maturase, HydG. In other cases, the target is a proteinaceous residue as in all the glycyl radical forming enzymes. The generation of this initial radical species and the subsequent chemistry involving downstream radical intermediates is meticulously controlled by the enzyme so as to prevent unwanted reactions. But the manner in which this control is exerted is unknown. Electron paramagnetic resonance (EPR) spectroscopy has proven to be a valuable tool used to gain insight into these mechanisms. In this Account, we summarize efforts to trap such radical intermediates in radical SAM enzymes and highlight four examples in which EPR spectroscopic results have shed significant light on the corresponding mechanism. For lysine 2,3-aminomutase, nearly each possible intermediate, from an analogue of the initial 5′-dA• to the product radical l-β-lysine, has been explored. A paramagnetic intermediate observed in biotin synthase is shown to involve an auxiliary [FeS] cluster whose bridging sulfide is a co-substrate for the final step in the biosynthesis of vitamin B7. In HydG, the l-tyrosine substrate is converted in unprecedented fashion to a 4-oxidobenzyl radical on the way to generating CO and CN– ligands for the [FeFe] cluster of hydrogenase. And finally, EPR has confirmed a mechanistic proposal for the antibiotic resistance protein Cfr, which methylates the unactivated sp2-hybridized C8-carbon of an adenosine base of 23S ribosomal RNA. These four systems provide just a brief survey of the ever-growing set

  14. Carbon extension in peptidylnucleoside biosynthesis by radical-SAM enzymes

    PubMed Central

    Lilla, Edward A.; Yokoyama, Kenichi

    2016-01-01

    Nikkomycins and polyoxins are antifungal peptidylnucleoside (PN) antibiotics active against human and plant pathogens. Here, we report that during PN biosynthesis in Streptomyces cacaoi and Streptomyces tendae, the C5′-extension of the nucleoside essential for downstream structural diversification is catalyzed by a conserved radical S-adenosyl-L-methionine (SAM) enzyme, PolH or NikJ. This is distinct from the nucleophilic mechanism reported for antibacterial nucleosides and represents a novel mechanism of nucleoside natural product biosynthesis. PMID:27642865

  15. The p53 status can influence the role of Sam68 in tumorigenesis

    PubMed Central

    Li, Naomi; Ngo, Chau Tuan-Anh; Aleynikova, Olga; Beauchemin, Nicole; Richard, Stéphane

    2016-01-01

    The expression and activities of RNA binding proteins are frequently dysregulated in human cancer. Their roles, however, appears to be complex, with reports indicating both pro-tumorigenic and tumor suppressive functions. Here we show, using two classical mouse cancer models, that the role of KH-type RNA binding protein, Sam68, in tumor development can be influenced by the status of the p53 tumor suppressor. We demonstrate that in mice expressing wild type p53, Sam68-deficiency resulted in a higher incidence and malignancy of carcinogen-induced tumors, suggesting a tumor suppressive role for Sam68. In marked contrast, Sam68-haploinsufficiency significantly delayed the onset of tumors in mice lacking p53 and prolonged their survival, indicating that Sam68 accelerates the development of p53-deficient tumors. These findings provide considerable insight into a previously unknown relationship between Sam68 and the p53 tumor suppressor in tumorigenesis. PMID:27690217

  16. Non-canonical active site architecture of the radical SAM thiamin pyrimidine synthase

    SciTech Connect

    Fenwick, Michael K.; Mehta, Angad P.; Zhang, Yang; Abdelwahed, Sameh H.; Begley, Tadhg P.; Ealick, Steven E.

    2015-03-27

    Radical S-adenosylmethionine (SAM) enzymes use a [4Fe-4S] cluster to generate a 5'-deoxyadenosyl radical. Canonical radical SAM enzymes are characterized by a β-barrel-like fold and SAM anchors to the differentiated iron of the cluster, which is located near the amino terminus and within the β-barrel, through its amino and carboxylate groups. Here we show that ThiC, the thiamin pyrimidine synthase in plants and bacteria, contains a tethered cluster-binding domain at its carboxy terminus that moves in and out of the active site during catalysis. In contrast to canonical radical SAM enzymes, we predict that SAM anchors to an additional active site metal through its amino and carboxylate groups. Superimposition of the catalytic domains of ThiC and glutamate mutase shows that these two enzymes share similar active site architectures, thus providing strong evidence for an evolutionary link between the radical SAM and adenosylcobalamin-dependent enzyme superfamilies.

  17. DNA methylation signature (SAM40) identifies subgroups of the Luminal A breast cancer samples with distinct survival

    PubMed Central

    Aure, Miriam Ragle; Louhimo, Riku; Pladsen, Arne V.; Ottestad, Lars; Touleimat, Nizar; Laakso, Marko; Halvorsen, Ann Rita; Alnæs, Grethe I. Grenaker; Riis, Margit L.H.; Helland, Åslaug; Hautaniemi, Sampsa; Lønning, Per Eystein; Naume, Bjørn; Børresen-Dale, Anne-Lise; Tost, Jörg; Kristensen, Vessela N.

    2017-01-01

    Breast cancer patients with Luminal A disease generally have a good prognosis, but among this patient group are patients with good prognosis that are currently overtreated with adjuvant chemotherapy, and also patients that have a bad prognosis and should be given more aggressive treatment. There is no available method for subclassification of this patient group. Here we present a DNA methylation signature (SAM40) that segregates Luminal A patients based on prognosis, and identify one good prognosis group and one bad prognosis group. The prognostic impact of SAM40 was validated in four independent patient cohorts. Being able to subdivide the Luminal A patients may give the two-sided benefit of identifying one subgroup that may benefit from a more aggressive treatment than what is given today, and importantly, identifying a subgroup that may benefit from less treatment. PMID:27911866

  18. Cardiological aging in SAM model: effect of chronic treatment with growth hormone.

    PubMed

    Forman, K; Vara, E; García, C; Ariznavarreta, C; Escames, G; Tresguerres, J A F

    2010-06-01

    The purpose of this study was to investigate the effect of aging on different parameters related to inflammation, oxidative stress and apoptosis in hearts from two types of male mice models: senescence-accelerated mice (SAM-P8) and senescence-accelerated-resistant (SAM-R1), and the influence of chronic administration of Growth Hormone (GH) on old SAM-P8 mice. Forty male mice were used. Animals were divided into five experimental groups: two 10 month old untreated groups (SAM-P8/SAM-R1), two 2 month old young groups (SAM-P8/SAM-R1) and one 10 month old group (SAM-P8) treated with GH for 30 days. The expression of tumor necrosis factor-alpha, interleukin 1, interleukin 10, heme oxygenases 1 and 2, endothelial and inducible nitric oxide synthases, NFkB, Bad, Bax and Bcl-2 were determined by real-time reverse transcription polymerase chain reaction (RT-PCR). Results were submitted to a two way ANOVA statistical evaluation using the Statgraphics program. Inflammation, as well as, oxidative stress and apoptosis markers were increased in the heart of old SAM-P8 males, as compared to young controls and this situation was not observed in the old SAM-R1 mice. Exogenous GH administration reverted the effect of aging in the described parameters of old SAM-P8 mice. Our results suggest that inflammation, apoptosis and oxidative stress could play an important role in the observed cardiovascular alterations related to aging of SAM-P8 mice and that GH may play a potential protective effect on the cardiovascular system of these animals.

  19. Comparative studies of aerosol extinction measurements made by the SAM II and SAGE II satellite experiments

    NASA Technical Reports Server (NTRS)

    Yue, Glenn K.; Mccormick, M. P.; Chu, W. P.; Wang, P.; Osborn, M. T.

    1989-01-01

    Results from the Stratospheric Aerosol Measurement (SAM) II and Stratospheric Aerosol and Gas Experiment (SAGE) II are compared for measurement locations which are coincident in time and space. At 1.0 micron, the SAM II and SAGE II aerosol extinction profiles are similar within their measurement errors. In addition, sunrise and sunset aerosol extinction data at four different wavelengths are compared for occasions when the SAGE II and SAM II measurements are nearly coincident in space and about 12 hours apart.

  20. Prognostic Analysis System and Methods of Operation

    NASA Technical Reports Server (NTRS)

    MacKey, Ryan M. E. (Inventor); Sneddon, Robert (Inventor)

    2014-01-01

    A prognostic analysis system and methods of operating the system are provided. In particular, a prognostic analysis system for the analysis of physical system health applicable to mechanical, electrical, chemical and optical systems and methods of operating the system are described herein.

  1. The nuclear protein Sam68 is cleaved by the FMDV 3C protease redistributing Sam68 to the cytoplasm during FMDV infection of host cells

    SciTech Connect

    Lawrence, Paul; Schafer, Elizabeth A.; Rieder, Elizabeth

    2012-03-30

    Picornavirus infection can lead to disruption of nuclear pore traffic, shut-off of cell translation machinery, and cleavage of proteins involved in cellular signal transduction and the innate response to infection. Here, we demonstrated that the FMDV 3C{sup pro} induced the cleavage of nuclear RNA-binding protein Sam68 C-terminus containing the nuclear localization sequence (NLS). Consequently, it stimulated the redistribution of Sam68 to the cytoplasm. The siRNA knockdown of Sam68 resulted in a 1000-fold reduction in viral titers, which prompted us to study the effect of Sam68 on FMDV post-entry events. Interestingly, Sam68 interacts with the internal ribosomal entry site within the 5 Prime non-translated region of the FMDV genome, and Sam68 knockdown decreased FMDV IRES-driven activity in vitro suggesting that it could modulate translation of the viral genome. The results uncover a novel role for Sam68 in the context of picornaviruses and the proteolysis of a new cellular target of the FMDV 3C{sup pro}.

  2. Conjugal immunity of Streptomyces strains carrying the integrative element pSAM2 is due to the pif gene (pSAM2 immunity factor).

    PubMed

    Possoz, Christophe; Gagnat, Josette; Sezonov, Guennadi; Guérineau, Michel; Pernodet, Jean-Luc

    2003-03-01

    Mechanisms of conjugal immunity preventing redundant exchange between two cells harbouring the same conjugative element have been reported in diverse bacteria. Such a system does exist for pSAM2, a conjugative and integrative element of Streptomyces. The apparition of the conjugative free form of pSAM2 in the donor strain during mating can be considered as the initial step of transfer. We analysed the genes involved in transfer inhibition by mating donors harbouring pSAM2 with recipient strains containing different regions of pSAM2. The conjugal immunity was previously thought to be mediated by the transcriptional repressor KorSA. Although the transfer efficiency is reduced by its presence in the recipient, the initiation of the transfer process is not affected. In contrast, the presence in the recipient strain of a single pSAM2 gene, pif (pSAM2 immunity factor), was sufficient to abolish both transfer and initiation of transfer. Thus, the clustered genes korSA and pif act complementarily to maintain pSAM2 in a 'prophage' state under non-conjugal conditions. KorSA is involved in intracellular signalling, whereas Pif participates in intercellular signalling. The Pif nudix motif is essential for its activity. This is the first protein of the nudix family shown to be involved in bacterial conjugation.

  3. Convergence analysis of combinations of different methods

    SciTech Connect

    Kang, Y.

    1994-12-31

    This paper provides a convergence analysis for combinations of different numerical methods for solving systems of differential equations. The author proves that combinations of two convergent linear multistep methods or Runge-Kutta methods produce a new convergent method of which the order is equal to the smaller order of the two original methods.

  4. Trial Sequential Methods for Meta-Analysis

    ERIC Educational Resources Information Center

    Kulinskaya, Elena; Wood, John

    2014-01-01

    Statistical methods for sequential meta-analysis have applications also for the design of new trials. Existing methods are based on group sequential methods developed for single trials and start with the calculation of a required information size. This works satisfactorily within the framework of fixed effects meta-analysis, but conceptual…

  5. The first year: Development of a LANDSAT capability at Sam Houston State University

    NASA Technical Reports Server (NTRS)

    Bounds, J. H.

    1981-01-01

    Problems encountered in initiating a LANDSAT data processing capability at Sam Houston State University are discussed. Computer requirements, financing, and academic and administrative support are addressed.

  6. Methods of DNA methylation analysis.

    Technology Transfer Automated Retrieval System (TEKTRAN)

    The purpose of this review was to provide guidance for investigators who are new to the field of DNA methylation analysis. Epigenetics is the study of mitotically heritable alterations in gene expression potential that are not mediated by changes in DNA sequence. Recently, it has become clear that n...

  7. SAM-2 ground-truth plan: Correlative measurements for the Stratospheric Aerosol Measurement-2 (SAM 2) sensor on the Nimbus G satellite

    NASA Technical Reports Server (NTRS)

    Russell, P. B.; Mccormick, M. P.; Mcmaster, L. R.; Pepin, T. J.; Chu, W. P.; Swissler, T. J.

    1978-01-01

    The SAM-2 will fly aboard the Nimbus-G satellite for launch in the fall of 1978 and measure stratospheric vertical profiles of aerosol extinction in high latitude bands. The plan gives details of the location and times for the simultaneous satellite/correlative measurements for the nominal launch time, the rationale and choice of the correlative sensors, their characteristics and expected accuracies, and the conversion of their data to extinction profiles. The SAM-2 expected instrument performance and data inversion results are presented. Various atmospheric models representative of polar stratospheric aerosols are used in the SAM-2 and correlative sensor analyses.

  8. Thermal Reactivity of Organic Molecules in the Presence of Chlorates and Perchlorates and the Quest for Organics on Mars with the SAM Experiment Onboard the Curiostiy Rover

    NASA Astrophysics Data System (ADS)

    Szopa, Cyril; Millan, Maeva; Buch, Arnaud; Belmahdi, Imene; Coll, Patrice; Glavin, Daniel P.; Freissinet, Caroline; Eigenbrode, Jennifer; archer, doug; sutter, brad; Summons, Roger; Navarro-Gonzalez, Rafael; Mahaffy, Paul; cabane, Michel

    2016-10-01

    One of the main objectives of the Sample Analysis at Mars (SAM) experiment is the in situ molecular analysis of gases evolving from solid samples collected by Curiosity when they are heated up to ~850°C. With this aim SAM uses a gas-chromatograph coupled to a mass spectrometer (GC-MS) able to detect and identify both inorganic and organic molecules released by the samples.During the pyrolysis, chemical reactions occur between oxychlorines, probably homogeneously distributed at Mars's surface, and organic compounds SAM seeks for. This was confirmed by the first chlorohydrocarbons (chloromethane and di- and trichloromethane) detected by SAM that were entirely attributed to reaction products occurring between these oxychlorines and organics from instrument background. But SAM also detected in the Sheepbed mudstone of Gale crater, chloroalkanes produced by reaction between oxychlorines and Mars indigenous organics, proving for the first time the presence of organics in the soil of Mars. However, the identification of the molecules at the origin of these chloroalkanes is much more difficult due to the complexity of the reactivity occurring during the sample pyrolysis. If a first study has already been done recently with this aim, it was relatively limited in terms of parameters investigated.This is the reason why, we performed a systematic study in the laboratory to help understanding the influence of oxychlorines on organic matter during pyrolysis. With this aim, different organic compounds from various chemical families (e.g. amino and carboxylic acids) mixed with different perchlorates and chlorates, in concentrations compatible with the Mars soil from estimations done with SAM measurements, were pyrolyzed under SAM like conditions. The products of reaction were analyzed and identified by GC-MS in order to show a possible correlation between them and the parent molecule. Different parameters were tested for the pyrolysis to evaluate their potential influence on the

  9. Hybrid methods for cybersecurity analysis :

    SciTech Connect

    Davis, Warren Leon,; Dunlavy, Daniel M.

    2014-01-01

    Early 2010 saw a signi cant change in adversarial techniques aimed at network intrusion: a shift from malware delivered via email attachments toward the use of hidden, embedded hyperlinks to initiate sequences of downloads and interactions with web sites and network servers containing malicious software. Enterprise security groups were well poised and experienced in defending the former attacks, but the new types of attacks were larger in number, more challenging to detect, dynamic in nature, and required the development of new technologies and analytic capabilities. The Hybrid LDRD project was aimed at delivering new capabilities in large-scale data modeling and analysis to enterprise security operators and analysts and understanding the challenges of detection and prevention of emerging cybersecurity threats. Leveraging previous LDRD research e orts and capabilities in large-scale relational data analysis, large-scale discrete data analysis and visualization, and streaming data analysis, new modeling and analysis capabilities were quickly brought to bear on the problems in email phishing and spear phishing attacks in the Sandia enterprise security operational groups at the onset of the Hybrid project. As part of this project, a software development and deployment framework was created within the security analyst work ow tool sets to facilitate the delivery and testing of new capabilities as they became available, and machine learning algorithms were developed to address the challenge of dynamic threats. Furthermore, researchers from the Hybrid project were embedded in the security analyst groups for almost a full year, engaged in daily operational activities and routines, creating an atmosphere of trust and collaboration between the researchers and security personnel. The Hybrid project has altered the way that research ideas can be incorporated into the production environments of Sandias enterprise security groups, reducing time to deployment from months and

  10. MSL SAM-like Analyses of Hawaiian Altered Basaltic Materials: Implications for Analyses by the Mars Science Laboratory

    NASA Astrophysics Data System (ADS)

    McAdam, A.; Eigenbrode, J. L.; Young, K. E.; Bleacher, J. E.; Knudson, C. A.; Rogers, D.; Glotch, T. D.; Sutter, B.; Mahaffy, P. R.; Navarro-Gonzalez, R.; Downs, R. T.

    2015-12-01

    Samples of basaltic materials were collected during several traverses of the Kau Desert on the leeward side of the Kilauea Volcano, Hawaii, conducted by the Remote, In Situ, and Synchrotron Studies for Science and Exploration (RIS4E) team, a node of the Solar System Exploration and Research Virtual Institute (SSERVI) program. Some of these samples had been exposed to circumneutral to slightly acidic alteration conditions from exposure to fog/rain, and acidic fog/rain, while others had been exposed to more acidic conditions due to proximity to fumaroles. The samples consisted of basalts with coatings, sands and soils, and ash, and were collected using organically clean protocols to enable investigation of organic chemistry and organic-mineral associations, in addition to mineralogy. The Mars Science Laboratory (MSL) rover has analyzed basaltic materials inferred to have been altered under conditions ranging from circumneutral to acidic, but several aspects of the Sample Analysis at Mars (SAM) instrument suite results are still being investigated and analyses of relevant terrestrial analogs can play an important role in interpretation of the data. For example, all materials analyzed to date have a significant amorphous component. Comparisons of the mineralogy obtained with the MSL CheMin instrument and volatiles evolved during SAM analyses indicate that, by mass balance, some portion of the volatiles, such as SO2 and H2O, are likely associated with this component. Many of the RIS4E samples also have a significant amorphous component, and field x-ray diffraction (XRD) and x-ray fluorescence (XRF) data indicate differences in the chemistry of this material in samples exposed to different alteration conditions. Preliminary SAM-like analyses indicate that the amorphous materials in some of these samples evolve volatiles such as H2O and SO2 during heating. Here we will discuss these results, and others, obtained through SAM-like analyses of selected samples.

  11. Advanced Technology for SAM Systems Analysis Synthesis and Simulation

    DTIC Science & Technology

    1984-05-01

    naltre, de se d~velooper, de se n~rimer, souvent de renaltre :en matit’re de Capteurs d’informations, le radar et lea proctd~s 6lectro- optiques ont...pbles d~i d~nominateur. 5-4S La riponse naturelle du missile i un ordre de pilotage est de ce fait fid~le, rapide et peu affect~e per 1 ’oscillation

  12. Microparticle analysis system and method

    NASA Technical Reports Server (NTRS)

    Morrison, Dennis R. (Inventor)

    2007-01-01

    A device for analyzing microparticles is provided which includes a chamber with an inlet and an outlet for respectively introducing and dispensing a flowing fluid comprising microparticles, a light source for providing light through the chamber and a photometer for measuring the intensity of light transmitted through individual microparticles. The device further includes an imaging system for acquiring images of the fluid. In some cases, the device may be configured to identify and determine a quantity of the microparticles within the fluid. Consequently, a method for identifying and tracking microparticles in motion is contemplated herein. The method involves flowing a fluid comprising microparticles in laminar motion through a chamber, transmitting light through the fluid, measuring the intensities of the light transmitted through the microparticles, imaging the fluid a plurality of times and comparing at least some of the intensities of light between different images of the fluid.

  13. Aircraft accidents : method of analysis

    NASA Technical Reports Server (NTRS)

    1931-01-01

    The revised report includes the chart for the analysis of aircraft accidents, combining consideration of the immediate causes, underlying causes, and results of accidents, as prepared by the special committee, with a number of the definitions clarified. A brief statement of the organization and work of the special committee and of the Committee on Aircraft Accidents; and statistical tables giving a comparison of the types of accidents and causes of accidents in the military services on the one hand and in civil aviation on the other, together with explanations of some of the important differences noted in these tables.

  14. HPA and SAM axis responses as correlates of self- vs parental ratings of anxiety in boys with an Autistic Disorder.

    PubMed

    Bitsika, Vicki; Sharpley, Christopher F; Sweeney, John A; McFarlane, James R

    2014-03-29

    Anxiety and Autistic Disorder (AD) are both neurological conditions and both disorders share some features that make it difficult to precisely allocate specific symptoms to each disorder. HPA and SAM axis activities have been conclusively associated with anxiety, and may provide a method of validating anxiety rating scale assessments given by parents and their children with AD about those children. Data from HPA axis (salivary cortisol) and SAM axis (salivary alpha amylase) responses were collected from a sample of 32 high-functioning boys (M age=11yr) with an Autistic Disorder (AD) and were compared with the boys' and their mothers' ratings of the boys' anxiety. There was a significant difference between the self-ratings given by the boys and ratings given about them by their mothers. Further, only the boys' self-ratings of their anxiety significantly predicted the HPA axis responses and neither were significantly related to SAM axis responses. Some boys showed cortisol responses which were similar to that previously reported in children who had suffered chronic and severe anxiety arising from stressful social interactions. As well as suggesting that some boys with an AD can provide valid self-assessments of their anxiety, these data also point to the presence of very high levels of chronic HPA-axis arousal and consequent chronic anxiety in these boys.

  15. Earth analysis methods, subsurface feature detection methods, earth analysis devices, and articles of manufacture

    DOEpatents

    West, Phillip B.; Novascone, Stephen R.; Wright, Jerry P.

    2011-09-27

    Earth analysis methods, subsurface feature detection methods, earth analysis devices, and articles of manufacture are described. According to one embodiment, an earth analysis method includes engaging a device with the earth, analyzing the earth in a single substantially lineal direction using the device during the engaging, and providing information regarding a subsurface feature of the earth using the analysis.

  16. Earth analysis methods, subsurface feature detection methods, earth analysis devices, and articles of manufacture

    DOEpatents

    West, Phillip B [Idaho Falls, ID; Novascone, Stephen R [Idaho Falls, ID; Wright, Jerry P [Idaho Falls, ID

    2012-05-29

    Earth analysis methods, subsurface feature detection methods, earth analysis devices, and articles of manufacture are described. According to one embodiment, an earth analysis method includes engaging a device with the earth, analyzing the earth in a single substantially lineal direction using the device during the engaging, and providing information regarding a subsurface feature of the earth using the analysis.

  17. Component outage data analysis methods. Volume 2: Basic statistical methods

    NASA Astrophysics Data System (ADS)

    Marshall, J. A.; Mazumdar, M.; McCutchan, D. A.

    1981-08-01

    Statistical methods for analyzing outage data on major power system components such as generating units, transmission lines, and transformers are identified. The analysis methods produce outage statistics from component failure and repair data that help in understanding the failure causes and failure modes of various types of components. Methods for forecasting outage statistics for those components used in the evaluation of system reliability are emphasized.

  18. Regioselective patterning of multiple SAMs and applications in surface-guided smart microfluidics.

    PubMed

    Chen, Chuanzhao; Xu, Pengcheng; Li, Xinxin

    2014-12-24

    A top-down nanofabrication technology is developed to integrate multiple SAMs (self-assembled monolayers) into regioselective patterns. With ultraviolet light exposure through regioselectively hollowed hard mask, an existing SAM at designated microregions can be removed and a dissimilar kind of SAM can be regrown there. By repeating the photolithography-like process cycle, diverse kinds of SAM building blocks can be laid out as a desired pattern in one microfluidic channel. In order to ensure high quality of the surface modifications, the SAMs are vapor-phase deposited before the channel is closed by a bonding process. For the first time the technique makes it possible to integrate three or more kinds of SAMs in one microchannel. The technique is very useful for multiplex surface functionalization of microfluidic chips where different segments of a microfluidic channel need to be individually modified with different SAMs or into arrayed pattern for surface-guided fluidic properties like hydrophobicity/philicity and/or oleophobicity/philicity, etc. The technique has been well validated by experimental demonstration of various surface-directed flow-guiding functions. By modifying a microchannel surface into an arrayed pattern of multi-SAM "two-tone" stripe array, surface-guiding-induced 3D swirling flow is generated in a microfluidic channel that experimentally exhibits quick oil/water mixing and high-efficiency oil-to-water chemical extraction.

  19. Sam2bam: High-Performance Framework for NGS Data Preprocessing Tools

    PubMed Central

    Cheng, Yinhe; Tzeng, Tzy-Hwa Kathy

    2016-01-01

    This paper introduces a high-throughput software tool framework called sam2bam that enables users to significantly speed up pre-processing for next-generation sequencing data. The sam2bam is especially efficient on single-node multi-core large-memory systems. It can reduce the runtime of data pre-processing in marking duplicate reads on a single node system by 156–186x compared with de facto standard tools. The sam2bam consists of parallel software components that can fully utilize multiple processors, available memory, high-bandwidth storage, and hardware compression accelerators, if available. The sam2bam provides file format conversion between well-known genome file formats, from SAM to BAM, as a basic feature. Additional features such as analyzing, filtering, and converting input data are provided by using plug-in tools, e.g., duplicate marking, which can be attached to sam2bam at runtime. We demonstrated that sam2bam could significantly reduce the runtime of next generation sequencing (NGS) data pre-processing from about two hours to about one minute for a whole-exome data set on a 16-core single-node system using up to 130 GB of memory. The sam2bam could reduce the runtime of NGS data pre-processing from about 20 hours to about nine minutes for a whole-genome sequencing data set on the same system using up to 711 GB of memory. PMID:27861637

  20. Overview of SAM results obtained at Gale Crater during the 180 first sols

    NASA Astrophysics Data System (ADS)

    Coll, P.; Mahaffy, P. R.; Cabane, M.; Webster, C. R.; Archer, D.; Atreya, S. K.; Benna, M.; Brinckerhoff, W. B.; Brunner, A.; Buch, A.; Conrad, P.; Coscia, D.; Dobson, N.; Dworkin, J.; Eigenbrode, J.; Farley, K.; Flesch, G.; Franz, H.; Freissinet, C.; Galvin, D.; Gorevan, S.; Harpold, D.; Hengemihle, J.; Jaeger, F.; Johnson, C.; Johnson, M.; Jones, J.; Lefavor, M.; Leshin, L.; Lyness, E.; Malespin, C.; Manning, H.; Martin, D.; McAdam, A.; McKay, C.; Miller, K.; Ming, D. W.; Morris, R. V.; Navarro-González, R.; Niles, P.; Nolan, T.; Owen, T.; Pavolv, A.; Prats, B.; Pepin, R.; Raaen, E.; Raulin, F.; Steele, A.; Stern, J.; Squyres, S.; Sutter, B.; Summons, R. E.; Szopa, C.; Tan, F.; Teinturier, S.; Trainer, M.; Wong, M.; Wray, J.

    2013-09-01

    During the first 180 sols of Curiosity's landed mission on Mars (8/6/2012 to 2/7/2013) SAM sampled the atmosphere more than a dozen times, the dusty sandpile named Rocknest and a basin site named John Klein on the floor of Gale crater. The atmospheric experiments utilized SAM's quadrupole mass spectrometer (QMS) and its tunable laser spectrometer (TLS) while the solid sample experiments also utilized the gas chromatograph (GC). Although a number of core experiments were pre-programmed and stored in SAM EEProm, the high level SAM scripting language enabled the team to often optimize experiments based on prior runs. SAM and its Experiment Sequences exercised during the First 120 Sols: The SAM instruments, its gas processing system (GPS) and its sample manipulation system (SMS) have been already described [1]. During the first few weeks of the landed mission SAM carried out a variety of instrument health checks and then began a series of atmospheric experiments to measure atmospheric composition and isotope ratios. From sol 56 to 102 Curiosity lingered at Rocknest to clean out the surfaces of the sample processing system by scooping several times into this fine grained material, vibrating to abrade possible contamination from surfaces, and then discarding before delivery of sample to SAM from the 5th scoop.

  1. Winning Attitude & Dedication to Physical Therapy Keep Sam Schmidt on Track

    ERIC Educational Resources Information Center

    Bosley, Nikki Prevenslik

    2006-01-01

    This article relates how Sam Schmidt returned to living a productive life after an accident left him with spinal cord injury. Schmidt was a former Indy Racing League driver who founded Sam Schmidt Motorsports after his accident in 2000. Schmidt's car hit the wall as he exited turn two during a practice session at Walt Disney World Speedway in…

  2. S.A.M., the Italian Martian simulation chamber.

    PubMed

    Galletta, G; Ferri, F; Fanti, G; D'Alessandro, M; Bertoloni, G; Pavarin, D; Bettanini, C; Cozza, P; Pretto, P; Bianchini, G; Debei, S

    2006-12-01

    The Martian Environment Simulator (SAM "Simulatore di Ambiente Marziano") is a interdisciplinary project of Astrobiology done at University of Padua. The research is aimed to the study of the survival of the microorganisms exposed to the "extreme" planetary environment. The facility has been designed in order to simulate Mars' environmental conditions in terms of atmospheric pressure, temperature cycles and UV radiation dose. The bacterial cells, contained into dedicated capsules, will be exposed to thermal cycles simulating diurnal and seasonal Martian cycles. The metabolism of the different biological samples will be analysed at different phases of the experiment, to study their survival and eventual activity of protein synthesis (mortality, mutations and capability of DNA repairing). We describe the experimental facility and provide the perspectives of the biological experiments we will perform in order to provide hints on the possibility of life on Mars either autochthonous or imported from Earth.

  3. Solution structure of the first Sam domain of Odin and binding studies with the EphA2 receptor.

    PubMed

    Mercurio, Flavia Anna; Marasco, Daniela; Pirone, Luciano; Pedone, Emilia Maria; Pellecchia, Maurizio; Leone, Marilisa

    2012-03-13

    The EphA2 receptor plays key roles in many physiological and pathological events, including cancer. The process of receptor endocytosis and the consequent degradation have attracted attention as possible means of overcoming the negative outcomes of EphA2 in cancer cells and decreasing tumor malignancy. A recent study indicates that Sam (sterile alpha motif) domains of Odin, a member of the ANKS (ankyrin repeat and sterile alpha motif domain-containing) family of proteins, are important for the regulation of EphA2 endocytosis. Odin contains two tandem Sam domains (Odin-Sam1 and -Sam2). Herein, we report on the nuclear magnetic resonance (NMR) solution structure of Odin-Sam1; through a variety of assays (employing NMR, surface plasmon resonance, and isothermal titration calorimetry techniques), we clearly demonstrate that Odin-Sam1 binds to the Sam domain of EphA2 in the low micromolar range. NMR chemical shift perturbation experiments and molecular modeling studies point out that the two Sam domains interact with a head-to-tail topology characteristic of several Sam-Sam complexes. This binding mode is similar to that we have previously proposed for the association between the Sam domains of the lipid phosphatase Ship2 and EphA2. This work further validates structural elements relevant for the heterotypic Sam-Sam interactions of EphA2 and provides novel insights for the design of potential therapeutic compounds that can modulate receptor endocytosis.

  4. SWECS tower dynamics analysis methods and results

    NASA Technical Reports Server (NTRS)

    Wright, A. D.; Sexton, J. H.; Butterfield, C. P.; Thresher, R. M.

    1981-01-01

    Several different tower dynamics analysis methods and computer codes were used to determine the natural frequencies and mode shapes of both guyed and freestanding wind turbine towers. These analysis methods are described and the results for two types of towers, a guyed tower and a freestanding tower, are shown. The advantages and disadvantages in the use of and the accuracy of each method are also described.

  5. MSL SAM-Like Evolved Gas Analyses of Si-rich Amorphous Materials

    NASA Technical Reports Server (NTRS)

    McAdam, Amy; Knudson, Christine; Sutter, Brad; Andrejkovicova, Slavka; Archer, P. Douglas; Franz, Heather; Eigenbrode, Jennifer; Morris, Richard; Ming, Douglas; Sun, Vivian; Wilhelm, Mary Beth; Mahaffy, Paul

    2016-01-01

    Chemical and mineralogical analyses of several samples from Murray Formation mudstones and Stimson Formation sandstones by the Mars Science Laboratory (MSL) revealed the presence of Si-rich amorphous or poorly ordered materials. It is possible to identify the presence of high-SiO2 vs. lower SiO2 amorphous materials (e.g., basaltic glasses), based on the position of the resulting wide diffraction features in XRD patterns from the Chemistry and Mineralogy (CheMin) instrument, but it is not possible to distinguish between several candidate high-SiO2 amorphous materials such as opal-A or rhyolitic glass. In the Buckskin (BS) sample from the upper Murray Formation, and the Big Sky (BY) and Greenhorn (GH) samples from the Stimson Formation, analyses by the Sample Analysis at Mars (SAM) instrument showed very broad H2O evolutions during sample heating at temperatures >450-500degC which had not been observed from previous samples. BS also had a significant broad evolution <450-500degC. We have undertaken a laboratory study targeted at understanding if the data from SAM can be used to place constraints on the nature of the amorphous phases. SAM-like evolved gas analyses have been performed on several opal and rhyolitic glass samples. Opal-A samples exhibited wide <500degC H2O evolutions, with lesser H2O evolved above 500degC. H2O evolution traces from rhyolitic glasses varied, having either two broad H2O peaks, <300degC and >500degC, or a broad peak centered around 400degC. For samples that produced two evolutions, the lower temperature peak is more intense than the higher temperature peak, a trend also exhibited by opal-A. This trend is consistent with data from BS, but does not seem consistent with data from BY and GH which evolved most of their H2O >500degC. It may be that dehydration of opal-A and/or rhyolitic glass can result in some preferential loss of lower temperature H2O, to produce traces that more closely resemble BY and GH. This is currently under investigation

  6. Text analysis methods, text analysis apparatuses, and articles of manufacture

    DOEpatents

    Whitney, Paul D; Willse, Alan R; Lopresti, Charles A; White, Amanda M

    2014-10-28

    Text analysis methods, text analysis apparatuses, and articles of manufacture are described according to some aspects. In one aspect, a text analysis method includes accessing information indicative of data content of a collection of text comprising a plurality of different topics, using a computing device, analyzing the information indicative of the data content, and using results of the analysis, identifying a presence of a new topic in the collection of text.

  7. Radical SAM catalysis via an organometallic intermediate with an Fe-[5'-C]-deoxyadenosyl bond.

    PubMed

    Horitani, Masaki; Shisler, Krista; Broderick, William E; Hutcheson, Rachel U; Duschene, Kaitlin S; Marts, Amy R; Hoffman, Brian M; Broderick, Joan B

    2016-05-13

    Radical S-adenosylmethionine (SAM) enzymes use a [4Fe-4S] cluster to cleave SAM to initiate diverse radical reactions. These reactions are thought to involve the 5'-deoxyadenosyl radical intermediate, which has not yet been detected. We used rapid freeze-quenching to trap a catalytically competent intermediate in the reaction catalyzed by the radical SAM enzyme pyruvate formate-lyase activating enzyme. Characterization of the intermediate by electron paramagnetic resonance and (13)C, (57)Fe electron nuclear double-resonance spectroscopies reveals that it contains an organometallic center in which the 5' carbon of a SAM-derived deoxyadenosyl moiety forms a bond with the unique iron site of the [4Fe-4S] cluster. Discovery of this intermediate extends the list of enzymatic bioorganometallic centers to the radical SAM enzymes, the largest enzyme superfamily known, and reveals intriguing parallels to B12 radical enzymes.

  8. STM characterization of DNA immobilized via Zr ion glue onto gold thiol SAMs

    NASA Astrophysics Data System (ADS)

    Pourbeyram, S.; Shervedani, R. K.; Sabzyan, H.

    2013-10-01

    In this paper layer-by-layer (LBL) assembly of calf thymus DNA (ct-DNA) onto gold-mercaptopropionic acid self-assembled monolayer via Zr(IV) ion glue, Au-MPA-Zr(IV)-ct-DNA SAM, is monitored by scanning tunneling microscopy (STM) technique. The STM images of Au-MPA-Zr(IV) template show well-organized arrays of rod-like peaks. ct-DNA has been immobilized on the Au-MPA-Zr(IV) surface in hilly forms, implying globular structure for the immobilized ct-DNA. This immobilization strategy offers a simple and fast method to prepare the Au-MPA-Zr(IV)-ct-DNA template with promising applications for immobilization and study of the other compounds.

  9. Re-engineering SAM or Changing the Engine in the Train While it is Running

    NASA Astrophysics Data System (ADS)

    Illingworth, R.; Mengel, M.; Norman, A.

    2015-12-01

    In the last few years at Fermilab we re-architect-ed our SAM1[1] family of data catalog and file transfer tools - including major changes - while continuing to transfer over 1 Pb/month of data to multiple existing experiments and bring new experiments on board. This work was done with less than 3 FTE-years of effort, and the changes made include major ones, such as changing interprocess communication protocols, migrating database back-ends, removing and replacing major components, and supporting new file delivery methods. This paper will summarize the approaches we have used to do this, including using design patterns like the Facade, Adapter, and Command patterns, and assisting experiments one at a time with client migration. This process has allowed us to modernize our infrastructure with reasonable costs in both calendar time and developer effort, while continuing to provide the operating service to our customers with minimal interruptions.

  10. An evaluation of fracture analysis methods

    NASA Technical Reports Server (NTRS)

    Newman, J. C., Jr.

    1985-01-01

    The results of an experimental and predictive round robin on the applications of fracture analysis methods are presented. The objective of the round robin was to verify whether fracture analysis methods currently in use can or cannot predict failure loads on complex structural components containing cracks. Fracture results from tests on a number of compact specimens were used to make the predictions. The accuracy of the prediction methods was evaluated in terms of the variation in the ratio of predicted to experimental failure loads, and the predictions methods are ranked in order of minimum standard error. A range of applicability of the different methods was also considered in assessing their usefulness. For 7075-T651 aluminum alloy, the best methods were: the effective K sub R curve; the critical crack-tip opening displacement (CTOD) criterion using a finite element analysis; and the K sub R curve with the Dugdale model. For the 2024-T351 aluminum alloy, the best methods included: the two-parameter fracture criterion (TPFC); the CTOD parameter using finite element analysis; the K-curve with the Dugdale model; the deformation plasticity failure assessment diagram (DPFAD); and the effective K sub R curve with a limit load condition. For 304 stainless steel, the best methods were the limit load analysis; the CTOD criterion using finite-element analysis TPFC and DPFAD. Some sample experimental results are given in an appendix.

  11. A Micro-Method of Protein Analysis

    DTIC Science & Technology

    The determination of protein by means of Weichselbaum’s (1) biuret method is too inexact when dealing with small quantities of protein (less than 200...microgram/ml initial reactant), owing to the low sensitivity of the color reaction . Although we have used this method for protein analysis of...have searched for a more sensitive colorimetric method. Nielsen (3) recently reported on a method in which the Cu bound by protein in the biuret

  12. SAMS, a syndrome of short stature, auditory-canal atresia, mandibular hypoplasia, and skeletal abnormalities is a unique neurocristopathy caused by mutations in Goosecoid.

    PubMed

    Parry, David A; Logan, Clare V; Stegmann, Alexander P A; Abdelhamed, Zakia A; Calder, Alistair; Khan, Shabana; Bonthron, David T; Clowes, Virginia; Sheridan, Eamonn; Ghali, Neeti; Chudley, Albert E; Dobbie, Angus; Stumpel, Constance T R M; Johnson, Colin A

    2013-12-05

    Short stature, auditory canal atresia, mandibular hypoplasia, and skeletal abnormalities (SAMS) has been reported previously to be a rare, autosomal-recessive developmental disorder with other, unique rhizomelic skeletal anomalies. These include bilateral humeral hypoplasia, humeroscapular synostosis, pelvic abnormalities, and proximal defects of the femora. To identify the genetic basis of SAMS, we used molecular karyotyping and whole-exome sequencing (WES) to study small, unrelated families. Filtering of variants from the WES data included segregation analysis followed by comparison of in-house exomes. We identified a homozygous 306 kb microdeletion and homozygous predicted null mutations of GSC, encoding Goosecoid homeobox protein, a paired-like homeodomain transcription factor. This confirms that SAMS is a human malformation syndrome resulting from GSC mutations. Previously, Goosecoid has been shown to be a determinant at the Xenopus gastrula organizer region and a segment-polarity determinant in Drosophila. In the present report, we present data on Goosecoid protein localization in staged mouse embryos. These data and the SAMS clinical phenotype both suggest that Goosecoid is a downstream effector of the regulatory networks that define neural-crest cell-fate specification and subsequent mesoderm cell lineages in mammals, particularly during shoulder and hip formation. Our findings confirm that Goosecoid has an essential role in human craniofacial and joint development and suggest that Goosecoid is an essential regulator of mesodermal patterning in mammals and that it has specific functions in neural crest cell derivatives.

  13. MSL/SAM Measurements of Non Condensable Volatiles, Comparison with Viking Lander, and Implications for Seasonal Cycle

    NASA Astrophysics Data System (ADS)

    Atreya, Sushil; Squyres, Steve; Mahaffy, Paul; Leshin, Laurie; Franz, Heather; Trainer, Melissa; Wong, Michael; McKay, Christopher; Navarro-Gonzalez, Rafael; ScienceTeam, MarsScienceLab

    2013-04-01

    The first measurements of the composition of the Martian atmosphere above Gale Crater by the Sample Analysis at Mars (SAM) instrument on Curiosity Rover revealed that although the volume mixing ratios (vmr) of the gases are generally similar to those measured by the Viking Lander 2 (VL2) thirty five years ago [2], they are notably different for N2 and 40Ar [1]. SAM finds a vmr of 1.9% each for N2 and Ar, so that N2 is 30% lower while Ar is 21% greater than the corresponding VL2 values, resulting in a 40% lower N2/Ar ratio compared to the VL2 result. The Ar/N ratio is used to assess the degree of mixing between the Martian atmosphere and the internal gas component of Mars meteorites due to the shock of impact ejection [e.g. 3]. The above differences in N2 and 40Ar seem to result either from different instrument characteristics or time variable atmospheric phenomena or both. The VL2 data were taken during northern summer (48°N, Ls=135°), whereas the SAM measurements correspond to the beginning of spring season (4.5°S, Ls=182-190°). Previous observations by Mars Odyssey Gamma Ray Spectrometer over three years have shown that the Ar mixing ratio increased by a factor of 6 over the south polar region in the winter [4]. However, the data are controversial for the equatorial region, ranging from no seasonal change [4] to as much as a 35% change [5]. No significant change was seen between the equator (SAM) and the midlatitude northern summer (VL2), however [4]. Thus the difference between the SAM and VL2 Ar does not appear to be related to different seasons. On the other hand, the vmr's of non-condensable volatiles (NCV), N2, Ar and CO, at any latitude are expected to vary seasonally due to the annual, global CO2 cycle. Diurnal changes are not expected, considering the long lifetimes of NCV's that exceed the martian year [6]. In addition to Ar, seasonal changes have been recorded in CO from ground-based [7] and MRO/CRISM observations [8], but show a much smaller

  14. [Framework analysis method in qualitative research].

    PubMed

    Liao, Xing; Liu, Jian-ping; Robison, Nicola; Xie, Ya-ming

    2014-05-01

    In recent years a number of qualitative research methods have gained popularity within the health care arena. Despite this popularity, different qualitative analysis methods pose many challenges to most researchers. The present paper responds to the needs expressed by recent Chinese medicine researches. The present paper is mainly focused on the concepts, nature, application of framework analysis, especially on how to use it, in such a way to assist the newcomer of Chinese medicine researchers to engage with the methodology.

  15. Airbreathing hypersonic vehicle design and analysis methods

    NASA Technical Reports Server (NTRS)

    Lockwood, Mary Kae; Petley, Dennis H.; Hunt, James L.; Martin, John G.

    1996-01-01

    The design, analysis, and optimization of airbreathing hypersonic vehicles requires analyses involving many highly coupled disciplines at levels of accuracy exceeding those traditionally considered in a conceptual or preliminary-level design. Discipline analysis methods including propulsion, structures, thermal management, geometry, aerodynamics, performance, synthesis, sizing, closure, and cost are discussed. Also, the on-going integration of these methods into a working environment, known as HOLIST, is described.

  16. Hypothesis analysis methods, hypothesis analysis devices, and articles of manufacture

    SciTech Connect

    Sanfilippo, Antonio P; Cowell, Andrew J; Gregory, Michelle L; Baddeley, Robert L; Paulson, Patrick R; Tratz, Stephen C; Hohimer, Ryan E

    2012-03-20

    Hypothesis analysis methods, hypothesis analysis devices, and articles of manufacture are described according to some aspects. In one aspect, a hypothesis analysis method includes providing a hypothesis, providing an indicator which at least one of supports and refutes the hypothesis, using the indicator, associating evidence with the hypothesis, weighting the association of the evidence with the hypothesis, and using the weighting, providing information regarding the accuracy of the hypothesis.

  17. Laboratory theory and methods for sediment analysis

    USGS Publications Warehouse

    Guy, Harold P.

    1969-01-01

    The diverse character of fluvial sediments makes the choice of laboratory analysis somewhat arbitrary and the pressing of sediment samples difficult. This report presents some theories and methods used by the Water Resources Division for analysis of fluvial sediments to determine the concentration of suspended-sediment samples and the particle-size distribution of both suspended-sediment and bed-material samples. Other analyses related to these determinations may include particle shape, mineral content, and specific gravity, the organic matter and dissolved solids of samples, and the specific weight of soils. The merits and techniques of both the evaporation and filtration methods for concentration analysis are discussed. Methods used for particle-size analysis of suspended-sediment samples may include the sieve pipet, the VA tube-pipet, or the BW tube-VA tube depending on the equipment available, the concentration and approximate size of sediment in the sample, and the settling medium used. The choice of method for most bed-material samples is usually limited to procedures suitable for sand or to some type of visual analysis for large sizes. Several tested forms are presented to help insure a well-ordered system in the laboratory to handle the samples, to help determine the kind of analysis required for each, to conduct the required processes, and to assist in the required computations. Use of the manual should further 'standardize' methods of fluvial sediment analysis among the many laboratories and thereby help to achieve uniformity and precision of the data.

  18. Two MIS Analysis Methods: An Experimental Comparison.

    ERIC Educational Resources Information Center

    Wang, Shouhong

    1996-01-01

    In China, 24 undergraduate business students applied data flow diagrams (DFD) to a mini-case, and 20 used object-oriented analysis (OOA). DFD seemed easier to learn, but after training, those using the OOA method for systems analysis made fewer errors. (SK)

  19. SAMS Acceleration Measurements on Mir from November 1995 to March 1996

    NASA Technical Reports Server (NTRS)

    DeLombard, Richard

    1997-01-01

    The NASA Microgravity Science and Applications Division (MSAD) sponsors science experiments on a variety of microgravity carriers, including Orbiter missions and Russia's Mir space station. The MSAD sponsors the Space Acceleration Measurement System (SAMS) at the NASA Lewis Research Center (LERC) to support these science experiments by providing acceleration measurements to characterize the microgravity environment to which the experiments were exposed. The LeRC Principal Investigator Microgravity Services (PIMS) project supports principal investigations of microgravity science experiments as they evaluate the effects of varying acceleration levels on their experiments. In 1994, a SAMS unit was installed on the Mir space station. In a manner similar to Orbiter mission support, the SAMS unit supports science experiments from the U.S. and Russia by measuring the microgravity environment during experiment operations. Previous reports have summarized the SAMS data acquired during the period from September 1994 to November 1995. During the time period from November 1995 to March 1996, the primary SAMS-supported experiment was a Protein Crystal Growth (PCG) experiment. SAMS data were obtained during the PCG operations on Mir in accordance with the requirements specified by the PCG Principal Investigator. Also included in this data are mission events of interest, such as the undocking of STS-74 from Mir (November 1995) and the docking of Atlantis (STS-76) to Mir in March 1996. This report presents an overview of the SAMS data recorded in the interval from November 1995 to March 1996.

  20. The integrated conjugative plasmid pSAM2 of Streptomyces ambofaciens is related to temperate bacteriophages.

    PubMed

    Boccard, F; Smokvina, T; Pernodet, J L; Friedmann, A; Guérineau, M

    1989-03-01

    Streptomyces ambofaciens ATCC23877 and derivatives contain the 11-kb element pSAM2 present in an integrated state or as a free and integrated plasmid. This element, able to integrate site-specifically in the genome of different Streptomyces species, is conjugative and mobilizes chromosomal markers. Besides these plasmid functions, we have shown that the site-specific recombination system of pSAM2 presents strong similarities with that of several temperate phages. The integration event is promoted by a site-specific recombinase of the integrase family. The int gene encoding this integrase is closely linked to the plasmid attachment site (attP). A small open reading frame (ORF) overlaps the int gene and the predicted protein exhibits similarities with Xis proteins involved in phages excision. The integrated copy of pSAM2 in strain ATCC23877 is flanked by att sequences (attL and attR). Another att sequence (attX) is present in this strain and attX and attL are the boundaries of a 42-kb fragment (xSAM1) absent, as well as pSAM2, from S.ambofaciens DSM40697. Sequences partially similar to pSAM2 int gene are found near the chromosomal integration zone in both S.ambofaciens strains. The possible origin of pSAM2, an element carrying plasmid as well as phage features, is discussed.

  1. The integrative element pSAM2 from Streptomyces: kinetics and mode of conjugal transfer.

    PubMed

    Possoz, C; Ribard, C; Gagnat, J; Pernodet, J L; Guérineau, M

    2001-10-01

    pSAM2 is an 11 kb integrative element from Streptomyces ambofaciens that is capable of conjugal transfer. A system based on differential DNA modification by SalI methyltransferase was used to localize pSAM2 in the donor or recipient strain, and thus to determine the various steps associated with transfer. Initiation (i.e. excision and replication of pSAM2 in the donor) occurs a few hours after mating with a recipient strain. pSAM2 replicates in the recipient strain, spreads within the mycelium and then integrates into the chromosome. Transfer generally involves single-stranded DNA. In Streptomyces, only a few genes, such as traSA for pSAM2, are required for conjugal transfer. Using the differential sensitivity to the SalI restriction-modification system of transfers involving single- and double-stranded DNA, we found that pSAM2 was probably transferred to the recipient as double-stranded DNA. This provides the first experimental evidence for the transfer of double-stranded DNA during bacterial conjugation. Thus, TraSA, involved in pSAM2 transfer, and SpoIIIE, which is involved in chromosome partitioning in Bacillus subtilis, display similarities in both sequence and function: both seem to transport double-stranded DNA actively, either from donor to recipient or from mother cell to prespore.

  2. Soil Moisture Monitoring Using GNSS-R Signals; First Experimental Results with the SAM Sensor

    NASA Astrophysics Data System (ADS)

    Egido, A.; Martin-Puig, C.; Felip, D.; Garcia, M.; Caparrini, M.; Farres, E.; Ruffini, G.

    2009-04-01

    Observing the Earth surface with Global Navigation Satellite Systems (GNSS) reflected signals has become a noteworthy remote sensing technique for the scientific community. The growing interest in GNSS as a remote sensing tool is due to its global availability and the carrier frequencies used. In fact, L-band, in which all current and next-future Global Navigation Satellite Systems emit, is a portion of the electromagnetic spectrum that highly interacts with the natural medium and for this reason, the possible applications exploiting these signals are numerous. In addition, the large number of GNSS signals in space, and their steadily increasing quantity and quality predicts a promising future for this remote sensing technique. Among a wide variety of applications, soil moisture (SM) monitoring represents an important niche for GNSS-R. SM is a prime parameter for the surface hydrologic cycle since it drives the evapotranspiration and the heat storage capability of the soil, as well as determines the possibility of surface runoff after rainfalls. Despite the recognised environmental and commercial relevance of SM, providing such parameter over global and large scales remains a significant challenge. Sensors based on GNSS-R offer a suitable and efficient solution to this issue. The basis for the retrieval of SM with GNSS-R systems lays in the variability of the ground dielectric properties associated to water content. The higher the concentration of water in the soil, the higher the dielectric constant and reflectivity, which affects signals that reflect from the Earth surface by increasing their peak power. Previous investigations, [1,2] demonstrated the capability of GPS bistatic scatterometers to sense small changes in surface reflectivity, becoming a precedent for this promising research line. GNSS-R present various advantages with respect to others methods currently used to retrieve soil moisture. Firstly, as already mentioned, GNSS signals lie in L band, which

  3. The Effect of S-Adenosylmethionine on Cognitive Performance in Mice: An Animal Model Meta-Analysis

    PubMed Central

    Montgomery, Sarah E.; Sepehry, Amir A.; Wangsgaard, John D.; Koenig, Jeremy E.

    2014-01-01

    Background Alzheimer's disease (AD) is the most frequently diagnosed form of dementia resulting in cognitive impairment. Many AD mouse studies, using the methyl donor S-adenosylmethionine (SAM), report improved cognitive ability, but conflicting results between and within studies currently exist. To address this, we conducted a meta-analysis to evaluate the effect of SAM on cognitive ability as measured by Y maze performance. As supporting evidence, we include further discussion of improvements in cognitive ability, by SAM, as measured by the Morris water maze (MWM). Methods We conducted a comprehensive literature review up to April 2014 based on searches querying MEDLINE, EMBASE, Web of Science, the Cochrane Library and Proquest Theses and Dissertation databases. We identified three studies containing a total of 12 experiments that met our inclusion criteria and one study for qualitative review. The data from these studies were used to evaluate the effect of SAM on cognitive performance according to two scenarios: 1. SAM supplemented folate deficient (SFD) diet compared to a folate deficient (FD) diet and 2. SFD diet compared to a nutrient complete (NC) diet. Hedge's g was used to calculate effect sizes and mixed effects model meta-regression was used to evaluate moderating factors. Results Our findings showed that the SFD diet was associated with improvements in cognitive performance. SFD diet mice also had superior cognitive performance compared to mice on an NC diet. Further to this, meta-regression analyses indicated a significant positive effect of study quality score and treatment duration on the effect size estimate for both the FD vs SFD analysis and the SFD vs NC analysis. Conclusion The findings of this meta-analysis demonstrate efficacy of SAM in acting as a cognitive performance-enhancing agent. As a corollary, SAM may be useful in improving spatial memory in patients suffering from many dementia forms including AD. PMID:25347725

  4. Causal Moderation Analysis Using Propensity Score Methods

    ERIC Educational Resources Information Center

    Dong, Nianbo

    2012-01-01

    This paper is based on previous studies in applying propensity score methods to study multiple treatment variables to examine the causal moderator effect. The propensity score methods will be demonstrated in a case study to examine the causal moderator effect, where the moderators are categorical and continuous variables. Moderation analysis is an…

  5. The association of Sam68 with Vav1 contributes to tumorigenesis.

    PubMed

    Lazer, Galit; Pe'er, Liron; Schapira, Vered; Richard, Stéphane; Katzav, Shulamit

    2007-12-01

    Vav1 functions in the hematopoietic system as a specific GDP/GTP nucleotide exchange factor regulated by tyrosine phosphorylation. An intact C-terminal SH3 domain of Vav1 (Vav1SH3C) was shown to be necessary for Vav1-induced transformation, yet the associating protein(s) necessary for this activity have not yet been identified. Using a proteomics approach, we identified Sam68 as a Vav1SH3C-associating protein. Sam68 (Src-associated in mitosis of 68 kD) belongs to the heteronuclear ribonucleoprotein particle K (hnRNP-K) homology (KH) domain family of RNA-binding proteins. The Vav1/Sam68 interaction was observed in vitro and in vivo. Mutants of Vav1SH3C previously shown to lose their transforming potential did not associate with Sam68. Co-expression of Vav1 and Sam68 in Jurkat T cells led to increased localization of Vav1 in the nucleus and changes in cell morphology. We then tested the contribution of Sam68 to known functions of Vav1, such as focus-forming in NIH3T3 fibroblasts and NFAT stimulation in T cells. Co-expression of oncogenic Vav1 with Sam68 in NIH3T3 fibroblasts resulted in a dose-dependent increase in foci, yet no further enhancement of NFAT activity was observed in Jurkat T cells, as compared to cells overexpressing only Vav1 or Sam68. Our results strongly suggest that Sam68 contributes to transformation by oncogenic Vav1.

  6. Sam68 Mediates the Activation of Insulin and Leptin Signalling in Breast Cancer Cells

    PubMed Central

    Pérez-Pérez, Antonio; Sánchez-Jiménez, Flora; Vilariño-García, Teresa; de la Cruz, Luis; Virizuela, Juan A.; Sánchez-Margalet, Víctor

    2016-01-01

    Obesity is a well-known risk factor for breast cancer development in postmenopausal women. High insulin and leptin levels seem to have a role modulating the growth of these tumours. Sam68 is an RNA-binding protein with signalling functions that has been found to be overexpressed in breast cancer. Moreover, Sam68 may be recruited to insulin and leptin signalling pathways, mediating its effects on survival, growth and proliferation in different cellular types. We aimed to study the expression of Sam68 and its phosphorylation level upon insulin and leptin stimulation, and the role of Sam68 in the proliferative effect and signalling pathways that are activated by insulin or leptin in human breast adenocarcinoma cells. In the human breast adenocarcinoma cell lines MCF7, MDA-MB-231 and BT-474, Sam68 protein quantity and gene expression were increased upon leptin or insulin stimulation, as it was checked by qPCR and immunoblot. Moreover, both insulin and leptin stimulation promoted an increase in Sam68 tyrosine phosphorylation and negatively regulated its RNA binding capacity. siRNA was used to downregulate Sam68 expression, which resulted in lower proliferative effects of both insulin and leptin, as well as a lower activation of MAPK and PI3K pathways promoted by both hormones. These effects may be partly explained by the decrease in IRS-1 expression by down-regulation of Sam68. These results suggest the participation of Sam68 in both leptin and insulin receptor signaling in human breast cancer cells, mediating the trophic effects of these hormones in proliferation and cellular growth. PMID:27415018

  7. Hybrid least squares multivariate spectral analysis methods

    DOEpatents

    Haaland, David M.

    2002-01-01

    A set of hybrid least squares multivariate spectral analysis methods in which spectral shapes of components or effects not present in the original calibration step are added in a following estimation or calibration step to improve the accuracy of the estimation of the amount of the original components in the sampled mixture. The "hybrid" method herein means a combination of an initial classical least squares analysis calibration step with subsequent analysis by an inverse multivariate analysis method. A "spectral shape" herein means normally the spectral shape of a non-calibrated chemical component in the sample mixture but can also mean the spectral shapes of other sources of spectral variation, including temperature drift, shifts between spectrometers, spectrometer drift, etc. The "shape" can be continuous, discontinuous, or even discrete points illustrative of the particular effect.

  8. A comparative study of aerosol extinction measurements made by the SAM II and SAGE satellite experiments

    NASA Technical Reports Server (NTRS)

    Yue, G. K.; Mccormick, M. P.; Chu, W. P.

    1984-01-01

    SAM II and SAGE are two satellite experiments designed to measure stratospheric aerosol extinction using the technique of solar occultation or limb extinction. Although each sensor is mounted aboard a different satellite, there are occasions when their measurement locations are nearly coincident, thereby providing opportunities for a measurement comparison. In this paper, the aerosol extinction profiles and daily contour plots for some of these events in 1979 are reported. The comparisons shown in this paper demonstrate that SAM II and SAGE are producing similar aerosol extinction profiles within their measurement errors and that since SAM II has been previously validated, these results show the validity of the SAGE aerosol measurements.

  9. The fSAM Model of False Recall

    PubMed Central

    Kimball, Daniel R.; Smith, Troy A.; Kahana, Michael J.

    2009-01-01

    The authors report a new theory of false memory building upon existing associative memory models and implemented in fSAM, the first fully specified quantitative model of false recall. Participants frequently intrude unstudied critical words while recalling lists comprising their strongest semantic associates but infrequently produce other extralist and prior-list intrusions. The authors developed the theory by simulating recall of such lists, using factorial combinations of semantic mechanisms operating at encoding, retrieval, or both stages. During encoding, unstudied words' associations to list context were strengthened in proportion to their strength of semantic association either to each studied word or to all co-rehearsed words. During retrieval, words received preference in proportion to their strength of semantic association to the most recently recalled single word or multiple words. The authors simulated all intrusion types and veridical recall for lists varying in semantic association strength among studied and critical words from the same and different lists. Multiplicative semantic encoding and retrieval mechanisms performed well in combination. Using such combined mechanisms, the authors also simulated several core findings from the Deese–Roediger–McDermott paradigm literature, including developmental patterns, specific list effects, association strength effects, and true–false correlations. These results challenge existing false-memory theories. PMID:17907869

  10. Sam Goudsmit--His Physics and His Statesmanship

    NASA Astrophysics Data System (ADS)

    Bederson, Benjamin

    2010-03-01

    Sam Goudsmit was already a famous theoretical physicist in his thirties, mainly because of his co-discovery of electron spin with George Uhlenbeck while both were students of Paul Ehrenfest in Holland in 1925. He and Uhlenbeck continued their thriving careers at the University of Michigan. Goudsmit's style as a physicist was always to make as close a connection between theory and experiment as possible. Thus, for example, his development with his student Robert Bacher of the technique called ``fractional parentage'' used fruitfully in both atomic and nuclear physics to compute energy levels of unknown states in terms of know ones. He also delved deeply into problems related to determinations of nuclear spins and moments. Partly because of his service as scientific leader of the Alsos project at the end of WWII he became a leading statesman of science. I will describe some of his achievements both as a physicist and as a statesman, prior to his becoming Editor in Chief of the American Physical Society.

  11. Method and apparatus for ceramic analysis

    DOEpatents

    Jankowiak, Ryszard J.; Schilling, Chris; Small, Gerald J.; Tomasik, Piotr

    2003-04-01

    The present invention relates to a method and apparatus for ceramic analysis, in particular, a method for analyzing density, density gradients and/or microcracks, including an apparatus with optical instrumentation for analysis of density, density gradients and/or microcracks in ceramics. The method provides analyzing density of a ceramic comprising exciting a component on a surface/subsurface of the ceramic by exposing the material to excitation energy. The method may further include the step of obtaining a measurement of an emitted energy from the component. The method may additionally include comparing the measurement of the emitted energy from the component with a predetermined reference measurement so as to obtain a density for said ceramic.

  12. Bioanalytical methods for food contaminant analysis.

    PubMed

    Van Emon, Jeanette M

    2010-01-01

    Foods are complex mixtures of lipids, carbohydrates, proteins, vitamins, organic compounds, and other naturally occurring substances. Sometimes added to this mixture are residues of pesticides, veterinary and human drugs, microbial toxins, preservatives, contaminants from food processing and packaging, and other residues. This milieu of compounds can pose difficulties in the analysis of food contaminants. There is an expanding need for rapid and cost-effective residue methods for difficult food matrixes to safeguard our food supply. Bioanalytical methods are established for many food contaminants such as mycotoxins and are the method of choice for many food allergens. Bioanalytical methods are often more cost-effective and sensitive than instrumental procedures. Recent developments in bioanalytical methods may provide more applications for their use in food analysis.

  13. Study of Fused Thiophene Based Organic Semiconductors and Interfacial Self-Assembled Monolayer (SAM) for Thin-Film Transistor (TFT) Application

    NASA Astrophysics Data System (ADS)

    Youn, Jangdae

    , the role of a thiol SAM on top of the gold electrode is investigated in terms of semiconductor film structure and OTFT performance in the bottom-contact/ bottom-gate TFT structure by using one of the most successful small molecule based n-type organic semiconductors, α,ω-diperfluorohexylquarterthiophene (DFH-4T) and N,N' bis(n-octyl)-dicyanoperylene-3,4:9,10-bis(dicarb-oximide) (PDI-8CN2). The study of semiconductor film morphogy shows that the semiconductor molecules at the gold/SAM/semiconductor interface are aligned normal to the substrate, facilitating charge transport at the interfacial region. As a result, contact resistance was minimized, and the OTFT device performance was improved. When it comes to semiconductor-dielectric interface, it is important because the charge transport layer of the OTFTs is formed within several monolayers of semiconductor films right above the gate dielectric. The physical and chemical nature of the dielectric surface significantly influences charge flow. For example, the surface of a SiO2 dielectric contains a large number of SiOH functional groups in air. After depositing semiconductor material on top of the SiO2 surface, those SiOH functional groups play a role of charge traps. One of the most effective ways of circumventing this problem is to introduce organic self-assembled monolayers (SAMs) on the SiO 2 dielectric surface. The SAMs in the semiconductor-dielectric interface not only minimize the charge traps but also improve the crystallinity of top semiconductor layers. Furthermore, the improvement of the semiconductor film microstructure depends on the structure of the SAM. When the SAM is disorganized, the size and density of crystalline domains in the semiconductor film decline. Meanwhile, the domain size and population density of crystalline domains expand when the SAM is tightly packed and vertically aligned. In this thesis, a humidity control method of fabricating high quality octadecyltrichlorosilane (OTS) SAM on SiO2

  14. Hybrid least squares multivariate spectral analysis methods

    DOEpatents

    Haaland, David M.

    2004-03-23

    A set of hybrid least squares multivariate spectral analysis methods in which spectral shapes of components or effects not present in the original calibration step are added in a following prediction or calibration step to improve the accuracy of the estimation of the amount of the original components in the sampled mixture. The hybrid method herein means a combination of an initial calibration step with subsequent analysis by an inverse multivariate analysis method. A spectral shape herein means normally the spectral shape of a non-calibrated chemical component in the sample mixture but can also mean the spectral shapes of other sources of spectral variation, including temperature drift, shifts between spectrometers, spectrometer drift, etc. The shape can be continuous, discontinuous, or even discrete points illustrative of the particular effect.

  15. Spectroscopic chemical analysis methods and apparatus

    NASA Technical Reports Server (NTRS)

    Hug, William F. (Inventor); Reid, Ray D. (Inventor)

    2010-01-01

    Spectroscopic chemical analysis methods and apparatus are disclosed which employ deep ultraviolet (e.g. in the 200 nm to 300 nm spectral range) electron beam pumped wide bandgap semiconductor lasers, incoherent wide bandgap semiconductor light emitting devices, and hollow cathode metal ion lasers to perform non-contact, non-invasive detection of unknown chemical analytes. These deep ultraviolet sources enable dramatic size, weight and power consumption reductions of chemical analysis instruments. Chemical analysis instruments employed in some embodiments include capillary and gel plane electrophoresis, capillary electrochromatography, high performance liquid chromatography, flow cytometry, flow cells for liquids and aerosols, and surface detection instruments. In some embodiments, Raman spectroscopic detection methods and apparatus use ultra-narrow-band angle tuning filters, acousto-optic tuning filters, and temperature tuned filters to enable ultra-miniature analyzers for chemical identification. In some embodiments Raman analysis is conducted simultaneously with native fluorescence spectroscopy to provide high levels of sensitivity and specificity in the same instrument.

  16. Spectroscopic chemical analysis methods and apparatus

    NASA Technical Reports Server (NTRS)

    Hug, William F. (Inventor); Reid, Ray D. (Inventor)

    2009-01-01

    Spectroscopic chemical analysis methods and apparatus are disclosed which employ deep ultraviolet (e.g. in the 200 nm to 300 nm spectral range) electron beam pumped wide bandgap semiconductor lasers, incoherent wide bandgap semiconductor light emitting devices, and hollow cathode metal ion lasers to perform non-contact, non-invasive detection of unknown chemical analytes. These deep ultraviolet sources enable dramatic size, weight and power consumption reductions of chemical analysis instruments. Chemical analysis instruments employed in some embodiments include capillary and gel plane electrophoresis, capillary electrochromatography, high performance liquid chromatography, flow cytometry, flow cells for liquids and aerosols, and surface detection instruments. In some embodiments, Raman spectroscopic detection methods and apparatus use ultra-narrow-band angle tuning filters, acousto-optic tuning filters, and temperature tuned filters to enable ultra-miniature analyzers for chemical identification. In some embodiments Raman analysis is conducted simultaneously with native fluorescence spectroscopy to provide high levels of sensitivity and specificity in the same instrument.

  17. Advanced analysis methods in particle physics

    SciTech Connect

    Bhat, Pushpalatha C.; /Fermilab

    2010-10-01

    Each generation of high energy physics experiments is grander in scale than the previous - more powerful, more complex and more demanding in terms of data handling and analysis. The spectacular performance of the Tevatron and the beginning of operations of the Large Hadron Collider, have placed us at the threshold of a new era in particle physics. The discovery of the Higgs boson or another agent of electroweak symmetry breaking and evidence of new physics may be just around the corner. The greatest challenge in these pursuits is to extract the extremely rare signals, if any, from huge backgrounds arising from known physics processes. The use of advanced analysis techniques is crucial in achieving this goal. In this review, I discuss the concepts of optimal analysis, some important advanced analysis methods and a few examples. The judicious use of these advanced methods should enable new discoveries and produce results with better precision, robustness and clarity.

  18. Automating the analytical laboratory via the Chemical Analysis Automation paradigm

    SciTech Connect

    Hollen, R.; Rzeszutko, C.

    1997-10-01

    To address the need for standardization within the analytical chemistry laboratories of the nation, the Chemical Analysis Automation (CAA) program within the US Department of Energy, Office of Science and Technology`s Robotic Technology Development Program is developing laboratory sample analysis systems that will automate the environmental chemical laboratories. The current laboratory automation paradigm consists of islands-of-automation that do not integrate into a system architecture. Thus, today the chemist must perform most aspects of environmental analysis manually using instrumentation that generally cannot communicate with other devices in the laboratory. CAA is working towards a standardized and modular approach to laboratory automation based upon the Standard Analysis Method (SAM) architecture. Each SAM system automates a complete chemical method. The building block of a SAM is known as the Standard Laboratory Module (SLM). The SLM, either hardware or software, automates a subprotocol of an analysis method and can operate as a standalone or as a unit within a SAM. The CAA concept allows the chemist to easily assemble an automated analysis system, from sample extraction through data interpretation, using standardized SLMs without the worry of hardware or software incompatibility or the necessity of generating complicated control programs. A Task Sequence Controller (TSC) software program schedules and monitors the individual tasks to be performed by each SLM configured within a SAM. The chemist interfaces with the operation of the TSC through the Human Computer Interface (HCI), a logical, icon-driven graphical user interface. The CAA paradigm has successfully been applied in automating EPA SW-846 Methods 3541/3620/8081 for the analysis of PCBs in a soil matrix utilizing commercially available equipment in tandem with SLMs constructed by CAA.

  19. NOA: a novel Network Ontology Analysis method.

    PubMed

    Wang, Jiguang; Huang, Qiang; Liu, Zhi-Ping; Wang, Yong; Wu, Ling-Yun; Chen, Luonan; Zhang, Xiang-Sun

    2011-07-01

    Gene ontology analysis has become a popular and important tool in bioinformatics study, and current ontology analyses are mainly conducted in individual gene or a gene list. However, recent molecular network analysis reveals that the same list of genes with different interactions may perform different functions. Therefore, it is necessary to consider molecular interactions to correctly and specifically annotate biological networks. Here, we propose a novel Network Ontology Analysis (NOA) method to perform gene ontology enrichment analysis on biological networks. Specifically, NOA first defines link ontology that assigns functions to interactions based on the known annotations of joint genes via optimizing two novel indexes 'Coverage' and 'Diversity'. Then, NOA generates two alternative reference sets to statistically rank the enriched functional terms for a given biological network. We compare NOA with traditional enrichment analysis methods in several biological networks, and find that: (i) NOA can capture the change of functions not only in dynamic transcription regulatory networks but also in rewiring protein interaction networks while the traditional methods cannot and (ii) NOA can find more relevant and specific functions than traditional methods in different types of static networks. Furthermore, a freely accessible web server for NOA has been developed at http://www.aporc.org/noa/.

  20. Tandem SAM Domain Structure of Human Caskin1: A Presynaptic, Self-Assembling Scaffold for CASK

    SciTech Connect

    Stafford, Ryan L.; Hinde, Elizabeth; Knight, Mary Jane; Pennella, Mario A.; Ear, Jason; Digman, Michelle A.; Gratton, Enrico; Bowie, James U.

    2012-02-07

    The synaptic scaffolding proteins CASK and Caskin1 are part of the fibrous mesh of proteins that organize the active zones of neural synapses. CASK binds to a region of Caskin1 called the CASK interaction domain (CID). Adjacent to the CID, Caskin1 contains two tandem sterile a motif (SAM) domains. Many SAM domains form polymers so they are good candidates for forming the fibrous structures seen in the active zone. We show here that the SAM domains of Caskin1 form a new type of SAM helical polymer. The Caskin1 polymer interface exhibits a remarkable segregation of charged residues, resulting in a high sensitivity to ionic strength in vitro. The Caskin1 polymers can be decorated with CASK proteins, illustrating how these proteins may work together to organize the cytomatrix in active zones.

  1. Stability of binary SAMs formed by omega-acid and alcohol functionalized thiol mixtures.

    PubMed

    Tielens, Frederik; Humblot, Vincent; Pradier, Claire-Marie; Calatayud, Monica; Illas, Francesc

    2009-09-01

    A simple model is presented to describe the mixing process of acid- and alcohol-terminated thiol self-assembled monolayers (SAMs) on Au(111). It was found that the low-concentration acid-terminated SAMs are enriched in acid thiol compared with the original solution from which the SAM is made. Due to the relatively strong interaction between acid and alcohol head groups, homogeneously mixed SAMs showing alcohol/acid pairs are preferred when the acid-terminated thiol fraction in solution is below or equal to 50%. This particular behavior affecting the mixing process is explained using atomistic first-principle thermodynamics. The calculated phase diagram has been discussed and interpreted with the help of XPS.

  2. Chromatographic methods for analysis of triazine herbicides.

    PubMed

    Abbas, Hana Hassan; Elbashir, Abdalla A; Aboul-Enein, Hassan Y

    2015-01-01

    Gas chromatography (GC) and high-performance liquid chromatography (HPLC) coupled to different detectors, and in combination with different sample extraction methods, are most widely used for analysis of triazine herbicides in different environmental samples. Nowadays, many variations and modifications of extraction and sample preparation methods such as solid-phase microextraction (SPME), hollow fiber-liquid phase microextraction (HF-LPME), stir bar sportive extraction (SBSE), headspace-solid phase microextraction (HS-SPME), dispersive liquid-liquid microextraction (DLLME), dispersive liquid-liquid microextraction based on solidification of floating organic droplet (DLLME-SFO), ultrasound-assisted emulsification microextraction (USAEME), and others have been introduced and developed to obtain sensitive and accurate methods for the analysis of these hazardous compounds. In this review, several analytical properties such as linearity, sensitivity, repeatability, and accuracy for each developed method are discussed, and excellent results were obtained for the most of developed methods combined with GC and HPLC techniques for the analysis of triazine herbicides. This review gives an overview of recent publications of the application of GC and HPLC for analysis of triazine herbicides residues in various samples.

  3. CD and NMR conformational studies of a peptide encompassing the Mid Loop interface of Ship2-Sam.

    PubMed

    Mercurio, Flavia A; Scognamiglio, Pasqualina L; Di Natale, Concetta; Marasco, Daniela; Pellecchia, Maurizio; Leone, Marilisa

    2014-11-01

    The lipid phosphatase Ship2 is a protein that intervenes in several diseases such as diabetes, cancer, neurodegeneration, and atherosclerosis. It is made up of a catalytic domain and several protein docking modules such as a C-terminal Sam (Sterile alpha motif) domain. The Sam domain of Ship2 (Ship2-Sam) binds to the Sam domains of the EphA2 receptor (EphA2-Sam) and the PI3K effector protein Arap3 (Arap3-Sam). These heterotypic Sam-Sam interactions occur through formation of dimers presenting the canonical "Mid Loop/End Helix" binding mode. The central region of Ship2-Sam, spanning the C-terminal end of α2, the α3 and α4 helices together with the α2α3 and α3α4 interhelical loops, forms the Mid Loop surface that is needed to bind partners Sam domains. A peptide encompassing most of the Ship2-Sam Mid Loop interface (Shiptide) capable of binding to both EphA2-Sam and Arap3-Sam, was previously identified. Here we investigated the conformational features of this peptide, through solution CD and NMR studies in different conditions. These studies reveal that the peptide is highly flexible in aqueous buffer, while it adopts a helical conformation in presence of 2,2,2-trifluoroethanol. The discovered structural insights and in particular the identification of a helical motif, may lead to the design of more constrained and possibly cell permeable Shiptide analogs that could work as efficient antagonists of Ship2-Sam heterotypic interactions and embrace therapeutic applications.

  4. Potential precursor compounds for chlorohydrocarbons detected in Gale Crater, Mars, by the SAM instrument suite on the Curiosity Rover

    NASA Astrophysics Data System (ADS)

    Miller, Kristen E.; Eigenbrode, Jennifer L.; Freissinet, Caroline; Glavin, Daniel P.; Kotrc, Benjamin; Francois, Pascaline; Summons, Roger E.

    2016-03-01

    The detection of chlorinated organic compounds in near-surface sedimentary rocks by the Sample Analysis at Mars (SAM) instrument suite aboard the Mars Science Laboratory Curiosity rover represents an important step toward characterizing habitable environments on Mars. However, this discovery also raises questions about the identity and source of their precursor compounds and the processes by which they become chlorinated. Here we present the results of analog experiments, conducted under conditions similar to SAM gas chromatography-mass spectrometry analyses, in which we pyrolyzed potential precursor compounds in the presence of various Cl salts and Fe oxides that have been identified in Martian sediments. While chloromethanes could not be unambiguously identified, 1,2-dichloropropane (1,2-DCP), which is one of the chlorinated compounds identified in SAM data, is formed from the chlorination of aliphatic precursors. Additionally, propanol produced more 1,2-DCP than nonfunctionalized aliphatics such as propane or hexanes. Chlorinated benzenes ranging from chlorobenzene to hexachlorobenzene were identified in experiments with benzene carboxylic acids but not with benzene or toluene. Lastly, the distribution of chlorinated benzenes depended on both the substrate species and the nature and concentration of the Cl salt. Ca and Mg perchlorate, both of which release O2 in addition to Cl2 and HCl upon pyrolysis, formed less chlorobenzene relative to the sum of all chlorinated benzenes than in experiments with ferric chloride. FeCl3, a Lewis acid, catalyzes chlorination but does not aid combustion. Accordingly, both the precursor chemistry and sample mineralogy exert important controls on the distribution of chlorinated organics.

  5. Design analysis, robust methods, and stress classification

    SciTech Connect

    Bees, W.J.

    1993-01-01

    This special edition publication volume is comprised of papers presented at the 1993 ASME Pressure Vessels and Piping Conference, July 25--29, 1993 in Denver, Colorado. The papers were prepared for presentations in technical sessions developed under the auspices of the PVPD Committees on Computer Technology, Design and Analysis, Operations Applications and Components. The topics included are: Analysis of Pressure Vessels and Components; Expansion Joints; Robust Methods; Stress Classification; and Non-Linear Analysis. Individual papers have been processed separately for inclusion in the appropriate data bases.

  6. Simplified method for nonlinear structural analysis

    NASA Technical Reports Server (NTRS)

    Kaufman, A.

    1983-01-01

    A simplified inelastic analysis computer program was developed for predicting the stress-strain history of a thermomechanically cycled structure from an elastic solution. The program uses an iterative and incremental procedure to estimate the plastic strains from the material stress-strain properties and a simulated plasticity hardening model. The simplified method was exercised on a number of problems involving uniaxial and multiaxial loading, isothermal and nonisothermal conditions, and different materials and plasticity models. Good agreement was found between these analytical results and nonlinear finite element solutions for these problems. The simplified analysis program used less than 1 percent of the CPU time required for a nonlinear finite element analysis.

  7. Numerical analysis of the orthogonal descent method

    SciTech Connect

    Shokov, V.A.; Shchepakin, M.B.

    1994-11-01

    The author of the orthogonal descent method has been testing it since 1977. The results of these tests have only strengthened the need for further analysis and development of orthogonal descent algorithms for various classes of convex programming problems. Systematic testing of orthogonal descent algorithms and comparison of test results with other nondifferentiable optimization methods was conducted at TsEMI RAN in 1991-1992 using the results.

  8. Iterative methods for design sensitivity analysis

    NASA Technical Reports Server (NTRS)

    Belegundu, A. D.; Yoon, B. G.

    1989-01-01

    A numerical method is presented for design sensitivity analysis, using an iterative-method reanalysis of the structure generated by a small perturbation in the design variable; a forward-difference scheme is then employed to obtain the approximate sensitivity. Algorithms are developed for displacement and stress sensitivity, as well as for eignevalues and eigenvector sensitivity, and the iterative schemes are modified so that the coefficient matrices are constant and therefore decomposed only once.

  9. A role of the SAM domain in EphA2 receptor activation

    PubMed Central

    Shi, Xiaojun; Hapiak, Vera; Zheng, Ji; Muller-Greven, Jeannine; Bowman, Deanna; Lingerak, Ryan; Buck, Matthias; Wang, Bing-Cheng; Smith, Adam W.

    2017-01-01

    Among the 20 subfamilies of protein receptor tyrosine kinases (RTKs), Eph receptors are unique in possessing a sterile alpha motif (SAM domain) at their C-terminal ends. However, the functions of SAM domains in Eph receptors remain elusive. Here we report on a combined cell biology and quantitative fluorescence study to investigate the role of the SAM domain in EphA2 function. We observed elevated tyrosine autophosphorylation levels upon deletion of the EphA2 SAM domain (EphA2ΔS) in DU145 and PC3 prostate cancer cells and a skin tumor cell line derived from EphA1/A2 knockout mice. These results suggest that SAM domain deletion induced constitutive activation of EphA2 kinase activity. In order to explain these effects, we applied fluorescence correlation spectroscopy to investigate the lateral molecular organization of EphA2. Our results indicate that SAM domain deletion (EphA2ΔS-GFP) increases oligomerization compared to the full length receptor (EphA2FL-GFP). Stimulation with ephrinA1, a ligand for EphA2, induced further oligomerization and activation of EphA2FL-GFP. The SAM domain deletion mutant, EphA2ΔS-GFP, also underwent further oligomerization upon ephrinA1 stimulation, but the oligomers were larger than those observed for EphA2FL-GFP. Based on these results, we conclude that the EphA2 SAM domain inhibits kinase activity by reducing receptor oligomerization. PMID:28338017

  10. Effect of the presence of chlorates and perchlorates on the pyrolysis of organic compounds: implications for measurements done with the SAM experiment onboard the Curiosity rover

    NASA Astrophysics Data System (ADS)

    Millan, Maeva; Szopa, Cyril; Buch, Arnaud; Belmahdi, Imène; Coll, Patrice; Glavin, Daniel P.; Freissinet, Caroline; Archer, Doug; Sutter, Brad; Summons, Roger E.; Navarro-Gonzalez, Rafael; Cabane, Michel; Mahaffy, Paul

    2016-04-01

    The Sample Analysis at Mars (SAM) experiment onboard the Curiosity rover of the Mars Science Laboratory mission is partly devoted to the in situ molecular analysis of gases evolving from solid samples collected on Mars surface/sub-surface. SAM has a gas-chromatograph coupled to a quadrupole mass spectrometer (GC-QMS) devoted to the separation and identification of organic and inorganic material [1]. Before proceeding to the GC-QMS analysis, the solid sample collected by Curiosity is subjected to a thermal treatment thanks to the pyrolysis oven to release the volatiles into the gas processing system. As the Viking landers in 1976 [2], SAM detected chlorohydrocarbons with the pyrolysis GC-QMS experiment [3,4]. The detection of perchlorates salts in soil at the Phoenix Landing site [6] suggests that these chlorohydrocarbons could come from the reaction of organics with oxychlorines. Oxychlorines indeed decomposed into molecular oxygen and volatile chlorine when heated and react with the organic matter in the samples by oxidation and/or chlorination processes. [3,5,7,8]. During SAM pyrolysis, samples are heated to 850°C. SAM detected C1 to C3 chloroalkanes, entirely attributed to reaction products occurring during the pyrolysis experiment between oxychlorines and organic carbon from instrument background [3] and chlorobenzene and C2 to C4 dichloroalkanes produced by reaction between Mars endogenous organics with oxychlorines [4]. To help understanding the influence of perchlorate and chlorate salts on organic matter during SAM pyrolysis, we systemically study the reaction products formed during pyrolysis of various organic compounds mixed with various perchlorates and chlorates. We selected organics from simple molecule forms as for instance PAHs and amino acids to complex material (>30 carbon atoms) such as kerogen. The perchlorate and chlorate salts are prepared at 1 wt % concentration in silica and mixed with the organics to study the potential qualitative and

  11. Fast and slow responses of Southern Ocean sea surface temperature to SAM in coupled climate models

    NASA Astrophysics Data System (ADS)

    Kostov, Yavor; Marshall, John; Hausmann, Ute; Armour, Kyle C.; Ferreira, David; Holland, Marika M.

    2017-03-01

    We investigate how sea surface temperatures (SSTs) around Antarctica respond to the Southern Annular Mode (SAM) on multiple timescales. To that end we examine the relationship between SAM and SST within unperturbed preindustrial control simulations of coupled general circulation models (GCMs) included in the Climate Modeling Intercomparison Project phase 5 (CMIP5). We develop a technique to extract the response of the Southern Ocean SST (55°S-70°S) to a hypothetical step increase in the SAM index. We demonstrate that in many GCMs, the expected SST step response function is nonmonotonic in time. Following a shift to a positive SAM anomaly, an initial cooling regime can transition into surface warming around Antarctica. However, there are large differences across the CMIP5 ensemble. In some models the step response function never changes sign and cooling persists, while in other GCMs the SST anomaly crosses over from negative to positive values only 3 years after a step increase in the SAM. This intermodel diversity can be related to differences in the models' climatological thermal ocean stratification in the region of seasonal sea ice around Antarctica. Exploiting this relationship, we use observational data for the time-mean meridional and vertical temperature gradients to constrain the real Southern Ocean response to SAM on fast and slow timescales.

  12. Sam68 Is Required for DNA Damage Responses via Regulating Poly(ADP-ribosyl)ation

    PubMed Central

    Hodgson, Andrea; Wier, Eric M.; Wen, Matthew G.; Kamenyeva, Olena; Xia, Xue; Koo, Lily Y.

    2016-01-01

    The rapid and robust synthesis of polymers of adenosine diphosphate (ADP)-ribose (PAR) chains, primarily catalyzed by poly(ADP-ribose) polymerase 1 (PARP1), is crucial for cellular responses to DNA damage. However, the precise mechanisms through which PARP1 is activated and PAR is robustly synthesized are not fully understood. Here, we identified Src-associated substrate during mitosis of 68 kDa (Sam68) as a novel signaling molecule in DNA damage responses (DDRs). In the absence of Sam68, DNA damage-triggered PAR production and PAR-dependent DNA repair signaling were dramatically diminished. With serial cellular and biochemical assays, we demonstrated that Sam68 is recruited to and significantly overlaps with PARP1 at DNA lesions and that the interaction between Sam68 and PARP1 is crucial for DNA damage-initiated and PARP1-conferred PAR production. Utilizing cell lines and knockout mice, we illustrated that Sam68-deleted cells and animals are hypersensitive to genotoxicity caused by DNA-damaging agents. Together, our findings suggest that Sam68 plays a crucial role in DDR via regulating DNA damage-initiated PAR production. PMID:27635653

  13. Non-canonical active site architecture of the radical SAM thiamin pyrimidine synthase

    NASA Astrophysics Data System (ADS)

    Fenwick, Michael K.; Mehta, Angad P.; Zhang, Yang; Abdelwahed, Sameh H.; Begley, Tadhg P.; Ealick, Steven E.

    2015-03-01

    Radical S-adenosylmethionine (SAM) enzymes use a [4Fe-4S] cluster to generate a 5‧-deoxyadenosyl radical. Canonical radical SAM enzymes are characterized by a β-barrel-like fold and SAM anchors to the differentiated iron of the cluster, which is located near the amino terminus and within the β-barrel, through its amino and carboxylate groups. Here we show that ThiC, the thiamin pyrimidine synthase in plants and bacteria, contains a tethered cluster-binding domain at its carboxy terminus that moves in and out of the active site during catalysis. In contrast to canonical radical SAM enzymes, we predict that SAM anchors to an additional active site metal through its amino and carboxylate groups. Superimposition of the catalytic domains of ThiC and glutamate mutase shows that these two enzymes share similar active site architectures, thus providing strong evidence for an evolutionary link between the radical SAM and adenosylcobalamin-dependent enzyme superfamilies.

  14. CNK and HYP form a discrete dimer by their SAM domains to mediate RAF kinase signaling.

    PubMed

    Rajakulendran, Thanashan; Sahmi, Malha; Kurinov, Igor; Tyers, Mike; Therrien, Marc; Sicheri, Frank

    2008-02-26

    RAF kinase functions in the mitogen-activated protein kinase (MAPK) pathway to transmit growth signals to the downstream kinases MEK and ERK. Activation of RAF catalytic activity is facilitated by a regulatory complex comprising the proteins CNK (Connector enhancer of KSR), HYP (Hyphen), and KSR (Kinase Suppressor of Ras). The sterile alpha-motif (SAM) domain found in both CNK and HYP plays an essential role in complex formation. Here, we have determined the x-ray crystal structure of the SAM domain of CNK in complex with the SAM domain of HYP. The structure reveals a single-junction SAM domain dimer of 1:1 stoichiometry in which the binding mode is a variation of polymeric SAM domain interactions. Through in vitro and in vivo mutational analyses, we show that the specific mode of dimerization revealed by the crystal structure is essential for RAF signaling and facilitates the recruitment of KSR to form the CNK/HYP/KSR regulatory complex. We present two docking-site models to account for how SAM domain dimerization might influence the formation of a higher-order CNK/HYP/KSR complex.

  15. Non-canonical active site architecture of the radical SAM thiamin pyrimidine synthase

    DOE PAGES

    Fenwick, Michael K.; Mehta, Angad P.; Zhang, Yang; ...

    2015-03-27

    Radical S-adenosylmethionine (SAM) enzymes use a [4Fe-4S] cluster to generate a 5'-deoxyadenosyl radical. Canonical radical SAM enzymes are characterized by a β-barrel-like fold and SAM anchors to the differentiated iron of the cluster, which is located near the amino terminus and within the β-barrel, through its amino and carboxylate groups. Here we show that ThiC, the thiamin pyrimidine synthase in plants and bacteria, contains a tethered cluster-binding domain at its carboxy terminus that moves in and out of the active site during catalysis. In contrast to canonical radical SAM enzymes, we predict that SAM anchors to an additional active sitemore » metal through its amino and carboxylate groups. Superimposition of the catalytic domains of ThiC and glutamate mutase shows that these two enzymes share similar active site architectures, thus providing strong evidence for an evolutionary link between the radical SAM and adenosylcobalamin-dependent enzyme superfamilies.« less

  16. Methods for Chemical Analysis of Fresh Waters.

    ERIC Educational Resources Information Center

    Golterman, H. L.

    This manual, one of a series prepared for the guidance of research workers conducting studies as part of the International Biological Programme, contains recommended methods for the analysis of fresh water. The techniques are grouped in the following major sections: Sample Taking and Storage; Conductivity, pH, Oxidation-Reduction Potential,…

  17. Data analysis method for evaluating dialogic learning.

    PubMed

    Janhonen, S; Sarja, A

    2000-02-01

    The purpose of this paper is to introduce a new method of analysing and evaluating dialogic learning. Dialogic learning offers possibilities that have not previously been found in nursing or nursing education, although some nursing researchers have lately become interested in dialogic nursing interaction between nurses and patients. The stages of analysis of dialogic learning have been illustrated by using an example. The data for this illustration were collected by video-taping a planning process where students for a Master's degree (qualifying them to be nursing instructors in Finland) plan, implement and evaluate a course for nursing students, on the care of terminally ill patients. However, it is possible to use this method of analysis for other dialogic learning situations both in nursing practice (for example, collaborative meetings between experts and patients) and in nursing education (for example, collaborative learning situations). The focus of this method of analysis concentrates on various situations where participants in interaction see the object of discussion from various points of view. This method of analysis helps the participants in the interaction to develop their interactional skills both through an awareness of their own views, and through understanding the other participants' various views in a particular nursing situation.

  18. Analysis methods for tocopherols and tocotrienols

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Tocopherols and tocotrienols, sometimes called tocochromanols or tocols, are also collectively termed Vitamin E. Vitamins A, D, E, and K, are referred to as fat soluble vitamins. Since the discovery of Vitamin E in 1922, many methods have been developed for the analysis of tocopherols and tocotrie...

  19. Integrated method for chaotic time series analysis

    DOEpatents

    Hively, L.M.; Ng, E.G.

    1998-09-29

    Methods and apparatus for automatically detecting differences between similar but different states in a nonlinear process monitor nonlinear data are disclosed. Steps include: acquiring the data; digitizing the data; obtaining nonlinear measures of the data via chaotic time series analysis; obtaining time serial trends in the nonlinear measures; and determining by comparison whether differences between similar but different states are indicated. 8 figs.

  20. Integrated method for chaotic time series analysis

    DOEpatents

    Hively, Lee M.; Ng, Esmond G.

    1998-01-01

    Methods and apparatus for automatically detecting differences between similar but different states in a nonlinear process monitor nonlinear data. Steps include: acquiring the data; digitizing the data; obtaining nonlinear measures of the data via chaotic time series analysis; obtaining time serial trends in the nonlinear measures; and determining by comparison whether differences between similar but different states are indicated.

  1. Statistical Methods in Algorithm Design and Analysis.

    ERIC Educational Resources Information Center

    Weide, Bruce W.

    The use of statistical methods in the design and analysis of discrete algorithms is explored. The introductory chapter contains a literature survey and background material on probability theory. In Chapter 2, probabilistic approximation algorithms are discussed with the goal of exposing and correcting some oversights in previous work. Chapter 3…

  2. Spectroscopic Chemical Analysis Methods and Apparatus

    NASA Technical Reports Server (NTRS)

    Hug, William F. (Inventor); Reid, Ray D. (Inventor); Bhartia, Rohit (Inventor); Lane, Arthur L. (Inventor)

    2017-01-01

    Spectroscopic chemical analysis methods and apparatus are disclosed which employ deep ultraviolet (e.g. in the 200 nm to 300 nm spectral range) electron beam pumped wide bandgap semiconductor lasers, incoherent wide bandgap semiconductor light emitting devices, and hollow cathode metal ion lasers to perform non-contact, non-invasive detection of unknown chemical analytes. These deep ultraviolet sources enable dramatic size, weight and power consumption reductions of chemical analysis instruments. In some embodiments, Raman spectroscopic detection methods and apparatus use ultra-narrow-band angle tuning filters, acousto-optic tuning filters, and temperature tuned filters to enable ultra-miniature analyzers for chemical identification. In some embodiments Raman analysis is conducted along with photoluminescence spectroscopy (i.e. fluorescence and/or phosphorescence spectroscopy) to provide high levels of sensitivity and specificity in the same instrument.

  3. Multiple predictor smoothing methods for sensitivity analysis.

    SciTech Connect

    Helton, Jon Craig; Storlie, Curtis B.

    2006-08-01

    The use of multiple predictor smoothing methods in sampling-based sensitivity analyses of complex models is investigated. Specifically, sensitivity analysis procedures based on smoothing methods employing the stepwise application of the following nonparametric regression techniques are described: (1) locally weighted regression (LOESS), (2) additive models, (3) projection pursuit regression, and (4) recursive partitioning regression. The indicated procedures are illustrated with both simple test problems and results from a performance assessment for a radioactive waste disposal facility (i.e., the Waste Isolation Pilot Plant). As shown by the example illustrations, the use of smoothing procedures based on nonparametric regression techniques can yield more informative sensitivity analysis results than can be obtained with more traditional sensitivity analysis procedures based on linear regression, rank regression or quadratic regression when nonlinear relationships between model inputs and model predictions are present.

  4. Performance analysis of mineral mapping method to delineate mineralization zones under tropical region

    NASA Astrophysics Data System (ADS)

    Wakila, M. H.; Saepuloh, A.; Heriawan, M. N.; Susanto, A.

    2016-09-01

    Geothermal explorations and productions are currently being intensively conducted at certain areas in Indonesia such as Wayang Windu Geothermal Field (WWGF) in West Java, Indonesia. The WWGF is located at wide area covering about 40 km2. An accurate method to map the distribution of heterogeneity minerals is necessary for wide areas such as WWGF. Mineral mapping is an important method in geothermal explorations to determine the distribution of minerals which indicate the surface manifestations of geothermal system. This study is aimed to determine the most precise and accurate methods for minerals mapping at geothermal field. Field measurements were performed to assess the accuracy of three proposed methods: 1) Minimum Noise Fraction (MNF), utilizing the linear transformation method to eliminate the correlation among the spectra bands and to reduce the noise in the data, 2) Pixel Purity Index (PPI), a designed method to find the most extreme spectrum pixels and their characteristics due to end-members mixing, 3) Spectral Angle Mapper (SAM), an image classification technique by measuring the spectral similarity between an unknown object with spectral reference in n- dimension. The output of those methods were mineral distribution occurrence. The performance of each mapping method was analyzed based on the ground truth data. Among the three proposed method, the SAM classification method is the most appropriate and accurate for mineral mapping related to spatial distribution of alteration minerals.

  5. Highlight on the indigenous organic molecules detected on Mars by SAM and potential sources of artifacts and backgrounds generated by the sample preparation

    NASA Astrophysics Data System (ADS)

    Buch, A.; Belmahdi, I.; Szopa, C.; Freissinet, C.; Glavin, D. P.; Coll, P. J.; Cabane, M.; Millan, M.; Eigenbrode, J. L.; Navarro-Gonzalez, R.; Stern, J. C.; Pinnick, V. T.; Coscia, D.; Teinturier, S.; Stambouli, M.; Dequaire, T.; Mahaffy, P. R.

    2015-12-01

    Among the experiments which explore the martian soil aboard the Curiosity Rover, SAM experiment is mainly dedicated to the search for indigenous organic compounds. To reach its goals SAM can operate in different analysis modes: Pyrolysis-GC-MS and Pyrolysis-MS (EGA). In addition SAM includes wet chemistry experiments [1] to supports extraction of polar organic compounds from solid samples that improves their detection either by increasing the release of chemical species from solid sample matrices, or by changing their chemical structure to make compounds more amenable to gas chromatography mass spectrometry (GCMS). The two wet chemistry experimental capabilities of SAM provide alternatives to the nominal inert-thermal desorption/pyrolysis analytical protocol and are more aptly suited for polar components: MTBSTFA derivatization [2-3] and TMAH thermochemolysis [4-5]. Here we focus on the MTBSTFA derivatization experiment. In order to build a support used to help the interpretation of SAM results, we have investigated the artifacts and backgrounds sources generated by the all analysis process: Solid sample were heated up to approximately 840°C at a rate of 35°C/min under He flow. For GC analyses, the majority of the gas released was trapped on a hydrocarbon trap (Tenax®) over a specific temperature range. Adsorbed volatiles on the GC injection trap (IT) were then released into the GC column (CLP-MXT 30m x 0.25mm x 0.25μm) by rapidly heating the IT to 300°C. Then, in order better understand the part of compounds detected coming from internal reaction we have performed several lab experiments to mimic the SAM device: Among the sources of artifact, we test: (1) the thermal stability and the organic material released during the degradation of Tenax® and carbosieve, (2) the impact of MTBSTFA and a mixture of DMF and MTBSTFA on the adsorbent, (3) the reaction between the different adsorbents (Tenax® and Carbosieve) and calcium perchlorate and then (4) the sources

  6. Potential sources of artifacts and backgrounds generated by the sample preparation of the SAM experiment aboard the Curiosity Rover on Mars

    NASA Astrophysics Data System (ADS)

    Buch, Arnaud; Belmahdi, Imene; Szopa, Cyril; Freissinet, Caroline; Glavin, Daniel P.; Eigenbrode, Jennifer; Summons, Roger; Miller, Kristen; Coll, Patrice; cabane, Michel; Navarro-Gonzalez, Rafael; Stern, Jennifer; Coscia, David; Teinturier, Samuel; Bonnet, Jean-Yves; Dequaire, Tristan; Mahaffy, Paul; MSL Science Team

    2016-10-01

    Sample Analysis at Mars (SAM) is one of the instruments of the MSL mission. Three analytical devices are onboard SAM: the Tunable Laser Spectrometer (TLS), the Gas Chromatography (GC) and the Mass Spectrometer (MS). To adapt the nature of a sample to the analytical devices used on SAM, a sample preparation and gas processing system is implemented with (a) a pyrolysis system, (b) wet chemistry: MTBSTFA and TMAH (c) the hydrocarbon trap (silica beads, Tenax® TA and Carbosieve G) which is employed to concentrate volatiles released from the sample prior to GC-MS analysis [1].Volatile compounds and abundant chlorinated hydrocarbons have been detected with SAM when analyzing samples collected in several sites explored by Curiosity rover. Some volatile compounds (chlorinated and non-chlorinated) come from the degradation of the MTBSTFA under high temperature or by the reaction of Martian oxychlorine compounds (present in the samples) with terrestrial carbon coming from the derivatization agent (MTBSTFA) used in SAM [2,3]. But other chlorinated compounds do not follow this pathway. For example, Chlorobenzene has been detected by SAM but it cannot be formed by the reaction of MTBSTFA and perchlorates. Then, two other reaction pathways for chlorobenzene were therefore proposed: (1) reactions between the volatile thermal degradation products of perchlorates (e.g. O2, Cl2 and HCl) and Tenax® and (2) the interaction of perchlorates (T>200°C) with organic material from Mars's soil such as benzenecarboxylates. However, even if major part of the chlorobenzene detected has been identified as Martian origin [4] it is important to list all the potential byproducts able to be released from the Tenax®.Thus, this study inventory all the possible compounds which are originated from Tenax®, MTBSTFA and their interaction with perchlorate.References: [1] Buch, A. et al. (2009) J chrom. A, 43, 143-151. [2] Glavin, D., A. et al. (2013), LPSC. [3] Eigenbrode, J. et al. (2013), LPSC. [4

  7. Particle size analysis of nanocrystals: improved analysis method.

    PubMed

    Keck, Cornelia M

    2010-05-05

    The influence of optical parameters, additional techniques (e.g. PIDS technology) and the importance of light microscopy were investigated by comparing laser diffraction data obtained via the conventional method and an optimized analysis method. Also the influence of a possible dissolution of nanocrystals during a measurement on the size result obtained was assessed in this study. The results reveal that dissolution occurs if unsaturated medium or microparticle saturated medium is used for the measurements. The dissolution is erratic and the results are not reproducible. Dissolution can be overcome by saturating the measuring medium prior to the measurement. If nanocrystals are analysed the dispersion medium should be saturated with the nanocrystals, because the solubility is higher than for coarse micro-sized drug material. The importance of using the optimized analysis method was proven by analysing 40 different nanosuspensions via the conventional versus the optimized sizing method. There was no large difference in the results obtained for the 40 nanosuspensions using the conventional method. This would have led to the conclusion, that all the 40 formulations investigated are physically stable. However, the analysis via the optimized method revealed that from 40 formulations investigated only four were physically stable. In conclusion an optimized analysis saves time and money and avoids misleading developments, because discrimination between "stable" and "unstable" can be done reliably at a very early stage of the development.

  8. Monte Carlo methods in genetic analysis

    SciTech Connect

    Lin, Shili

    1996-12-31

    Many genetic analyses require computation of probabilities and likelihoods of pedigree data. With more and more genetic marker data deriving from new DNA technologies becoming available to researchers, exact computations are often formidable with standard statistical methods and computational algorithms. The desire to utilize as much available data as possible, coupled with complexities of realistic genetic models, push traditional approaches to their limits. These methods encounter severe methodological and computational challenges, even with the aid of advanced computing technology. Monte Carlo methods are therefore increasingly being explored as practical techniques for estimating these probabilities and likelihoods. This paper reviews the basic elements of the Markov chain Monte Carlo method and the method of sequential imputation, with an emphasis upon their applicability to genetic analysis. Three areas of applications are presented to demonstrate the versatility of Markov chain Monte Carlo for different types of genetic problems. A multilocus linkage analysis example is also presented to illustrate the sequential imputation method. Finally, important statistical issues of Markov chain Monte Carlo and sequential imputation, some of which are unique to genetic data, are discussed, and current solutions are outlined. 72 refs.

  9. Sam68 marks the transcriptionally active stages of spermatogenesis and modulates alternative splicing in male germ cells

    PubMed Central

    Paronetto, Maria Paola; Messina, Valeria; Barchi, Marco; Geremia, Raffaele; Richard, Stéphane; Sette, Claudio

    2011-01-01

    Sam68 plays an essential role in mouse spermatogenesis and male fertility. Herein, we report an interaction between Sam68 and the phosphorylated forms of the RNA polymerase II (RNAPII) in meiotic spermatocytes. RNase treatment decreased but did not abolish the interaction, consistently with in vitro binding of RNAPII to the Sam68 carboxyl-terminal region. Sam68 retention in the spermatocyte nucleus was dependent on the integrity of cellular RNAs, suggesting that the protein is recruited to transcriptionally active chromatin. Mouse knockout models characterized by stage-specific arrest of spermatogenesis and staining with the phosphorylated form of RNAPII documented that Sam68 expression is confined to the transcriptionally active stages of spermatogenesis. Furthermore, Sam68 associates with splicing regulators in germ cells and we report that alternative splicing of Sgce exon 8 is regulated in a Sam68-dependent manner during spermatogenesis. RNA and chromatin crosslink immunoprecipitation experiments showed that Sam68 binds in vivo to sequences surrounding the intron 7/exon 8 boundary, thereby affecting the recruitment of the phosphorylated RNAPII and of the general splicing factor U2AF65. These results suggest that Sam68 regulates alternative splicing at transcriptionally active sites in differentiating germ cells and provide new insights into the regulation of Sam68 expression during spermatogenesis. PMID:21355037

  10. Power System Transient Stability Analysis through a Homotopy Analysis Method

    SciTech Connect

    Wang, Shaobu; Du, Pengwei; Zhou, Ning

    2014-04-01

    As an important function of energy management systems (EMSs), online contingency analysis plays an important role in providing power system security warnings of instability. At present, N-1 contingency analysis still relies on time-consuming numerical integration. To save computational cost, the paper proposes a quasi-analytical method to evaluate transient stability through time domain periodic solutions’ frequency sensitivities against initial values. First, dynamic systems described in classical models are modified into damping free systems whose solutions are either periodic or expanded (non-convergent). Second, because the sensitivities experience sharp changes when periodic solutions vanish and turn into expanded solutions, transient stability is assessed using the sensitivity. Third, homotopy analysis is introduced to extract frequency information and evaluate the sensitivities only from initial values so that time consuming numerical integration is avoided. Finally, a simple case is presented to demonstrate application of the proposed method, and simulation results show that the proposed method is promising.

  11. Methods for genetic linkage analysis using trisomies

    SciTech Connect

    Feingold, E.; Lamb, N.E.; Sherman, S.L.

    1994-09-01

    Certain genetic disorders (e.g. congenital cataracts, duodenal atresia) are rare in the general population, but more common in people with Down`s syndrome. We present a method for using individuals with trisomy 21 to map genes for such traits. Our methods are analogous to methods for mapping autosomal dominant traits using affected relative pairs by looking for markers with greater than expected identity-by-descent. In the trisomy case, one would take trisomic individuals and look for markers with greater than expected reduction to homozygosity in the chromosomes inherited form the non-disjoining parent. We present statistical methods for performing such a linkage analysis, including a test for linkage to a marker, a method for estimating the distance from the marker to the gene, a confidence interval for that distance, and methods for computing power and sample sizes. The methods are described in the context of gene-dosage model for the etiology of the disorder, but can be extended to other models. We also resolve some practical issues involved in implementing the methods, including how to use partially informative markers, how to test candidate genes, and how to handle the effect of reduced recombination associated with maternal meiosis I non-disjunction.

  12. Structural sensitivity analysis: Methods, applications and needs

    NASA Technical Reports Server (NTRS)

    Adelman, H. M.; Haftka, R. T.; Camarda, C. J.; Walsh, J. L.

    1984-01-01

    Innovative techniques applicable to sensitivity analysis of discretized structural systems are reviewed. The techniques include a finite difference step size selection algorithm, a method for derivatives of iterative solutions, a Green's function technique for derivatives of transient response, simultaneous calculation of temperatures and their derivatives, derivatives with respect to shape, and derivatives of optimum designs with respect to problem parameters. Computerized implementations of sensitivity analysis and applications of sensitivity derivatives are also discussed. Some of the critical needs in the structural sensitivity area are indicated along with plans for dealing with some of those needs.

  13. Structural sensitivity analysis: Methods, applications, and needs

    NASA Technical Reports Server (NTRS)

    Adelman, H. M.; Haftka, R. T.; Camarda, C. J.; Walsh, J. L.

    1984-01-01

    Some innovative techniques applicable to sensitivity analysis of discretized structural systems are reviewed. These techniques include a finite-difference step-size selection algorithm, a method for derivatives of iterative solutions, a Green's function technique for derivatives of transient response, a simultaneous calculation of temperatures and their derivatives, derivatives with respect to shape, and derivatives of optimum designs with respect to problem parameters. Computerized implementations of sensitivity analysis and applications of sensitivity derivatives are also discussed. Finally, some of the critical needs in the structural sensitivity area are indicated along with Langley plans for dealing with some of these needs.

  14. New Regularization Method for EXAFS Analysis

    SciTech Connect

    Reich, Tatiana Ye.; Reich, Tobias; Korshunov, Maxim E.; Antonova, Tatiana V.; Ageev, Alexander L.; Moll, Henry

    2007-02-02

    As an alternative to the analysis of EXAFS spectra by conventional shell fitting, the Tikhonov regularization method has been proposed. An improved algorithm that utilizes a priori information about the sample has been developed and applied to the analysis of U L3-edge spectra of soddyite, (UO2)2SiO4{center_dot}2H2O, and of U(VI) sorbed onto kaolinite. The partial radial distribution functions g1(UU), g2(USi), and g3(UO) of soddyite agree with crystallographic values and previous EXAFS results.

  15. Analytical curve or standard addition method: how to elect and design--a strategy applied to copper determination in sugarcane spirits using AAS.

    PubMed

    Honorato, Fernanda Araujo; Honorato, Ricardo Saldanha; Pimentel, Maria Fernanda; Araujo, Mario Cesar Ugulino

    2002-11-01

    In most instrumental analysis, the analyte concentration is usually obtained the by Analytical Curve Method (ACM) or Standard Addition Method (SAM). Thus, it is important for the analyst to select the most appropriate method, to seek the best conditions of analysis, and to provide parameters of analytical performance. A strategy to do so is proposed in this paper in conjunction with MATLAB software to implement it. The proposed strategy was applied to copper determination by atomic absorption spectrometry in Brazilian sugarcane spirits termed 'Cachaça' and SAM was chosen as the most appropriate method. To select the best experimental design for SAM, the influence of some factors, such as the number of standard additions and concentration levels, the location of the levels and the average concentration of the standard additions were demonstrated. The design with six standard additions, four concentration levels located near the inferior and superior levels and the average concentration of the standard additions closer to zero yielded SAM with an adequate compromise between precision, cost and time of analysis. The uniform distribution of concentration levels, usually used in routine analysis, is not a good design regarding precision. On the other hand, it is adequate when the linear range is unknown. Generally, the proposed strategy can be applied to different instrumental techniques and samples, which aim to improve their analytical performance.

  16. Graphical methods for the sensitivity analysis in discriminant analysis

    DOE PAGES

    Kim, Youngil; Anderson-Cook, Christine M.; Dae-Heung, Jang

    2015-09-30

    Similar to regression, many measures to detect influential data points in discriminant analysis have been developed. Many follow similar principles as the diagnostic measures used in linear regression in the context of discriminant analysis. Here we focus on the impact on the predicted classification posterior probability when a data point is omitted. The new method is intuitive and easily interpretative compared to existing methods. We also propose a graphical display to show the individual movement of the posterior probability of other data points when a specific data point is omitted. This enables the summaries to capture the overall pattern ofmore » the change.« less

  17. Graphical methods for the sensitivity analysis in discriminant analysis

    SciTech Connect

    Kim, Youngil; Anderson-Cook, Christine M.; Dae-Heung, Jang

    2015-09-30

    Similar to regression, many measures to detect influential data points in discriminant analysis have been developed. Many follow similar principles as the diagnostic measures used in linear regression in the context of discriminant analysis. Here we focus on the impact on the predicted classification posterior probability when a data point is omitted. The new method is intuitive and easily interpretative compared to existing methods. We also propose a graphical display to show the individual movement of the posterior probability of other data points when a specific data point is omitted. This enables the summaries to capture the overall pattern of the change.

  18. Spectroscopic Chemical Analysis Methods and Apparatus

    NASA Technical Reports Server (NTRS)

    Hug, William F.; Reid, Ray D.

    2012-01-01

    This invention relates to non-contact spectroscopic methods and apparatus for performing chemical analysis and the ideal wavelengths and sources needed for this analysis. It employs deep ultraviolet (200- to 300-nm spectral range) electron-beam-pumped wide bandgap semiconductor lasers, incoherent wide bandgap semiconductor lightemitting devices, and hollow cathode metal ion lasers. Three achieved goals for this innovation are to reduce the size (under 20 L), reduce the weight [under 100 lb (.45 kg)], and reduce the power consumption (under 100 W). This method can be used in microscope or macroscope to provide measurement of Raman and/or native fluorescence emission spectra either by point-by-point measurement, or by global imaging of emissions within specific ultraviolet spectral bands. In other embodiments, the method can be used in analytical instruments such as capillary electrophoresis, capillary electro-chromatography, high-performance liquid chromatography, flow cytometry, and related instruments for detection and identification of unknown analytes using a combination of native fluorescence and/or Raman spectroscopic methods. This design provides an electron-beampumped semiconductor radiation-producing method, or source, that can emit at a wavelength (or wavelengths) below 300 nm, e.g. in the deep ultraviolet between about 200 and 300 nm, and more preferably less than 260 nm. In some variations, the method is to produce incoherent radiation, while in other implementations it produces laser radiation. In some variations, this object is achieved by using an AlGaN emission medium, while in other implementations a diamond emission medium may be used. This instrument irradiates a sample with deep UV radiation, and then uses an improved filter for separating wavelengths to be detected. This provides a multi-stage analysis of the sample. To avoid the difficulties related to producing deep UV semiconductor sources, a pumping approach has been developed that uses

  19. Comparison of analysis methods for airway quantification

    NASA Astrophysics Data System (ADS)

    Odry, Benjamin L.; Kiraly, Atilla P.; Novak, Carol L.; Naidich, David P.

    2012-03-01

    Diseased airways have been known for several years as a possible contributing factor to airflow limitation in Chronic Obstructive Pulmonary Diseases (COPD). Quantification of disease severity through the evaluation of airway dimensions - wall thickness and lumen diameter - has gained increased attention, thanks to the availability of multi-slice computed tomography (CT). Novel approaches have focused on automated methods of measurement as a faster and more objective means that the visual assessment routinely employed in the clinic. Since the Full-Width Half-Maximum (FWHM) method of airway measurement was introduced two decades ago [1], several new techniques for quantifying airways have been detailed in the literature, but no approach has truly become a standard for such analysis. Our own research group has presented two alternative approaches for determining airway dimensions, one involving a minimum path and the other active contours [2, 3]. With an increasing number of techniques dedicated to the same goal, we decided to take a step back and analyze the differences of these methods. We consequently put to the test our two methods of analysis and the FWHM approach. We first measured a set of 5 airways from a phantom of known dimensions. Then we compared measurements from the three methods to those of two independent readers, performed on 35 airways in 5 patients. We elaborate on the differences of each approach and suggest conclusions on which could be defined as the best one.

  20. Measurement methods for human exposure analysis.

    PubMed Central

    Lioy, P J

    1995-01-01

    The general methods used to complete measurements of human exposures are identified and illustrations are provided for the cases of indirect and direct methods used for exposure analysis. The application of the techniques for external measurements of exposure, microenvironmental and personal monitors, are placed in the context of the need to test hypotheses concerning the biological effects of concern. The linkage of external measurements to measurements made in biological fluids is explored for a suite of contaminants. This information is placed in the context of the scientific framework used to conduct exposure assessment. Examples are taken from research on volatile organics and for a large scale problem: hazardous waste sites. PMID:7635110

  1. Space Acceleration Measurement System (SAMS)/Orbital Acceleration Research Experiment (OARE)

    NASA Technical Reports Server (NTRS)

    Hakimzadeh, Roshanak

    1998-01-01

    The Life and Microgravity Spacelab (LMS) payload flew on the Orbiter Columbia on mission STS-78 from June 20th to July 7th, 1996. The LMS payload on STS-78 was dedicated to life sciences and microgravity experiments. Two accelerometer systems managed by the NASA Lewis Research Center (LERC) flew to support these experiments, namely the Orbital Acceleration Research Experiment (OARE) and the Space Acceleration Measurements System (SAMS). In addition, the Microgravity Measurement Assembly (NOAA), managed by the European Space Research and Technology Center (ESA/ESTEC), and sponsored by NASA, collected acceleration data in support of the experiments on-board the LMS mission. OARE downlinked real-time quasi-steady acceleration data, which was provided to the investigators. The SAMS recorded higher frequency data on-board for post-mission analysis. The MMA downlinked real-time quasi-steady as well as higher frequency acceleration data, which was provided to the investigators. The Principal Investigator Microgravity Services (PIMS) project at NASA LERC supports principal investigators of microgravity experiments as they evaluate the effects of varying acceleration levels on their experiments. A summary report was prepared by PIMS to furnish interested experiment investigators with a guide to evaluate the acceleration environment during STS-78, and as a means of identifying areas which require further study. The summary report provides an overview of the STS-78 mission, describes the accelerometer systems flown on this mission, discusses some specific analyses of the accelerometer data in relation to the various activities which occurred during the mission, and presents plots resulting from these analyses as a snapshot of the environment during the mission. Numerous activities occurred during the STS-78 mission that are of interest to the low-gravity community. Specific activities of interest during this mission were crew exercise, radiator deployment, Vernier Reaction

  2. Text analysis devices, articles of manufacture, and text analysis methods

    DOEpatents

    Turner, Alan E; Hetzler, Elizabeth G; Nakamura, Grant C

    2013-05-28

    Text analysis devices, articles of manufacture, and text analysis methods are described according to some aspects. In one aspect, a text analysis device includes processing circuitry configured to analyze initial text to generate a measurement basis usable in analysis of subsequent text, wherein the measurement basis comprises a plurality of measurement features from the initial text, a plurality of dimension anchors from the initial text and a plurality of associations of the measurement features with the dimension anchors, and wherein the processing circuitry is configured to access a viewpoint indicative of a perspective of interest of a user with respect to the analysis of the subsequent text, and wherein the processing circuitry is configured to use the viewpoint to generate the measurement basis.

  3. Mars Atmospheric Composition, Isotope Ratios and Seasonal Variations: Overview and Updates of the SAM Measurements at Gale Crater

    NASA Technical Reports Server (NTRS)

    Niles, Paul

    2014-01-01

    We will summarize the in situ measurements of atmospheric composition and the isotopic ratios of D/H in water, C-13/C-12, O-18/O-16, O-17 / O-16, and C-13 O-18 / C-12 O-16 in carbon dioxide, and Ar-38 / Ar-36, Kr-x / Kr-84, and N-15 / N-14 made in the martian atmosphere at Gale Crater from the Curiosity Rover using the Sample Analysis at Mars (SAM)'s Quadrupole Mass Spectrometer (QMS) and Tunable Laser Spectrometer (TLS). With data over 700 sols since the Curiosity landing, we will discuss evidence and implications for changes on seasonal and other timescales. We will also present results for continued methane and methane enrichment experiments over this time period. Comparison between our measurements in the modern atmosphere and those of martian meteorites like ALH 84001 implies that the martian reservoirs of CO2 and H2O were largely established approximately 4 billion years ago, but that atmospheric loss or surface interaction may be still ongoing.

  4. Probabilistic structural analysis methods and applications

    NASA Technical Reports Server (NTRS)

    Cruse, T. A.; Wu, Y.-T.; Dias, B.; Rajagopal, K. R.

    1988-01-01

    An advanced algorithm for simulating the probabilistic distribution of structural responses due to statistical uncertainties in loads, geometry, material properties, and boundary conditions is reported. The method effectively combines an advanced algorithm for calculating probability levels for multivariate problems (fast probability integration) together with a general-purpose finite-element code for stress, vibration, and buckling analysis. Application is made to a space propulsion system turbine blade for which the geometry and material properties are treated as random variables.

  5. Decarboxylation of Carbon Compounds as a Potential Source for CO2 and CO Observed by SAM at Yellowknife Bay, Gale Crater, Mars

    NASA Technical Reports Server (NTRS)

    Eigenbrode, J. L.; Bower, H.; Archer, P. Jr.

    2014-01-01

    Martian carbon was detected in the Sheepbed mudtsone at Yellowknife Bay, Gale Crater, Mars by the Sample Analysis at Mars (SAM) instrument onboard Curiosity, the rover of the Mars Science Laboratory missio]. The carbon was detected as CO2 thermally evolved from drilled and sieved rock powder that was delivered to SAM as a <150-micron-particle- size fraction. Most of the CO2 observed in the Cumberland (CB) drill hole evolved between 150deg and 350deg C. In the John Klein (JK) drill hole, the CO2 evolved up to 500deg C. Hypotheses for the source of the the CO2 include the breakdown of carbonate minerals reacting with HCl released from oxychlorine compounds, combustion of organic matter by O2 thermally evolved from the same oxychlorine minerals, and the decarboxylation of organic molecules indigenous to the martian rock sample. Here we explore the potential for the decarboxylation hypothesis.

  6. Isolation and Molecular Characterization of Two Lectins from Dwarf Elder (Sambucus ebulus L.) Blossoms Related to the Sam n1 Allergen

    PubMed Central

    Jimenez, Pilar; Cabrero, Patricia; Basterrechea, José E.; Tejero, Jesús; Cordoba-Diaz, Damian; Girbes, Tomas

    2013-01-01

    Sambucus species contain a number of lectins with and without antiribosomal activity. Here, we show that dwarf elder (Sambucus ebulus L.) blossoms express two d-galactose-binding lectins that were isolated and purified by affinity chromatography and gel filtration. These proteins, which we named ebulin blo (A-B toxin) and SELblo (B-B lectin)—blo from blossoms—were subjected to molecular characterization and analysis by MALDI-TOF mass spectrometry and tryptic peptide fingerprinting. Both lectins share a high degree of amino acid sequence homology with Sambucus lectins related to the Sam n1 allergen. Ebulin blo, but not SELblo, was highly toxic by nasal instillation to mice. Overall, our results suggested that both lectins would belong to an allergen family exemplified by Sam n1 and could trigger allergy responses. Furthermore, they raise a concern about ebulin blo toxicity. PMID:24129061

  7. Primordial argon isotope fractionation in the atmosphere of Mars measured by the SAM instrument on Curiosity and implications for atmospheric loss.

    PubMed

    Atreya, Sushil K; Trainer, Melissa G; Franz, Heather B; Wong, Michael H; Manning, Heidi L K; Malespin, Charles A; Mahaffy, Paul R; Conrad, Pamela G; Brunner, Anna E; Leshin, Laurie A; Jones, John H; Webster, Christopher R; Owen, Tobias C; Pepin, Robert O; Navarro-González, R

    2013-11-16

    [1] The quadrupole mass spectrometer of the Sample Analysis at Mars (SAM) instrument on Curiosity rover has made the first high-precision measurement of the nonradiogenic argon isotope ratio in the atmosphere of Mars. The resulting value of (36)Ar/(38)Ar = 4.2 ± 0.1 is highly significant for it provides excellent evidence that "Mars" meteorites are indeed of Martian origin, and it points to a significant loss of argon of at least 50% and perhaps as high as 85-95% from the atmosphere of Mars in the past 4 billion years. Taken together with the isotopic fractionations in N, C, H, and O measured by SAM, these results imply a substantial loss of atmosphere from Mars in the posthydrodynamic escape phase.

  8. Primordial argon isotope fractionation in the atmosphere of Mars measured by the SAM instrument on Curiosity and implications for atmospheric loss

    PubMed Central

    Atreya, Sushil K; Trainer, Melissa G; Franz, Heather B; Wong, Michael H; Manning, Heidi L K; Malespin, Charles A; Mahaffy, Paul R; Conrad, Pamela G; Brunner, Anna E; Leshin, Laurie A; Jones, John H; Webster, Christopher R; Owen, Tobias C; Pepin, Robert O; Navarro-González, R

    2013-01-01

    [1] The quadrupole mass spectrometer of the Sample Analysis at Mars (SAM) instrument on Curiosity rover has made the first high-precision measurement of the nonradiogenic argon isotope ratio in the atmosphere of Mars. The resulting value of 36Ar/38Ar = 4.2 ± 0.1 is highly significant for it provides excellent evidence that “Mars” meteorites are indeed of Martian origin, and it points to a significant loss of argon of at least 50% and perhaps as high as 85–95% from the atmosphere of Mars in the past 4 billion years. Taken together with the isotopic fractionations in N, C, H, and O measured by SAM, these results imply a substantial loss of atmosphere from Mars in the posthydrodynamic escape phase. PMID:25821261

  9. Finite Volume Methods: Foundation and Analysis

    NASA Technical Reports Server (NTRS)

    Barth, Timothy; Ohlberger, Mario

    2003-01-01

    Finite volume methods are a class of discretization schemes that have proven highly successful in approximating the solution of a wide variety of conservation law systems. They are extensively used in fluid mechanics, porous media flow, meteorology, electromagnetics, models of biological processes, semi-conductor device simulation and many other engineering areas governed by conservative systems that can be written in integral control volume form. This article reviews elements of the foundation and analysis of modern finite volume methods. The primary advantages of these methods are numerical robustness through the obtention of discrete maximum (minimum) principles, applicability on very general unstructured meshes, and the intrinsic local conservation properties of the resulting schemes. Throughout this article, specific attention is given to scalar nonlinear hyperbolic conservation laws and the development of high order accurate schemes for discretizing them. A key tool in the design and analysis of finite volume schemes suitable for non-oscillatory discontinuity capturing is discrete maximum principle analysis. A number of building blocks used in the development of numerical schemes possessing local discrete maximum principles are reviewed in one and several space dimensions, e.g. monotone fluxes, E-fluxes, TVD discretization, non-oscillatory reconstruction, slope limiters, positive coefficient schemes, etc. When available, theoretical results concerning a priori and a posteriori error estimates are given. Further advanced topics are then considered such as high order time integration, discretization of diffusion terms and the extension to systems of nonlinear conservation laws.

  10. Spectroscopic chemical analysis methods and apparatus

    NASA Technical Reports Server (NTRS)

    Hug, William F. (Inventor); Reid, Ray D. (Inventor); Bhartia, Rohit (Inventor)

    2013-01-01

    Spectroscopic chemical analysis methods and apparatus are disclosed which employ deep ultraviolet (e.g. in the 200 nm to 300 nm spectral range) electron beam pumped wide bandgap semiconductor lasers, incoherent wide bandgap semiconductor light emitting devices, and hollow cathode metal ion lasers to perform non-contact, non-invasive detection of unknown chemical analytes. These deep ultraviolet sources enable dramatic size, weight and power consumption reductions of chemical analysis instruments. Chemical analysis instruments employed in some embodiments include capillary and gel plane electrophoresis, capillary electrochromatography, high performance liquid chromatography, flow cytometry, flow cells for liquids and aerosols, and surface detection instruments. In some embodiments, Raman spectroscopic detection methods and apparatus use ultra-narrow-band angle tuning filters, acousto-optic tuning filters, and temperature tuned filters to enable ultra-miniature analyzers for chemical identification. In some embodiments Raman analysis is conducted along with photoluminescence spectroscopy (i.e. fluorescence and/or phosphorescence spectroscopy) to provide high levels of sensitivity and specificity in the same instrument.

  11. Measuring Sulfur Isotope Ratios from Solid Samples with the Sample Analysis at Mars Instrument and the Effects of Dead Time Corrections

    NASA Technical Reports Server (NTRS)

    Franz, H. B.; Mahaffy, P. R.; Kasprzak, W.; Lyness, E.; Raaen, E.

    2011-01-01

    The Sample Analysis at Mars (SAM) instrument suite comprises the largest science payload on the Mars Science Laboratory (MSL) "Curiosity" rover. SAM will perform chemical and isotopic analysis of volatile compounds from atmospheric and solid samples to address questions pertaining to habitability and geochemical processes on Mars. Sulfur is a key element of interest in this regard, as sulfur compounds have been detected on the Martian surface by both in situ and remote sensing techniques. Their chemical and isotopic composition can belp constrain environmental conditions and mechanisms at the time of formation. A previous study examined the capability of the SAM quadrupole mass spectrometer (QMS) to determine sulfur isotope ratios of SO2 gas from a statistical perspective. Here we discuss the development of a method for determining sulfur isotope ratios with the QMS by sampling SO2 generated from heating of solid sulfate samples in SAM's pyrolysis oven. This analysis, which was performed with the SAM breadboard system, also required development of a novel treatment of the QMS dead time to accommodate the characteristics of an aging detector.

  12. Mars Atmospheric Composition and Stable Isotope Ratios in H, C and O Measured by the SAM Instrument Suite on the Curiosity Rover

    NASA Astrophysics Data System (ADS)

    Webster, Christopher; Mahaffy, Paul; Stern, Jen; Franz, Heather; Flesch, Greg; Leshin, Laurie; Atreya, Sushil; Wong, Michael; Farley, Ken; MSL Science Team

    2013-04-01

    From the Curiosity Rover sampling the near-surface Martian atmosphere in the vicinity of Gale Crater, volume mixing ratios of the five major constituents (CO2, Ar, N2, O2 and CO) have been made using the Quadrupole Mass Spectrometer (QMS) of the Sample Analysis at Mars (SAM) suite that has additionally measured the isotope ratios of 40Ar/36Ar, and δ13C and δ18O in CO2. A second SAM instrument, the Tunable Laser Spectrometer (TLS) has made a sensitive search for Martian methane, measured water abundances in the vicinity of the rover, and isotope ratios of δ13C, δ18O, δ17O and δ13C18O in CO2; and δD and δ18O in H2O. These atmospheric composition and isotope ratio measurements represent the most precise made in situ to date on any planetary surface and record Mars atmospheric escape and atmosphere-surface interactions. Updated values and error bars will be given for these measurements that provide a baseline for discussion and interpretation of SAM analysis of soil and rock samples [Mahaffy et al., EGU 2013]. Acknowledgement: The research described here was carried out at the Jet Propulsion Laboratory, California Institute of Technology, under a contract with the National Aeronautics and Space Administration (NASA).

  13. New insights into the electrochemical desorption of alkanethiol SAMs on gold

    PubMed Central

    Pensa, Evangelina; Vericat, Carolina; Grumelli, Doris; Salvarezza, Roberto C.; Park, Sung Hyun; Longo, Gabriel S.; Szleifer, Igal

    2012-01-01

    A combination of Polarization Modulation Infrared Reflection Absorption Spectroscopy (PMIRRAS) under electrochemical control, Electrochemical Scanning Tunneling Microscopy (ECSTM) and Molecular Dynamics (MD) simulations has been used to shed light on the reductive desorption process of dodecanethiol (C12) and octadecanethiol (C18) SAMs on gold in aqueous electrolytes. Experimental PMIRRAS, ECSTM and MD simulations data for C12 desorption are consistent with formation of randomly distributed micellar aggregates stabilized by Na+ ions, coexisting with a lying-down phase of molecules. The analysis of pit and Au island coverage before and after desorption is consistent with the thiolate-Au adatoms models. On the other hand, PMIRRAS and MD data for C18 indicate that the desorbed alkanethiolates adopt a Na+ ion-stabilized bilayer of interdigitated alkanethiolates, with no evidence of lying down molecules. MD simulations also show that both the degree of order and tilt angle of the desorbed alkanethiolates change with the surface charge on the metal, going from bilayers to micelles. These results demonstrate the complexity of the alkanethiol desorption in the presence of water and the fact that chain length and counterions play a key role in a complex structure. PMID:22870508

  14. SU-E-T-663: Radiation Properties of a Water-Equivalent Material Formulated Using the Stoichiometric Analysis Method in Heavy Charged Particle Therapy

    SciTech Connect

    Yohannes, I; Vasiliniuc, S; Hild, S; Graeff, C; Langner, O; Bert, C

    2015-06-15

    Purpose: A material has been designed to be employed as water-equivalent in particle therapy using a previously established stoichiometric analysis method (SAM). After manufacturing, experimental verification of the material’s water-equivalent path length (WEPL) and analysis of its total inelastic nuclear interaction cross sections for proton beams were performed. Methods: Using the SAM, we optimized the material composed of three base materials, i.e., polyurethane, calcium carbonate and microspheres. From the elemental composition of the compound, electron density, linear attenuation coefficients, particle stopping powers and inelastic nuclear cross sections for protons using data from ICRU 63 were calculated. The calculations were then compared to Hounsfield units (HUs) measured with 350 mAs at 80, 100, 120 and 140 kV and the WEPLs measured with three different ions: proton (106.8 MeV/u), helium (107.93 MeV/u) and carbon (200.3 MeV/u). Results: The material’s measured HUs (0.7±3.0 to 2.6±6.2 HU) as well as its calculated relative electron density (1.0001) are in close agreement with water as reference. The WEPLs measured on a 20.00 mm thick target were 20.16±0.12, 20.29±0.12 and 20.38±0.12 mmH2O for proton, helium and carbon ions, respectively. Within measurement uncertainties, these values verified the calculated WEPLs of 20.28 mmH2O (proton), 20.28 mmH2O (helium) and 20.26 mmH2O (carbon). Moreover, the calculated proton inelastic cross sections of the material differed only by 0.89% (100 MeV/u) and 0.01% (200 MeV/u) when compared to water. Conclusion: The SAM is capable of optimizing material with defined properties, e.g., HU, electron density, WEPL and inelastic nuclear interaction cross section for particle therapy. Such material will have a wide range of applications amongst others absolute dosimetry. This work was supported by grant ZIM KF2137107AK4 from the German Federal Ministry for Economic Affairs and Energy.

  15. Optical methods for the analysis of dermatopharmacokinetics

    NASA Astrophysics Data System (ADS)

    Lademann, Juergen; Weigmann, Hans-Juergen; von Pelchrzim, R.; Sterry, Wolfram

    2002-07-01

    The method of tape stripping in combination with spectroscopic measurements is a simple and noninvasive method for the analysis of dermatopharmacokinetics of cosmetic products and topically applied drugs. The absorbance at 430 nm was used for the characterization of the amount of corneocytes on the tape strips. It was compared to the increase of weight of the tapes after removing them from the skin surface. The penetration profiles of two UV filter substances used in sunscreens were determined. The combined method of tape stripping and spectroscopic measurements can be also used for the investigation of the dermatopharmacokinetics of topically applied drugs passing through the skin. Differences in the penetration profiles of the steroid compound clobetasol, applied in the same concentration in different formulations on the skin are presented.

  16. Review of Computational Stirling Analysis Methods

    NASA Technical Reports Server (NTRS)

    Dyson, Rodger W.; Wilson, Scott D.; Tew, Roy C.

    2004-01-01

    Nuclear thermal to electric power conversion carries the promise of longer duration missions and higher scientific data transmission rates back to Earth for both Mars rovers and deep space missions. A free-piston Stirling convertor is a candidate technology that is considered an efficient and reliable power conversion device for such purposes. While already very efficient, it is believed that better Stirling engines can be developed if the losses inherent its current designs could be better understood. However, they are difficult to instrument and so efforts are underway to simulate a complete Stirling engine numerically. This has only recently been attempted and a review of the methods leading up to and including such computational analysis is presented. And finally it is proposed that the quality and depth of Stirling loss understanding may be improved by utilizing the higher fidelity and efficiency of recently developed numerical methods. One such method, the Ultra HI-Fl technique is presented in detail.

  17. BAROS METHOD CRITICAL ANALYSIS (BARIATRIC ANALYSIS AND REPORTING SYSTEM)

    PubMed Central

    NICARETA, Jean Ricardo; de FREITAS, Alexandre Coutinho Teixeira; NICARETA, Sheyla Maris; NICARETA, Cleiton; CAMPOS, Antonio Carlos Ligocki; NASSIF, Paulo Afonso Nunes; MARCHESINI, João Batista

    2015-01-01

    Introduction : Although it has received several criticisms, which is considered to be the most effective method used for global assessment of morbid obesity surgical treatment, still needs to be updated. Objective : Critical analysis of BAROS constitution and method. Method : BAROS as headings was searched in literature review using data from the main bariatric surgery journals until 2009. Results : Where found and assessed 121 papers containing criticisms on BAROS constitution and methodology. It has some failures and few researches show results on the use of this instrument, although it is still considered a standard method. Several authors that used it found imperfections in its methodology and suggested some changes addressed to improving its acceptance, showing the need of developing new methods to qualify the bariatric surgery results. Conclusion: BAROS constitution has failures and its methodology needs to be updated. PMID:26537280

  18. Do Children with Uncomplicated Severe Acute Malnutrition Need Antibiotics? A Systematic Review and Meta-Analysis

    PubMed Central

    Alcoba, Gabriel; Kerac, Marko; Breysse, Serge; Salpeteur, Cécile; Galetto-Lacour, Annick; Briend, André; Gervaix, Alain

    2013-01-01

    Background Current (1999) World Health Organization guidelines recommend giving routine antibiotics (AB) for all children with severe acute malnutrition (SAM), even if they have uncomplicated disease with no clinically obvious infections. We examined the evidence behind this recommendation. Methods and Findings OVID-MEDLINE, EMBASE, COCHRANE, GLOBAL-HEALTH, CINAHL, POPLINE, AFRICA-WIDE-NiPAD, and LILACS were searched for AB efficacy, bacterial resistance, and infection rates in SAM. Following PRISMA guidelines, a systematic review and meta-analysis were performed. Three randomised controlled trials (RCT), five Cochrane reviews, and 37 observational studies were identified. One cohort-study showed no increase in nutritional-cure and mortality in uncomplicated SAM where no AB were used. (p>0.05). However, an unpublished RCT in this setting did show mortality benefits. Another RCT did not show superiority of ceftriaxone over amoxicilllin for these same outcomes, but adressed SAM children with and without complications (p = 0.27). Another RCT showed no difference between amoxicillin and cotrimoxazole efficacies for pneumonia in underweight, but not SAM. Our meta-analysis of 12 pooled susceptibility-studies for all types of bacterial isolates, including 2767 stricly SAM children, favoured amoxicillin over cotrimoxazole for susceptibility medians: 42% (IQR 27–55%) vs 22% (IQR 17–23%) and population-weighted-means 52.9% (range 23–57%) vs 35.4% (range 6.7–42%). Susceptibilities to second-line AB were better, above 80%. Prevalence of serious infections in SAM, pooled from 24 studies, ranged from 17% to 35.2%. No study infered any association of infection prevalence with AB regimens in SAM. Conclusions The evidence underlying current antibiotic recommendations for uncomplicated SAM is weak. Susceptibility-studies favour amoxicillin over cotrimoxazole. However, given that these antibiotics have side-effects, costs, and risks as well as benefits, their routine use

  19. Carbon-sulfur bond-forming reaction catalysed by the radical SAM enzyme HydE

    NASA Astrophysics Data System (ADS)

    Rohac, Roman; Amara, Patricia; Benjdia, Alhosna; Martin, Lydie; Ruffié, Pauline; Favier, Adrien; Berteau, Olivier; Mouesca, Jean-Marie; Fontecilla-Camps, Juan C.; Nicolet, Yvain

    2016-05-01

    Carbon-sulfur bond formation at aliphatic positions is a challenging reaction that is performed efficiently by radical S-adenosyl-L-methionine (SAM) enzymes. Here we report that 1,3-thiazolidines can act as ligands and substrates for the radical SAM enzyme HydE, which is involved in the assembly of the active site of [FeFe]-hydrogenase. Using X-ray crystallography, in vitro assays and NMR spectroscopy we identified a radical-based reaction mechanism that is best described as the formation of a C-centred radical that concomitantly attacks the sulfur atom of a thioether. To the best of our knowledge, this is the first example of a radical SAM enzyme that reacts directly on a sulfur atom instead of abstracting a hydrogen atom. Using theoretical calculations based on our high-resolution structures we followed the evolution of the electronic structure from SAM through to the formation of S-adenosyl-L-cysteine. Our results suggest that, at least in this case, the widely proposed and highly reactive 5‧-deoxyadenosyl radical species that triggers the reaction in radical SAM enzymes is not an isolable intermediate.

  20. The relative influence of ENSO and SAM on Antarctic Peninsula climate

    NASA Astrophysics Data System (ADS)

    Clem, Kyle R.; Renwick, James A.; McGregor, James; Fogt, Ryan L.

    2016-08-01

    Recent warming of the Antarctic Peninsula during austral autumn, winter, and spring has been linked to sea surface temperature (SST) trends in the tropical Pacific and tropical Atlantic, while warming of the northeast Peninsula during summer has been linked to a strengthening of westerly winds traversing the Peninsula associated with a positive trend in the Southern Annular Mode (SAM). Here we demonstrate that circulation changes associated with the SAM dominate interannual temperature variability across the entire Antarctic Peninsula during both summer and autumn, while relationships with tropical Pacific SST variability associated with the El Niño-Southern Oscillation (ENSO) are strongest and statistically significant primarily during winter and spring only. We find the ENSO-Peninsula temperature relationship during autumn to be weak on interannual time scales and regional circulation anomalies associated with the SAM more important for interannual temperature variability across the Peninsula during autumn. Consistent with previous studies, western Peninsula temperatures during autumn, winter, and spring are closely tied to changes in the Amundsen Sea Low (ASL) and associated meridional wind anomalies. The interannual variability of ASL depth is most strongly correlated with the SAM index during autumn, while the ENSO relationship is strongest during winter and spring. Investigation of western and northeast Peninsula temperatures separately reveals that interannual variability of northeast Peninsula temperatures is primarily sensitive to zonal wind anomalies crossing the Peninsula and resultant leeside adiabatic warming rather than to meridional wind anomalies, which is closely tied to variability in the zonal portion of the SAM pattern.

  1. SAM-FS: LSC's New Solaris-Based Storage Management Product

    NASA Technical Reports Server (NTRS)

    Angell, Kent

    1996-01-01

    SAM-FS is a full featured hierarchical storage management (HSM) device that operates as a file system on Solaris-based machines. The SAM-FS file system provides the user with all of the standard UNIX system utilities and calls, and adds some new commands, i.e. archive, release, stage, sls, sfind, and a family of maintenance commands. The system also offers enhancements such as high performance virtual disk read and write, control of the disk through an extent array, and the ability to dynamically allocate block size. SAM-FS provides 'archive sets' which are groupings of data to be copied to secondary storage. In practice, as soon as a file is written to disk, SAM-FS will make copies onto secondary media. SAM-FS is a scalable storage management system. The system can manage millions of files per system, though this is limited today by the speed of UNIX and its utilities. In the future, a new search algorithm will be implemented that will remove logical and performance restrictions on the number of files managed.

  2. Oxygen Attachment on Alkanethiolate SAMs Induced by Low-Energy Electron Irradiation

    PubMed Central

    Massey, Sylvain; Bass, Andrew D.; Steffenhagen, Marie; Sanche, Léon

    2013-01-01

    Reactions of 18O2 with self-assembled monolayer (SAM) films of 1-dodecanethiol, 1-octadecanethiol, 1-butanethiol, and benzyl mercaptan chemisorbed on gold, were studied by the electron stimulated desorption (ESD) of anionic fragments over the incident electron energy range 2–20 eV. Dosing the SAMs with 18O2 at 50 K, results in the ESD of 18O− and 18OH−. Electron irradiation of samples prior to 18O2 deposition demonstrates that intensity of subsequent 18O− and 18OH− desorption signals increase with electron fluence and that absent electron pre-irradiation, no 18O− and 18OH− ESD signals are observed, since oxygen is unable to bind to the SAMs. A minimum incident electron energy of 6–7 eV is required to initiate the binding of 18O2 to the SAMs. O2 binding is proposed to proceed by the formation of CHx−1• radicals via resonant dissociative electron attachment and non-resonant C–H dissociation processes. The weaker signals of 18O− and 18OH− from short-chain SAMs are related to the latter’s resistance to electron induced damage, due to the charge-image dipole quenching and electron delocalization. Comparison between the present results and those for DNA oligonucleotides self-assembled on Au [Mirsaleh-Kohan, N. et al. J. Chem. Phys. 2012, 136, 235104] indicates that the oxygen binding mechanism is common to both systems. PMID:23537075

  3. Advanced Life Analysis Methods. Volume 2. Crack Growth Analysis Methods for Attachment Lugs

    DTIC Science & Technology

    1984-09-01

    GROUP SUB. GR. ,ttachment Lugs, Cracking, Aircraft, Damage Tolerance, 3 Analysis Methods, Straight Lugs, Tapered Lugs, Stresses, .3 3 Stress Intensity...the damage tolerance of aircraft attachment lugs are developed and presented. Stress and fracture analyses are conducted for simple male straight...Parameter Weight Function Approximation 78 3.3 Three-Dimensional Cracked Finite Element Method 85 4. Elastoplastic Analysis 100 IV STRESS INTENSITY FACTORS

  4. Bifurcation analysis method of nonlinear traffic phenomena

    NASA Astrophysics Data System (ADS)

    Ai, Wenhuan; Shi, Zhongke; Liu, Dawei

    2015-03-01

    A new bifurcation analysis method for analyzing and predicting the complex nonlinear traffic phenomena based on the macroscopic traffic flow model is presented in this paper. This method makes use of variable substitution to transform a traditional traffic flow model into a new model which is suitable for the stability analysis. Although the substitution seems to be simple, it can extend the range of the variable to infinity and build a relationship between the traffic congestion and the unstable system in the phase plane. So the problem of traffic flow could be converted into that of system stability. The analysis identifies the types and stabilities of the equilibrium solutions of the new model and gives the overall distribution structure of the nearby equilibrium solutions in the phase plane. Then we deduce the existence conditions of the models Hopf bifurcation and saddle-node bifurcation and find some bifurcations such as Hopf bifurcation, saddle-node bifurcation, Limit Point bifurcation of cycles and Bogdanov-Takens bifurcation. Furthermore, the Hopf bifurcation and saddle-node bifurcation are selected as the starting point of density temporal evolution and it will be helpful for improving our understanding of stop-and-go wave and local cluster effects observed in the free-way traffic.

  5. A high-efficiency aerothermoelastic analysis method

    NASA Astrophysics Data System (ADS)

    Wan, ZhiQiang; Wang, YaoKun; Liu, YunZhen; Yang, Chao

    2014-06-01

    In this paper, a high-efficiency aerothermoelastic analysis method based on unified hypersonic lifting surface theory is established. The method adopts a two-way coupling form that couples the structure, aerodynamic force, and aerodynamic thermo and heat conduction. The aerodynamic force is first calculated based on unified hypersonic lifting surface theory, and then the Eckert reference temperature method is used to solve the temperature field, where the transient heat conduction is solved using Fourier's law, and the modal method is used for the aeroelastic correction. Finally, flutter is analyzed based on the p-k method. The aerothermoelastic behavior of a typical hypersonic low-aspect ratio wing is then analyzed, and the results indicate the following: (1) the combined effects of the aerodynamic load and thermal load both deform the wing, which would increase if the flexibility, size, and flight time of the hypersonic aircraft increase; (2) the effect of heat accumulation should be noted, and therefore, the trajectory parameters should be considered in the design of hypersonic flight vehicles to avoid hazardous conditions, such as flutter.

  6. ER residency of the ceramide phosphoethanolamine synthase SMSr relies on homotypic oligomerization mediated by its SAM domain

    PubMed Central

    Cabukusta, Birol; Kol, Matthijs; Kneller, Laura; Hilderink, Angelika; Bickert, Andreas; Mina, John G. M.; Korneev, Sergei; Holthuis, Joost C. M.

    2017-01-01

    SMSr/SAMD8 is an ER-resident ceramide phosphoethanolamine synthase with a critical role in controlling ER ceramides and suppressing ceramide-induced apoptosis in cultured cells. SMSr-mediated ceramide homeostasis relies on the enzyme’s catalytic activity as well as on its N-terminal sterile α-motif or SAM domain. Here we report that SMSr-SAM is structurally and functionally related to the SAM domain of diacylglycerol kinase DGKδ, a central regulator of lipid signaling at the plasma membrane. Native gel electrophoresis indicates that both SAM domains form homotypic oligomers. Chemical crosslinking studies show that SMSr self-associates into ER-resident trimers and hexamers that resemble the helical oligomers formed by DGKδ-SAM. Residues critical for DGKδ-SAM oligomerization are conserved in SMSr-SAM and their substitution causes a dissociation of SMSr oligomers as well as a partial redistribution of the enzyme to the Golgi. Conversely, treatment of cells with curcumin, a drug disrupting ceramide and Ca2+ homeostasis in the ER, stabilizes SMSr oligomers and promotes retention of the enzyme in the ER. Our data provide first demonstration of a multi-pass membrane protein that undergoes homotypic oligomerization via its SAM domain and indicate that SAM-mediated self-assembly of SMSr is required for efficient retention of the enzyme in the ER. PMID:28120887

  7. Test versus analysis: A discussion of methods

    NASA Technical Reports Server (NTRS)

    Butler, T. G.

    1986-01-01

    Some techniques for comparing structural vibration data determined from test and analysis are discussed. Orthogonality is a general category of one group, correlation is a second, synthesis is a third and matrix improvement is a fourth. Advantages and short-comings of the methods are explored with suggestions as to how they can complement one another. The purpose for comparing vibration data from test and analysis for a given structure is to find out whether each is representing the dynamic properties of the structure in the same way. Specifically, whether: mode shapes are alike; the frequencies of the modes are alike; modes appear in the same frequency sequence; and if they are not alike, how to judge which to believe.

  8. Thermal Analysis Methods for Aerobraking Heating

    NASA Technical Reports Server (NTRS)

    Amundsen, Ruth M.; Gasbarre, Joseph F.; Dec, John A.

    2005-01-01

    As NASA begins exploration of other planets, a method of non-propulsively slowing vehicles at the planet, aerobraking, may become a valuable technique for managing vehicle design mass and propellant. An example of this is Mars Reconnaissance Orbiter (MRO), which will launch in late 2005 and reach Mars in March of 2006. In order to save propellant, MRO will use aerobraking to modify the initial orbit at Mars. The spacecraft will dip into the atmosphere briefly on each orbit, and during the drag pass, the atmospheric drag on the spacecraft will slow it, thus lowering the orbit apoapsis. The largest area on the spacecraft, and that most affected by the heat generated during the aerobraking process, is the solar arrays. A thermal analysis of the solar arrays was conducted at NASA Langley, to simulate their performance throughout the entire roughly 6-month period of aerobraking. Several interesting methods were used to make this analysis more rapid and robust. Two separate models were built for this analysis, one in Thermal Desktop for radiation and orbital heating analysis, and one in MSC.Patran for thermal analysis. The results from the radiation model were mapped in an automated fashion to the Patran thermal model that was used to analyze the thermal behavior during the drag pass. A high degree of automation in file manipulation as well as other methods for reducing run time were employed, since toward the end of the aerobraking period the orbit period is short, and in order to support flight operations the runs must be computed rapidly. All heating within the Patran Thermal model was combined in one section of logic, such that data mapped from the radiation model and aeroheating model, as well as skin temperature effects on the aeroheating and surface radiation, could be incorporated easily. This approach calculates the aeroheating at any given node, based on its position and temperature as well as the density and velocity at that trajectory point. Run times on

  9. Apparatus and method for fluid analysis

    DOEpatents

    Wilson, Bary W.; Peters, Timothy J.; Shepard, Chester L.; Reeves, James H.

    2004-11-02

    The present invention is an apparatus and method for analyzing a fluid used in a machine or in an industrial process line. The apparatus has at least one meter placed proximate the machine or process line and in contact with the machine or process fluid for measuring at least one parameter related to the fluid. The at least one parameter is a standard laboratory analysis parameter. The at least one meter includes but is not limited to viscometer, element meter, optical meter, particulate meter, and combinations thereof.

  10. Apparatus And Method For Fluid Analysis

    DOEpatents

    Wilson, Bary W.; Peters, Timothy J.; Shepard, Chester L.; Reeves, James H.

    2003-05-13

    The present invention is an apparatus and method for analyzing a fluid used in a machine or in an industrial process line. The apparatus has at least one meter placed proximate the machine or process line and in contact with the machine or process fluid for measuring at least one parameter related to the fluid. The at least one parameter is a standard laboratory analysis parameter. The at least one meter includes but is not limited to viscometer, element meter, optical meter, particulate meter, and combinations thereof.

  11. Blood proteins analysis by Raman spectroscopy method

    NASA Astrophysics Data System (ADS)

    Artemyev, D. N.; Bratchenko, I. A.; Khristoforova, Yu. A.; Lykina, A. A.; Myakinin, O. O.; Kuzmina, T. P.; Davydkin, I. L.; Zakharov, V. P.

    2016-04-01

    This work is devoted to study the possibility of plasma proteins (albumin, globulins) concentration measurement using Raman spectroscopy setup. The blood plasma and whole blood were studied in this research. The obtained Raman spectra showed significant variation of intensities of certain spectral bands 940, 1005, 1330, 1450 and 1650 cm-1 for different protein fractions. Partial least squares regression analysis was used for determination of correlation coefficients. We have shown that the proposed method represents the structure and biochemical composition of major blood proteins.

  12. Analysis method for Fourier transform spectroscopy

    NASA Technical Reports Server (NTRS)

    Park, J. H.

    1983-01-01

    A fast Fourier transform technique is given for the simulation of those distortion effects in the instrument line shape of the interferometric spectrum that are due to errors in the measured interferogram. The technique is applied to analyses of atmospheric absorption spectra and laboratory spectra. It is shown that the nonlinear least squares method can retrieve the correct information from the distorted spectrum. Analyses of HF absorption spectra obtained in a laboratory and solar CO absorption spectra gathered by a balloon-borne interferometer indicate that the retrieved amount of absorbing gas is less than the correct value in most cases, if the interferogram distortion effects are not included in the analysis.

  13. Method and apparatus for chromatographic quantitative analysis

    DOEpatents

    Fritz, James S.; Gjerde, Douglas T.; Schmuckler, Gabriella

    1981-06-09

    An improved apparatus and method for the quantitative analysis of a solution containing a plurality of anion species by ion exchange chromatography which utilizes a single eluent and a single ion exchange bed which does not require periodic regeneration. The solution containing the anions is added to an anion exchange resin bed which is a low capacity macroreticular polystyrene-divinylbenzene resin containing quarternary ammonium functional groups, and is eluted therefrom with a dilute solution of a low electrical conductance organic acid salt. As each anion species is eluted from the bed, it is quantitatively sensed by conventional detection means such as a conductivity cell.

  14. Method and apparatus for simultaneous spectroelectrochemical analysis

    DOEpatents

    Chatterjee, Sayandev; Bryan, Samuel A; Schroll, Cynthia A; Heineman, William R

    2013-11-19

    An apparatus and method of simultaneous spectroelectrochemical analysis is disclosed. A transparent surface is provided. An analyte solution on the transparent surface is contacted with a working electrode and at least one other electrode. Light from a light source is focused on either a surface of the working electrode or the analyte solution. The light reflected from either the surface of the working electrode or the analyte solution is detected. The potential of the working electrode is adjusted, and spectroscopic changes of the analyte solution that occur with changes in thermodynamic potentials are monitored.

  15. Scanning methods applied to bitemark analysis

    NASA Astrophysics Data System (ADS)

    Bush, Peter J.; Bush, Mary A.

    2010-06-01

    The 2009 National Academy of Sciences report on forensics focused criticism on pattern evidence subdisciplines in which statements of unique identity are utilized. One principle of bitemark analysis is that the human dentition is unique to the extent that a perpetrator may be identified based on dental traits in a bitemark. Optical and electron scanning methods were used to measure dental minutia and to investigate replication of detail in human skin. Results indicated that being a visco-elastic substrate, skin effectively reduces the resolution of measurement of dental detail. Conclusions indicate caution in individualization statements.

  16. Numerical analysis method for linear induction machines.

    NASA Technical Reports Server (NTRS)

    Elliott, D. G.

    1972-01-01

    A numerical analysis method has been developed for linear induction machines such as liquid metal MHD pumps and generators and linear motors. Arbitrary phase currents or voltages can be specified and the moving conductor can have arbitrary velocity and conductivity variations from point to point. The moving conductor is divided into a mesh and coefficients are calculated for the voltage induced at each mesh point by unit current at every other mesh point. Combining the coefficients with the mesh resistances yields a set of simultaneous equations which are solved for the unknown currents.

  17. Child survivorship estimation: methods and data analysis.

    PubMed

    Feeney, G

    1991-01-01

    "The past 20 years have seen extensive elaboration, refinement, and application of the original Brass method for estimating infant and child mortality from child survivorship data. This experience has confirmed the overall usefulness of the methods beyond question, but it has also shown that...estimates must be analyzed in relation to other relevant information before useful conclusions about the level and trend of mortality can be drawn.... This article aims to illustrate the importance of data analysis through a series of examples, including data for the Eastern Malaysian state of Sarawak, Mexico, Thailand, and Indonesia. Specific maneuvers include plotting completed parity distributions and 'time-plotting' mean numbers of children ever born from successive censuses. A substantive conclusion of general interest is that data for older women are not so widely defective as generally supposed."

  18. Selective spectroscopic methods for water analysis

    SciTech Connect

    Vaidya, Bikas

    1997-06-24

    This dissertation explores in large part the development of a few types of spectroscopic methods in the analysis of water. Methods for the determination of some of the most important properties of water like pH, metal ion content, and chemical oxygen demand are investigated in detail. This report contains a general introduction to the subject and the conclusions. Four chapters and an appendix have been processed separately. They are: chromogenic and fluorogenic crown ether compounds for the selective extraction and determination of Hg(II); selective determination of cadmium in water using a chromogenic crown ether in a mixed micellar solution; reduction of chloride interference in chemical oxygen demand determination without using mercury salts; structural orientation patterns for a series of anthraquinone sulfonates adsorbed at an aminophenol thiolate monolayer chemisorbed at gold; and the role of chemically modified surfaces in the construction of miniaturized analytical instrumentation.

  19. SPASM and Twitch Domains in S-Adenosylmethionine (SAM) Radical Enzymes*

    PubMed Central

    Grell, Tsehai A. J.; Goldman, Peter J.; Drennan, Catherine L.

    2015-01-01

    S-Adenosylmethionine (SAM, also known as AdoMet) radical enzymes use SAM and a [4Fe-4S] cluster to catalyze a diverse array of reactions. They adopt a partial triose-phosphate isomerase (TIM) barrel fold with N- and C-terminal extensions that tailor the structure of the enzyme to its specific function. One extension, termed a SPASM domain, binds two auxiliary [4Fe-4S] clusters and is present within peptide-modifying enzymes. The first structure of a SPASM-containing enzyme, anaerobic sulfatase-maturating enzyme (anSME), revealed unexpected similarities to two non-SPASM proteins, butirosin biosynthetic enzyme 2-deoxy-scyllo-inosamine dehydrogenase (BtrN) and molybdenum cofactor biosynthetic enzyme (MoaA). The latter two enzymes bind one auxiliary cluster and exhibit a partial SPASM motif, coined a Twitch domain. Here we review the structure and function of auxiliary cluster domains within the SAM radical enzyme superfamily. PMID:25477505

  20. Text analysis devices, articles of manufacture, and text analysis methods

    DOEpatents

    Turner, Alan E; Hetzler, Elizabeth G; Nakamura, Grant C

    2015-03-31

    Text analysis devices, articles of manufacture, and text analysis methods are described according to some aspects. In one aspect, a text analysis device includes a display configured to depict visible images, and processing circuitry coupled with the display and wherein the processing circuitry is configured to access a first vector of a text item and which comprises a plurality of components, to access a second vector of the text item and which comprises a plurality of components, to weight the components of the first vector providing a plurality of weighted values, to weight the components of the second vector providing a plurality of weighted values, and to combine the weighted values of the first vector with the weighted values of the second vector to provide a third vector.

  1. Cleanup standards and pathways analysis methods

    SciTech Connect

    Devgun, J.S.

    1993-09-01

    Remediation of a radioactively contaminated site requires that certain regulatory criteria be met before the site can be released for unrestricted future use. Since the ultimate objective of remediation is to protect the public health and safety, residual radioactivity levels remaining at a site after cleanup must be below certain preset limits or meet acceptable dose or risk criteria. Release of a decontaminated site requires proof that the radiological data obtained from the site meet the regulatory criteria for such a release. Typically release criteria consist of a composite of acceptance limits that depend on the radionuclides, the media in which they are present, and federal and local regulations. In recent years, the US Department of Energy (DOE) has developed a pathways analysis model to determine site-specific soil activity concentration guidelines for radionuclides that do not have established generic acceptance limits. The DOE pathways analysis computer code (developed by Argonne National Laboratory for the DOE) is called RESRAD (Gilbert et al. 1989). Similar efforts have been initiated by the US Nuclear Regulatory Commission (NRC) to develop and use dose-related criteria based on genetic pathways analyses rather than simplistic numerical limits on residual radioactivity. The focus of this paper is radionuclide contaminated soil. Cleanup standards are reviewed, pathways analysis methods are described, and an example is presented in which RESRAD was used to derive cleanup guidelines.

  2. Chapter 11. Community analysis-based methods

    SciTech Connect

    Cao, Y.; Wu, C.H.; Andersen, G.L.; Holden, P.A.

    2010-05-01

    Microbial communities are each a composite of populations whose presence and relative abundance in water or other environmental samples are a direct manifestation of environmental conditions, including the introduction of microbe-rich fecal material and factors promoting persistence of the microbes therein. As shown by culture-independent methods, different animal-host fecal microbial communities appear distinctive, suggesting that their community profiles can be used to differentiate fecal samples and to potentially reveal the presence of host fecal material in environmental waters. Cross-comparisons of microbial communities from different hosts also reveal relative abundances of genetic groups that can be used to distinguish sources. In increasing order of their information richness, several community analysis methods hold promise for MST applications: phospholipid fatty acid (PLFA) analysis, denaturing gradient gel electrophoresis (DGGE), terminal restriction fragment length polymorphism (TRFLP), cloning/sequencing, and PhyloChip. Specific case studies involving TRFLP and PhyloChip approaches demonstrate the ability of community-based analyses of contaminated waters to confirm a diagnosis of water quality based on host-specific marker(s). The success of community-based MST for comprehensively confirming fecal sources relies extensively upon using appropriate multivariate statistical approaches. While community-based MST is still under evaluation and development as a primary diagnostic tool, results presented herein demonstrate its promise. Coupled with its inherently comprehensive ability to capture an unprecedented amount of microbiological data that is relevant to water quality, the tools for microbial community analysis are increasingly accessible, and community-based approaches have unparalleled potential for translation into rapid, perhaps real-time, monitoring platforms.

  3. SAGE II aerosol data validation - Comparative studies of SAGE II and SAM II data sets

    NASA Technical Reports Server (NTRS)

    Yue, G. K.; Mccormick, M. P.; Chu, W. P.; Wang, P. H.; Osborn, M. T.

    1989-01-01

    Data from the Stratospheric Aerosol and Gas Experiment (SAGE II) satellite are compared with data from the Stratospheric Aerosol Measurement (SAM II) satellite. Both experiments produce aerosol extinction profiles by measuring the attenuation of solar radiation during each sunrise and sunset observed by the satelltie. The SAGE II obtains profiles at 1.02 microns and three smaller wavelengths, whereas the SAM II measures at only one radiometric channel at 1.0 microns. It is found that the differences between the two sets of data are generally within the error bars associated with each measurement. In addition, the sunrise and sunset data from SAGE II are analyzed.

  4. Mechanistic studies of the radical SAM enzyme spore photoproduct lyase (SPL).

    PubMed

    Li, Lei

    2012-11-01

    Spore photoproduct lyase (SPL) repairs a special thymine dimer 5-thyminyl-5,6-dihydrothymine, which is commonly called spore photoproduct or SP at the bacterial early germination phase. SP is the exclusive DNA photo-damage product in bacterial endospores; its generation and swift repair by SPL are responsible for the spores' extremely high UV resistance. The early in vivo studies suggested that SPL utilizes a direct reversal strategy to repair the SP in the absence of light. The research in the past decade further established SPL as a radical SAM enzyme, which utilizes a tri-cysteine CXXXCXXC motif to harbor a [4Fe-4S] cluster. At the 1+ oxidation state, the cluster provides an electron to the S-adenosylmethionine (SAM), which binds to the cluster in a bidentate manner as the fourth and fifth ligands, to reductively cleave the CS bond associated with the sulfonium ion in SAM, generating a reactive 5'-deoxyadenosyl (5'-dA) radical. This 5'-dA radical abstracts the proR hydrogen atom from the C6 carbon of SP to initiate the repair process; the resulting SP radical subsequently fragments to generate a putative thymine methyl radical, which accepts a back-donated H atom to yield the repaired TpT. SAM is suggested to be regenerated at the end of each catalytic cycle; and only a catalytic amount of SAM is needed in the SPL reaction. The H atom source for the back donation step is suggested to be a cysteine residue (C141 in Bacillus subtilis SPL), and the H-atom transfer reaction leaves a thiyl radical behind on the protein. This thiyl radical thus must participate in the SAM regeneration process; however how the thiyl radical abstracts an H atom from the 5'-dA to regenerate SAM is unknown. This paper reviews and discusses the history and the latest progress in the mechanistic elucidation of SPL. Despite some recent breakthroughs, more questions are raised in the mechanistic understanding of this intriguing DNA repair enzyme. This article is part of a Special Issue

  5. The nucleation and growth of calcium oxalate monohydrate on self- assembled monolayers (SAMs)

    SciTech Connect

    Campbell, A.A.; Tarasevich, B.J.; Graff, G.L.; Fryxell, G.E.; Rieke, P.C.

    1992-05-01

    A physical chemical approach was used to study calcium oxalate monohydrate (COM) nucleation and growth on various organic interfaces. Self-assembling monolayers (SAMs), containing derivatized organic functional groups, were designed to mimic various amino acid residues present in both urine and stone matrix macromolecules. Derivatized surfaces include SAMs with terminal methyl, bromo, imidazole, and thiazolidine-carboxylic acid functional groups. Pronounced differences in COM deposition were observed for the various interfaces with the imidazole and thiazolidine surfaces having the greatest effect and the methyl and bromo groups having little or no nucleating potential.

  6. Analysis of methods. [information systems evolution environment

    NASA Technical Reports Server (NTRS)

    Mayer, Richard J. (Editor); Ackley, Keith A.; Wells, M. Sue; Mayer, Paula S. D.; Blinn, Thomas M.; Decker, Louis P.; Toland, Joel A.; Crump, J. Wesley; Menzel, Christopher P.; Bodenmiller, Charles A.

    1991-01-01

    Information is one of an organization's most important assets. For this reason the development and maintenance of an integrated information system environment is one of the most important functions within a large organization. The Integrated Information Systems Evolution Environment (IISEE) project has as one of its primary goals a computerized solution to the difficulties involved in the development of integrated information systems. To develop such an environment a thorough understanding of the enterprise's information needs and requirements is of paramount importance. This document is the current release of the research performed by the Integrated Development Support Environment (IDSE) Research Team in support of the IISEE project. Research indicates that an integral part of any information system environment would be multiple modeling methods to support the management of the organization's information. Automated tool support for these methods is necessary to facilitate their use in an integrated environment. An integrated environment makes it necessary to maintain an integrated database which contains the different kinds of models developed under the various methodologies. In addition, to speed the process of development of models, a procedure or technique is needed to allow automatic translation from one methodology's representation to another while maintaining the integrity of both. The purpose for the analysis of the modeling methods included in this document is to examine these methods with the goal being to include them in an integrated development support environment. To accomplish this and to develop a method for allowing intra-methodology and inter-methodology model element reuse, a thorough understanding of multiple modeling methodologies is necessary. Currently the IDSE Research Team is investigating the family of Integrated Computer Aided Manufacturing (ICAM) DEFinition (IDEF) languages IDEF(0), IDEF(1), and IDEF(1x), as well as ENALIM, Entity

  7. Analysis Method for Quantifying Vehicle Design Goals

    NASA Technical Reports Server (NTRS)

    Fimognari, Peter; Eskridge, Richard; Martin, Adam; Lee, Michael

    2007-01-01

    A document discusses a method for using Design Structure Matrices (DSM), coupled with high-level tools representing important life-cycle parameters, to comprehensively conceptualize a flight/ground space transportation system design by dealing with such variables as performance, up-front costs, downstream operations costs, and reliability. This approach also weighs operational approaches based on their effect on upstream design variables so that it is possible to readily, yet defensively, establish linkages between operations and these upstream variables. To avoid the large range of problems that have defeated previous methods of dealing with the complex problems of transportation design, and to cut down the inefficient use of resources, the method described in the document identifies those areas that are of sufficient promise and that provide a higher grade of analysis for those issues, as well as the linkages at issue between operations and other factors. Ultimately, the system is designed to save resources and time, and allows for the evolution of operable space transportation system technology, and design and conceptual system approach targets.

  8. Multi-Spacecraft Turbulence Analysis Methods

    NASA Astrophysics Data System (ADS)

    Horbury, Tim S.; Osman, Kareem T.

    Turbulence is ubiquitous in space plasmas, from the solar wind to supernova remnants, and on scales from the electron gyroradius to interstellar separations. Turbulence is responsible for transporting energy across space and between scales and plays a key role in plasma heating, particle acceleration and thermalisation downstream of shocks. Just as with other plasma processes such as shocks or reconnection, turbulence results in complex, structured and time-varying behaviour which is hard to measure with a single spacecraft. However, turbulence is a particularly hard phenomenon to study because it is usually broadband in nature: it covers many scales simultaneously. One must therefore use techniques to extract information on multiple scales in order to quantify plasma turbulence and its effects. The Cluster orbit takes the spacecraft through turbulent regions with a range of characteristics: the solar wind, magnetosheath, cusp and magnetosphere. In each, the nature of the turbulence (strongly driven or fully evolved; dominated by kinetic effects or largely on fluid scales), as well as characteristics of the medium (thermalised or not; high or low plasma sub- or super-Alfvenic) mean that particular techniques are better suited to the analysis of Cluster data in different locations. In this chapter, we consider a range of methods and how they are best applied to these different regions. Perhaps the most studied turbulent space plasma environment is the solar wind, see Bruno and Carbone [2005]; Goldstein et al. [2005] for recent reviews. This is the case for a number of reasons: it is scientifically important for cosmic ray and solar energetic particle scattering and propagation, for example. However, perhaps the most significant motivations for studying solar wind turbulence are pragmatic: large volumes of high quality measurements are available; the stability of the solar wind on the scales of hours makes it possible to identify statistically stationary intervals to

  9. Integrated force method versus displacement method for finite element analysis

    NASA Technical Reports Server (NTRS)

    Patnaik, Surya N.; Berke, Laszlo; Gallagher, Richard H.

    1990-01-01

    A novel formulation termed the integrated force method (IFM) has been developed in recent years for analyzing structures. In this method all the internal forces are taken as independent variables, and the system equilibrium equations (EE's) are integrated with the global compatibility conditions (CC's) to form the governing set of equations. In IFM the CC's are obtained from the strain formulation of St. Venant, and no choices of redundant load systems have to be made, in constrast to the standard force method (SFM). This property of IFM allows the generation of the governing equation to be automated straightforwardly, as it is in the popular stiffness method (SM). In this report IFM and SM are compared relative to the structure of their respective equations, their conditioning, required solution methods, overall computational requirements, and convergence properties as these factors influence the accuracy of the results. Overall, this new version of the force method produces more accurate results than the stiffness method for comparable computational cost.

  10. Method and tool for network vulnerability analysis

    DOEpatents

    Swiler, Laura Painton; Phillips, Cynthia A.

    2006-03-14

    A computer system analysis tool and method that will allow for qualitative and quantitative assessment of security attributes and vulnerabilities in systems including computer networks. The invention is based on generation of attack graphs wherein each node represents a possible attack state and each edge represents a change in state caused by a single action taken by an attacker or unwitting assistant. Edges are weighted using metrics such as attacker effort, likelihood of attack success, or time to succeed. Generation of an attack graph is accomplished by matching information about attack requirements (specified in "attack templates") to information about computer system configuration (contained in a configuration file that can be updated to reflect system changes occurring during the course of an attack) and assumed attacker capabilities (reflected in "attacker profiles"). High risk attack paths, which correspond to those considered suited to application of attack countermeasures given limited resources for applying countermeasures, are identified by finding "epsilon optimal paths."

  11. Targeting EphA2-Sam and Its Interactome: Design and Evaluation of Helical Peptides Enriched in Charged Residues.

    PubMed

    Mercurio, Flavia A; Marasco, Daniela; Di Natale, Concetta; Pirone, Luciano; Costantini, Susan; Pedone, Emilia M; Leone, Marilisa

    2016-11-17

    The EphA2 receptor controls diverse physiological and pathological conditions and its levels are often upregulated in cancer. Targeting receptor overexpression, through modulation of endocytosis and consequent degradation, appears to be an appealing strategy for attacking tumor malignancy. In this scenario, the Sam domain of EphA2 plays a pivotal role because it is the site where protein regulators of endocytosis and stability are recruited by means of heterotypic Sam-Sam interactions. Because EphA2-Sam heterotypic complexes are largely based on electrostatic contacts, we have investigated the possibility of attacking these interactions with helical peptides enriched in charged residues. Several peptide sequences with high predicted helical propensities were designed, and detailed conformational analyses were conducted by diverse techniques including NMR, CD, and molecular dynamics (MD) simulations. Interaction studies were also performed by NMR, surface plasmon resonance (SPR), and microscale thermophoresis (MST) and led to the identification of two peptides capable of binding to the first Sam domain of Odin. These molecules represent early candidates for the generation of efficient Sam domain binders and antagonists of Sam-Sam interactions involving EphA2.

  12. Projection pursuit methods for data analysis

    SciTech Connect

    Friedman, J.H.; Stuetzle, W.

    1981-06-01

    Multivariate analysis can be thought of as a methodology for detection, description and validation of structure in p-dimensional (p > 1) point clouds. Classical multivariate analysis relies on the assumption that the observations forming the point cloud(s) have a Gaussian distribution. All information about structure is then contained in the means and covariance matrices, and the well-known apparatus for estimation and inference in parametric families can be brought to bear. The uncomfortable ingredient in this approach is the Gaussianity assumption. The data may be Gaussian with occasional outliers or even the bulk of the data simply might not conform to a Gaussian distribution. Methods are discussed that do not involve any distributional assumptions. In this case, structure cannot be perceived by looking at a set of estimated parameters. An obvious remedy is to look at the data themselves, at the p-dimensional point cloud(s), and to base the description of structure on those views. As perception in more than three dimensions is difficult, the dimensionality of the data first has to be reduced, most simply by projection. Projection of the data generally implies loss of information. As a consequence, multivariate structure does not usually show up in all projections, and no single projection might contain all the information. It is therefore important to judiciously choose the set of projections on which the model of the structure is to be based. This is the goal of projection pursuit procedures.

  13. Gap analysis: Concepts, methods, and recent results

    USGS Publications Warehouse

    Jennings, M.D.

    2000-01-01

    Rapid progress is being made in the conceptual, technical, and organizational requirements for generating synoptic multi-scale views of the earth's surface and its biological content. Using the spatially comprehensive data that are now available, researchers, land managers, and land-use planners can, for the first time, quantitatively place landscape units - from general categories such as 'Forests' or 'Cold-Deciduous Shrubland Formation' to more categories such as 'Picea glauca-Abies balsamea-Populus spp. Forest Alliance' - in their large-area contexts. The National Gap Analysis Program (GAP) has developed the technical and organizational capabilities necessary for the regular production and analysis of such information. This paper provides a brief overview of concepts and methods as well as some recent results from the GAP projects. Clearly, new frameworks for biogeographic information and organizational cooperation are needed if we are to have any hope of documenting the full range of species occurrences and ecological processes in ways meaningful to their management. The GAP experience provides one model for achieving these new frameworks.

  14. Characterization of RimO, a new member of the methylthiotransferase subclass of the radical SAM superfamily.

    PubMed

    Lee, Kyung-Hoon; Saleh, Lana; Anton, Brian P; Madinger, Catherine L; Benner, Jack S; Iwig, David F; Roberts, Richard J; Krebs, Carsten; Booker, Squire J

    2009-10-27

    RimO, encoded by the yliG gene in Escherichia coli, has been recently identified in vivo as the enzyme responsible for the attachment of a methylthio group on the beta-carbon of Asp88 of the small ribosomal protein S12 [Anton, B. P., Saleh, L., Benner, J. S., Raleigh, E. A., Kasif, S., and Roberts, R. J. (2008) Proc. Natl. Acad. Sci. U.S.A. 105, 1826-1831]. To date, it is the only enzyme known to catalyze methylthiolation of a protein substrate; the four other naturally occurring methylthio modifications have been observed on tRNA. All members of the methylthiotransferase (MTTase) family, to which RimO belongs, have been shown to contain the canonical CxxxCxxC motif in their primary structures that is typical of the radical S-adenosylmethionine (SAM) family of proteins. MiaB, the only characterized MTTase, and the enzyme experimentally shown to be responsible for methylthiolation of N(6)-isopentenyladenosine of tRNA in E. coli and Thermotoga maritima, has been demonstrated to harbor two distinct [4Fe-4S] clusters. Herein, we report in vitro biochemical and spectroscopic characterization of RimO. We show by analytical and spectroscopic methods that RimO, overproduced in E. coli in the presence of iron-sulfur cluster biosynthesis proteins from Azotobacter vinelandii, contains one [4Fe-4S](2+) cluster. Reconstitution of this form of RimO (RimO(rcn)) with (57)Fe and sodium sulfide results in a protein that contains two [4Fe-4S](2+) clusters, similar to MiaB. We also show by mass spectrometry that RimO(rcn) catalyzes the attachment of a methylthio group to a peptide substrate analogue that mimics the loop structure bearing aspartyl 88 of the S12 ribosomal protein from E. coli. Kinetic analysis of this reaction shows that the activity of RimO(rcn) in the presence of the substrate analogue does not support a complete turnover. We discuss the possible requirement for an assembled ribosome for fully active RimO in vitro. Our findings are consistent with those of other

  15. Method and apparatus for frequency spectrum analysis

    NASA Technical Reports Server (NTRS)

    Cole, Steven W. (Inventor)

    1992-01-01

    A method for frequency spectrum analysis of an unknown signal in real-time is discussed. The method is based upon integration of 1-bit samples of signal voltage amplitude corresponding to sine or cosine phases of a controlled center frequency clock which is changed after each integration interval to sweep the frequency range of interest in steps. Integration of samples during each interval is carried out over a number of cycles of the center frequency clock spanning a number of cycles of an input signal to be analyzed. The invention may be used to detect the frequency of at least two signals simultaneously. By using a reference signal of known frequency and voltage amplitude (added to the two signals for parallel processing in the same way, but in a different channel with a sampling at the known frequency and phases of the reference signal), the absolute voltage amplitude of the other two signals may be determined by squaring the sine and cosine integrals of each channel and summing the squares to obtain relative power measurements in all three channels and, from the known voltage amplitude of the reference signal, obtaining an absolute voltage measurement for the other two signals by multiplying the known voltage of the reference signal with the ratio of the relative power of each of the other two signals to the relative power of the reference signal.

  16. Colloidal silicon quantum dots: from preparation to the modification of self-assembled monolayers (SAMs) for bio-applications.

    PubMed

    Cheng, Xiaoyu; Lowe, Stuart B; Reece, Peter J; Gooding, J Justin

    2014-04-21

    Concerns over possible toxicities of conventional metal-containing quantum dots have inspired growing research interests in colloidal silicon nanocrystals (SiNCs), or silicon quantum dots (SiQDs). This is related to their potential applications in a number of fields such as solar cells, optoelectronic devices and fluorescent bio-labelling agents. The past decade has seen significant progress in the understanding of fundamental physics and surface properties of silicon nanocrystals. Such understanding is based on the advances in the preparation and characterization of surface passivated colloidal silicon nanocrystals. In this critical review, we summarize recent advances in the methods of preparing high quality silicon nanocrystals and strategies for forming self-assembled monolayers (SAMs), with a focus on their bio-applications. We highlight some of the major challenges that remain, as well as lessons learnt when working with silicon nanocrystals (239 references).

  17. The transcription factor FBI-1 inhibits SAM68-mediated BCL-X alternative splicing and apoptosis.

    PubMed

    Bielli, Pamela; Busà, Roberta; Di Stasi, Savino M; Munoz, Manuel J; Botti, Flavia; Kornblihtt, Alberto R; Sette, Claudio

    2014-04-01

    Alternative splicing (AS) is tightly coupled to transcription for the majority of human genes. However, how these two processes are linked is not well understood. Here, we unveil a direct role for the transcription factor FBI-1 in the regulation of AS. FBI-1 interacts with the splicing factor SAM68 and reduces its binding to BCL-X mRNA. This, in turn, results in the selection of the proximal 5' splice site in BCL-X exon 2, thereby favoring the anti-apoptotic BCL-XL variant and counteracting SAM68-mediated apoptosis. Conversely, depletion of FBI-1, or expression of a SAM68 mutant lacking the FBI-1 binding region, restores the ability of SAM68 to induce BCL-XS splicing and apoptosis. FBI-1's role in splicing requires the activity of histone deacetylases, whose pharmacological inhibition recapitulates the effects of FBI-1 knockdown. Our study reveals an unexpected function for FBI-1 in splicing modulation with a direct impact on cell survival.

  18. 16. (4'X5' image enlarged from 2 1/4' negative) Sam Fowler, ...

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

    16. (4'X5' image enlarged from 2 1/4' negative) Sam Fowler, Photographer, February 1998 VIEW OF GEORGIA DOT BRIDGE NO. 051-00025D-01986N (JAMES P. HOULIHAN BRIDGE). DETAIL OF TURN-SPAN MECHANISM. - Georgia DOT Bridge No. 051-00025D-01986N, US 17 & State Route 25 Spanning Savannah River, Port Wentworth, Chatham County, GA

  19. 15. (4"X5" image enlarged from 2 1/4" negative) Sam Fowler, ...

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

    15. (4"X5" image enlarged from 2 1/4" negative) Sam Fowler, Photographer, February 1998 VIEW OF GEORGIA DOT BRIDGE NO. 051-00025D-01986N (JAMES P. HOULIHAN BRIDGE) PIVOT PIER - Georgia DOT Bridge No. 051-00025D-01986N, US 17 & State Route 25 Spanning Savannah River, Port Wentworth, Chatham County, GA

  20. 13. (4'X5' image enlarged from 2 1/4' negative) Sam Fowler, ...

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

    13. (4'X5' image enlarged from 2 1/4' negative) Sam Fowler, Photographer, February 1998 VIEW OF GEORGIA DOT BRIDGE NO. 051-00025D-01986N (JAMES P. HOULIHAN BRIDGE) NORTH SIDE ELEVATION. - Georgia DOT Bridge No. 051-00025D-01986N, US 17 & State Route 25 Spanning Savannah River, Port Wentworth, Chatham County, GA

  1. 17. (4"X5" image enlarged from 2 1/4" negative) Sam Fowler, ...

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

    17. (4"X5" image enlarged from 2 1/4" negative) Sam Fowler, Photographer, February 1998 VIEW OF GEORGIA DOT BRIDGE NO. 051-00025D-01986N (JAMES P. HOULIHAN BRIDGE) APPROACH SPAN FENDER - Georgia DOT Bridge No. 051-00025D-01986N, US 17 & State Route 25 Spanning Savannah River, Port Wentworth, Chatham County, GA

  2. 12. (4'X5' image enlarged from 2 1/4' negative) Sam Fowler, ...

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

    12. (4'X5' image enlarged from 2 1/4' negative) Sam Fowler, Photographer, February 1998 VIEW OF GEORGIA DOT BRIDGE NO. 051-00025D-01986N (JAMES P. HOULIHAN BRIDGE) SOUTH SIDE ELEVATION. - Georgia DOT Bridge No. 051-00025D-01986N, US 17 & State Route 25 Spanning Savannah River, Port Wentworth, Chatham County, GA

  3. 14. (4"X5" image enlarged from 2 1/4" negative) Sam Fowler, ...

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

    14. (4"X5" image enlarged from 2 1/4" negative) Sam Fowler, Photographer, February 1998 VIEW OF GEORGIA DOT BRIDGE NO. 051-00025D-01986N (JAMES P. HOULIHAN BRIDGE) TURN-SPAN AND LOCKING MECHANISM - Georgia DOT Bridge No. 051-00025D-01986N, US 17 & State Route 25 Spanning Savannah River, Port Wentworth, Chatham County, GA

  4. The formation of ACC and competition between polyamines and ethylene for SAM

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Ethylene biosynthesis involves the conversion of S-adenosylmethionine (SAM) to 1-aminocyclopropane-1-carboxylic acid (ACC) by ACC synthase (ACS). ACC is then converted to ethylene. The genes that encode enzymes in this pathway all belong to a family of genes. Differential transcriptional regulation ...

  5. Case Studies Comparing System Advisor Model (SAM) Results to Real Performance Data: Preprint

    SciTech Connect

    Blair, N.; Dobos, A.; Sather, N.

    2012-06-01

    NREL has completed a series of detailed case studies comparing the simulations of the System Advisor Model (SAM) and measured performance data or published performance expectations. These case studies compare PV measured performance data with simulated performance data using appropriate weather data. The measured data sets were primarily taken from NREL onsite PV systems and weather monitoring stations.

  6. Statement of Facts for 1977 City-Wide Mock Trial Competitions. Walker Thomas v. Sam Nomad.

    ERIC Educational Resources Information Center

    National Inst. for Citizen Education in the Law, Washington, DC.

    Prepared by the District of Columbia Street Law Project for its annual city-wide mock trial competition, this instructional handout provides material for a civil case over an automobile accident. Walker Thomas is suing Sam Nomad for damages that resulted from a collision, for which both parties blame the other. The handout clarifies the laws and…

  7. 77 FR 187 - Federal Acquisition Regulation; Transition to the System for Award Management (SAM)

    Federal Register 2010, 2011, 2012, 2013, 2014

    2012-01-03

    ...: Deletes the definition at 2.101 for ``business partner network,'' which is no longer necessary in the SAM architecture. Deletes reference to ``business partner network'' at 4.1100, Scope, which is no longer necessary....101, in paragraph (b)(2) by removing the definition ``Business Partner Network (BPN)'' and...

  8. Halomethane production in plants: Structure of the biosynthetic SAM-dependent halide methyltransferase from Arabidopsis thaliana**

    PubMed Central

    Schmidberger, Jason W.; James, Agata B.; Edwards, Robert; Naismith, James H.; O’Hagan, David

    2012-01-01

    A product structure of the halomethane producing enzyme in plants (Arabidopsis thaliana) is reported and a model for presentation of chloride/bromide ion to the methyl group of S-adenosyl-L-methionine (SAM) is presented to rationalise nucleophilic halide attack for halomethane production, gaseous natural products that are produced globally. PMID:20376845

  9. Treating Obsessive-Compulsive Disorder and Schizophrenia: The Case of Sam

    ERIC Educational Resources Information Center

    Peasley-Miklus, Catherine; Massie, Elise; Baslett, Gaston; Carmin, Cheryl

    2005-01-01

    This article describes the case of Sam, a 22-year-old male with obsessive-compulsive disorder (OCD) and schizophrenia. The patient's background, the development and characteristics of his OCD and schizophrenia, and the history of what became a rather complicated treatment are described. In addition, four problem areas of therapy are identified.

  10. 19. (4"X5" image enlarged from 2 1/4" negative) Sam Fowler, ...

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

    19. (4"X5" image enlarged from 2 1/4" negative) Sam Fowler, Photographer, February 1998 VIEW OF GEORGIA DOT BRIDGE NO. 051-00025D-01986N (JAMES P. HOULIHAN BRIDGE). NAVIGATIONAL LIGHT LOCATED ON TOP OF FENDER - Georgia DOT Bridge No. 051-00025D-01986N, US 17 & State Route 25 Spanning Savannah River, Port Wentworth, Chatham County, GA

  11. Mercury astronaut John Glenn at the Sam Houston Colosseum, Houston, Texas

    NASA Technical Reports Server (NTRS)

    1962-01-01

    Mercury astronaut John H. Glenn Jr., wearing a new cowboy hat and a badge in the shape of a star, leafs through his program as he is served his food at the Sam Houston Colosseum. A large crowd was on hand to welcome them to Houston, Texas.

  12. Comparison Autocorrelation Method and SVD Method for Plasma Mode Analysis in Tokamaks

    NASA Astrophysics Data System (ADS)

    Saadat, Shervin; Salem, Mohammad K.

    2011-08-01

    Autocorrelation method (Single time series) is new method for analysis of plasma mode in Tokamaks. In this article autocorrelation method has been compared with SVD method. Energy of the modes which obtained by SVD analysis showed that the autocorrelation method is a cited method for mode detection.

  13. SAM: String-based sequence search algorithm for mitochondrial DNA database queries

    PubMed Central

    Röck, Alexander; Irwin, Jodi; Dür, Arne; Parsons, Thomas; Parson, Walther

    2011-01-01

    The analysis of the haploid mitochondrial (mt) genome has numerous applications in forensic and population genetics, as well as in disease studies. Although mtDNA haplotypes are usually determined by sequencing, they are rarely reported as a nucleotide string. Traditionally they are presented in a difference-coded position-based format relative to the corrected version of the first sequenced mtDNA. This convention requires recommendations for standardized sequence alignment that is known to vary between scientific disciplines, even between laboratories. As a consequence, database searches that are vital for the interpretation of mtDNA data can suffer from biased results when query and database haplotypes are annotated differently. In the forensic context that would usually lead to underestimation of the absolute and relative frequencies. To address this issue we introduce SAM, a string-based search algorithm that converts query and database sequences to position-free nucleotide strings and thus eliminates the possibility that identical sequences will be missed in a database query. The mere application of a BLAST algorithm would not be a sufficient remedy as it uses a heuristic approach and does not address properties specific to mtDNA, such as phylogenetically stable but also rapidly evolving insertion and deletion events. The software presented here provides additional flexibility to incorporate phylogenetic data, site-specific mutation rates, and other biologically relevant information that would refine the interpretation of mitochondrial DNA data. The manuscript is accompanied by freeware and example data sets that can be used to evaluate the new software (http://stringvalidation.org). PMID:21056022

  14. Mechanism elucidation of the radical SAM enzyme spore photoproduct lyase (SPL)

    PubMed Central

    Li, Lei

    2011-01-01

    Spore photoproduct lyase (SPL) repairs a special thymine dimer 5-thyminyl-5,6-dihydrothymine, which is commonly called spore photoproduct or SP at the bacterial early germination phase. SP is the exclusive DNA photo-damage product in bacterial endospores; its generation and swift repair by SPL are responsible for the spores’ extremely high UV resistance. The early in vivo studies suggested that SPL utilizes a direct reversal strategy to repair the SP in the absence of light. The research in the past decade further established SPL as a radical SAM enzyme, which utilizes a tri-cysteine CXXXCXXC motif to harbor a [4Fe-4S] cluster. At the 1+ oxidation state, the cluster provides an electron to the S-adenosylmethionine (SAM), which binds to the cluster in a bidentate manner as the fourth and fifth ligands, to reductively cleave the C-S bond associated with the sulfonium ion in SAM, generating a reactive 5′-deoxyadenosyl (5′-dA) radical. This 5′-dA radical abstracts the proR hydrogen atom from the C6 carbon of SP to initiate the repair process; the resulting SP radical subsequently fragments to generate a putative thymine methyl radical, which accepts a back-donated H atom to yield the repaired TpT. SAM is suggested to be regenerated at the end of each catalytic cycle; and only a catalytic amount of SAM is needed in the SPL reaction. The H atom source for the back donation step is suggested to be a cysteine residue (C141 in B. subtilis SPL), and the H-atom transfer reaction leaves a thiyl radical behind on the protein. This thiyl radical thus must participate in the SAM regeneration process; however how the thiyl radical abstracts an H atom from the 5′-dA to regenerate SAM is unknown. This paper reviews and discusses the history and the latest progress in the mechanistic elucidation of SPL. Despite some recent breakthroughs, more questions are raised in the mechanistic understanding of this intriguing DNA repair enzyme. PMID:22197590

  15. Determination of the Possible Source of Chlorinated Hydrocarbons Detected By SAM during MSL Mission

    NASA Astrophysics Data System (ADS)

    Buch, A.; Belmahdi, I.; Szopa, C.; Freissinet, C.; Glavin, D. P.; Francois, P.; Coll, P. J.; Miller, K.; Eigenbrode, J. L.; Stern, J. C.; Navarro-Gonzalez, R.; McAdam, A.; Teinturier, S.; Bonnet, J. Y.; Summons, R. E.; Millan, M.; Dequaire, T.; Cabane, M.; Mahaffy, P. R.

    2014-12-01

    The SAM GC-MS instrument on the Curiosity rover allows to analyze volatile compounds from the atmosphere or volatile compounds from the Martian regolith and refractory compounds in the regolith after sample treatment using wet chemistry. One portion of the wet chemistry experiment is composed of MTBSTFA (N-methyl-N-tert-butyldimethylsilyltrifluoroacetamide) / DMF (dimethylformamide). Abundant chlorinated hydrocarbons have been detected with SAM when analyzing samples collected in several sites explored by Curiosity rover. Some of these chlorohydrocarbons are produced during pyrolysis by the reaction of Martian oxychlorine compounds in the samples with terrestrial carbon from a derivatization agent (MTBSTFA) used in SAM (1, 2). Chlorobenzene cannot be formed by the direct reaction of MTBSTFA and DMF when heated in the presence of fused silica and perchlorates under SAM-like conditions (1)) therefore two other reaction pathways for chlorobenzene were proposed : (1) reactions between the volatile thermal degradation products of perchlorates (e.g. O2, Cl2 and HCl) and Tenax® and (2) the interaction of perchlorates with organic material from the martian regolith such as benzenecarboxylates (3, 4). This study investigates several propositions for chlorinated hydrocarbon formation by looking for: (1) all products coming from the interaction of Tenax® (which is part of the SAM hydrocarbon trap) and perchlorates, (2) also between some soil sample and perchlorates in the presence or absence of MTBSTFA and (c) sources of chlorinated hydrocarbon precursors. References: 1. D. P. Glavin et al.(2013) JGR 118, 1955-1973. 2. L. a Leshin et al. (2013) Science 341, 1238937. 3. C. Freissinet et al. (2014) LPSC XXXXV Abstract 2796. 4. D. Glavin et al. (2014) LPSC XXXV Abstract #1157.

  16. Flutter and Divergence Analysis using the Generalized Aeroelastic Analysis Method

    NASA Technical Reports Server (NTRS)

    Edwards, John W.; Wieseman, Carol D.

    2003-01-01

    The Generalized Aeroelastic Analysis Method (GAAM) is applied to the analysis of three well-studied checkcases: restrained and unrestrained airfoil models, and a wing model. An eigenvalue iteration procedure is used for converging upon roots of the complex stability matrix. For the airfoil models, exact root loci are given which clearly illustrate the nature of the flutter and divergence instabilities. The singularities involved are enumerated, including an additional pole at the origin for the unrestrained airfoil case and the emergence of an additional pole on the positive real axis at the divergence speed for the restrained airfoil case. Inconsistencies and differences among published aeroelastic root loci and the new, exact results are discussed and resolved. The generalization of a Doublet Lattice Method computer code is described and the code is applied to the calculation of root loci for the wing model for incompressible and for subsonic flow conditions. The error introduced in the reduction of the singular integral equation underlying the unsteady lifting surface theory to a linear algebraic equation is discussed. Acknowledging this inherent error, the solutions of the algebraic equation by GAAM are termed 'exact.' The singularities of the problem are discussed and exponential series approximations used in the evaluation of the kernel function shown to introduce a dense collection of poles and zeroes on the negative real axis. Again, inconsistencies and differences among published aeroelastic root loci and the new 'exact' results are discussed and resolved. In all cases, aeroelastic flutter and divergence speeds and frequencies are in good agreement with published results. The GAAM solution procedure allows complete control over Mach number, velocity, density, and complex frequency. Thus all points on the computed root loci can be matched-point, consistent solutions without recourse to complex mode tracking logic or dataset interpolation, as in the k and p

  17. A Novel Method for Dissolved Phosphorus Analysis

    NASA Astrophysics Data System (ADS)

    Berry, J. M.; Spiese, C. E.

    2012-12-01

    High phosphorus loading is a major problem in the Great Lakes watershed. Phosphate enters waterways via both point and non-point sources (e.g., runoff, tile drainage, etc.), promoting eutrophication, and ultimately leading to algal blooms, hypoxia and loss of aquatic life. Quantification of phosphorus loading is typically done using the molybdenum blue method, which is known to have significant drawbacks. The molybdenum blue method requires strict control on time, involves toxic reagents that have limited shelf-life, and is generally unable to accurately measure sub-micromolar concentrations. This study aims to develop a novel reagent that will overcome many of these problems. Ethanolic europium(III) chloride and 8-hydroxyquinoline-5-sulfonic acid (hqs) were combined to form the bis-hqs complex (Eu-hqs). Eu-hqs was synthesized as the dipotassium salt via a simple one-pot procedure. This complex was found to be highly fluorescent (λex = 360 nm, λem = 510 nm) and exhibited a linear response upon addition of monohydrogen phosphate. The linear response ranged from 0.5 - 25 μM HPO42- (15.5 - 775 μg P L-1). It was also determined that Eu-hqs formed a 1:1 complex with phosphate. Maximum fluorescence was found at a pH of 8.50, and few interferences from other ions were found. Shelf-life of the reagent was at least one month, twice as long as most of the molybdenum blue reagent formulations. In the future, field tests will be undertaken in local rivers, lakes, and wetlands to determine the applicability of the complex to real-world analysis.

  18. Echinacea purpurea: Pharmacology, phytochemistry and analysis methods

    PubMed Central

    Manayi, Azadeh; Vazirian, Mahdi; Saeidnia, Soodabeh

    2015-01-01

    Echinacea purpurea (Asteraceae) is a perennial medicinal herb with important immunostimulatory and anti-inflammatory properties, especially the alleviation of cold symptoms. The plant also attracted scientists’ attention to assess other aspects of its beneficial effects. For instance, antianxiety, antidepression, cytotoxicity, and antimutagenicity as induced by the plant have been revealed in various studies. The findings of the clinical trials are controversial in terms of side effects. While some studies revealed the beneficial effects of the plant on the patients and no severe adverse effects, some others have reported serious side effects including abdominal pain, angioedema, dyspnea, nausea, pruritus, rash, erythema, and urticaria. Other biological activities of the plant such as antioxidant, antibacterial, antiviral, and larvicidal activities have been reported in previous experimental studies. Different classes of secondary metabolites of the plant such as alkamides, caffeic acid derivatives, polysaccharides, and glycoproteins are believed to be biologically and pharmacologically active. Actually, concurrent determination and single analysis of cichoric acid and alkamides have been successfully developed mainly by using high-performance liquid chromatography (HPLC) coupled with different detectors including UV spectrophotometric, coulometric electrochemical, and electrospray ionization mass spectrometric detectors. The results of the studies which were controversial revealed that in spite of major experiments successfully accomplished using E. purpurea, many questions remain unanswered and future investigations may aim for complete recognition of the plant's mechanism of action using new, complementary methods. PMID:26009695

  19. Mars Atmospheric Composition, Isotope Ratios and Seasonal Variations: Overview and Updates of the SAM Measurements at Gale Crater

    NASA Astrophysics Data System (ADS)

    Webster, C. R.; Mahaffy, P. R.; Atreya, S. K.; Conrad, P. G.; Franz, H.; Trainer, M. G.; Wong, M. H.; Mischna, M. A.; Flesch, G.; Farley, K. A.; Owen, T. C.; Niles, P. B.; Jones, J. H.; Christensen, L. E.; Martín-Torres, J.; Zorzano, M. P.

    2014-12-01

    We will summarize the in situ measurements of atmospheric composition and the isotopic ratios of D/H in water, 13C/12C, 18O/16O, 17O/16O, and 13C18O/12C16O in carbon dioxide, 38Ar/36Ar, xKr/84Kr, and 15N/14N made in the martian atmosphere at Gale Crater from the Curiosity Rover using the Sample Analysis at Mars (SAM)'s Quadrupole Mass Spectrometer (QMS) and Tunable Laser Spectrometer (TLS). With data over 700 sols since the Curiosity landing, we will discuss evidence and implications for changes on seasonal and other timescales. We will also present results for continued methane and methane enrichment experiments over this time period. Comparison between our measurements in the modern atmosphere and those of martian meteorites like ALH 84001 implies that the martian reservoirs of CO2 and H2O were largely established ~4 billion years ago, but that atmospheric loss or surface interaction may be still ongoing. References:[1] Mahaffy P. R. et al., Science, 341, 263-266, 2013, doi:10.1126/science.1237966. [2] Webster C. R. et al. (2013), Science, 341, 260-263, doi:10.1126/science.1237961. [3] Wong, M. H. et al. (2013), Geophys. Res. Lett., doi:10.1002/2013GL057840. [4] Atreya S. K. et al (2013), Geophys. Res. Lett., 40, 1-5, doi:10.1002/2013GL057763. The research described here was supported by the National Aeronautics and Space Administration (NASA).

  20. Visual cluster analysis and pattern recognition methods

    DOEpatents

    Osbourn, Gordon Cecil; Martinez, Rubel Francisco

    2001-01-01

    A method of clustering using a novel template to define a region of influence. Using neighboring approximation methods, computation times can be significantly reduced. The template and method are applicable and improve pattern recognition techniques.

  1. Method Development for Analysis of Aspirin Tablets.

    ERIC Educational Resources Information Center

    Street, Kenneth W., Jr.

    1988-01-01

    Develops a lab experiment for introductory instrumental analysis that requires interference studies and optimizing of conditions. Notes the analysis of the aspirin is by visible spectrophotometric assay. Gives experimental details and discussion. (MVL)

  2. Thermal Analysis Methods For Earth Entry Vehicle

    NASA Technical Reports Server (NTRS)

    Amundsen, Ruth M.; Dec, John A.; Lindell, Michael C.

    2000-01-01

    Thermal analysis of a vehicle designed to return samples from another planet, such as the Earth Entry vehicle for the Mars Sample Return mission, presents several unique challenges. The Earth Entry Vehicle (EEV) must contain Martian material samples after they have been collected and protect them from the high heating rates of entry into the Earth's atmosphere. This requirement necessitates inclusion of detailed thermal analysis early in the design of the vehicle. This paper will describe the challenges and solutions for a preliminary thermal analysis of an Earth Entry Vehicle. The aeroheating on the vehicle during entry would be the main driver for the thermal behavior, and is a complex function of time, spatial position on the vehicle, vehicle temperature, and trajectory parameters. Thus, the thermal analysis must be closely tied to the aeroheating analysis in order to make accurate predictions. Also, the thermal analysis must account for the material response of the ablative thermal protection system (TPS). For the exo-atmospheric portion of the mission, the thermal analysis must include the orbital radiation fluxes on the surfaces. The thermal behavior must also be used to predict the structural response of the vehicle (the thermal stress and strains) and whether they remain within the capability of the materials. Thus, the thermal analysis requires ties to the three-dimensional geometry, the aeroheating analysis, the material response analysis, the orbital analysis, and the structural analysis. The goal of this paper is to describe to what degree that has been achieved.

  3. Predictions of psychophysical measurements for sinusoidal amplitude modulated (SAM) pulse-train stimuli from a stochastic model.

    PubMed

    Xu, Yifang; Collins, Leslie M

    2007-08-01

    Two approaches have been proposed to reduce the synchrony of the neural response to electrical stimuli in cochlear implants. One approach involves adding noise to the pulse-train stimulus, and the other is based on using a high-rate pulse-train carrier. Hypotheses regarding the efficacy of the two approaches can be tested using computational models of neural responsiveness prior to time-intensive psychophysical studies. In our previous work, we have used such models to examine the effects of noise on several psychophysical measures important to speech recognition. However, to date there has been no parallel analytic solution investigating the neural response to the high-rate pulse-train stimuli and their effect on psychophysical measures. This work investigates the properties of the neural response to high-rate pulse-train stimuli with amplitude modulated envelopes using a stochastic auditory nerve model. The statistics governing the neural response to each pulse are derived using a recursive method. The agreement between the theoretical predictions and model simulations is demonstrated for sinusoidal amplitude modulated (SAM) high rate pulse-train stimuli. With our approach, predicting the neural response in modern implant devices becomes tractable. Psychophysical measurements are also predicted using the stochastic auditory nerve model for SAM high-rate pulse-train stimuli. Changes in dynamic range (DR) and intensity discrimination are compared with that observed for noise-modulated pulse-train stimuli. Modulation frequency discrimination is also studied as a function of stimulus level and pulse rate. Results suggest that high rate carriers may positively impact such psychophysical measures.

  4. 7 CFR 58.245 - Method of sample analysis.

    Code of Federal Regulations, 2013 CFR

    2013-01-01

    ... 7 Agriculture 3 2013-01-01 2013-01-01 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...

  5. 7 CFR 58.812 - Methods of sample analysis.

    Code of Federal Regulations, 2013 CFR

    2013-01-01

    ... 7 Agriculture 3 2013-01-01 2013-01-01 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,...

  6. 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,...

  7. 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...

  8. Advanced Software Methods for Physics Analysis

    NASA Astrophysics Data System (ADS)

    Lista, L.

    2006-01-01

    Unprecedented data analysis complexity is experienced in modern High Energy Physics experiments. The complexity arises from the growing size of recorded data samples, the large number of data analyses performed by different users in each single experiment, and the level of complexity of each single analysis. For this reason, the requirements on software for data analysis impose a very high level of reliability. We present two concrete examples: the former from BaBar experience with the migration to a new Analysis Model with the definition of a new model for the Event Data Store, the latter about a toolkit for multivariate statistical and parametric Monte Carlo analysis developed using generic programming.

  9. Sam68/KHDRBS1 is critical for colon tumorigenesis by regulating genotoxic stress-induced NF-κB activation

    PubMed Central

    Fu, Kai; Sun, Xin; Wier, Eric M; Hodgson, Andrea; Liu, Yue; Sears, Cynthia L; Wan, Fengyi

    2016-01-01

    Nuclear factor kappa B (NF-κB)-mediated transcription is an important mediator for cellular responses to DNA damage. Genotoxic agents trigger a 'nuclear-to-cytoplasmic' NF-κB activation signaling pathway; however, the early nuclear signaling cascade linking DNA damage and NF-κB activation is poorly understood. Here we report that Src-associated-substrate-during-mitosis-of-68kDa/KH domain containing, RNA binding, signal transduction associated 1 (Sam68/KHDRBS1) is a key NF-κB regulator in genotoxic stress-initiated signaling pathway. Sam68 deficiency abolishes DNA damage-stimulated polymers of ADP-ribose (PAR) production and the PAR-dependent NF-κB transactivation of anti-apoptotic genes. Sam68 deleted cells are hypersensitive to genotoxicity caused by DNA damaging agents. Upregulated Sam68 coincides with elevated PAR production and NF-κB-mediated anti-apoptotic transcription in human and mouse colon cancer. Knockdown of Sam68 sensitizes human colon cancer cells to genotoxic stress-induced apoptosis and genetic deletion of Sam68 dampens colon tumor burden in mice. Together our data reveal a novel function of Sam68 in the genotoxic stress-initiated nuclear signaling, which is crucial for colon tumorigenesis. DOI: http://dx.doi.org/10.7554/eLife.15018.001 PMID:27458801

  10. Application of Neutron-Absorbing Structural-Amorphous Metal (SAM) Coatings for Spent Nuclear Fuel (SNF) Container to Enhance Criticality Safety Control

    SciTech Connect

    Choi, J

    2007-01-12

    This report describes the analysis and modeling approaches used in the evaluation for criticality-control applications of the neutron-absorbing structural-amorphous metal (SAM) coatings. The applications of boron-containing high-performance corrosion-resistant material (HPCRM)--amorphous metal as the neutron-absorbing coatings to the metallic support structure can enhance criticality safety controls for spent nuclear fuel in baskets inside storage containers, transportation casks, and disposal containers. The use of these advanced iron-based, corrosion-resistant materials to prevent nuclear criticality in transportation, aging, and disposal containers would be extremely beneficial to the nuclear waste management programs.

  11. Antarctic SAM-temperature relationships in the historical CMIP5 model runs

    NASA Astrophysics Data System (ADS)

    Marshall, G.; Bracegirdle, T.

    2013-12-01

    Variability in the Southern Annular Mode (SAM) is associated with a distinct spatial pattern of near-surface temperature anomalies across the Antarctic continent: a more positive SAM is generally linked with warming over the Antarctic Peninsula and cooler temperatures over East Antarctica. However, recent studies have shown that on decadal timescales these SAM-temperature relationships (STRs) can break down and even reverse in sign. Due to the relatively short (~50 years) timescale of available observations it is difficult to determine whether such reversals have occurred in response to anthropogenic forcing or are simply part of natural internal climate variability. Future Antarctic temperature change over the 21st Century is likely to be highly dependent on how the SAM responds to a combination of ozone recovery and greenhouse gas increases, which modelling studies suggest will have opposing effects on the sign of the SAM. Decadal variability in Antarctic STRs will be a major contributing factor to the uncertainty attached to such predictions. Therefore, as a first step in refining such predictions, we examine how well the Coupled Model Intercomparison Phase 5 (CMIP5) models, which provide climate projections for the latest IPCC assessment report, capture STR decadal variability across Antarctica. We analyze the seasonal STR at six Antarctic stations in the historical CMIP5 model runs, which typically encompass the period from 1850-2005. The stations were chosen because they have different seasonal patterns of STR; e.g. consistent across all seasons, one season where the STR is much stronger, or a change in the STR sign across the year. We utilize data from 50 different CMIP5 models comprising 183 separate model runs. First, we examine how well the models determine the long-term seasonal STR correlation and regression coefficients for the 1961-2000 period at each station, as compared to equivalent observations. Second, we investigate whether the models capture

  12. Methods for analysis of fluoroquinolones in biological fluids

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Methods for analysis of 10 selected fluoroquinolone antibiotics in biological fluids are reviewed. Approaches for sample preparation, detection methods, limits of detection and quantitation and recovery information are provided for both single analyte and multi-analyte fluoroquinolone methods....

  13. Successful treatment tailored to each splanchnic arterial lesion due to segmental arterial mediolysis (SAM): report of a case.

    PubMed

    Hashimoto, Takuya; Deguchi, Juno; Endo, Hisako; Miyata, Tetsuro

    2008-11-01

    Segmental arterial mediolysis (SAM) is a rare condition characterized by splanchnic arterial catastrophe caused by mediolysis. We report a 59-year-old man with a ruptured splenic arterial aneurysm who was successfully treated by coil embolization. He underwent additional resection of large gastroepiploic and residual splenic aneurysms. Pathological examination showed mediolysis and tearing, compatible with SAM. Furthermore, he developed acute dissection of the superior mesenteric artery (SMA) one and a half years later, demonstrated by computed tomography. This report demonstrates that SAM is characterized by multiple lesions of the splanchnic arteries at different times, and requires treatment suited to the lesions, including careful long-term observation.

  14. Verification and validation plan for the SFR system analysis module

    SciTech Connect

    Hu, R.

    2014-12-18

    This report documents the Verification and Validation (V&V) Plan for software verification and validation of the SFR System Analysis Module (SAM), developed at Argonne National Laboratory for sodium fast reactor whole-plant transient analysis. SAM is developed under the DOE NEAMS program and is part of the Reactor Product Line toolkit. The SAM code, the phenomena and computational models of interest, the software quality assurance, and the verification and validation requirements and plans are discussed in this report.

  15. Methods for Mediation Analysis with Missing Data

    ERIC Educational Resources Information Center

    Zhang, Zhiyong; Wang, Lijuan

    2013-01-01

    Despite wide applications of both mediation models and missing data techniques, formal discussion of mediation analysis with missing data is still rare. We introduce and compare four approaches to dealing with missing data in mediation analysis including list wise deletion, pairwise deletion, multiple imputation (MI), and a two-stage maximum…

  16. Treatment of severe and moderate acute malnutrition in low- and middle-income settings: a systematic review, meta-analysis and Delphi process

    PubMed Central

    2013-01-01

    Background Globally, moderate acute malnutrition (MAM) and severe acute malnutrition (SAM) affect approximately 52 million children under five. This systematic review evaluates the effectiveness of interventions for SAM including the World Health Organization (WHO) protocol for inpatient management and community-based management with ready-to-use-therapeutic food (RUTF), as well as interventions for MAM in children under five years in low- and middle-income countries. Methods We systematically searched the literature and included 14 studies in the meta-analysis. Study quality was assessed using CHERG adaptation of GRADE criteria. A Delphi process was undertaken to complement the systematic review in estimating case fatality and recovery rates that were necessary for modelling in the Lives Saved Tool (LiST). Results Case fatality rates for inpatient treatment of SAM using the WHO protocol ranged from 3.4% to 35%. For community-based treatment of SAM, children given RUTF were 51% more likely to achieve nutritional recovery than the standard care group. For the treatment of MAM, children in the RUSF group were significantly more likely to recover and less likely to be non-responders than in the CSB group. In both meta-analyses, weight gain in the intervention group was higher, and although statistically significant, these differences were small. Overall limitations in our analysis include considerable heterogeneity in many outcomes and an inability to evaluate intervention effects separate from commodity effect. The Delphi process indicated that adherence to standardized protocols for the treatment of SAM and MAM should have a marked positive impact on mortality and recovery rates; yet, true consensus was not achieved. Conclusions Gaps in our ability to estimate effectiveness of overall treatment approaches for SAM and MAM persist. In addition to further impact studies conducted in a wider range of settings, more high quality program evaluations need to be conducted

  17. Climate Action Benefits: Methods of Analysis

    EPA Pesticide Factsheets

    This page provides detailed information on the methods used in the CIRA analyses, including the overall framework, temperature projections, precipitation projections, sea level rise projections, uncertainty, and limitations.

  18. Analysis of the liver mitochondrial proteome in response to ethanol and S-adenosylmethionine treatments: novel molecular targets of disease and hepatoprotection.

    PubMed

    Andringa, Kelly K; King, Adrienne L; Eccleston, Heather B; Mantena, Sudheer K; Landar, Aimee; Jhala, Nirag C; Dickinson, Dale A; Squadrito, Giuseppe L; Bailey, Shannon M

    2010-05-01

    S-adenosylmethionine (SAM) minimizes alcohol hepatotoxicity; however, the molecular mechanisms responsible for SAM hepatoprotection remain unknown. Herein, we use proteomics to determine whether the hepatoprotective action of SAM against early-stage alcoholic liver disease is linked to alterations in the mitochondrial proteome. For this, male rats were fed control or ethanol-containing liquid diets +/- SAM and liver mitochondria were prepared for proteomic analysis. Two-dimensional isoelectric focusing (2D IEF/SDS-PAGE) and blue native gel electrophoresis (BN-PAGE) were used to determine changes in matrix and oxidative phosphorylation (OxPhos) proteins, respectively. SAM coadministration minimized alcohol-dependent inflammation and preserved mitochondrial respiration. SAM supplementation preserved liver SAM levels in ethanol-fed rats; however, mitochondrial SAM levels were increased by ethanol and SAM treatments. With use of 2D IEF/SDS-PAGE, 30 proteins showed significant changes in abundance in response to ethanol, SAM, or both. Classes of proteins affected by ethanol and SAM treatments were chaperones, beta oxidation proteins, sulfur metabolism proteins, and dehydrogenase enzymes involved in methionine, glycine, and choline metabolism. BN-PAGE revealed novel changes in the levels of 19 OxPhos proteins in response to ethanol, SAM, or both. Ethanol- and SAM-dependent alterations in the proteome were not linked to corresponding changes in gene expression. In conclusion, ethanol and SAM treatment led to multiple changes in the liver mitochondrial proteome. The protective effects of SAM against alcohol toxicity are mediated, in part, through maintenance of proteins involved in key mitochondrial energy conserving and biosynthetic pathways. This study demonstrates that SAM may be a promising candidate for treatment of alcoholic liver disease.

  19. Polar stratospheric cloud sightings by SAM II. [Stratospheric Aerosol Measurement onboard Nimbus 7

    NASA Technical Reports Server (NTRS)

    Mccormick, M. P.; Chu, W. P.; Steele, H. M.; Hamill, P.; Swissler, T. J.

    1982-01-01

    The functions and data gained regarding stratospheric cloud sightings by the stratospheric aerosol measurement (SAM) II experiment on board the Numbus 7 spacecraft are reported. SAM II comprises a single channel sun photometer centered at 1.0 micron wavelength for measuring the solar intensity when the sun descends below an apparent 300 km altitude until the sun is occulted by clouds or the horizon. Readings are also made during sunrise in an opposite fashion. Transmission profiles are developed from the data and used to construct profiles of aerosol extinction with a 1 km resolution. Polar stratospheric clouds have been observed in more than 90% of the cases when the minimum temperature is 185 K or less, and 45% of the time when the temperature is 193 K or less. The clouds were more prevalent in the Antarctic winter than during the Arctic winter, and cloud height was lower than indicated by previous data.

  20. Catch-and-Release of Target Cells Using Aptamer-Conjugated Electroactive Zwitterionic Oligopeptide SAM

    PubMed Central

    Enomoto, Junko; Kageyama, Tatsuto; Osaki, Tatsuya; Bonalumi, Flavia; Marchese, Francesca; Gautieri, Alfonso; Bianchi, Elena; Dubini, Gabriele; Arrigoni, Chiara; Moretti, Matteo; Fukuda, Junji

    2017-01-01

    Nucleic acid aptamers possess attractive features such as specific molecular recognition, high-affinity binding, and rapid acquisition and replication, which could be feasible components for separating specific cells from other cell types. This study demonstrates that aptamers conjugated to an oligopeptide self-assembled monolayer (SAM) can be used to selectively trap human hepatic cancer cells from cell mixtures containing normal human hepatocytes or human fibroblasts. Molecular dynamics calculations have been performed to understand how the configurations of the aptamers are related to the experimental results of selective cell capture. We further demonstrate that the captured hepatic cancer cells can be detached and collected along with electrochemical desorption of the oligopeptide SAM, and by repeating these catch-and-release processes, target cells can be enriched. This combination of capture with aptamers and detachment with electrochemical reactions is a promising tool in various research fields ranging from basic cancer research to tissue engineering applications. PMID:28266533

  1. Sam the Monkey After His Ride in the Little Joe 2 Spacecraft

    NASA Technical Reports Server (NTRS)

    1959-01-01

    Sam, the Rhesus monkey, after his ride in the Little Joe-2 (LJ-2) spacecraft. A U.S. Navy destroyer safely recovered Sam after he experienced three minutes of weightlessness during the flight. Animals were often used during test flights for Project Mercury to help determine the effects of spaceflight and weightlessness on humans. LJ-2 was one in a series of flights that led up to the human orbital flights of NASA's Project Mercury program. The Little Joe rocket booster was developed as a cheaper, smaller, and more functional alternative to the Redstone rockets. Little Joe could be produced at one-fifth the cost of Redstone rockets and still have enough power to carry a capsule payload. Seven unmanned Little Joe rockets were launched from Wallops Island, Virginia from August 1959 to April 1961.

  2. Parabolic Trough Reference Plant for Cost Modeling with the Solar Advisor Model (SAM)

    SciTech Connect

    Turchi, C.

    2010-07-01

    This report describes a component-based cost model developed for parabolic trough solar power plants. The cost model was developed by the National Renewable Energy Laboratory (NREL), assisted by WorleyParsons Group Inc., for use with NREL's Solar Advisor Model (SAM). This report includes an overview and explanation of the model, two summary contract reports from WorleyParsons, and an Excel spreadsheet for use with SAM. The cost study uses a reference plant with a 100-MWe capacity and six hours of thermal energy storage. Wet-cooling and dry-cooling configurations are considered. The spreadsheet includes capital and operating cost by component to allow users to estimate the impact of changes in component costs.

  3. Catch-and-Release of Target Cells Using Aptamer-Conjugated Electroactive Zwitterionic Oligopeptide SAM.

    PubMed

    Enomoto, Junko; Kageyama, Tatsuto; Osaki, Tatsuya; Bonalumi, Flavia; Marchese, Francesca; Gautieri, Alfonso; Bianchi, Elena; Dubini, Gabriele; Arrigoni, Chiara; Moretti, Matteo; Fukuda, Junji

    2017-03-07

    Nucleic acid aptamers possess attractive features such as specific molecular recognition, high-affinity binding, and rapid acquisition and replication, which could be feasible components for separating specific cells from other cell types. This study demonstrates that aptamers conjugated to an oligopeptide self-assembled monolayer (SAM) can be used to selectively trap human hepatic cancer cells from cell mixtures containing normal human hepatocytes or human fibroblasts. Molecular dynamics calculations have been performed to understand how the configurations of the aptamers are related to the experimental results of selective cell capture. We further demonstrate that the captured hepatic cancer cells can be detached and collected along with electrochemical desorption of the oligopeptide SAM, and by repeating these catch-and-release processes, target cells can be enriched. This combination of capture with aptamers and detachment with electrochemical reactions is a promising tool in various research fields ranging from basic cancer research to tissue engineering applications.

  4. Equatorial semiannual oscillation in zonally averaged temperature observed by the Nimbus 7 SAMS and LIMS

    NASA Astrophysics Data System (ADS)

    Delisi, Donald P.; Dunkerton, Timothy J.

    1988-04-01

    Zonally averaged equatorial temperatures obtained aboard Nimbus 7 by the stratospheric and mesospheric sounder (SAMS) are compared to comparable data obtained from the limb IR monitor of the stratosphere. The SAMS data are shown to confirm the seasonal asymmetry in semiannual wind regimes previously noted in rocketsonde observations near the equator. Two explanations for the asymmetry are considered: (1) an improved Kelvin and gravity wave transmissivity in stronger equatorial easterlies (resulting from planetary Rossby wave momentum transport), implying stronger westerly mean flow acceleration in the first cycle than in the second; and (2) evidence of strong polar-tropical coupling in the northern winter indicating that mean meridional circulations are present on a global scale.

  5. Impact of Domain Analysis on Reuse Methods

    DTIC Science & Technology

    1989-11-06

    libraries with very different domain models . The semantic network knowledge representation system (differing in this respect from object-oriented approaches...2.1.4 Organizational Strategies ...... ............. 10 2.1.5 Role of Existing Systems ..... .............. ..11 2.2 Process Models for Domain Analysis...Acquire Domain Analysis Resources. ... 15 2.2.4 Develop the Domain Model ..... .............. .16 2.2.4.1 Identification of Domain Objects

  6. A catalog of automated analysis methods for enterprise models.

    PubMed

    Florez, Hector; Sánchez, Mario; Villalobos, Jorge

    2016-01-01

    Enterprise models are created for documenting and communicating the structure and state of Business and Information Technologies elements of an enterprise. After models are completed, they are mainly used to support analysis. Model analysis is an activity typically based on human skills and due to the size and complexity of the models, this process can be complicated and omissions or miscalculations are very likely. This situation has fostered the research of automated analysis methods, for supporting analysts in enterprise analysis processes. By reviewing the literature, we found several analysis methods; nevertheless, they are based on specific situations and different metamodels; then, some analysis methods might not be applicable to all enterprise models. This paper presents the work of compilation (literature review), classification, structuring, and characterization of automated analysis methods for enterprise models, expressing them in a standardized modeling language. In addition, we have implemented the analysis methods in our modeling tool.

  7. 20. (4"X5" image enlarged from 2 1/4" negative) Sam Fowler, ...

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

    20. (4"X5" image enlarged from 2 1/4" negative) Sam Fowler, Photographer, February 1998 VIEW OF GEORGIA DOT BRIDGE NO. 051-00025D-01986N (JAMES P. HOULIHAN BRIDGE). DETAIL OF FENDER SYSTEM FOR TURN-SPAN PIVOT PIER. OPERATOR'S HOUSE LOCATED ON UPPER SECTION OF TRUSS - Georgia DOT Bridge No. 051-00025D-01986N, US 17 & State Route 25 Spanning Savannah River, Port Wentworth, Chatham County, GA

  8. SAM II aerosol profile measurements, Poker Flat, Alaska; July 16-19, 1979

    NASA Technical Reports Server (NTRS)

    Mccormick, M. P.; Chu, W. P.; Mcmaster, L. R.; Grams, G. W.; Herman, B. M.; Pepin, T. J.; Russell, P. B.; Swissler, T. J.

    1981-01-01

    SAM II satellite measurements during the July 1979 Poker Flat mission, yielded an aerosol extinction coefficient of 0.0004/km at 1.0 micron wavelength, in the region of the stratospheric aerosol mixing ratio peak (12-16 km). The stratospheric aerosol optical depth for these data, calculated from the tropopause through 30 km, is approximately 0.001. These results are consistent with the average 1979 summertime values found throughout the Arctic.

  9. Sarm1-mediated axon degeneration requires both SAM and TIR interactions.

    PubMed

    Gerdts, Josiah; Summers, Daniel W; Sasaki, Yo; DiAntonio, Aaron; Milbrandt, Jeffrey

    2013-08-14

    Axon degeneration is an evolutionarily conserved pathway that eliminates damaged or unneeded axons. Manipulation of this poorly understood pathway may allow treatment of a wide range of neurological disorders. In an RNAi-based screen performed in cultured mouse DRG neurons, we observed strong suppression of injury-induced axon degeneration upon knockdown of Sarm1 [SARM (sterile α-motif-containing and armadillo-motif containing protein)]. We find that a SARM-dependent degeneration program is engaged by disparate neuronal insults: SARM ablation blocks axon degeneration induced by axotomy or vincristine treatment, while SARM acts in parallel with a soma-derived caspase-dependent pathway following trophic withdrawal. SARM is a multidomain protein that associates with neuronal mitochondria. Deletion of the N-terminal mitochondrial localization sequence disrupts SARM mitochondrial localization in neurons but does not alter its ability to promote axon degeneration. In contrast, mutation of either the SAM (sterile α motif) or TIR (Toll-interleukin-1 receptor) domains abolishes the ability of SARM to promote axonal degeneration, while a SARM mutant containing only these domains elicits axon degeneration and nonapoptotic neuronal death even in the absence of injury. Protein-protein interaction studies demonstrate that the SAM domains are necessary and sufficient to mediate SARM-SARM binding. SARM mutants lacking a TIR domain bind full-length SARM and exhibit strong dominant-negative activity. These results indicate that SARM plays an integral role in the dismantling of injured axons and support a model in which SAM-mediated multimerization is necessary for TIR-dependent engagement of a downstream destruction pathway. These findings suggest that inhibitors of SAM and TIR interactions represent therapeutic candidates for blocking pathological axon loss and neuronal cell death.

  10. Observational constraints on the response function of Southern Ocean SST to SAM forcing

    NASA Astrophysics Data System (ADS)

    Hausmann, U.; Ferreira, D.; Marshall, J.

    2015-12-01

    Recent coupled model studies of the polar Southern Ocean (SO) revealed an initial (fast) cooling, but longer-term (slow) and equilibrium warming, of sea surface temperature (SST) in response to stratospheric ozone depletion and the concurrent shift of the Southern Annular Mode (SAM) to its positive phase. Yet there is much spread across models in the amplitude and time scale of the equilibration, so that even the sign of the implied recent-decade SST response to ozone depletion is not robust. Here we use the framework of a simple layered model (representing mixed layer, seasonal thermocline and upper permanent thermocline of the SO south of the polar front) combined with observations of the SO, to derive constraints on the equilibrium response of the real-world SO to annually-repeating seasonal SAM forcing. We obtain simple expressions for the equilibrium response in terms of the SAM-induced air-sea fluxes of heat and momentum and the SO horizontal and vertical temperature stratifications. These are then evaluated using satellite observations and atmospheric reanalysis data, as well as in-situ ocean climatologies. Our estimates suggest that, for observed characteristics (mixed layer depths, stratification, phasing of the SAM-forcing in season and space), the well-documented surface-forced fast SO SST cooling is large in comparison to the dynamically-induced subsurface-forced warming, and thus also largely sets the sign and amplitude of the equilibrium response.Exploration of the parameter space of coupled model versus observed ratios of horizontal to vertical stratifications provides a rationale for the discrepant equilibrium responses.

  11. 18. (4"X5" image enlarged from 2 1/4" negative) Sam Fowler, ...

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

    18. (4"X5" image enlarged from 2 1/4" negative) Sam Fowler, Photographer, February 1998 VIEW OF GEORGIA DOT BRIDGE NO. 051-00025D-01986N (JAMES P. HOULIHAN BRIDGE) APPROACH SPAN FENDER. DOLPHIN LOCATED AT RIGHT. NAVIGATIONAL LIGHT LOCATED ON TOP OF FENDER - Georgia DOT Bridge No. 051-00025D-01986N, US 17 & State Route 25 Spanning Savannah River, Port Wentworth, Chatham County, GA

  12. SAM: speech-aware applications in medicine to support structured data entry.

    PubMed

    Wormek, A K; Ingenerf, J; Orthner, H F

    1997-01-01

    In the last two years, improvement in speech recognition technology has directed the medical community's interest to porting and using such innovations in clinical systems. The acceptance of speech recognition systems in clinical domains increases with recognition speed, large medical vocabulary, high accuracy, continuous speech recognition, and speaker independence. Although some commercial speech engines approach these requirements, the greatest benefit can be achieved in adapting a speech recognizer to a specific medical application. The goals of our work are first, to develop a speech-aware core component which is able to establish connections to speech recognition engines of different vendors. This is realized in SAM. Second, with applications based on SAM we want to support the physician in his/her routine clinical care activities. Within the STAMP project (STAndardized Multimedia report generator in Pathology), we extend SAM by combining a structured data entry approach with speech recognition technology. Another speech-aware application in the field of Diabetes care is connected to a terminology server. The server delivers a controlled vocabulary which can be used for speech recognition.

  13. SAM 2 Measurements of the Polar Stratospheric Aerosol, volume 2. April 1979 to October 1979

    NASA Technical Reports Server (NTRS)

    Mccormick, M. P.; Steele, H. M.; Hamill, P.

    1982-01-01

    The Stratospheric Aerosol Measurement (SAM) II sensor is abroad the Earth orbiting Nimbus 7 spacecraft proving extinction measurements of the Antarctic and Arctic stratospheric aerosol with a vertical resolution of 1 km. Representative examples and weekly averages of aerosol data and corresponding temperature profiles for the time and place of each SAM II measurement (April 29, 1979, to October 27, 1979) is presented. Contours of aerosol extinction as a function of altitude and longitude or time were plotted and weekly aerosol optical depths were calculated. Seasonal variations and variations in space (altitude and longitude) for both polar regions are easily seen. Typical values of aerosol extinction at the SAM II wavelength of 1.0 micron for the time priod were 1 to 3 x 10 to the -4th power km -1 in the main stratospheric aerosol layer. Optical depths for the stratosphere were about 0.002. Polar stratospheric clouds at altitudes between the tropopause and 20 km were observed during the Antarctic winter at various times and locations. A ready-to-use format containing a representative sample of the second 6 months of data to be used in atmospheric and climatic studies is presented.

  14. Serine and SAM Responsive Complex SESAME Regulates Histone Modification Crosstalk by Sensing Cellular Metabolism.

    PubMed

    Li, Shanshan; Swanson, Selene K; Gogol, Madelaine; Florens, Laurence; Washburn, Michael P; Workman, Jerry L; Suganuma, Tamaki

    2015-11-05

    Pyruvate kinase M2 (PKM2) is a key enzyme for glycolysis and catalyzes the conversion of phosphoenolpyruvate (PEP) to pyruvate, which supplies cellular energy. PKM2 also phosphorylates histone H3 threonine 11 (H3T11); however, it is largely unknown how PKM2 links cellular metabolism to chromatin regulation. Here, we show that the yeast PKM2 homolog, Pyk1, is a part of a novel protein complex named SESAME (Serine-responsive SAM-containing Metabolic Enzyme complex), which contains serine metabolic enzymes, SAM (S-adenosylmethionine) synthetases, and an acetyl-CoA synthetase. SESAME interacts with the Set1 H3K4 methyltransferase complex, which requires SAM synthesized from SESAME, and recruits SESAME to target genes, resulting in phosphorylation of H3T11. SESAME regulates the crosstalk between H3K4 methylation and H3T11 phosphorylation by sensing glycolysis and glucose-derived serine metabolism. This leads to auto-regulation of PYK1 expression. Thus, our study provides insights into the mechanism of regulating gene expression, responding to cellular metabolism via chromatin modifications.

  15. SAM: speech-aware applications in medicine to support structured data entry.

    PubMed Central

    Wormek, A. K.; Ingenerf, J.; Orthner, H. F.

    1997-01-01

    In the last two years, improvement in speech recognition technology has directed the medical community's interest to porting and using such innovations in clinical systems. The acceptance of speech recognition systems in clinical domains increases with recognition speed, large medical vocabulary, high accuracy, continuous speech recognition, and speaker independence. Although some commercial speech engines approach these requirements, the greatest benefit can be achieved in adapting a speech recognizer to a specific medical application. The goals of our work are first, to develop a speech-aware core component which is able to establish connections to speech recognition engines of different vendors. This is realized in SAM. Second, with applications based on SAM we want to support the physician in his/her routine clinical care activities. Within the STAMP project (STAndardized Multimedia report generator in Pathology), we extend SAM by combining a structured data entry approach with speech recognition technology. Another speech-aware application in the field of Diabetes care is connected to a terminology server. The server delivers a controlled vocabulary which can be used for speech recognition. PMID:9357730

  16. Determinants of tRNA Recognition by the Radical SAM Enzyme RlmN

    PubMed Central

    Fitzsimmons, Christina M.; Fujimori, Danica Galonić

    2016-01-01

    RlmN, a bacterial radical SAM methylating enzyme, has the unusual ability to modify two distinct types of RNA: 23S rRNA and tRNA. In rRNA, RlmN installs a methyl group at the C2 position of A2503 of 23S rRNA, while in tRNA the modification occurs at nucleotide A37, immediately adjacent to the anticodon triplet. Intriguingly, only a subset of tRNAs that contain an adenosine at position 37 are substrates for RlmN, suggesting that the enzyme carefully probes the highly conserved tRNA fold and sequence features to identify its targets. Over the past several years, multiple studies have addressed rRNA modification by RlmN, while relatively few investigations have focused on the ability of this enzyme to modify tRNAs. In this study, we utilized in vitro transcribed tRNAs as model substrates to interrogate RNA recognition by RlmN. Using chimeras and point mutations, we probed how the structure and sequence of RNA influences methylation, identifying position 38 of tRNAs as a critical determinant of substrate recognition. We further demonstrate that, analogous to previous mechanistic studies with fragments of 23S rRNA, tRNA methylation requirements are consistent with radical SAM reactivity. Together, our findings provide detailed insight into tRNA recognition by a radical SAM methylating enzyme. PMID:27902775

  17. SAMS Acceleration Measurements on Mir From January to May 1997 (NASA Increment 4)

    NASA Technical Reports Server (NTRS)

    DeLombard, Richard

    1998-01-01

    During NASA Increment 4 (January to May 1997), about 5 gigabytes of acceleration data were collected by the Space Acceleration Measurements System (SAMS) onboard the Russian Space Station, Mir. The data were recorded on 28 optical disks which were returned to Earth on STS-84. During this increment, SAMS data were collected in the Priroda module to support the Mir Structural Dynamics Experiment (MiSDE), the Binary Colloidal Alloy Tests (BCAT), Angular Liquid Bridge (ALB), Candle Flames in Microgravity (CFM), Diffusion Controlled Apparatus Module (DCAM), Enhanced Dynamic Load Sensors (EDLS), Forced Flow Flame Spreading Test (FFFT), Liquid Metal Diffusion (LMD), Protein Crystal Growth in Dewar (PCG/Dewar), Queen's University Experiments in Liquid Diffusion (QUELD), and Technical Evaluation of MIM (TEM). This report points out some of the salient features of the microgravity environment to which these experiments were exposed. Also documented are mission events of interest such as the docked phase of STS-84 operations, a Progress engine burn, Soyuz vehicle docking and undocking, and Progress vehicle docking. This report presents an overview of the SAMS acceleration measurements recorded by 10 Hz and 100 Hz sensor heads. The analyses included herein complement those presented in previous summary reports prepared by the Principal Investigator Microgravity Services (PIMS) group.

  18. Carbon Isotopic Composition of CO2, Evolved During Perchlorate-Induced Reactions in Mars Analog Materials: Interpreting SAM/MSL Rocknest Data

    NASA Technical Reports Server (NTRS)

    Stern, J. C.; McAdam, A. C.; Archer, P. D., Jr.; Bower, H.; Buch, A.; Eigenbrode, J.; Freissinet, C.; Franz, H. B.; Glavin, D.; Jones, J. H.; Mahaffy, P. R.; Ming, D. W.; Niles, P. B.; Steele, A.; Sutter, B.

    2013-01-01

    The Sample Analysis at Mars (SAM) Instrument Suite on the Mars Science Laboratory (MSL) Rover Curiosity made its first solid sample evolved gas analysis of unconsolidated material at aeolian bedform Rocknest in Gale Crater. The magnitude of O2 evolved in each run as well as the chlorinated hydrocarbons detected by SAM gas chromatograph/ mass spectrometer (GCMS) [1] suggest a chlorinated oxidant such as perchlorate in Rocknest materials [2]. Perchlorate induced combustion of organics present in the sample would contribute to the CO2 volatile inventory, possibly overlapping with CO2 from inorganic sources. The resulting carbon and oxygen isotopic composition of CO2 sent to the Tunable Laser Spectrometer (TLS) for analysis would represent mixed sources. This work was undertaken to better understand a) how well the carbon isotopic composition ( 13C) of CO2 from partially combusted products represents their source and b) how the 13C of combusted products can be deconvolved from other carbon sources such as thermal decomposition of carbonate.

  19. SAGE Research Methods Datasets: A Data Analysis Educational Tool.

    PubMed

    Vardell, Emily

    2016-01-01

    SAGE Research Methods Datasets (SRMD) is an educational tool designed to offer users the opportunity to obtain hands-on experience with data analysis. Users can search for and browse authentic datasets by method, discipline, and data type. Each of the datasets are supplemented with educational material on the research method and clear guidelines for how to approach data analysis.

  20. Method for chromium analysis and speciation

    DOEpatents

    Aiken, Abigail M.; Peyton, Brent M.; Apel, William A.; Petersen, James N.

    2004-11-02

    A method of detecting a metal in a sample comprising a plurality of metal is disclosed. The method comprises providing the sample comprising a metal to be detected. The sample is added to a reagent solution comprising an enzyme and a substrate, where the enzyme is inhibited by the metal to be detected. An array of chelating agents is used to eliminate the inhibitory effects of additional metals in the sample. An enzymatic activity in the sample is determined and compared to an enzymatic activity in a control solution to detect the metal to be detected. A method of determining a concentration of the metal in the sample is also disclosed. A method of detecting a valence state of a metal is also disclosed.