WorldWideScience

Sample records for survey high-resolution analysis

  1. Semi-automated structural analysis of high resolution magnetic and gamma-ray spectrometry airborne surveys

    Science.gov (United States)

    Debeglia, N.; Martelet, G.; Perrin, J.; Truffert, C.; Ledru, P.; Tourlière, B.

    2005-08-01

    A user-controlled procedure was implemented for the structural analysis of geophysical maps. Local edge segments are first extracted using a suitable edge detector function, then linked into straight discontinuities and, finally, organised in complex boundary lines best delineating geophysical features. Final boundary lines may be attributed by a geologist to lithological contacts and/or structural geological features. Tests of some edge detectors, (i) horizontal gradient magnitude (HGM), (ii) various orders of the analytic signal ( An), reduced to the pole or not, (iii) enhanced horizontal derivative (EHD), (iv) composite analytic signal (CAS), were performed on synthetic magnetic data (with and without noise). As a result of these comparisons, the horizontal gradient appears to remain the best operator for the analysis of magnetic data. Computation of gradients in the frequency domain, including filtering and upward continuation of noisy data, is well-suited to the extraction of magnetic gradients associated to deep sources, while space-domain smoothing and differentiation techniques is generally preferable in the case of shallow magnetic sources, or for gamma-ray spectrometry analysis. Algorithms for edge extraction, segment linking, and line following can be controlled by choosing adequate edge detector and processing parameters which allows adaptation to a desired scale of interpretation. Tests on synthetic and real case data demonstrate the adaptability of the procedure and its ability to produce basic layer for multi-data analysis. The method was applied to the interpretation of high-resolution airborne magnetic and gamma-ray spectrometry data collected in northern Namibia. It allowed the delineation of dyke networks concealed by superficial weathering and demonstrated the presence of lithological variations in alluvial flows. The output from the structural analysis procedure are compatible with standard GIS softwares and enable the geologist to (i) compare

  2. High-resolution image analysis.

    Science.gov (United States)

    Preston, K

    1986-01-01

    In many departments of cytology, cytogenetics, hematology, and pathology, research projects using high-resolution computerized microscopy are now being mounted for computation of morphometric measurements on various structural components, as well as for determination of cellular DNA content. The majority of these measurements are made in a partially automated, computer-assisted mode, wherein there is strong interaction between the user and the computerized microscope. At the same time, full automation has been accomplished for both sample preparation and sample examination for clinical determination of the white blood cell differential count. At the time of writing, approximately 1,000 robot differential counting microscopes are in the field, analyzing images of human white blood cells, red blood cells, and platelets at the overall rate of about 100,000 slides per day. This mammoth through-put represents a major accomplishment in the application of machine vision to automated microscopy for hematology. In other areas of automated high-resolution microscopy, such as cytology and cytogenetics, no commercial instruments are available (although a few metaphase-finding machines are available and other new machines have been announced during the past year). This is a disappointing product, considering the nearly half century of research effort in these areas. This paper provides examples of the state of the art in automation of cell analysis for blood smears, cervical smears, and chromosome preparations. Also treated are new developments in multi-resolution automated microscopy, where images are now being generated and analyzed by a single machine over a range of 64:1 magnification and from 10,000 X 20,000 to 500 X 500 in total picture elements (pixels). Examples of images of human lymph node and liver tissue are presented. Semi-automated systems are not treated, although there is mention of recent research in the automation of tissue analysis.

  3. High resolution survey for topographic surveying

    Science.gov (United States)

    Luh, L. C.; Setan, H.; Majid, Z.; Chong, A. K.; Tan, Z.

    2014-02-01

    In this decade, terrestrial laser scanner (TLS) is getting popular in many fields such as reconstruction, monitoring, surveying, as-built of facilities, archaeology, and topographic surveying. This is due the high speed in data collection which is about 50,000 to 1,000,000 three-dimensional (3D) points per second at high accuracy. The main advantage of 3D representation for the data is that it is more approximate to the real world. Therefore, the aim of this paper is to show the use of High-Definition Surveying (HDS), also known as 3D laser scanning for topographic survey. This research investigates the effectiveness of using terrestrial laser scanning system for topographic survey by carrying out field test in Universiti Teknologi Malaysia (UTM), Skudai, Johor. The 3D laser scanner used in this study is a Leica ScanStation C10. Data acquisition was carried out by applying the traversing method. In this study, the result for the topographic survey is under 1st class survey. At the completion of this study, a standard of procedure was proposed for topographic data acquisition using laser scanning systems. This proposed procedure serves as a guideline for users who wish to utilize laser scanning system in topographic survey fully.

  4. Gaia-ESO Survey: The analysis of high-resolution UVES spectra of FGK-type stars

    CERN Document Server

    Smiljanic, R; Bergemann, M; Frasca, A; Magrini, L; Masseron, T; Pancino, E; Ruchti, G; Roman, I San; Sbordone, L; Sousa, S G; Tabernero, H; Tautvaisiene, G; Valentini, M; Weber, M; Worley, C C; Adibekyan, V Zh; Prieto, C Allende; Barisevicius, G; Biazzo, K; Blanco-Cuaresma, S; Bonifacio, P; Bragaglia, A; Caffau, E; Cantat-Gaudin, T; Chorniy, Y; de Laverny, P; Delgado-Mena, E; Donati, P; Duffau, S; Franciosini, E; Friel, E; Geisler, D; Hernandez, J I Gonzalez; Gruyters, P; Guiglion, G; Hansen, C J; Heiter, U; Hill, V; Jacobson, H R; Jofre, P; Jonsson, H; Lanzafame, A C; Lardo, C; Ludwig, H G; Maiorca, E; Mikolaitis, S; Montes, D; Morel, T; Mucciarelli, A; Munoz, C; Nordlander, T; Pasquini, L; Puzeras, E; Recio-Blanco, A; Ryde, N; Sacco, G; Santos, N C; Serenelli, A M; Sordo, R; Soubiran, C; Spina, L; Steffen, M; Vallenari, A; Van Eck, S; Villanova, S; Gilmore, G; Randich, S; Asplund, M; Binney, J; Drew, J; Feltzing, S; Ferguson, A; Jeffries, R; Micela, G; Negueruela, I; Prusti, T; Rix, H-W; Alfaro, E; Babusiaux, C; Bensby, T; Blomme, R; Flaccomio, E; Francois, P; Irwin, M; Koposov, S; Walton, N; Bayo, A; Carraro, G; Costado, M T; Damiani, F; Edvardsson, B; Hourihane, A; Jackson, R; Lewis, J; Lind, K; Marconi, G; Martayan, C; Monaco, L; Morbidelli, L; Prisinzano, L; Zaggia, S

    2014-01-01

    The Gaia-ESO Survey is obtaining high-quality spectroscopic data for about 10^5 stars using FLAMES at the VLT. UVES high-resolution spectra are being collected for about 5000 FGK-type stars. These UVES spectra are analyzed in parallel by several state-of-the-art methodologies. Our aim is to present how these analyses were implemented, to discuss their results, and to describe how a final recommended parameter scale is defined. We also discuss the precision (method-to-method dispersion) and accuracy (biases with respect to the reference values) of the final parameters. These results are part of the Gaia-ESO 2nd internal release and will be part of its 1st public release of advanced data products. The final parameter scale is tied to the one defined by the Gaia benchmark stars, a set of stars with fundamental atmospheric parameters. A set of open and globular clusters is used to evaluate the physical soundness of the results. Each methodology is judged against the benchmark stars to define weights in three diff...

  5. The Gaia-ESO Survey: The analysis of high-resolution UVES spectra of FGK-type stars

    Science.gov (United States)

    Smiljanic, R.; Korn, A. J.; Bergemann, M.; Frasca, A.; Magrini, L.; Masseron, T.; Pancino, E.; Ruchti, G.; San Roman, I.; Sbordone, L.; Sousa, S. G.; Tabernero, H.; Tautvaišienė, G.; Valentini, M.; Weber, M.; Worley, C. C.; Adibekyan, V. Zh.; Allende Prieto, C.; Barisevičius, G.; Biazzo, K.; Blanco-Cuaresma, S.; Bonifacio, P.; Bragaglia, A.; Caffau, E.; Cantat-Gaudin, T.; Chorniy, Y.; de Laverny, P.; Delgado-Mena, E.; Donati, P.; Duffau, S.; Franciosini, E.; Friel, E.; Geisler, D.; González Hernández, J. I.; Gruyters, P.; Guiglion, G.; Hansen, C. J.; Heiter, U.; Hill, V.; Jacobson, H. R.; Jofre, P.; Jönsson, H.; Lanzafame, A. C.; Lardo, C.; Ludwig, H.-G.; Maiorca, E.; Mikolaitis, Š.; Montes, D.; Morel, T.; Mucciarelli, A.; Muñoz, C.; Nordlander, T.; Pasquini, L.; Puzeras, E.; Recio-Blanco, A.; Ryde, N.; Sacco, G.; Santos, N. C.; Serenelli, A. M.; Sordo, R.; Soubiran, C.; Spina, L.; Steffen, M.; Vallenari, A.; Van Eck, S.; Villanova, S.; Gilmore, G.; Randich, S.; Asplund, M.; Binney, J.; Drew, J.; Feltzing, S.; Ferguson, A.; Jeffries, R.; Micela, G.; Negueruela, I.; Prusti, T.; Rix, H.-W.; Alfaro, E.; Babusiaux, C.; Bensby, T.; Blomme, R.; Flaccomio, E.; François, P.; Irwin, M.; Koposov, S.; Walton, N.; Bayo, A.; Carraro, G.; Costado, M. T.; Damiani, F.; Edvardsson, B.; Hourihane, A.; Jackson, R.; Lewis, J.; Lind, K.; Marconi, G.; Martayan, C.; Monaco, L.; Morbidelli, L.; Prisinzano, L.; Zaggia, S.

    2014-10-01

    Context. The ongoing Gaia-ESO Public Spectroscopic Survey is using FLAMES at the VLT to obtain high-quality medium-resolution Giraffe spectra for about 105 stars and high-resolution UVES spectra for about 5000 stars. With UVES, the Survey has already observed 1447 FGK-type stars. Aims: These UVES spectra are analyzed in parallel by several state-of-the-art methodologies. Our aim is to present how these analyses were implemented, to discuss their results, and to describe how a final recommended parameter scale is defined. We also discuss the precision (method-to-method dispersion) and accuracy (biases with respect to the reference values) of the final parameters. These results are part of the Gaia-ESO second internal release and will be part of its first public release of advanced data products. Methods: The final parameter scale is tied to the scale defined by the Gaia benchmark stars, a set of stars with fundamental atmospheric parameters. In addition, a set of open and globular clusters is used to evaluate the physical soundness of the results. Each of the implemented methodologies is judged against the benchmark stars to define weights in three different regions of the parameter space. The final recommended results are the weighted medians of those from the individual methods. Results: The recommended results successfully reproduce the atmospheric parameters of the benchmark stars and the expected Teff-log g relation of the calibrating clusters. Atmospheric parameters and abundances have been determined for 1301 FGK-type stars observed with UVES. The median of the method-to-method dispersion of the atmospheric parameters is 55 K for Teff, 0.13 dex for log g and 0.07 dex for [Fe/H]. Systematic biases are estimated to be between 50-100 K for Teff, 0.10-0.25 dex for log g and 0.05-0.10 dex for [Fe/H]. Abundances for 24 elements were derived: C, N, O, Na, Mg, Al, Si, Ca, Sc, Ti, V, Cr, Mn, Fe, Co, Ni, Cu, Zn, Y, Zr, Mo, Ba, Nd, and Eu. The typical method

  6. Automatic abundance analysis of high resolution spectra

    CERN Document Server

    Bonifacio, P; Bonifacio, Piercarlo; Caffau, Elisabetta

    2003-01-01

    We describe an automatic procedure for determining abundances from high resolution spectra. Such procedures are becoming increasingly important as large amounts of data are delivered from 8m telescopes and their high-multiplexing fiber facilities, such as FLAMES on ESO-VLT. The present procedure is specifically targeted for the analysis of spectra of giants in the Sgr dSph; however, the procedure may be, in principle, tailored to analyse stars of any type. Emphasis is placed on the algorithms and on the stability of the method; the external accuracy rests, ultimately, on the reliability of the theoretical models (model-atmospheres, synthetic spectra) used to interpret the data. Comparison of the results of the procedure with the results of a traditional analysis for 12 Sgr giants shows that abundances accurate at the level of 0.2 dex, comparable with that of traditional analysis of the same spectra, may be derived in a fast and efficient way. Such automatic procedures are not meant to replace the traditional ...

  7. NOAA High-Resolution Sea Surface Temperature (SST) Analysis Products

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — This archive covers two high resolution sea surface temperature (SST) analysis products developed using an optimum interpolation (OI) technique. The analyses have a...

  8. Evacuee Compliance Behavior Analysis using High Resolution Demographic Information

    Energy Technology Data Exchange (ETDEWEB)

    Lu, Wei [ORNL; Han, Lee [University of Tennessee, Knoxville (UTK); Liu, Cheng [ORNL; Tuttle, Mark A [ORNL; Bhaduri, Budhendra L [ORNL

    2014-01-01

    The purpose of this study is to examine whether evacuee compliance behavior with route assignments from different resolutions of demographic data would impact the evacuation performance. Most existing evacuation strategies assume that travelers will follow evacuation instructions, while in reality a certain percent of evacuees do not comply with prescribed instructions. In this paper, a comparison study of evacuation assignment based on Traffic Analysis Zones (TAZ) and high resolution LandScan USA Population Cells (LPC) were conducted for the detailed road network representing Alexandria, Virginia. A revised platform for evacuation modeling built on high resolution demographic data and activity-based microscopic traffic simulation is proposed. The results indicate that evacuee compliance behavior affects evacuation efficiency with traditional TAZ assignment, but it does not significantly compromise the efficiency with high resolution LPC assignment. The TAZ assignment also underestimates the real travel time during evacuation, especially for high compliance simulations. This suggests that conventional evacuation studies based on TAZ assignment might not be effective at providing efficient guidance to evacuees. From the high resolution data perspective, traveler compliance behavior is an important factor but it does not impact the system performance significantly. The highlight of evacuee compliance behavior analysis should be emphasized on individual evacuee level route/shelter assignments, rather than the whole system performance.

  9. High Resolution Marine Magnetic Survey of Shallow Water Littoral Area

    Directory of Open Access Journals (Sweden)

    Jacob Sharvit

    2007-09-01

    Full Text Available The purpose of this paper is to present a system developed for detection andaccurate mapping of ferro-metallic objects buried below the seabed in shallow waters. Thesystem comprises a precise magnetic gradiometer and navigation subsystem, both installedon a non-magnetic catamaran towed by a low-magnetic interfering boat. In addition wepresent the results of a marine survey of a near-shore area in the vicinity of Atlit, a townsituated on the Mediterranean coast of Israel, about 15 km south of Haifa. The primarypurpose of the survey was to search for a Harvard airplane that crashed into the sea in 1960.A magnetic map of the survey area (3.5 km2 on a 0.5 m grid was created revealing theanomalies at sub-meter accuracy. For each investigated target location a correspondingferro-metallic item was dug out, one of which turned to be very similar to a part of thecrashed airplane. The accuracy of location was confirmed by matching the position of theactual dug artifacts with the magnetic map within a range of ± 1 m, in a water depth of 9 m.

  10. Quantitative high-resolution melting analysis for detecting adulterations.

    Science.gov (United States)

    Mader, Eduard; Ruzicka, Joana; Schmiderer, Corinna; Novak, Johannes

    2011-02-01

    Admixtures of different plant species are a common problem in raw materials for medicinal use. Two exemplary assays were developed to admixtures in Helleborus niger with high-resolution melting analysis. HRM proved to be a very sensitive tool in detecting admixtures, able to detect a ratio of 1:1000 with unknown species, and of 1:200,000 with Veratrum nigrum. The example proves the ability of HRM for quantification in multiplex PCR. The method is not limited to detecting adulterations. It can also be used to quantify a specific target by integrating a second amplicon in the assay as internal standard. Copyright © 2010 Elsevier Inc. All rights reserved.

  11. Differentiation of Staphylococcus spp. by high-resolution melting analysis.

    Science.gov (United States)

    Slany, Michal; Vanerkova, Martina; Nemcova, Eva; Zaloudikova, Barbora; Ruzicka, Filip; Freiberger, Tomas

    2010-12-01

    High-resolution melting analysis (HRMA) is a fast (post-PCR) high-throughput method to scan for sequence variations in a target gene. The aim of this study was to test the potential of HRMA to distinguish particular bacterial species of the Staphylococcus genus even when using a broad-range PCR within the 16S rRNA gene where sequence differences are minimal. Genomic DNA samples isolated from 12 reference staphylococcal strains (Staphylococcus aureus, Staphylococcus capitis, Staphylococcus caprae, Staphylococcus epidermidis, Staphylococcus haemolyticus, Staphylococcus hominis, Staphylococcus intermedius, Staphylococcus saprophyticus, Staphylococcus sciuri, Staphylococcus simulans, Staphylococcus warneri, and Staphylococcus xylosus) were subjected to a real-time PCR amplification of the 16S rRNA gene in the presence of fluorescent dye EvaGreen™, followed by HRMA. Melting profiles were used as molecular fingerprints for bacterial species differentiation. HRMA of S. saprophyticus and S. xylosus resulted in undistinguishable profiles because of their identical sequences in the analyzed 16S rRNA region. The remaining reference strains were fully differentiated either directly or via high-resolution plots obtained by heteroduplex formation between coamplified PCR products of the tested staphylococcal strain and phylogenetically unrelated strain.

  12. Intact MicroRNA Analysis Using High Resolution Mass Spectrometry

    Science.gov (United States)

    Kullolli, Majlinda; Knouf, Emily; Arampatzidou, Maria; Tewari, Muneesh; Pitteri, Sharon J.

    2014-01-01

    MicroRNAs (miRNAs) are small single-stranded non-coding RNAs that post-transcriptionally regulate gene expression, and play key roles in the regulation of a variety of cellular processes and in disease. New tools to analyze miRNAs will add understanding of the physiological origins and biological functions of this class of molecules. In this study, we investigate the utility of high resolution mass spectrometry for the analysis of miRNAs through proof-of-concept experiments. We demonstrate the ability of mass spectrometry to resolve and separate miRNAs and corresponding 3' variants in mixtures. The mass accuracy of the monoisotopic deprotonated peaks from various miRNAs is in the low ppm range. We compare fragmentation of miRNA by collision-induced dissociation (CID) and by higher-energy collisional dissociation (HCD) which yields similar sequence coverage from both methods but additional fragmentation by HCD versus CID. We measure the linear dynamic range, limit of detection, and limit of quantitation of miRNA loaded onto a C18 column. Lastly, we explore the use of data-dependent acquisition of MS/MS spectra of miRNA during online LC-MS and demonstrate that multiple charge states can be fragmented, yielding nearly full sequence coverage of miRNA on a chromatographic time scale. We conclude that high resolution mass spectrometry allows the separation and measurement of miRNAs in mixtures and a standard LC-MS setup can be adapted for online analysis of these molecules.

  13. High Resolution Surveys of the Water and Methanol Star Formation Masers in the Central Molecular Zone

    Science.gov (United States)

    Rickert, Matthew; Yusef-Zadeh, Farhad; Ott, Juergen; Meier, David S.; Krieger, Nico; SWAG

    2017-01-01

    We present some of the first high resolution fully interferometric surveys of 6.7 GHz methanol and 22 GHz water masers towards the Central Molecular Zone (CMZ). These masers are good signposts for early (methanol masers with resolutions of 0.9” (0.04 pc) and 0.4 km/s (8 kHz) and an average channel sensitivity of ~0.01 Jy/beam. With this high resolution and sensitivity, we have detected ~100 methanol masers, which is over a factor of two more than has previously been detected. We have also conducted two surveys of water masers in this region. As part of the Survey of Water and Ammonia in the Galactic Center (SWAG), the Australia Telescope Compact Array (ATCA) was used to survey a variety of molecular lines, including the 22 GHz water line. With the ATCA, we have detected over 200 water masers using resolutions of 26” (1 pc) and 2 km/s (60 kHz) and an average channel sensitivity of ~0.01 Jy/beam. Afterward, we conducted the first on-the-fly (OTF) VLA survey of water masers with improved resolutions of 0.7” (0.03 pc) and 0.4 km/s (26 kHz) and an average channel sensitivity of ~0.05 Jy/beam. Although the analysis of this OTF survey is not yet complete, we have already identified water masers that were not visible in the SWAG data.The improvement in the number of detected masers allows us to better analyze the distribution of these masers. We show that the SWAG water masers appear uniformly distributed along the Galactic plane, despite the asymmetry of the molecular gas distribution, where ~2/3 of the gas mass is located at positive Galactic longitudes. The methanol masers follow the molecular gas distribution, with a majority of the masers being found at positive longitudes. This could indicate a difference in the star forming history of these two parts of the CMZ and/or that the 22 GHz water masers are contaminated by water masers produced from evolved stars as well as star forming regions, indicating that a larger percentage of 22 GHz water masers are produced

  14. High-resolution abundance analysis of HD 140283

    CERN Document Server

    Siqueira-Mello, C; Barbuy, B; Spite, M; Spite, F; Korotin, S A

    2015-01-01

    HD 140283 is a reference subgiant that is metal poor and confirmed to be a very old star. The abundances of this type of old star can constrain the nature and nucleosynthesis processes that occurred in its (even older) progenitors. The present study may shed light on nucleosynthesis processes yielding heavy elements early in the Galaxy. A detailed abundance analysis of a high-quality spectrum is carried out, with the intent of providing a reference on stellar lines and abundances of a very old, metal-poor subgiant. We aim to derive abundances from most available and measurable spectral lines. The analysis is carried out using high-resolution (R = 81 000) and high signal-to-noise ratio (800 < S/N/pixel < 3400) spectrum, in the wavelength range 3700 - 10475, obtained with a seven-hour exposure time, using the ESPaDOnS at the CFHT. The calculations in LTE were performed with the OSMARCS 1D atmospheric model and the spectrum synthesis code Turbospectrum, while the analysis in NLTE is based on the MULTI code...

  15. Proteogenomic analysis of Mycobacterium smegmatis using high resolution mass spectrometry

    Directory of Open Access Journals (Sweden)

    Matthys Gerhardus Potgieter

    2016-04-01

    Full Text Available AbstractBiochemical evidence is vital for accurate genome annotation. The integration of experimental data collected at the proteome level using high resolution mass spectrometry allows for improvements in genome annotation by providing evidence for novel gene models, while validating or modifying others. Here we report the results of a proteogenomic analysis of a reference strain of Mycobacterium smegmatis (mc2155, a fast growing model organism for the pathogenic Mycobacterium tuberculosis - the causative agent for Tuberculosis. By integrating high throughput LC/MS/MS proteomic data with genomic six frame translation and ab initio gene prediction databases, a total of 2887 ORFs were identified, including 2810 ORFs annotated to a Reference protein, and 63 ORFs not previously annotated to a Reference protein. Further, the translational start site (TSS was validated for 558 Reference proteome gene models, while upstream translational evidence was identified for 81. In addition, N-terminus derived peptide identifications allowed for downstream TSS modification of a further 24 gene models. We validated the existence of 6 previously described interrupted coding sequences at the peptide level, and provide evidence for 4 novel frameshift positions. Analysis of peptide posterior error probability (PEP scores indicates high-confidence novel peptide identifications and shows that the genome of M. smegmatis mc2155 is not yet fully annotated. Data are available via ProteomeXchange with identifier PXD003500.

  16. High-resolution x-ray analysis with multilayer gratings

    CERN Document Server

    Jonnard, Philippe; André, Jean-Michel; 10.1002/xrs.1128

    2013-01-01

    Periodic multilayers are nowadays widely used to perform x-ray analysis in the soft x-ray range (photon energy lower than 1 keV). However, they do not permit to obtain high-resolution spectra like natural or synthetic crystals. Thus, multilayers cannot resolve interferences between close x-ray lines. It has been shown and demonstrated experimentally that patterning a grating profile within a multilayer structure leads to a diffractive optics with improved resolving power. We illustrate the use of a Mo/B4C multilayer grating in the Fe L and C K spectral ranges, around 700 eV and 280 eV respectively. First, in the Fe L range, the improved spectral resolution enables us to distinguish the Fe L\\alpha and L\\beta emissions (separated by 13 eV). In addition, using a sample made of a mix of LiF and an iron ore, we show that it is possible to easily resolve the F K and Fe L emissions. These examples demonstrate that an improved x-ray analysis can be obtained with multilayer gratings when there is the need to study sam...

  17. DETECTION OF IGNEOUS BODIES IN HUAIBEI COAL MINESBY HIGH RESOLUTION MAGNETIC SURVEY

    Institute of Scientific and Technical Information of China (English)

    WangSilong; NingShunian; YangXiaoqin; HouXiaoqiang; LiuBo; LiuDonglin

    1996-01-01

    The present paper investigates the application of high resolution magnetic survey to detecting igneous bodies. The slight difference in magnetism between ig-neous bodies and their surrounding rocks is measured first and then the magnetic survey data are processed to determine whether there exist igneous bodies by analog among several measuring lines, and finally the modified Marquart inversion was used to determine the occurrence and distribution of the igneous bodies.

  18. Accuracy Enhancement of Inertial Sensors Utilizing High Resolution Spectral Analysis

    Directory of Open Access Journals (Sweden)

    Michael Korenberg

    2012-08-01

    Full Text Available In both military and civilian applications, the inertial navigation system (INS and the global positioning system (GPS are two complementary technologies that can be integrated to provide reliable positioning and navigation information for land vehicles. The accuracy enhancement of INS sensors and the integration of INS with GPS are the subjects of widespread research. Wavelet de-noising of INS sensors has had limited success in removing the long-term (low-frequency inertial sensor errors. The primary objective of this research is to develop a novel inertial sensor accuracy enhancement technique that can remove both short-term and long-term error components from inertial sensor measurements prior to INS mechanization and INS/GPS integration. A high resolution spectral analysis technique called the fast orthogonal search (FOS algorithm is used to accurately model the low frequency range of the spectrum, which includes the vehicle motion dynamics and inertial sensor errors. FOS models the spectral components with the most energy first and uses an adaptive threshold to stop adding frequency terms when fitting a term does not reduce the mean squared error more than fitting white noise. The proposed method was developed, tested and validated through road test experiments involving both low-end tactical grade and low cost MEMS-based inertial systems. The results demonstrate that in most cases the position accuracy during GPS outages using FOS de-noised data is superior to the position accuracy using wavelet de-noising.

  19. High Resolution Continuous Flow Analysis System for Polar Ice Cores

    Science.gov (United States)

    Dallmayr, Remi; Azuma, Kumiko; Yamada, Hironobu; Kjær, Helle Astrid; Vallelonga, Paul; Azuma, Nobuhiko; Takata, Morimasa

    2014-05-01

    35.636 kyr b2k 7), respectively. The results show the conductivity measured upstream and downstream of the debubbler. We will calculate the depth resolution of our system and compare it with earlier studies. 1) Bigler at al, "Optimization of High-Resolution Continuous Flow Analysis For Transient Climate Signals in Ice Cores". Environ. Sci. Technol. 2011, 45, 4483-4489 2) Kaufmann et al, "An Improved Continuous Flow Analysis System for High Resolution Field Measurements on Ice Cores". Environmental Environ. Sci. Technol. 2008, 42, 8044-8050 3) Gkinis, V., T. J. Popp, S. J. Johnsen and T, Blunier, 2010: A continuous stream flash evaporator for the calibration of an IR cavity ring down spectrometer for the isotopic analysis of water. Isotopes in Environmental and Health Studies, 46(4), 463-475. 4) McConnell et al, "Continuous ice-core chemical analyses using inductively coupled plasma mass spectrometry. Environ. Sci. Technol. 2002, 36, 7-11 5) Rhodes et al, "Continuous methane measurements from a late Holocene Greenland ice core : Atmospheric and in-situ signals" Earth and Planetary Science Letters. 2013, 368, 9-19 6) Breton et al, "Quantifying Signal Dispersion in a Hybrid Ice Core Melting System". Environ. Sci. Technol. 2012, 46, 11922-11928 7) Rasmussen et al, " A first chronology for the NEEM ice core". Climate of the Past. 2013, 9, 2967--3013

  20. Analysis strategies for high-resolution UHF-fMRI data.

    Science.gov (United States)

    Polimeni, Jonathan R; Renvall, Ville; Zaretskaya, Natalia; Fischl, Bruce

    2017-04-29

    Functional MRI (fMRI) benefits from both increased sensitivity and specificity with increasing magnetic field strength, making it a key application for Ultra-High Field (UHF) MRI scanners. Most UHF-fMRI studies utilize the dramatic increases in sensitivity and specificity to acquire high-resolution data reaching sub-millimeter scales, which enable new classes of experiments to probe the functional organization of the human brain. This review article surveys advanced data analysis strategies developed for high-resolution fMRI at UHF. These include strategies designed to mitigate distortion and artifacts associated with higher fields in ways that attempt to preserve spatial resolution of the fMRI data, as well as recently introduced analysis techniques that are enabled by these extremely high-resolution data. Particular focus is placed on anatomically-informed analyses, including cortical surface-based analysis, which are powerful techniques that can guide each step of the analysis from preprocessing to statistical analysis to interpretation and visualization. New intracortical analysis techniques for laminar and columnar fMRI are also reviewed and discussed. Prospects for single-subject individualized analyses are also presented and discussed. Altogether, there are both specific challenges and opportunities presented by UHF-fMRI, and the use of proper analysis strategies can help these valuable data reach their full potential. Copyright © 2017 Elsevier Inc. All rights reserved.

  1. Can high resolution 3D topographic surveys provide reliable grain size estimates in gravel bed rivers?

    Science.gov (United States)

    Pearson, E.; Smith, M. W.; Klaar, M. J.; Brown, L. E.

    2017-09-01

    High resolution topographic surveys such as those provided by Structure-from-Motion (SfM) contain a wealth of information that is not always exploited in the generation of Digital Elevation Models (DEMs). In particular, several authors have related sub-metre scale topographic variability (or 'surface roughness') to sediment grain size by deriving empirical relationships between the two. In fluvial applications, such relationships permit rapid analysis of the spatial distribution of grain size over entire river reaches, providing improved data to drive three-dimensional hydraulic models, allowing rapid geomorphic monitoring of sub-reach river restoration projects, and enabling more robust characterisation of riverbed habitats. However, comparison of previously published roughness-grain-size relationships shows substantial variability between field sites. Using a combination of over 300 laboratory and field-based SfM surveys, we demonstrate the influence of inherent survey error, irregularity of natural gravels, particle shape, grain packing structure, sorting, and form roughness on roughness-grain-size relationships. Roughness analysis from SfM datasets can accurately predict the diameter of smooth hemispheres, though natural, irregular gravels result in a higher roughness value for a given diameter and different grain shapes yield different relationships. A suite of empirical relationships is presented as a decision tree which improves predictions of grain size. By accounting for differences in patch facies, large improvements in D50 prediction are possible. SfM is capable of providing accurate grain size estimates, although further refinement is needed for poorly sorted gravel patches, for which c-axis percentiles are better predicted than b-axis percentiles.

  2. Microtopography of bare peat: an objective classification from high-resolution topographic survey data

    Science.gov (United States)

    Smith, Mark; Warburton, Jeff

    2017-04-01

    Peatlands globally are at risk of degradation through increased susceptibility to erosion as a result of climate change. For peatland restoration practices to be designed efficiently and evaluated effectively, quantification of eroded peat volumes is required alongside an understanding of the processes responsible for their degradation. Owing to the unique material properties of peat, fine-scale microtopographic expressions of surface processes are especially pronounced and present a potentially rich source of geomorphological information; providing valuable insights into the stability and dominant surface process regimes. Bare peat is highly responsive to changing environmental forces acting at the near surface and characteristic microtopographies emerge in response to rainfall, surface wash, wind action and fluctuations in surface temperature (both drying and freezing). Spatial and temporal variations in surface roughness reflect contrasts in the physical properties of the peat and key erosion processes acting in combination. We present the first conceptual framework to rigorously describe bare peat microtopography and use Structure-from-Motion (SfM) surveys to quantify roughness for different peat surfaces. Through application of a survey-grade structured-light hand-held 3D imager (Mantis Vision F5-Short Range) which can represent sub-millimetre topographic variability in field conditions, we present the most reliable field validation of SfM at the plot scale (classification system derived from decision tree analysis. After training on 66% of the data, the decision tree correctly classified 85% of plots into microtopographic types using 5 roughness metrics each of which quantified a different aspect of the surface variability. We show that through a combination of roughness metrics, microtopographic types can be identified objectively from high resolution survey data, aiding the interpretation of sediment budgets and providing a much-needed geomorphological

  3. High-resolution analysis of protons scattered from solid surfaces

    Energy Technology Data Exchange (ETDEWEB)

    Matsunami, Noriaki; Kitoh, Kenshin (Dept. of Crystalline Materials Science, Engineering, Nagoya Univ. (Japan)); Kanasaki, Jun-ichi; Itoh, Noriaki (Physics Dept., Nagoya Univ. (Japan))

    1990-01-01

    A survey is given for new information that can be obtained by high energy-resolution analysis of protons backscattered from solid surfaces: layer-by-layer analysis of composition, atomic and electronic structures of surfaces. Optimization of the scattering yield leads to the result that scattering geometries of both glancing angle (PELS-I) and 180deg (PELS-II) are feasible. Results obtained by PELS-I are mainly described: Au atom location for Au/Si(111) and surface contraction of W(111). The impact parameter-dependent inelastic energy loss function is mentioned. (orig.).

  4. A high-resolution spectropolarimetric survey of Herbig Ae/Be stars - I. Observations and measurements

    CERN Document Server

    Alecian, E; Catala, C; Grunhut, J H; Landstreet, J D; Bagnulo, S; Böhm, T; Folsom, C P; Marsden, S; Waite, I

    2012-01-01

    This is the first in a series of papers in which we describe and report the analysis of a large survey of Herbig Ae/Be stars in circular spectropolarimetry. Using the ESPaDOnS and Narval high-resolution spectropolarimeters at the Canada-France-Hawaii and Bernard Lyot Telescopes, respectively, we have acquired 132 circularly-polarised spectra of 70 Herbig Ae/Be stars and Herbig candidates. The large majority of these spectra are characterised by a resolving power of about 65,000, and a spectral coverage from about 3700 ang to 1 micron. The peak SNR per CCD pixel ranges from below 100 (for the faintest targets) to over 1000 (for the brightest). The observations were acquired with the primary aim of searching for magnetic fields in these objects. However, our spectra are suitable for a variety of other important measurements, including rotational properties, variability, binarity, chemical abundances, circumstellar environment conditions and structure, etc. In this first paper, we describe the sample selection, ...

  5. Brain Network Analysis from High-Resolution EEG Signals

    Science.gov (United States)

    de Vico Fallani, Fabrizio; Babiloni, Fabio

    lattice and a random structure. Such a model has been designated as "small-world" network in analogy with the concept of the small-world phenomenon observed more than 30 years ago in social systems. In a similar way, many types of functional brain networks have been analyzed according to this mathematical approach. In particular, several studies based on different imaging techniques (fMRI, MEG and EEG) have found that the estimated functional networks showed small-world characteristics. In the functional brain connectivity context, these properties have been demonstrated to reflect an optimal architecture for the information processing and propagation among the involved cerebral structures. However, the performance of cognitive and motor tasks as well as the presence of neural diseases has been demonstrated to affect such a small-world topology, as revealed by the significant changes of L and C. Moreover, some functional brain networks have been mostly found to be very unlike the random graphs in their degree-distribution, which gives information about the allocation of the functional links within the connectivity pattern. It was demonstrated that the degree distributions of these networks follow a power-law trend. For this reason those networks are called "scale-free". They still exhibit the small-world phenomenon but tend to contain few nodes that act as highly connected "hubs". Scale-free networks are known to show resistance to failure, facility of synchronization and fast signal processing. Hence, it would be important to see whether the scaling properties of the functional brain networks are altered under various pathologies or experimental tasks. The present Chapter proposes a theoretical graph approach in order to evaluate the functional connectivity patterns obtained from high-resolution EEG signals. In this way, the "Brain Network Analysis" (in analogy with the Social Network Analysis that has emerged as a key technique in modern sociology) represents an

  6. Theoretical performance analysis for CMOS based high resolution detectors.

    Science.gov (United States)

    Jain, Amit; Bednarek, Daniel R; Rudin, Stephen

    2013-03-06

    High resolution imaging capabilities are essential for accurately guiding successful endovascular interventional procedures. Present x-ray imaging detectors are not always adequate due to their inherent limitations. The newly-developed high-resolution micro-angiographic fluoroscope (MAF-CCD) detector has demonstrated excellent clinical image quality; however, further improvement in performance and physical design may be possible using CMOS sensors. We have thus calculated the theoretical performance of two proposed CMOS detectors which may be used as a successor to the MAF. The proposed detectors have a 300 μm thick HL-type CsI phosphor, a 50 μm-pixel CMOS sensor with and without a variable gain light image intensifier (LII), and are designated MAF-CMOS-LII and MAF-CMOS, respectively. For the performance evaluation, linear cascade modeling was used. The detector imaging chains were divided into individual stages characterized by one of the basic processes (quantum gain, binomial selection, stochastic and deterministic blurring, additive noise). Ranges of readout noise and exposure were used to calculate the detectors' MTF and DQE. The MAF-CMOS showed slightly better MTF than the MAF-CMOS-LII, but the MAF-CMOS-LII showed far better DQE, especially for lower exposures. The proposed detectors can have improved MTF and DQE compared with the present high resolution MAF detector. The performance of the MAF-CMOS is excellent for the angiography exposure range; however it is limited at fluoroscopic levels due to additive instrumentation noise. The MAF-CMOS-LII, having the advantage of the variable LII gain, can overcome the noise limitation and hence may perform exceptionally for the full range of required exposures; however, it is more complex and hence more expensive.

  7. Merging high resolution geophysical and geochemical surveys to reduce exploration risk at glass buttes, Oregon

    Energy Technology Data Exchange (ETDEWEB)

    Walsh, Patrick [Ormat Nevada, Inc., Reno, NV (United States); Fercho, Steven [Ormat Nevada, Inc., Reno, NV (United States); Perkin, Doug [Ormat Nevada, Inc., Reno, NV (United States); Martini, Brigette [Corescan Inc., Ascot (Australia); Boshmann, Darrick [Oregon State Univ., Corvallis, OR (United States)

    2015-06-01

    The engineering and studies phase of the Glass Buttes project was aimed at reducing risk during the early stages of geothermal project development. The project’s inclusion of high resolution geophysical and geochemical surveys allowed Ormat to evaluate the value of these surveys both independently and in combination to quantify the most valuable course of action for exploration in an area where structure, permeability, and temperature are the most pressing questions. The sizes of the thermal anomalies at Glass Buttes are unusually large. Over the course of Phase I Ormat acquired high resolution LIDAR data to accurately map fault manifestations at the surface and collected detailed gravity and aeromagnetic surveys to map subsurface structural features. In addition, Ormat collected airborne hyperspectral data to assist with mapping the rock petrology and mineral alteration assemblages along Glass Buttes faults and magnetotelluric (MT) survey to try to better constrain the structures at depth. Direct and indirect identification of alteration assemblages reveal not only the geochemical character and temperature of the causative hydrothermal fluids but can also constrain areas of upflow along specific fault segments. All five datasets were merged along with subsurface lithologies and temperatures to predict the most likely locations for high permeability and hot fluids. The Glass Buttes temperature anomalies include 2 areas, totaling 60 km2 (23 mi2) of measured temperature gradients over 165° C/km (10° F/100ft). The Midnight Point temperature anomaly includes the Strat-1 well with 90°C (194 °F) at 603 m (1981 ft) with a 164 °C/km (10°F/100ft) temperature gradient at bottom hole and the GB-18 well with 71°C (160 °F) at 396 m (1300 ft) with a 182°C/km (11°F/100ft) gradient. The primary area of alteration and elevated temperature occurs near major fault intersections associated with Brothers Fault Zone and Basin and Range systems. Evidence for faulting is

  8. Multifractal analysis of high resolution solar wind proton density measurements

    Science.gov (United States)

    Sorriso-Valvo, Luca; Carbone, Francesco; Leonardis, Ersilia; Chen, Christopher H. K.; Šafránková, Jana; Němeček, Zdenek

    2017-03-01

    The solar wind is a highly turbulent medium, with a high level of field fluctuations throughout a broad range of scales. These include an inertial range where a turbulent cascade is assumed to be active. The solar wind cascade shows intermittency, which however may depend on the wind conditions. Recent observations have shown that ion-scale magnetic turbulence is almost self-similar, rather than intermittent. A similar result was observed for the high resolution measurements of proton density provided by the spacecraft Spektr-R. Intermittency may be interpreted as the result of the multifractal properties of the turbulent cascade. In this perspective, this paper is devoted to the description of the multifractal properties of the high resolution density measurements. In particular, we have used the standard coarse-graining technique to evaluate the generalized dimensions Dq , and from these the multifractal spectrum f (α) , in two ranges of scale. A fit with the p-model for intermittency provided a quantitative measure of multifractality. Such indicator was then compared with alternative measures: the width of the multifractal spectrum, the peak of the kurtosis, and its scaling exponent. The results indicate that the small-scale fluctuations are multifractal, and suggest that different measures of intermittency are required to fully understand the small scale cascade.

  9. Quantitative analysis of cholesteatoma using high resolution computed tomography

    Energy Technology Data Exchange (ETDEWEB)

    Kikuchi, Shigeru; Yamasoba, Tatsuya (Kameda General Hospital, Chiba (Japan)); Iinuma, Toshitaka

    1992-05-01

    Seventy-three cases of adult cholesteatoma, including 52 cases of pars flaccida type cholesteatoma and 21 of pars tensa type cholesteatoma, were examined using high resolution computed tomography, in both axial (lateral semicircular canal plane) and coronal sections (cochlear, vestibular and antral plane). These cases were classified into two subtypes according to the presence of extension of cholesteatoma into the antrum. Sixty cases of chronic otitis media with central perforation (COM) were also examined as controls. Various locations of the middle ear cavity were measured in terms of size in comparison with pars flaccida type cholesteatoma, pars tensa type cholesteatoma and COM. The width of the attic was significantly larger in both pars flaccida type and pars tensa type cholesteatoma than in COM. With pars flaccida type cholesteatoma there was a significantly larger distance between the malleus and lateral wall of the attic than with COM. In contrast, the distance between the malleus and medial wall of the attic was significantly larger with pars tensa type cholesteatoma than with COM. With cholesteatoma extending into the antrum, regardless of the type of cholesteatoma, there were significantly larger distances than with COM at the following sites: the width and height of the aditus ad antrum, and the width, height and anterior-posterior diameter of the antrum. However, these distances were not significantly different between cholesteatoma without extension into the antrum and COM. The hitherto demonstrated qualitative impressions of bone destruction in cholesteatoma were quantitatively verified in detail using high resolution computed tomography. (author).

  10. Velocity and abundance precisions for future high-resolution spectroscopic surveys: a study for 4MOST

    CERN Document Server

    Caffau, E; Sbordone, L; Sartoretti, P; Hansen, C J; Royer, F; Leclerc, N; Bonifacio, P; Christlieb, N; Ludwig, H G; Grebel, E K; de Jong, R S; Chiappini, C; Walcher, J; Mignot, S; Feltzing, S; Cohen, M; Minchev, I; Helmi, A; Piffl, T; Depagne, E; Schnurr, O

    2012-01-01

    In preparation for future, large-scale, multi-object, high-resolution spectroscopic surveys of the Galaxy, we present a series of tests of the precision in radial velocity and chemical abundances that any such project can achieve at a 4m class telescope. We briefly discuss a number of science cases that aim at studying the chemo-dynamical history of the major Galactic components (bulge, thin and thick disks, and halo) - either as a follow-up to the Gaia mission or on their own merits. Based on a large grid of synthetic spectra that cover the full range in stellar parameters of typical survey targets, we devise an optimal wavelength range and argue for a moderately high-resolution spectrograph. As a result, the kinematic precision is not limited by any of these factors, but will practically only suffer from systematic effects, easily reaching uncertainties <1 km/s. Under realistic survey conditions (namely, considering stars brighter than r=16 mag with reasonable exposure times) we prefer an ideal resolving...

  11. Assessing Usefulness of High-Resolution Satellite Imagery (HRSI) for Re-Survey of Cadastral Maps

    Science.gov (United States)

    Rao, S. S.; Sharma, J. R.; Rajashekar, S. S.; Rao, D. S. P.; Arepalli, A.; Arora, V.; Kuldeep; Singh, R. P.; Kanaparthi, M.

    2014-11-01

    The Government of India has initiated "National Land Records Modernization Programme (NLRMP)" with emphasis to modernize management of land records, minimize scope of land/property disputes, enhance transparency in the land records maintenance system, and facilitate moving eventually towards guaranteed conclusive titles to immovable properties in the country. One of the major components of the programme is survey/re-survey and updating of all survey and settlement records including creation of original cadastral records wherever necessary. The use of ETS/GPS, Aerial or High Resolution Satellite Images (HRSI) and hybrid method of images are suggested for re-survey in the guidelines. The emerging new satellite technologies enabling earth observation at a spatial resolution of 1.0m or 0.5m or even 0.41m have brought revolutionary changes in the field of cadastral survey. The highresolution satellite imagery (HRSI) is showing its usefulness for cadastral surveys in terms of clear identification of parcel boundaries and other cultural features due to which traditional cadastre and land registration systems have been undergoing major changes worldwide. In the present research study, cadastral maps are derived from ETS/GPS, HRSI of 1.0m and 0.5m and used for comparison. The differences in areas, perimeter and position of parcels derived from HRSI are compared vis-a-vis ETS/GPS boundaries. An assessment has been made on the usefulness of HRSI for re-survey of cadastral maps vis-a-vis conventional ground survey.

  12. A High-Resolution Survey of the Very Youngest Brown Dwarfs

    Science.gov (United States)

    Allers, Katelyn

    2012-10-01

    We propose to image the youngest { 0.5 Myr} brown dwarfs in the nearby Ophiuchus star-forming region {d=125 pc}. These observations will complete our high resolution imaging survey of a well-defined sample of young brown dwarfs and very low mass stars spanning the age range of 0.5-100 Myr {Allers et al. 2009, Allers et al. 2010, Biller et al. 2011}. Our proposed survey will be the culmination of the most extensive high resolution search for companions to young substellar objects conducted to date. We have established a novel, reddening-insensitive approach, which uses imaging in three WFC3 UVIS and IR filters to discern candidate companions from contaminant background stars. Our proposed survey is sensitive enough to discover planetary-mass companions. As only two planetary-mass companions to brown dwarfs are known {Chauvin et al. 2005, Todorov et al. 2010}, such discoveries will provide valuable new benchmark objects for testing atmospheric and evolutionary models of planetary-mass objects. Our survey will put the strongest constraints to date on the primordial binary fraction for brown dwarfs. By comparing results in Ophiuchus with our completed survey of the Upper Sco region {Biller et al. 2011}, we can directly measure how the binary characteristics change with age {i.e. as a cluster dynamically evolves}, providing key inputs for refining models of brown dwarf formation. The proposed observations are only possible with HST WFC3. Because of the high extinction of the Ophiuchus cloud, suitable tip-tilt stars are not available to allow for ground-based LGS AO imaging of our sample.

  13. High resolution ultraviolet imaging spectrometer for latent image analysis.

    Science.gov (United States)

    Lyu, Hang; Liao, Ningfang; Li, Hongsong; Wu, Wenmin

    2016-03-21

    In this work, we present a close-range ultraviolet imaging spectrometer with high spatial resolution, and reasonably high spectral resolution. As the transmissive optical components cause chromatic aberration in the ultraviolet (UV) spectral range, an all-reflective imaging scheme is introduced to promote the image quality. The proposed instrument consists of an oscillating mirror, a Cassegrain objective, a Michelson structure, an Offner relay, and a UV enhanced CCD. The finished spectrometer has a spatial resolution of 29.30μm on the target plane; the spectral scope covers both near and middle UV band; and can obtain approximately 100 wavelength samples over the range of 240~370nm. The control computer coordinates all the components of the instrument and enables capturing a series of images, which can be reconstructed into an interferogram datacube. The datacube can be converted into a spectrum datacube, which contains spectral information of each pixel with many wavelength samples. A spectral calibration is carried out by using a high pressure mercury discharge lamp. A test run demonstrated that this interferometric configuration can obtain high resolution spectrum datacube. The pattern recognition algorithm is introduced to analyze the datacube and distinguish the latent traces from the base materials. This design is particularly good at identifying the latent traces in the application field of forensic imaging.

  14. High-resolution analysis of the mechanical behavior of tissue

    Science.gov (United States)

    Hudnut, Alexa W.; Armani, Andrea M.

    2017-06-01

    The mechanical behavior and properties of biomaterials, such as tissue, have been directly and indirectly connected to numerous malignant physiological states. For example, an increase in the Young's Modulus of tissue can be indicative of cancer. Due to the heterogeneity of biomaterials, it is extremely important to perform these measurements using whole or unprocessed tissue because the tissue matrix contains important information about the intercellular interactions and the structure. Thus, developing high-resolution approaches that can accurately measure the elasticity of unprocessed tissue samples is of great interest. Unfortunately, conventional elastography methods such as atomic force microscopy, compression testing, and ultrasound elastography either require sample processing or have poor resolution. In the present work, we demonstrate the characterization of unprocessed salmon muscle using an optical polarimetric elastography system. We compare the results of compression testing within different samples of salmon skeletal muscle with different numbers of collagen membranes to characterize differences in heterogeneity. Using the intrinsic collagen membranes as markers, we determine the resolution of the system when testing biomaterials. The device reproducibly measures the stiffness of the tissues at variable strains. By analyzing the amount of energy lost by the sample during compression, collagen membranes that are 500 μm in size are detected.

  15. Theoretical analysis of high-resolution digital mammography.

    Science.gov (United States)

    Suryanarayanan, Sankararaman; Karellas, Andrew; Vedantham, Srinivasan; Sechopoulos, Ioannis

    2006-06-21

    The performance of a high-resolution charge coupled device-based full-field digital mammography imager was analysed using a mathematical framework based on an adaptation of cascaded linear systems theory described by other investigators. This work has been conducted in order to understand the impact of various design parameters on the physical performance characteristics of the imager. Specifically, the effect of pixel size, scintillator thickness and packing density, x-ray spectra, air kerma, dark current, charge integration time, and pixel fill-factor on the frequency dependent detective quantum efficiency was studied using a charge-coupled device as a reference platform. The imaging system was modelled as a series of physical processes with gain and spatial spreading. For each stage, the signal and noise power spectra were computed and propagated through the imaging chain as inputs to subsequent stages. Good agreement between experimental and theoretical predictions was obtained for various x-ray spectral conditions that were investigated. The modulation transfer function, MTF(f) and detective quantum efficiency DQE(f) characteristics obtained in this study are encouraging and comparable to other digital mammography systems. The results of this study strongly suggest the feasibility of large area scintillator-based digital mammography imagers with pixel sizes below 100 microm.

  16. Montecarlo simulation for a new high resolution elemental analysis methodology

    Energy Technology Data Exchange (ETDEWEB)

    Figueroa S, Rodolfo; Brusa, Daniel; Riveros, Alberto [Universidad de La Frontera, Temuco (Chile). Facultad de Ingenieria y Administracion

    1996-12-31

    Full text. Spectra generated by binary, ternary and multielement matrixes when irradiated by a variable energy photon beam are simulated by means of a Monte Carlo code. Significative jumps in the counting rate are shown when the photon energy is just over the edge associated to each element, because of the emission of characteristic X rays. For a given associated energy, the net height of these jumps depends mainly on the concentration and of the sample absorption coefficient. The spectra were obtained by a monochromatic energy scan considering all the emitted radiation by the sample in a 2{pi} solid angle, associating a single multichannel spectrometer channel to each incident energy (Multichannel Scaling (MCS) mode). The simulated spectra were made with Monte Carlo simulation software adaptation of the package called PENELOPE (Penetration and Energy Loss of Positrons and Electrons in matter). The results show that it is possible to implement a new high resolution spectroscopy methodology, where a synchrotron would be an ideal source, due to the high intensity and ability to control the energy of the incident beam. The high energy resolution would be determined by the monochromating system and not by the detection system and not by the detection system, which would basicalbe a photon counter. (author)

  17. A high-resolution radio survey of the Vela supernova remnant

    CERN Document Server

    Bock, D; Green, A J

    1998-01-01

    This paper presents a high-resolution radio continuum (843 MHz) survey of the Vela supernova remnant. The contrast between the structures in the central pulsar-powered nebula of the remnant and the synchrotron radiation shell allows the remnant to be identified morphologically as a member of the composite class. The data are the first of a composite remnant at spatial scales comparable with those available for the Cygnus Loop and the Crab Nebula, and make possible a comparison of radio, optical and soft X-ray emission from the resolved shell filaments. The survey, made with the Molonglo Observatory Synthesis Telescope, covers an area of 50 square degrees at a resolution of 43'' x 60'', while imaging structures on scales up to 30'.

  18. High-resolution topography using SfM-photogrammetry from UAV for coastal mudflat geomorphic surveys

    Science.gov (United States)

    Fleury, Jules; Brunier, Guillaume; Michaud, Emma; Anthony, Edward; Morvan, Sylvain; Dussouillez, Philippe; Gardel, Antoine

    2016-04-01

    The coast between the Amazon and the Orinoco river mouths comprises mud banks formed from the large muddy discharge of the Amazon and migrating westward under the influence of waves and currents. These banks are highly dynamic and strongly affected by complex hydro-bio-geochemical interactions that are also important in mangrove colonization of bare mudflats in the upper intertidal zone of these banks. The surface topography of these mud banks is further affected by physical and biological processes such as tidal channel incision and bioturbation. Surveying the morphology of these mudflats over large areas and at a high-resolution without perturbing their surface is a real challenge that cannot be accomplished using classical survey methods such as RTK-GPS or Total Stations. To overcome this hurdle, we conducted a SfM(Surface from Motion)-photogrammetry experiment over 1 ha of a large intertidal mudflat colonized by pioneer mangroves at the mouth of the Sinnamary estuary in French Guiana. We developed a topographic data acquisition system based on sub-vertical aerial photography from a UAV flying at low altitude (15 m), in order to produce images at 3 mm resolution. A light DJI F550 drone was used, with an automatic flight programming using GPS navigation and a flight plan designed on photogrammetric criteria. The payload was a lightweight (250 grams) Ricoh GR camera with an APS-C sensor of 16.2 Megapixel and including an intervalometer triggering function. The drone had a flight autonomy of 12 minutes thus covering entirely the surrounding mudflat platform. The landing procedure was conducted manually in order for the drone to land safely on a very narrow artificial ground base set up for our experiment. 3D-models and derived products were generated using Agisoft Photoscan Professionnal software. We produced a gridded Digital Surface Model (DSM) and an orthophoto in visible bands at 1 cm and 5mm pixel resolution respectively. The vertical accuracy of the DSM based

  19. Pen Branch fault program: Interim report on the High Resolution, Shallow Seismic Reflection surveys

    Energy Technology Data Exchange (ETDEWEB)

    Stieve, A.L. [Westinghouse Savannah River Co., Aiken, SC (United States)

    1991-01-31

    The Pen Branch fault was identified in the subsurface at the Savannah River Site in 1989 based upon the interpretation of earlier seismic reflection surveys and other geologic investigations. A program was initiated at that time to further define the fault in terms of its capability to release seismic energy. The High-Resolution, Shallow Seismic Reflection survey recently completed at SRS was initiated to determine the shallowest extent of the fault and to demonstrate the presence of flat-lying sediments in the top 300 feet of sediments. Conclusions at this time are based upon this shallow seismic survey and the Conoco deep seismic survey (1988--1989). Deformation related to the Pen Branch fault is at least 200 milliseconds beneath the surface in the Conoco data and at least 150 milliseconds in the shallow seismic reflection data. This corresponds to approximately 300 feet below the surface. Sediments at that depth are lower Tertiary (Danian stage) or over 60 million years old. This indicates that the fault is not capable.

  20. Retrospective farm scale spatial analysis of viticultural terroir fertility using a 70 y-aerial photograph time series, soil survey and very high resolution Pléiades and EM38 data

    Science.gov (United States)

    Vaudour, Emmanuelle; Leclercq, Léa; Gilliot, Jean-Marc; Chaignon, Benoît

    2016-04-01

    In order to elaborate adequate and sustainable practices while better controlling harvest composition at farm scale, the detailed spatial assessment of terroir units is needed. Although such assessment is made in the present time, it reflects vine behaviour and soil quality according to cumulated past choices in vineyard management. in addition to demarcate homogeneous within-vineyard zones, there is a need, in cases where the winegrower starts up its activities, to retrace the behaviour of these zones in the past, so as to consolidate the diagnosis of vine fertility, and determine further adoption of new soil and vineyard management practices that are likely to favour a long-term preservation of quality production together with soil ecosystem functions. In this study we aimed at performing such historical and spatial tracing using a long term time-series of aerial survey images, in combination with a set of very high resolution data: resistivity EM38 measurements and very high resolution Pléiades satellite images. This study was conducted over a 6 ha-farm mainly planted with rainfed black Grenache and Syrah varieties in the Southern Rhone Valley. In a previous study carried out at regional scale, soil landscape and potential terroir units had been characterized. A new field survey carried out in January 2015 considered a total of 98 topsoil sampling sites in addition to 14 soil pits, the horizons of which were described and sampled. Physico-chemical analyses were made for all soil samples, and for those horizons having the highest root development, additional analytical parameters such as copper, active lime and mineral nutrients contents were determined. Along with soil parameters, soil surface condition, vine biological parameters including vigour, presence of diseases, stock-unearthing were collected. A total of 25 aerial photographs in digitized format from the French National Institute of Geographic and Forest Information (IGN) were examined over the 1947

  1. High resolution, shallow seismic reflection survey of the Pen Branch fault

    Energy Technology Data Exchange (ETDEWEB)

    Stieve, A.

    1991-05-15

    The purpose of this project, at the Savannah River River Site (SRS) was to acquire, process, and interpret 28 km (17.4 miles) of high resolution seismic reflection data taken across the trace of the Pen Branch fault and other suspected, intersecting north-south trending faults. The survey was optimized for the upper 300 ft of geologic strata in order to demonstrate the existence of very shallow, flat lying horizons, and to determine the depth of the fault or to sediments deformed by the fault. Field acquisition and processing parameters were selected to define small scale spatial variability and structural features in the vicinity of the Pen Branch fault leading to the definition and the location of the Pen Branch fault, the shallowest extent of the fault, and the quantification of the sense and magnitude of motion. Associated geophysical, borehole, and geologic data were incorporated into the investigation to assist in the determination of optimal parameters and aid in the interpretation.

  2. A High-Resolution Aeromagnetic Survey to Identify Buried Faults at Dixie Valley, Nevada

    Energy Technology Data Exchange (ETDEWEB)

    Smith, Richard Paul; Grauch, V. J. S.; Blackwell, David D.

    2002-09-01

    Preliminary results from a high-resolution aeromagnetic survey (200m line spacing) acquired in Dixie Valley early in 2002 provide confirmation of intra-basin faulting based on subtle surface indications. In addition the data allow identification of the locations and trends of many faults that have not been recognized at the surface, and provide a picture of intrabasin faulting patterns not possible using other techniques. The data reveal a suite of northeasterly-trending curving and branching faults that surround a relatively coherent block in the area of Humboldt Salt Marsh, the deepest part of the basin. The producing reservoir occurs at the north end of this coherent block, where rampart faults from the northwest side of the valley merge with anthithetic faults from the central and southeast parts of the valley.

  3. Characterization of Poly(ether)urethanes - High Resolution Thermogravimetric Analysis

    Science.gov (United States)

    2004-02-01

    ether)urethanes.11 Table 5. Percent weight loss for steps in stepwise isothermal TGA analysis .......................... 14 viii DRDC Atlantic...Stepwise isothermal plots for the six poly(ether)urethanes. Table 5. Percent weight loss for steps in stepwise isothermal TGA analysis . SAMPLE/ % WT LOSS

  4. Coastal Change Analysis Program (C-CAP) High Resolution Land Cover and Change Data

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — The NOAA Coastal Change Analysis Program (C-CAP) produces national standardized high resolution land cover and change products for the coastal regions of the U.S....

  5. Search for extraterrestrial intelligence/High Resolution Microwave Survey team member

    Science.gov (United States)

    Steffes, Paul G.

    1994-01-01

    This final report summarizes activities conducted during the three years of the NASA High Resolution Microwave Survey (HRMS). With primary interest in the Sky Survey activity, the principal investigator attended nine Working Group meetings and traveled independently to conduct experiments or present results at other meetings. The major activity involved evaluating the effects of spaceborne radio frequency interference (RFI) on both the SETI sky survey and targeted search. The development of a database of all unclassified earth or biting and deep space transmitters, along with accompanying search software, was a key accomplishment. The software provides information about potential sources of interference and gives complete information regarding the frequencies, positions and levels of interference generated by the spacecraft. A complete description of this search system (called HRS, or HRMS RFI Search) is provided. Other accomplishments include development of a 32,000 channel Fast-Fourier-Transform Spectrum analyzer for use in studies of interference from satellites and in a 1.4 mm SETI observational study. The latest revision of HRS has now been distributed to the extended radio astronomy and SETI community.

  6. Analysis of isoplanatic high resolution stellar fields by Starfinder code

    CERN Document Server

    Diolaiti, E; Bonaccini, D; Close, L M; Currie, D; Parmeggiani, G

    2000-01-01

    We describe a new code for the deep analysis of stellar fields, designed for Adaptive Optics Nyquist-sampled images with high and low Strehl ratio. The Point Spread Function is extracted directly from the image frame, to take into account the actual structure of the instrumental response and the atmospheric effects. The code is written in IDL language and organized in the form of a self-contained widget-based application, provided with a series of tools for data visualization and analysis. A description of the method and some applications to AO data are presented.

  7. High Resolution Krylov Space 3-D Wavenumber-Frequency Analysis

    Science.gov (United States)

    2007-04-01

    wavenumber-frequency distri- bution of signal modes. That is, PPER (k, f, t) = eH(k) R̂[f, t] e(k). (3) Different from eq.(2), here R̂[f, t] is a time... PPER (k, f, t) frequency f w av en um be r k Capon wavenumber frequency analysis 0.4 0.5 0.6 0.7 0.8 0.9 1 0.5 0.4 0.3 0.2 0.1 0 0.1 0.2 0.3 0.4 0.5 30

  8. High-resolution photonic analysis with scanned probes

    Science.gov (United States)

    Wig, Andrew Gustaf

    Absorption spectroscopy is demonstrated to be feasible using a photon scanning tunneling microscope (PSTM) combined with a spectroscope. Methods of improving the spatial resolution and spectroscopic capabilities are studied in order to determine their potential practicability. Analysis of the photon scanning tunneling microscope (PSTM) and modifications made to the microscope are included with experimental results demonstrating certain image and spectral resolution capabilities. Results showing both the PSTM absorption spectra of gold island films and their independently acquired PSTM images are presented. An alternative scanning probe method involving photons is additionally examined. The new method is demonstrated to require specific improvements in order that it might provide a distinct improvement in resolution. The new type of scanning probe microscope is one utilizing nonlinear photonics: the nonlinear scanning tunneling microscope (NSTM). Basic results are described and two-photon fluorescence measurements are presented to demonstrate the principle of operation. In any scanned probe microscope or spectroscope, resolution is strongly dependent upon the characteristics of the signal as a function of distance to the sample and knowledge of these characteristics. The NSTM functionality is most dependent upon the sample-probe gap, but the gap also determines resolution in the PSTM. Hence measurements and calculations showing an analysis of the characteristics of the separation between the probe and sample surface are also presented.

  9. LSD-based analysis of high-resolution stellar spectra

    Science.gov (United States)

    Tsymbal, V.; Tkachenko, A.; Van, Reeth T.

    2014-11-01

    We present a generalization of the method of least-squares deconvolution (LSD), a powerful tool for extracting high S/N average line profiles from stellar spectra. The generalization of the method is effected by extending it towards the multiprofile LSD and by introducing the possibility to correct the line strengths from the initial mask. We illustrate the new approach by two examples: (a) the detection of astroseismic signatures from low S/N spectra of single stars, and (b) disentangling spectra of multiple stellar objects. The analysis is applied to spectra obtained with 2-m class telescopes in the course of spectroscopic ground-based support for space missions such as CoRoT and Kepler. Usually, rather high S/N is required, so smaller telescopes can only compete successfully with more advanced ones when one can apply a technique that enables a remarkable increase in the S/N of the spectra which they observe. Since the LSD profiles have a potential for reconstruction what is common in all the spectral profiles, it should have a particular practical application to faint stars observed with 2-m class telescopes and whose spectra show remarkable LPVs.

  10. A High-resolution Seismic Reflection Survey at the Hanford Nuclear Site Using a Land Streamer

    Science.gov (United States)

    Hyde, E. R.; Speece, M. A.; Link, C. A.; Repasky, T.; Thompson, M.; Miller, S.; Cummins, G.

    2009-12-01

    From the 1940s through the mid 1990s, radioactively and chemically contaminated effluent waste was released into the ground at the Hanford Nuclear Site. Currently, Hanford is the site of a large-scale and ongoing environmental cleanup effort which includes the remediation of contaminated ground water. Identifying preferential pathways of groundwater contaminant flow is critical for the groundwater cleanup effort. During the summer of 2009, Montana Tech, in collaboration with the Confederated Tribes of the Umatilla Indian Reservation, collected a high resolution shallow seismic survey on the Hanford Central Plateau near the Gable Gap area of the Hanford Nuclear site. The goal of the survey was to demonstrate the feasibility of using a land streamer/gimbaled geophone acquisition approach to image the basalt bedrock topography. The survey objective is to improve the understanding of the subsurface water flow by identifying the topography of the basement basalt and possible erosional channels created during the Missoula flood events. Data was collected for a total of eight 2D lines with a combined length of about 11 km with a coverage area of approximately 6 sq.km. The profiles were aligned in north-south and east-west intersecting lines with a total of 5 profile intersections. The survey used a 227 kg accelerated weight drop and a 96-channel land streamer. The land streamer used gimbaled geophones with 2 m spacing. Source spacing was also 2 m for a nominal fold of 48. The rapid deployment land streamer, compared to conventional spiked geophones, significantly increased production in this off-road application. Typically, between 45 and 55 stations could be shot per hour in a pull and shoot approach. Deployment of the land streamer required about 45 minutes and about 30 minutes was required to shut down the survey. The survey successfully imaged the top of the basalt and demonstrated that a land streamer can produce quality seismic data in this area. The basalt bedrock

  11. High resolution seismic survey, Pen Branch Fault, Savannah River Site, South Carolina

    Energy Technology Data Exchange (ETDEWEB)

    Berkman, E. (Emerald Exploration Consultants, Inc., Austin, TX (United States))

    1991-04-01

    An investigation of the Pen Branch Fault at the Savannah River Site by a series of short, high resolution seismic reflection lines was conducted. The purpose was to acquire, process, and interpret 19.9 miles of data, optimized for the upper 300 ft of geologic strata, in sufficient density such that processing performed in the conventional stepwise approach, followed by detailed interpretation, would define small scale spatial variability and structural features in the vicinity of the fault leading to definition of the location of the fault, the shallowest extent of the fault, and the quantification of the sense and magnitude of motion. The depth of optimization for the last two lines was modified to the 300 ft of geologic strata immediately above basement. Three older seismic surveys, other geophysical data, and associated borehole and geologic data were reviewed. The equipment and the acquisition, processing, and interpretation procedures are discussed in the report. The report includes a detailed line by line description and discussion of the interpretation. Figures include reference maps, contour displays of the stacking and interval velocities, diagrammatic references sketches of the interpreted layering and sedimentary features, index sketches, and specific color prints made on the workstation during the course of the interpretation. A volume of manuals on seismic devices and related equipment is included.

  12. High resolution seismic survey, Pen Branch Fault, Savannah River Site, South Carolina. Final report

    Energy Technology Data Exchange (ETDEWEB)

    Berkman, E. [Emerald Exploration Consultants, Inc., Austin, TX (United States)

    1991-04-01

    An investigation of the Pen Branch Fault at the Savannah River Site by a series of short, high resolution seismic reflection lines was conducted. The purpose was to acquire, process, and interpret 19.9 miles of data, optimized for the upper 300 ft of geologic strata, in sufficient density such that processing performed in the conventional stepwise approach, followed by detailed interpretation, would define small scale spatial variability and structural features in the vicinity of the fault leading to definition of the location of the fault, the shallowest extent of the fault, and the quantification of the sense and magnitude of motion. The depth of optimization for the last two lines was modified to the 300 ft of geologic strata immediately above basement. Three older seismic surveys, other geophysical data, and associated borehole and geologic data were reviewed. The equipment and the acquisition, processing, and interpretation procedures are discussed in the report. The report includes a detailed line by line description and discussion of the interpretation. Figures include reference maps, contour displays of the stacking and interval velocities, diagrammatic references sketches of the interpreted layering and sedimentary features, index sketches, and specific color prints made on the workstation during the course of the interpretation. A volume of manuals on seismic devices and related equipment is included.

  13. New insights from high resolution bathymetric surveys in the Panarea volcanic complex (Aeolian Islands, Italy)

    Science.gov (United States)

    Anzidei, M.; Esposito, A.

    2003-04-01

    During November 2002 the portion of the Panarea volcanic complex (Aeolian Islands, Italy), which includes the islets of Dattilo, Panarelli, Lisca Bianca, Bottaro and Lisca Nera, experienced an intense submarine gaseous exhalation that produced a spectacular submarine fumarolic field. The submarine volcanic activity of the Aeolian area was already known during historical times by Tito Livio, Strabone and Plinio (SGA, 1996), that reported exhalation episodes and submarine eruptions. During the last decade geological, structural, geochemical and volcanological studies performed on the Panarea volcanic complex, evidenced a positive gravimetric anomaly, tectonic discontinuities and several centres of geothermal fluid emission (Barberi et al., 1974; Lanzafame and Rossi, 1984; Bellia et al., 1986; Gabianelli et al., 1990; Italiano and Nuccio, 1991; Calanchi et al., 1995,1999). With the aim to estimate the crustal deformation of the submarine area of the archipelago, connected with the exhalation activity, we produced a detailed Marine Digital Terrain Model (MDTM) of the seafloor by means of a high resolution bathymetric survey. We used the multi beam technique coupled with GPS positioning in RTK mode. We obtained a MDTM with an average pixel of 0.5 m. Our MDTM allowed to estimate the location, deep, shape and size of the exhalation centres and seafloor morphological-structural features, opening new questions for the evaluation of the volcanic hazard of Panarea area which date is still debated.

  14. KH-10-5 High-Resolution MCS Survey Off Northwest Sumatra

    Science.gov (United States)

    Hirata, K.; Rahardiawan, R.; Misawa, A.; Udrekh, U.; Seeber, L.; Baba, H.; Adachi, K.; Sarukawa, H.; Kinoshita, M.; Fujiwara, T.; Arai, K.; Tokuyama, H.; Nakamura, Y.; Permana, H.; Djajadihardja, Y. S.

    2011-12-01

    A huge ocean-wide tsunami, with average heights of more than 20 meters along the west coast of the northern tip of Sumatra followed the 2004 Sumatra-Andaman earthquake (Mw9.2). Several working hypotheses have been proposed, but the generation mechanism for this tsunami remains unresolved. Most of these hypotheses suggest a possible coseismic slip on splay faults in the outer-arc-high off northwest Sumatra [e.g., Sibuet et al., 2007]. Among these splay faults, the Middle Thrust (or possibly the Lower Thrust), can best account for features of the Indian Ocean tsunamis observed at regional and ocean-wide distances [Hirata et al., 2008]. To map geological structures that may be contributed by splay fault displacements, we surveyed bathymetry offshore northern Sumatra in 2009. The aim of that survey was to identify a fault trace that could be considered a candidate for the Middle Thrust. In 2010, we have conducted KH-10-5 high-resolution MCS survey of the likely source region for the tsunami with JAMSTEC R/V Hakuho-Maru. The specification of the MCS survey are; GI-gun, G=45 cuin and I=105 cuin; every 10 sec shooting; a 1,200 m-long, 48 channel solid streamer cable.; ship speed 4 knots. We designed the acoustic survey lines to cross a series of ridges and troughs parallel to the local trench axis and hence to sample fault traces that are candidates of the Main Thrust, the Lower Thrust, the Middle Thrust, the Upper Thrust in the outer-arc high. Approx. 480 n.m. long of MCS data were acquired during the cruise. We could obtain clear images down to about 1.5 sec (TWT) in the trench fill and a maximum of about 1 sec (TWT) in small troughs in the outer-arc high. In Lines 5 and 6, a kink folding and landward vergent backthrusts were identified near the trench. Many of the small basins on the outer-arc high show deformed sediment layer structures, indicating either folding or faulting. Many SBP profiles also show deformation pattern in the uppermost sediment layers that are

  15. Sediment transport and erosional processes of a mountain bedrock channel using high-resolution topographic surveys

    Science.gov (United States)

    Yin, Yu-Hsuan; Shyu, J. Bruce H.

    2017-04-01

    In recent years, spatial information with high resolution and accuracy have become widely available, thanks to the rapid technological developments. Such data have been applied in a variety of topics, including the digitization and monitoring of outcrops and the construction of digital elevation models (DEMs) of landscapes. In fluvial geomorphology, it is critical to understand the sediment transport and erosional processes of bedrock channels, but previously this is generally done using computer numerical simulations or minimized experiments. Therefore, this study intends to observe in situ fluvial sediment transport and erosional processes using terrestrial laser scanning (also called "ground LiDAR") and structure-from-motion (SfM) photogrammetry in a mountain bedrock channel in eastern Taiwan. Along the Swallow Grotto (Yanzikou) section of the Liwu River, there are many large boulders with different sizes that are up to more than ten meters. Most of these boulders came from rock fall events of a nearby tributary, and are gneiss in composition, distinctively different from the bedrock of the river channel (marble). Thus in this study, we chose these boulders as our survey targets. We applied ground LiDAR survey to observe the movement of the boulders, and to understand the transportation threshold of sediments under different flow conditions. For those giant boulders that do not seem to be moveable under regular fluvial conditions, we suspect that bedrock erosional processes apply to them. We then used SfM photogrammetry to monitor the erosion of particular boulders. By constructing 3D models of the boulders before and after flooding events, we will be able to analyze the amount and location of erosion occurred on the boulders. Combining these different datasets and results, we hope to further understand the sediment transport and erosional processes of bedrock channels.

  16. Total lineshape analysis of high-resolution NMR spectra powered by simulated annealing

    Science.gov (United States)

    Cheshkov, D. A.; Sinitsyn, D. O.; Sheberstov, K. F.; Chertkov, V. A.

    2016-11-01

    The novel algorithm for a total lineshape analysis of high-resolution NMR spectra has been developed. A global optimization by simulated annealing has been applied that has allowed to overcome the main trouble of common approaches which had frequently returned solutions for local minima rather than for global ones. The algorithm has been verified for the four-spin test systems ABCD, and has been successfully used for analysis of experimental NMR spectra of proline. The approach has allowed to avoid a sophisticated manual setup of initial parameters and to conduct the analysis of complicated high-resolution NMR spectra nearly automatically.

  17. 13C labeling analysis of sugars by high resolution-mass spectrometry for metabolic flux analysis.

    Science.gov (United States)

    Acket, Sébastien; Degournay, Anthony; Merlier, Franck; Thomasset, Brigitte

    2017-02-14

    Metabolic flux analysis is particularly complex in plant cells because of highly compartmented metabolism. Analysis of free sugars is interesting because it provides data to define fluxes around hexose, pentose, and triose phosphate pools in different compartment. In this work, we present a method to analyze the isotopomer distribution of free sugars labeled with carbon 13 using a liquid chromatography-high resolution mass spectrometry, without derivatized procedure, adapted for Metabolic flux analysis. Our results showed a good sensitivity, reproducibility and better accuracy to determine isotopic enrichments of free sugars compared to our previous methods [5, 6].

  18. High-resolution seafloor mapping surveys over the San Gregorio-Palo Colorado Fault

    Science.gov (United States)

    Paull, C. K.; Caress, D. W.; Thomas, H.; Lundsten, E.; Anderson, K.; Gwiazda, R.

    2011-12-01

    The San Gregorio-Palo Colorado Fault (SGPCF) is mapped as traversing the outer end of Monterey Bay and crossing Monterey Canyon near its intersection with Carmel Canyon. The location of the fault is based on offsets in seismic reflection profiles, lineations in the bathymetry, and locations of epicenters associated with small earthquakes. However, much of the offshore area where the trace of the SGPCF is postulated to be located is sediment bare, making it difficult to determine if there has been recent movement along this segment of the fault. High-resolution multibeam bathymetry (vertical precision of 0.15 m and horizontal resolution of 1.0 m) and 1-4.5 kHz chirp seismic reflection profiles have recently been collected in up to 1.6 km water depths on the northern flank of Monterey Canyon where the SGPCF is thought to cut across the canyon wall. The objective of these surveys was to look for indications of recent deformation associated with the SGPCF where accumulations of sediments could provide evidence of seafloor displacement along this segment of the fault since these sediments have been deposited. The surveys were conducted using an autonomous underwater vehicle (AUV) during two 17.5-hour-long dives. An inertial navigation system combined with a Doppler velocity sonar allowed the AUV to fly pre-programmed grids at 3 knots while maintaining an altitude of 50 m above the seafloor. These surveys are in addition to other recently published AUV surveys of the floor of Monterey Canyon extending out to 2.2 km water depths and including the zone where the SGPCF is mapped to cross the canyon floor. The lack of clear evidence of fault deformation along the SGPCF trace on the canyon floor is easily attributable to frequent sediment transport events within the canyon's channel, which would presumably overwrite sediment deformation associated with the SGPCF. The surveys presented here extend above the active canyon floor and cover the northern flank of Monterey Canyon

  19. Analysis of open-pit mines using high-resolution topography from UAV

    Science.gov (United States)

    Chen, Jianping; Li, Ke; Sofia, Giulia; Tarolli, Paolo

    2015-04-01

    Among the anthropogenic topographic signatures on the Earth, open-pit mines deserve a great importance, since they significantly affect the Earth's surface and its related processes (e.g. erosion, pollution). Their geomorphological analysis, therefore, represents a real challenge for the Earth science community. The purpose of this research is to characterize the open-pit mining features using a recently published landscape metric, the Slope Local Length of Auto-Correlation (SLLAC) (Sofia et al., 2014), and high-resolution DEMs (Digital Elevation Models) derived from drone surveyed topography. The research focuses on two main case studies of iron mines located in the Beijing district (P.R. China). The main topographic information (Digital Surface Models, DSMs) was derived using Unmanned Aerial Vehicle (UAV) and the Structure from Motion (SfM) photogrammetric technique. The results underline the effectiveness of the adopted methodologies and survey techniques in the characterization of the main geomorphic features of the mines. Thanks to the SLLAC, the terraced area given by multi-benched sideways-moving method for the iron extraction is automatically depicted, and using some SLLAC derived parameters, the related terraces extent is automatically estimated. The analysis of the correlation length orientation, furthermore, allows to identify the terraces orientation respect to the North, and to understand as well the shape of the open-pit area. This provides a basis for a large scale and low cost topographic survey for a sustainable environmental planning and, for example, for the mitigation of environmental anthropogenic impact due to mining. References Sofia G., Marinello F, Tarolli P. 2014. A new landscape metric for the identification of terraced sites: the Slope Local Length of Auto-Correlation (SLLAC). ISPRS Journal of Photogrammetry and Remote Sensing, doi:10.1016/j.isprsjprs.2014.06.018

  20. High resolution detection and analysis of CpG dinucleotides methylation using MBD-Seq technology.

    Directory of Open Access Journals (Sweden)

    Xun Lan

    Full Text Available Methyl-CpG binding domain protein sequencing (MBD-seq is widely used to survey DNA methylation patterns. However, the optimal experimental parameters for MBD-seq remain unclear and the data analysis remains challenging. In this study, we generated high depth MBD-seq data in MCF-7 cell and developed a bi-asymmetric-Laplace model (BALM to perform data analysis. We found that optimal efficiency of MBD-seq experiments was achieved by sequencing ∼100 million unique mapped tags from a combination of 500 mM and 1000 mM salt concentration elution in MCF-7 cells. Clonal bisulfite sequencing results showed that the methylation status of each CpG dinucleotides in the tested regions was accurately detected with high resolution using the proposed model. These results demonstrated the combination of MBD-seq and BALM could serve as a useful tool to investigate DNA methylome due to its low cost, high specificity, efficiency and resolution.

  1. A DFB Fiber Laser Sensor System with Ultra-High Resolution and Its Noise Analysis

    Institute of Scientific and Technical Information of China (English)

    Hao Xiao; Fang Li; Jun He; Yu-Liang Liu

    2008-01-01

    A distributed feedback fiber laser (DFB FL) sensor system with ultra-high resolution is described. The sensor is made by writing distributed feedback structures into a high gain active fiber, and the system employs an unbalanced Michelson interferometer to translate laser wavelength shifts induced by weak measurands into phase shifts. A digital phase generated carrier demodulation scheme is introduced to achieve ultra-high resolution interrogation. A detailed noise analysis of the system is presented, and it is shown that the system resolution is limited by the frequency noise of the DFB FL.

  2. First results of a high resolution reflection seismic survey of the Central Northern Venezuelan Shelf

    Science.gov (United States)

    Avila, J.; van Welden, A.; Audemard, F.; de Batist, M.; Beck, C.; Scientific Party, G.

    2008-05-01

    In September - November 2007 the first high resolution marine seismic campaign on the North-Central coast of Venezuela was carried out between Cabo Codera and Golfo Triste. The principal aim of this work was to characterize the active San Sebastian Fault (SSF) and to analyze Cenozoic sedimentation on the Venezuela shelf focusing on: i) effects of active tectonics and ii) coastal landslides/flashflood deposits related to 1999 Vargas catastrophic event or to similar phenomena. Data were acquired onboard R/V GUAIQUERI II from the Oceanographic Institute of the Oriente University. The seismic source was a "CENTIPEDE" sparker (RCGM) operated between 300 and 600 J, 1.3 kHz main frequency. We used a single-channel streamer with 10 hydrophones. In total, 49 seismic profiles were collected, with a cumulative length of 1000 km approximately. In these seismic profiles we identified and separated the deposits into three main units. Unit (U1) comprises low energy reflectors mainly dipping in southward direction (i.e. toward the coast bounded by the San Sebastian Fault). This unit also includes a number of isolated acoustic anomalies, which we tentatively interpret as coral reefs. Its top is defined as Basal Erosional Discontinuity (BED) onto which Unit 2 (U2) deposits are onlapping. U2 is acoustically well-stratified, with strong reflectors. Gradual variations in thickness and a wavy configuration allow us to interpret U2 as probably Quaternary current-related deposits. Last Unit (U3) was defined on the Venezuela shelf and corresponds to prograding sequences probably related to the terrigenous input of the Tuy River. Impact of eustatic fluctuations on these deposits are discussed. The data were also used to construct a simplified bathymetry of the studied area. The lateral transition from the western Cariaco-Tuy pull-apart basin to the (single) SSF was clearly imaged (mostly folds and gravity faults). The survey also displayed prograding sediments bodies in La Tortuga Shelf

  3. High-resolution Behavioral Economic Analysis of Cigarette Demand to Inform Tax Policy

    Science.gov (United States)

    MacKillop, James; Few, Lauren R.; Murphy, James G.; Wier, Lauren M.; Acker, John; Murphy, Cara; Stojek, Monika; Carrigan, Maureen; Chaloupka, Frank

    2012-01-01

    Aims Novel methods in behavioral economics permit the systematic assessment of the relationship between cigarette consumption and price. Toward informing tax policy, the goals of this study were to conduct a high-resolution analysis of cigarette demand in a large sample of adult smokers and to use the data to estimate the effects of tax increases in ten U.S. States. Design In-person descriptive survey assessment. Setting Academic departments at three universities. Participants Adult daily smokers (i.e., 5+ cigarettes/day; 18+ years old; ≥8th grade education); N = 1056. Measurements Estimated cigarette demand, demographics, expired carbon monoxide. Findings The cigarette demand curve exhibited highly variable levels of price sensitivity, especially in the form of ‘left-digit effects’ (i.e., very high price sensitivity as pack prices transitioned from one whole number to the next; e.g., $5.80-$6/pack). A $1 tax increase in the ten states was projected to reduce the economic burden of smoking by an average of $531M (range: $93.6M-$976.5M) and increase gross tax revenue by an average of 162% (range: 114%- 247%). Conclusions Tobacco price sensitivity is nonlinear across the demand curve and in particular for pack-level left-digit price transitions. Tax increases in U.S. states with similar price and tax rates to the sample are projected to result in substantial decreases in smoking-related costs and substantial increases in tax revenues. PMID:22845784

  4. A Survey of Large High-Resolution Display Technologies, Techniques, and Applications

    Science.gov (United States)

    2006-03-01

    must send the entire image to a compositor . This taxonomy is generally conceived as considering a single, multi- processor machine, but it applies...Cosmos. In VSMM, 1998. (C1) (C2) (C3) Figure C1: Los Alamos National Laboratory’s ultra high-resolution immersive room—La Cueva Grande [34]—developed by

  5. Development of measurement apparatus for high resolution electrical surveys; Komitsudo denki tansa sokuteiki no kaihatsu

    Energy Technology Data Exchange (ETDEWEB)

    Moriuchi, H.; Matsuda, Y.; Shiokawa, Y. [Sumiko Consultants Co. Ltd., Tokyo (Japan); Uchino, Y. [Cosmic Co. Ltd., Tokyo (Japan)

    1996-05-01

    For the enforcement of the {rho}a-{rho}u survey method which is a type of high-density electrical survey, a multichannel resistivity measuring instrument has been developed. This instrument, in addition to the above, conducts resistivity tomography and various other kinds of high-density electrical survey. A potential produced by a low frequency rectangular current of 1Hz or lower outputted by the transmitter of this instrument is received and measured by the receiver connected to electrodes positioned at 100 or less locations. The receiver comprises a scanner that automatically switches from electrode to electrode, conditioner that processes signals, and controller. A transmitter of the standard design outputs a maximum voltage of 800V and maximum current of 2A, making a device suitable for probing 50 to several 100m-deep levels. The receiver is operated by a personal computer that the controller is provided with. The newly-developed apparatus succeeded in presenting high-precision images of the result of a {rho}a-{rho}u analysis for an apparent resistivity section and of the underground structure, verifying the high quality of the data collected by this apparatus. 10 refs., 5 figs., 1 tab.

  6. High Resolution Melting Analysis for fast and cheap polymorphism screening of marine populations

    OpenAIRE

    sprotocols

    2015-01-01

    Authors: Anne-Leila Meistertzheim, Isabelle Calves, Sébastien Artigaud, Carolyn S. Friedman, Christine Paillard, Jean Laroche & Claude Ferec ### Abstract This protocol permits the mutation scanning of PCR products by high-resolution DNA melting analysis requiring the inclusion of a saturating intercalating dye in the PCR mix without labelled probe. During a scanning process, fluorescent melting curves of PCR amplicons are analyzed. Mutations modifying melting curve shapes, are all...

  7. High Resolution Melting Analysis for fast and cheap polymorphism screening of marine populations

    OpenAIRE

    sprotocols

    2015-01-01

    Authors: Anne-Leila Meistertzheim, Isabelle Calves, Sébastien Artigaud, Carolyn S. Friedman, Christine Paillard, Jean Laroche & Claude Ferec ### Abstract This protocol permits the mutation scanning of PCR products by high-resolution DNA melting analysis requiring the inclusion of a saturating intercalating dye in the PCR mix without labelled probe. During a scanning process, fluorescent melting curves of PCR amplicons are analyzed. Mutations modifying melting curve shapes, are all...

  8. Geomorphological diversity of Dong-Sha Atoll based on spectrum and texture analysis in high resolution remote sensing imagery

    Science.gov (United States)

    Chen, Jianyu; Mao, Zhihua; He, Xianqiang

    2009-01-01

    Coral reefs are complex marine ecosystems that are constructed and maintained by biological communities that thrive in tropical oceans. The Dong-Sha Atoll is located at the northern continental margin of the South China Sea. It has being abused by destructive activity of human being and natural event during recent decades. Remote sensing offers a powerful tool for studying coral reef geomorphology and is the most cost-effective approach for large-scale reef survey. In this paper, the high-resolution Quickbird2 imageries which covered the full atoll are used to categorize the current distribution of coral reefs geomorphological structure therein with the auxiliary SPOT5 and ASTER imageries. Spectral and texture analysis are used to distinguish the geomorphological diversity during data processing. The Gray Level Co-occurrence Matrices is adopted for texture feature extraction and atoll geomorphology mapping in the high-resolution pan-color image of Quickbird2. Quickbird2 is considered as the most appropriate image source for coral reefs studies. In the Dong-Sha Atoll, various dynamical geomorphologic units are developed according to wave energy zones. There the reef frame types are classified to 3 different types according as its diversity at the image. The radial structure system is the most characteristic and from high resolution imagery we can distinguish the discrepancy between them.

  9. Interpretation of high-resolution low-altitude helicopter magnetometer surveys over sites contaminated with unexploded ordnance

    Science.gov (United States)

    Billings, Stephen; Wright, David

    2010-12-01

    Throughout the world, millions of acres of potentially productive land are contaminated with unexploded ordnance due to either past conflicts or to military training activities. Low-level helicopter magnetometry (HeliMag) is currently being used to rapidly survey large areas and identify regions that are potentially clear of hazardous munitions. One configuration currently in use comprises seven cesium vapor magnetometers, horizontally spaced 1.5 m apart and mounted on a boom several meters in front of a Bell 206L helicopter. Magnetometer data are collected at 400 Hz at altitudes as low as 1.5 m above the ground along transects spaced 7 meters apart. From this dense, high-resolution data, potential metallic targets as small as a 60 mm mortar are identified using manual and/or automatic target picking methods. The target picks are then used to estimate densities of potential contamination. 100% detection is generally not feasible, so that HeliMag is usually applied in a characterization rather than in a clearance mode. We describe a HeliMag survey collected over a UXO contaminated site at Yekau Lake, near Edmonton, Canada. The objective was to identify the location and extent of an 11.5 pound bomb target area at a former training range. The target density estimates derived from manual picks were strongly influenced by geology and clutter and did not reflect the underlying density of ordnance and ordnance related clutter. By fitting a dipole model to each target pick, and comparing it to the expected response of the target item, we could estimate the density of objects with similar size/shape to an 11.5 pound bomb. This analysis clearly identified an area of elevated contamination in the same region where 11.5 pound bombs were found during ground reconnaissance. In summary, the new methodology significantly improves the interpretability of HeliMag data when used for UXO site assessment.

  10. Dynamic Feedbacks Between Flow, Erosion and Evolving River Bank Roughness Revealed Through Repeat High-Resolution Topographic Surveys

    Science.gov (United States)

    Leyland, J.; Darby, S. E.; Rinaldi, M.; Teruggi, L. B.; Ostuni, D.

    2012-12-01

    Bank erosion is a key process in fluvial dynamics, with significant fractions of the total sediment load being sourced from river banks. Studies have shown that hydraulic erosion of the bank toe is a driving factor of long term rates of bank retreat. Fluvial bank erosion rates are often quantified using an excess shear stress model where the erosion rate is a function of the boundary shear stress applied by the flow above a critical threshold. Research has shown that the form roughness induced by natural topographic bank features such as slumps, spurs and embayments, is a major component of the spatially-averaged total shear stress. The skin friction component of this shear stress is typically an order of magnitude less than the total, meaning that the form roughness provides an important control on bank erosion rates. However, measuring the relative components of the total shear stress for a natural system is not straightforward. In this research we apply the method of Kean and Smith [2006, J. Geophys. Res., 111(4), F04009, doi:10.1029/2006JF000467] to partition the form and skin drag components of river bank roughness for an eroding bank of the Cecina River in central Italy. This method approximates the form drag component of the roughness along a longitudinal bank profile as a series of user defined Gaussian curves, with the skin friction component estimated through analysis of the deviations of the data from the fitted curves. For our site, a temporal sequence (2003 - 2011) of high-resolution topographic surveys has been collected through a combination of photogrammetry and Terrestrial Laser Scanning. For each survey five vertically equidistant profiles are extracted and analysed alongside DEMs of difference and associated flow data modelled using the distributed hydrological model MOBIDIC. The data are used to explore the dynamic feedbacks that exist between river discharge, bank erosion processes and bank form roughness, revealing insights into the self

  11. High resolution spectroscopic analysis of seven giants in the bulge globular cluster NGC 6723

    CERN Document Server

    Rojas-Arriagada, A; Vásquez, S; Ripepi, V; Musella, I; Marconi, M; Grado, A; Limatola, L

    2016-01-01

    Globular clusters associated with the Galactic bulge are important tracers of stellar populations in the inner Galaxy. High resolution analysis of stars in these clusters allows us to characterize them in terms of kinematics, metallicity, and individual abundances, and to compare these fingerprints with those characterizing field populations. We present iron and element ratios for seven red giant stars in the globular cluster NGC~6723, based on high resolution spectroscopy. High resolution spectra ($R\\sim48~000$) of seven K giants belonging to NGC 6723 were obtained with the FEROS spectrograph at the MPG/ESO 2.2m telescope. Photospheric parameters were derived from $\\sim130$ FeI and FeII transitions. Abundance ratios were obtained from line-to-line spectrum synthesis calculations on clean selected features. An intermediate metallicity of [Fe/H]$=-0.98\\pm0.08$ dex and a heliocentric radial velocity of $v_{hel}=-96.6\\pm1.3~km s^{-1}$ were found for NGC 6723. Alpha-element abundances present enhancements of $[O/...

  12. [The rapid analysis of polychlorinated quaterphenyls in blood using different diameter capillary column with the high-resolution gas chromatograph high-resolution mass spectrometer].

    Science.gov (United States)

    Yasutake, Daisuke; Ashizuka, Yuki; Hori, Tsuguhide; Kurokawa, Youichi; Kajiwara, Jumboku; Hirata, Teruaki; Ishiguro, Yasuhisa; Iida, Takao; Uchi, Hiroshi; Furue, Masutaka

    2011-04-01

    The polychlorinated quaterphenyl (PCQ) concentrations in blood are important discriminative parameters in yusho patient. In this study, a rapid analytical method for PCQ using different diameter capillary column (rapid-Rtx65TG) with high-resolution gas chromatograph high-resolution mass spectrometer (HRGC/HRMS) instead of the gas chromatograph electron capture detector (ECD/GC) was developed. Using different diameter capillary columns, the analysis time of the HRGC/HRMS was drastically shortened, and the detection sensitivity was improved. In the rapid-Rtx65TG column, a small-bore capillary column (length 1m, I.D. 0.1mm) was connected with the inlet side of the GC, and behind that column, a large-bore capillary column (length 15mm, I.D. 0.53mm) for octadecachloroquaterphenyl (ODCQ) analysis was connected. In the HRGC/HRMS measurement of ODCQ by the rapid-Rtx65TG column, the minimum limit of detection for the apparatus was 0.4 pg, and the minimum limit of determination for the blood was 0.008 ppb. On ECD/GC in the conventional method and HRGC/HRMS in this study, the PCQ concentration in blood including yusho patients and yusho suspected persons was almost equivalent.

  13. Trends in 100m Wind Speed using Global High-Resolution Downscaled Analysis

    Science.gov (United States)

    McGraw, Z.

    2015-12-01

    The strength and variability of the wind energy resource are expected to be susceptible to the complex changes undergoing Earth's climate system. A variety of physical mechanisms for long-term wind speed changes has been proposed, including modified temperature gradients, shifting storm tracks and altered land use. This study is an analysis of multi-decadal wind speed trends within a high-resolution downscaled global analysis provided by our collaborators at Vestas Wind Systems A/S. We have sought to identify the regions and landscape types that most exhibit long-term changes to wind speed and identify the mechanisms responsible.

  14. Sensitive quantitative analysis of murine LINE1 DNA methylation using high resolution melt analysis

    National Research Council Canada - National Science Library

    Newman, Michelle; Blyth, Benjamin J; Hussey, Damian J; Jardine, Daniel; Sykes, Pamela J; Ormsby, Rebecca J

    2012-01-01

    We present here the first high resolution melt (HRM) assay to quantitatively analyze differences in murine DNA methylation levels utilizing CpG methylation of Long Interspersed Elements-1 (LINE1 or L1...

  15. Improved protocol for rapid identification of certain spa types using high resolution melting curve analysis.

    Science.gov (United States)

    Mayerhofer, Benjamin; Stöger, Anna; Pietzka, Ariane T; Fernandez, Haizpea Lasa; Prewein, Bernhard; Sorschag, Sieglinde; Kunert, Renate; Allerberger, Franz; Ruppitsch, Werner

    2015-01-01

    Methicillin-resistant Staphylococcus aureus is one of the most significant pathogens associated with health care. For efficient surveillance, control and outbreak investigation, S. aureus typing is essential. A high resolution melting curve analysis was developed and evaluated for rapid identification of the most frequent spa types found in an Austrian hospital consortium covering 2,435 beds. Among 557 methicillin-resistant Staphylococcus aureus isolates 38 different spa types were identified by sequence analysis of the hypervariable region X of the protein A gene (spa). Identification of spa types through their characteristic high resolution melting curve profiles was considerably improved by double spiking with genomic DNA from spa type t030 and spa type t003 and allowed unambiguous and fast identification of the ten most frequent spa types t001 (58%), t003 (12%), t190 (9%), t041 (5%), t022 (2%), t032 (2%), t008 (2%), t002 (1%), t5712 (1%) and t2203 (1%), representing 93% of all isolates within this hospital consortium. The performance of the assay was evaluated by testing samples with unknown spa types from the daily routine and by testing three different high resolution melting curve analysis real-time PCR instruments. The ten most frequent spa types were identified from all samples and on all instruments with 100% specificity and 100% sensitivity. Compared to classical spa typing by sequence analysis, this gene scanning assay is faster, cheaper and can be performed in a single closed tube assay format. Therefore it is an optimal screening tool to detect the most frequent endemic spa types and to exclude non-endemic spa types within a hospital.

  16. The role of integrated high resolution stratigraphic and geophysic surveys for groundwater modelling

    Directory of Open Access Journals (Sweden)

    S. Margiotta

    2008-10-01

    Full Text Available This work sets out a methodology of integrated geological, hydrogeological and geophysical surveys for the characterization of contaminated sites. The flow model of the shallow aquifer in the Brindisi area (recognized to be at significant environmental risk by the Italian government and the impact of an antrophic structure on the groundwater flow have been evaluated. The stratigraphic and hydrogeological targets used for the calibration phase of the flow model provide a means of assessing calibration quality. The good calibration of the model point out the key role of a detailed knowledge of the physical-stratigraphycal attributes of the area to be studied and field data collection. Geoelectrical tomography focus the attention on an area resulted of particular interest by the flow model obtained. This method permit to reconstruct in detail the lateral and vertical lithological variations in the geological formations improving the spatial resolution of the data and consequently the scale of observation. Besides, anomaly resistivity values have been correlated with pollution. Chemical analysis have confirmed this correlation.

  17. The role of integrated high resolution stratigraphic and geophysic surveys for groundwater modelling

    Science.gov (United States)

    Margiotta, S.; Mazzone, F.; Negri, S.; Calora, M.

    2008-10-01

    This work sets out a methodology of integrated geological, hydrogeological and geophysical surveys for the characterization of contaminated sites. The flow model of the shallow aquifer in the Brindisi area (recognized to be at significant environmental risk by the Italian government) and the impact of an antrophic structure on the groundwater flow have been evaluated. The stratigraphic and hydrogeological targets used for the calibration phase of the flow model provide a means of assessing calibration quality. The good calibration of the model point out the key role of a detailed knowledge of the physical-stratigraphycal attributes of the area to be studied and field data collection. Geoelectrical tomography focus the attention on an area resulted of particular interest by the flow model obtained. This method permit to reconstruct in detail the lateral and vertical lithological variations in the geological formations improving the spatial resolution of the data and consequently the scale of observation. Besides, anomaly resistivity values have been correlated with pollution. Chemical analysis have confirmed this correlation.

  18. High-resolution spectroscopic studies of ultra metal-poor stars found in LAMOST survey

    CERN Document Server

    Li, Haining; Zhao, Gang; Honda, Satoshi; Christlieb, Norbert; Suda, Takuma

    2015-01-01

    We report on the observations of two ultra metal-poor (UMP) stars with [Fe/H]~-4.0 including one new discovery. The two stars are studied in the on-going and quite efficient project to search for extremely metal-poor (EMP) stars with LAMOST and Subaru. Detailed abundances or upper limits of abundances have been derived for 15 elements from Li to Eu based on high-resolution spectra obtained with Subaru/HDS. The abundance patterns of both UMP stars are consistent with the "normal-population" among the low-metallicity stars. Both of the two program stars show carbon-enhancement without any excess of heavy neutron-capture elements, indicating that they belong to the subclass of CEMP-no stars, as is the case of most UMP stars previously studied. The [Sr/Ba] ratios of both CEMP-no UMP stars are above [Sr/Ba]~-0.4, suggesting the origin of the carbon-excess is not compatible with the mass transfer from an AGB companion where the s-process has operated. Lithium abundance is measured in the newly discovered UMP star L...

  19. High-Resolution Melt Analysis for Rapid Comparison of Bacterial Community Compositions

    DEFF Research Database (Denmark)

    Hjelmsø, Mathis Hjort; Hansen, Lars Hestbjerg; Bælum, Jacob

    2014-01-01

    and fertilization treatments. The HRM analysis identified a shift in the bacterial community composition in two of the treatments, both including the soil fumigant Basamid GR. These results were confirmed with both denaturing gradient gel electrophoresis (DGGE) analysis and 454-based 16S rRNA gene amplicon......In the study of bacterial community composition, 16S rRNA gene amplicon sequencing is today among the preferred methods of analysis. The cost of nucleotide sequence analysis, including requisite computational and bioinformatic steps, however, takes up a large part of many research budgets. High......-resolution melt (HRM) analysis is the study of the melt behavior of specific PCR products. Here we describe a novel high-throughput approach in which we used HRM analysis targeting the 16S rRNA gene to rapidly screen multiple complex samples for differences in bacterial community composition. We hypothesized...

  20. Technique for continuous high-resolution analysis of trace substances in firn and ice cores

    Energy Technology Data Exchange (ETDEWEB)

    Roethlisberger, R.; Bigler, M.; Hutterli, M.; Sommer, S.; Stauffer, B.; Junghans, H.G.; Wagenbach, D.

    2000-01-15

    The very successful application of a CFA (Continuous flow analysis) system in the GRIP project (Greenland Ice Core Project) for high-resolution ammonium, calcium, hydrogen peroxide, and formaldehyde measurements along a deep ice core led to further development of this analysis technique. The authors included methods for continuous analysis technique. The authors included methods for continuous analysis of sodium, nitrate, sulfate, and electrolytical conductivity, while the existing methods have been improved. The melting device has been optimized to allow the simultaneous analysis of eight components. Furthermore, a new melter was developed for analyzing firn cores. The system has been used in the frame of the European Project for Ice Coring in Antarctica (EPICA) for in-situ analysis of several firn cores from Dronning Maud Land, Antarctica, and for the new ice core drilled at Dome C, Antarctica.

  1. Analysis of the high resolution Mg XI x-ray spectra

    Energy Technology Data Exchange (ETDEWEB)

    Siarkowski, M.; Sylwester, J. (Polska Akademia Nauk, Wroclaw. Centrum Badan Kosmicznych); Bromboszcz, G. (Wrolaw Univ. (Poland). Astronomical Inst.); Korneev, V.V.; Mandelshtam, S.L.; Oparin, S.N.; Urnov, A.M.; Zhitnik, I.A. (AN SSSR, Moscow. Fizicheskij Inst.); Vasha, S. (Mongolian Academy of Sciences, Ulan Bator (USSR). Inst. of Physics and Technics)

    1982-04-01

    In this paper, the second in a series dealing with high-resolution spectra (9.14-9.33 A) measured on board the INTERCOSMOS-16 satellite, the analysis of the physical conditions in the coronal part of the McMath 14352 active regions is performed. The temperature structure of the emitting plasma is investigated on the basis of the photon fluxes measured in six selected wavelength bands involving the resonance, intercombination, and forbidden lines of the Mg XI ion and a number of satellite lines. Relative line intensities are discussed in terms of the active region plasma density.

  2. Soot Nanostructure: Using Fringe Analysis Software on High Resolution Transmission Electron Microscopy of Carbon Soot

    Science.gov (United States)

    King, James D.

    2004-01-01

    Using high resolution transmission electron images of carbon nanotubes and carbon particles, we are able to use image analysis program to determine several carbon fringe properties, including length, separation, curvature and orientation. Results are shown in the form of histograms for each of those quantities. The combination of those measurements can give a better indication of the graphic structure within nanotubes and particles of carbon and can distinguish carbons based upon fringe properties. Carbon with longer, straighter and closer spaced fringes are considered graphite, while amorphous carbon contain shorter, less structured fringes.

  3. Optimization of High-Resolution Continuous Flow Analysis for Transient Climate Signals in Ice Cores

    DEFF Research Database (Denmark)

    Bigler, Matthias; Svensson, Anders; Kettner, Ernesto

    2011-01-01

    Over the past two decades, continuous flow analysis (CFA) systems have been refined and widely used to measure aerosol constituents in polar and alpine ice cores in very high-depth resolution. Here we present a newly designed system consisting of sodium, ammonium, dust particles, and electrolytic...... meltwater conductivity detection modules. The system is optimized for high- resolution determination of transient signals in thin layers of deep polar ice cores. Based on standard measurements and by comparing sections of early Holocene and glacial ice from Greenland, we find that the new system features...

  4. High Resolution 3D Earth Observation Data Analysis for Safeguards Activities

    OpenAIRE

    d'Angelo, Pablo; Rossi, Cristian; Minet, Christian; Eineder, Michael; Flory, Michael; Niemeyer, Irmgard

    2014-01-01

    This paper provides an overview of the investigations performed at DLR with respect to the application of high resolution SAR and optical data for 3D analysis in the context of Safeguards. The Research Center Jülich and the adjacent open cut mines were used as main test sites, and a comprehensive stack of ascending and descending TerraSAR data was acquired over two years. TerraSAR data acquisition was performed, and various ways to visualize and analyze stacks of radar images w...

  5. Analysis of Chinese women with primary ovarian insufficiency by high resolution array-comparative genomic hybridization

    Institute of Scientific and Technical Information of China (English)

    LIAO Can; FU Fang; YANG Xin; SUN Yi-min; LI Dong-zhi

    2011-01-01

    Background Primary ovarian insufficiency (POI) is defined as a primary ovarian defect characterized by absent menarche (primary amenorrhea) or premature depletion of ovarian follicles before the age of 40 years. The etiology of primary ovarian insufficiency in human female patients is still unclear. The purpose of this study is to investigate the potential genetic causes in primary amenorrhea patients by high resolution array based comparative genomic hybridization (array-CGH) analysis.Methods Following the standard karyotyping analysis, genomic DNA from whole blood of 15 primary amenorrhea patients and 15 normal control women was hybridized with Affymetrix cytogenetic 2.7M arrays following the standard protocol. Copy number variations identified by array-CGH were confirmed by real time polymerase chain reaction.Results All the 30 samples were negative by conventional karyotyping analysis. Microdeletions on chromosome 17q21.31-q21.32 with approximately 1.3 Mb were identified in four patients by high resolution array-CGH analysis. This included the female reproductive secretory pathway related factor N-ethylmaleimide-sensitive factor (NSF) gene.Conclusions The results of the present study suggest that there may be critical regions regulating primary ovarian insufficiency in women with a 17q21.31-q21.32 microdeletion. This effect might be due to the loss of function of the NSF gene/genes within the deleted region or to effects on contiguous genes.

  6. A high-resolution survey of interstellar Na I D1 lines

    Science.gov (United States)

    Welty, Daniel E.; Hobbs, L. M.; Kulkarni, Varsha P.

    1994-01-01

    We present high-resolution (0.5 km/s) spectra, obtained with the McDonald Observatory 2.7 m coude echelle spectrograph, of interstellar Na I D1 absorption toward 38 bright stars. Numerous narrow, closely blended absorption components, showing resolved Na I hyperfine structure, are evident in these spectra; such narrow components appear in both low halo and quite local gas, as well as in gas toward more distant disk stars. We have used the method of profile fitting in an attempt to determine column densities, line widths, and velocities for the individual interstellar clouds contributing to the observed absorption lines. The resulting sample of 276 clouds is significantly larger, and likely more complete, than several previous samples of 'individual' interstellar clouds, and allows more precise investigation of various statistical properties. We find that the cloud column density (N) and line width parameter (b) are not correlated, for 0.3 km/s approximately less than b approximately less than 1.5 km/s and 10.0/sq cm approximately less than log (N(Na I)) approximately less than 11.6/sq cm. The median b is about 0.73 km/s, the median log N is about 11.09/sq cm, and the median separation between adjacent components is about 2.0 km/s. All these are overestimates of the true median values, however, due to our inability to completely resolve all the component structure present in some cases; even at a resolution of 0.5 km/s, we may have discerned only 60% of the full number of individual components actually present. The one-dimensional dispersion of component velocities, in the local standard of rest, is approximately 8.6 km/s; the distribution of velocities is broader and displaced to more negative velocities for the weaker components. If 80 K is a representative temperature for the interstellar clouds seen in Na I absorption, then at least 38% (and probably the majority) of the clouds have subsonic internal turbulent motions. The range in N(H I) observed at a given N

  7. VLA-ANGST: A high-resolution HI Survey of Nearby Dwarf Galaxies

    CERN Document Server

    Ott, Juergen; Warren, Steven R; Skillman, Evan D; Dalcanton, Julianne J; Walter, Fabian; de Blok, W J G; Koribalski, Baerbel; West, Andrew A

    2012-01-01

    We present the "Very Large Array survey of Advanced Camera for Surveys Nearby Galaxy Survey Treasury galaxies (VLA-ANGST)." VLA-ANGST is a National Radio Astronomy Observatory Large Program consisting of high spectral (0.6-2.6 km/s) and spatial (~6") resolution observations of neutral, atomic hydrogen (HI) emission toward 35 nearby dwarf galaxies from the ANGST survey. ANGST is a systematic HST survey to establish a legacy of uniform multi-color photometry of resolved stars for a volume-limited sample of nearby galaxies (D\\lesssim4 Mpc). VLA-ANGST provides VLA HI observations of the sub-sample of ANGST galaxies with recent star formation that are observable from the northern hemisphere and that were not observed in the "The HI Nearby Galaxy Survey" (THINGS). The overarching scientific goal of VLA-ANGST is to investigate fundamental characteristics of the neutral interstellar medium (ISM) of dwarf galaxies. Here we describe the VLA observations, the data reduction, and the final VLA-ANGST data products. We pre...

  8. Image Segmentation By Cluster Analysis Of High Resolution Textured SPOT Images

    Science.gov (United States)

    Slimani, M.; Roux, C.; Hillion, A.

    1986-04-01

    Textural analysis is now a commonly used technique in digital image processing. In this paper, we present an application of textural analysis to high resolution SPOT satellite images. The purpose of the methodology is to improve classification results, i.e. image segmentation in remote sensing. Remote sensing techniques, based on high resolution satellite data offer good perspectives for the cartography of littoral environment. Textural information contained in the pan-chromatic channel of ten meters resolution is introduced in order to separate different types of structures. The technique we used is based on statistical pattern recognition models and operates in two steps. A first step, features extraction, is derived by using a stepwise algorithm. Segmentation is then performed by cluster analysis using these extracted. features. The texture features are computed over the immediate neighborhood of the pixel using two methods : the cooccurence matrices method and the grey level difference statistics method. Image segmentation based only on texture features is then performed by pixel classification and finally discussed. In a future paper, we intend to compare the results with aerial data in view of the management of the littoral resources.

  9. An EXES High-Resolution Molecular Line Survey towards Orion IRc2

    Science.gov (United States)

    Rangwala, Naseem

    High spectral resolution molecular line surveys provide a chemical inventory for star forming regions and are essential for studying their chemistry, kinematics and physical conditions. Previous surveys have been limited to radio, sub-mm and FIR wavelengths. In the mid-infrared (MIR), there has not been any line survey with high spectral resolution. MIR missions such as ISO and Spitzer had low to moderate resolving power that were only able to link broad features with particular molecular bands and could not resolve the individual rovibrational transitions needed to identify specific molecules with certainty. The EXES instrument is currently the only available (airborne or spaceborne) spectrograph that provides high spectral resolution in the MIR region. We propose to use EXES to conduct an unbiased molecular line survey towards Orion IRc2 from 6 - 28.5 microns with a S/N of better than 70 over 90% of the proposed bandpass. The survey (due to its higher resolving power; R = 50,000) will do 5 - 50 times better than ISO in detecting isolated, narrow lines. This will allow us to (a) resolve the rovibrational structure of the gas phase molecules in order to identify them, (b) resolve their kinematics, (c) detect new gas phase molecules that were missed by ISO, and (d) provide useful constraints on Orion's hot core chemistry as sampled by IRc2. The proposed observations will provide the best infrared measurements (to date) of molecular column densities and physical conditions - providing strong constraints on the current chemical network models for star forming regions. This survey will greatly enhance the inventory of resolved line features in the MIR, making it an invaluable reference to be used by the JWST and ALMA scientific communities. By waiving the proprietary period, this program will allow astronomers to exploit these data as soon as they become available.

  10. Solid-state fluoroscopic imager for high-resolution angiography: parallel-cascaded linear systems analysis.

    Science.gov (United States)

    Vedantham, Srinivasan; Karellas, Andrew; Suryanarayanan, Sankararaman

    2004-05-01

    Cascaded linear systems based modeling techniques have been used in the past to predict important system parameters that have a direct impact on image quality. Such models are also useful in optimizing system parameters to improve image quality. In this work, detailed analysis of a solid-state fluoroscopic imaging system intended for high-resolution angiography is presented with the use of such a model. The imaging system analyzed through this model uses four 8 x 8 cm three-side buttable interlined charge-coupled devices (CCDs) specifically designed for high-resolution angiography and tiled in a seamless fashion to achieve a field of view (FOV) of 16 x 16 cm. Larger FOVs can be achieved by tiling more CCDs in a similar manner. The system employs a CsI:Tl scintillator coupled to the CCDs by straight (nontapering) fiberoptics and can potentially be operated in 78, 156, or 234 microm pixel pitch modes. The system parameters analyzed through this model include presampling modulation transfer function, noise power spectrum, and detective quantum efficiency (DQE). The results of the simulations performed indicate that DQE(0) in excess of 0.6 is achievable, with the imager operating at 156 microm pixel pitch, 30 frames/s, and employing a 450-microm-thick CsI:Tl scintillator, even at a low fluoroscopic exposure rate of 1 microR/frame. Further, at a nominal fluoroscopic exposure rate of 2.5 microR/frame there was no noticeable degradation of the DQE even at the 78 microm pixel pitch mode suggesting that it is feasible to perform high-resolution angiography hitherto unattainable in clinical practice.

  11. High-resolution three-dimensional imaging and analysis of rock falls in Yosemite valley, California

    Science.gov (United States)

    Stock, Gregory M.; Bawden, G.W.; Green, J.K.; Hanson, E.; Downing, G.; Collins, B.D.; Bond, S.; Leslar, M.

    2011-01-01

    We present quantitative analyses of recent large rock falls in Yosemite Valley, California, using integrated high-resolution imaging techniques. Rock falls commonly occur from the glacially sculpted granitic walls of Yosemite Valley, modifying this iconic landscape but also posing signifi cant potential hazards and risks. Two large rock falls occurred from the cliff beneath Glacier Point in eastern Yosemite Valley on 7 and 8 October 2008, causing minor injuries and damaging structures in a developed area. We used a combination of gigapixel photography, airborne laser scanning (ALS) data, and ground-based terrestrial laser scanning (TLS) data to characterize the rock-fall detachment surface and adjacent cliff area, quantify the rock-fall volume, evaluate the geologic structure that contributed to failure, and assess the likely failure mode. We merged the ALS and TLS data to resolve the complex, vertical to overhanging topography of the Glacier Point area in three dimensions, and integrated these data with gigapixel photographs to fully image the cliff face in high resolution. Three-dimensional analysis of repeat TLS data reveals that the cumulative failure consisted of a near-planar rock slab with a maximum length of 69.0 m, a mean thickness of 2.1 m, a detachment surface area of 2750 m2, and a volume of 5663 ?? 36 m3. Failure occurred along a surfaceparallel, vertically oriented sheeting joint in a clear example of granitic exfoliation. Stress concentration at crack tips likely propagated fractures through the partially attached slab, leading to failure. Our results demonstrate the utility of high-resolution imaging techniques for quantifying far-range (>1 km) rock falls occurring from the largely inaccessible, vertical rock faces of Yosemite Valley, and for providing highly accurate and precise data needed for rock-fall hazard assessment. ?? 2011 Geological Society of America.

  12. High-Resolution Aeromagnetic Survey over the Yucatan Peninsula - Implications for Chicxulub Impact, Secondary Craters and Regional Crustal Structures

    Science.gov (United States)

    Fucugauchi, J. U.; Lopez-Loera, H.; Rebolledo-Vieyra, M.

    2011-12-01

    We present the initial results of a low-altitude high-resolution aeromagnetic study over the Yucatan peninsula. Area surveyed extends from 86W to 91W and 18N to 21N, covering the peninsula and adjacent continental margin of Gulf of Mexico and Caribbean Sea. Aeromagnetic surveys are integrated into a regional map, and regional and residual anomalies are separated using spectral and least-squares methods. For the study, aeromagnetic field was reduced to the pole and several data filtering techniques were used, including first and second vertical derivatives, analytical signal, and upward and downward analytical continuations. The region is characterized by large amplitude broad elongated magnetic anomalies oriented north-south in the northern sector of the continental shelf, and northwest-southeast and northeast-southwest over the western and eastern sides of the peninsula, respectively. Major regional anomalies extend from the continental shelf into the peninsula, whereas other anomaly trends in the central northern sector, at northeast limit of Chicxulub crater, are restricted to the shelf. Largest anomaly on the east extends over the Holbox fracture zone. At its southern end, south of Chetumal a parallel trend extends over the Rio Hondo fault zone between Quintana Roo and Belize. On the western peninsula the anomaly is characterized by two parallel trends offset between Yucatan and Campeche. The central zone of Chicxulub is characterized by a semi-circular anomaly pattern, surrounded by long wavelength small amplitude anomalies extending to the east on the peninsula and shelf, isolated from the regional broad anomalies. To the south of Chicxulub anomaly, there is an elongated low with a central high extending southward from the terrace zone inside the crater rim. The elongated magnetic anomaly correlates with a broad gravity low, which is apparent south of the concentric zone of anomalies. To the north of Chicxulub anomaly, a magnetic high inside the crater is

  13. Bivariable analysis of ventricular late potentials in high resolution ECG records

    Energy Technology Data Exchange (ETDEWEB)

    Orosco, L [Gabinete de TecnologIa Medica, Facultad de Ingenieria, Universidad Nacional de San Juan, San Juan (Argentina); Laciar, E [Gabinete de TecnologIa Medica, Facultad de Ingenieria, Universidad Nacional de San Juan, San Juan (Argentina)

    2007-11-15

    In this study the bivariable analysis for ventricular late potentials detection in high-resolution electrocardiographic records is proposed. The standard time-domain analysis and the application of the time-frequency technique to high-resolution ECG records are briefly described as well as their corresponding results. In the proposed technique the time-domain parameter, QRSD and the most significant time-frequency index, EN{sub QRS} are used like variables. A bivariable index is defined, that combines the previous parameters. The propose technique allows evaluating the risk of ventricular tachycardia in post-myocardial infarct patients. The results show that the used bivariable index allows discriminating between the patient's population with ventricular tachycardia and the subjects of the control group. Also, it was found that the bivariable technique obtains a good valuation as diagnostic test. It is concluded that comparatively, the valuation of the bivariable technique as diagnostic test is superior to that of the time-domain method and the time-frequency technique evaluated individually.

  14. Characteristics of Sounds Emitted During High-Resolution Marine Geophysical Surveys

    Science.gov (United States)

    2016-03-24

    electromechanical sources typically employ impulsive physical processes including the release of high-pressure air or electric field discharge at high...2.2 Geophysical Survey System Acoustic Sources................................................................... 4 2.2.1 Electromechanical Acoustic...23 3.1.1 Electromechanical Transducer Systems ........................................................................... 23 3.1.2 Electrode

  15. Cerro Negro field, Venezuela: geological images from a high resolution 3-D survey

    Energy Technology Data Exchange (ETDEWEB)

    Woller, Kevin L. [Mobil Technology Co. (WEC)

    1999-07-01

    Following a pilot 3-D survey, Petrolera Cerro Negro acquired and processed a 3-D dynamite survey over the Cerro Negro Field in Venezuela. We designed the survey to achieve high frequency imaging at the relatively shallow (< 1000 m) objectives in the Morichal formation. The data exhibits usable frequencies in the 10-120 Hz range after migration. The results of the survey have satisfied the original objective of imaging the faults and basement structure in the field. Use of continuity measurements on the data has resulted in a photographic quality image of the faults at the basement level. The pattern of the faults indicates an unexpected degree of complexity, indicating a richer structural history than originally thought. The continuity data also shows depositional details in the Morichal, which in accordance with geological history of the area. The operatorship is currently in the process of drilling many horizontal development wells. The patterns of the wells bores and variations in the rock types present a challenge to the usage of the 3-D seismic. The operatorship is working to raise the understanding and utility of the seismic data to another plateau. (author)

  16. A High Resolution Survey of the Galactic Plane at 408 MHz

    Science.gov (United States)

    Tung, A. K.; Kothes, R.; Landecker, T. L.; Geisbüsch, J.; Del Rizzo, D.; Taylor, A. R.; Brunt, C. M.; Gray, A. D.; Dougherty, S. M.

    2017-10-01

    The interstellar medium is a complex “ecosystem” with gas constituents in the atomic, molecular and ionized states, dust, magnetic fields, and relativistic particles. The Canadian Galactic Plane Survey has imaged these constituents at multiple radio and infrared frequencies with angular resolution of the order of arcminutes. This paper presents radio continuum data at 408 MHz over the area of 52^\\circ ≤slant {\\ell }≤slant 193^\\circ , -6\\buildrel{\\circ}\\over{.} 5≤slant b≤slant 8\\buildrel{\\circ}\\over{.} 5, with an extension to b=21^\\circ in the range of 97^\\circ ≤slant {\\ell }≤slant 120^\\circ , with angular resolution 2\\buildrel{ \\prime}\\over{.} 8× 2\\buildrel{ \\prime}\\over{.} 8 cosecδ. Observations were made with the Synthesis Telescope at the Dominion Radio Astrophysical Observatory as part of the Canadian Galactic Plane Survey. The calibration of the survey using existing radio source catalogs is described. The accuracy of 408 MHz flux densities from the data is 6%. Information on large structures has been incorporated into the data using the single-antenna survey of Haslam et al. The paper presents the data, describes how it can be accessed electronically, and gives examples of applications of the data to ISM research.

  17. A high-resolution spectroscopy survey of beta Cephei pulsations in bright stars

    NARCIS (Netherlands)

    Telting, J.H.; Schrijvers, C.; Ilyin, I.V.; Uytterhoeven, K.; Ridder, J. de; Aerts, C.C.; Henrichs, H.F.

    2006-01-01

    We present a study of absorption line-profile variations in early-B type near-main-sequence stars without emission lines. We have surveyed a total of 171 bright stars using the Nordic Optical Telescope (NOTSA), William Herschel Telescope (ING) and Coud�uxiliary Telescope (ESO). Our sample contains 7

  18. VLA-ANGST: A HIGH-RESOLUTION H I SURVEY OF NEARBY DWARF GALAXIES

    Energy Technology Data Exchange (ETDEWEB)

    Ott, Juergen [National Radio Astronomy Observatory, P.O. Box O, 1003 Lopezville Road, Socorro, NM 87801 (United States); Stilp, Adrienne M.; Dalcanton, Julianne J. [Department of Astronomy, Box 351580, University of Washington, Seattle, WA 98195 (United States); Warren, Steven R.; Skillman, Evan D. [Minnesota Institute for Astrophysics, University of Minnesota, 116 Church St. SE, Minneapolis, MN 55455 (United States); Walter, Fabian [Max-Planck-Institut fuer Astronomie, Koenigstuhl 17, D-69117 Heidelberg (Germany); De Blok, W. J. G. [Netherlands Institute for Radio Astronomy, Oude Hoogeveensedijk 4, 7991 PD Dwingeloo (Netherlands); Koribalski, Baerbel [Australia Telescope National Facility, CSIRO Astronomy and Space Science, P.O. Box 76, Epping, NSW 1710 (Australia); West, Andrew A., E-mail: jott@nrao.edu, E-mail: adrienne@astro.washington.edu, E-mail: jd@astro.washington.edu, E-mail: warren@astro.umn.edu, E-mail: skillman@astro.umn.edu, E-mail: walter@mpia.de, E-mail: blok@astron.nl, E-mail: Baerbel.Koribalski@csiro.au, E-mail: aawest@bu.edu [Department of Astronomy, Boston University, 725 Commonwealth Avenue, Boston, MA 02215 (United States)

    2012-10-01

    We present the 'Very Large Array survey of Advanced Camera for Surveys Nearby Galaxy Survey Treasury galaxies (VLA-ANGST)'. VLA-ANGST is a National Radio Astronomy Observatory Large Program consisting of high spectral (0.6-2.6 km s{sup -1}) and spatial ({approx}6'') resolution observations of neutral, atomic hydrogen (H I) emission toward 35 nearby dwarf galaxies from the ANGST survey. ANGST is a systematic Hubble Space Telescope survey to establish a legacy of uniform multi-color photometry of resolved stars for a volume-limited sample of nearby galaxies (D {approx}< 4 Mpc). VLA-ANGST provides VLA H I observations of the sub-sample of ANGST galaxies with recent star formation that are observable from the northern hemisphere and that were not observed in the 'The H I Nearby Galaxy Survey' (THINGS). The overarching scientific goal of VLA-ANGST is to investigate fundamental characteristics of the neutral interstellar medium (ISM) of dwarf galaxies. Here we describe the VLA observations, the data reduction, and the final VLA-ANGST data products. We present an atlas of the integrated H I maps, the intensity-weighted velocity fields, the second moment maps as a measure for the velocity dispersion of the H I, individual channel maps, and integrated H I spectra for each VLA-ANGST galaxy. We closely follow the observational setup and data reduction of THINGS to achieve comparable sensitivity and angular resolution. A major difference between VLA-ANGST and THINGS, however, is the high velocity resolution of the VLA-ANGST observations (0.65 and 1.3 km s{sup -1} for the majority of the galaxies). The VLA-ANGST data products are made publicly available through a dedicated Web site (https://science.nrao.edu/science/surveys/vla-angst). With available star formation histories from resolved stellar populations and lower resolution ancillary observations from the far-infrared to the ultraviolet, VLA-ANGST will enable detailed studies of the

  19. The role of integrated high resolution stratigraphic and geophysic surveys for groundwater modelling

    OpenAIRE

    Margiotta, S.; Mazzone, F.; S. Negri; Calora, M.

    2008-01-01

    This work sets out a methodology of integrated geological, hydrogeological and geophysical surveys for the characterization of contaminated sites. The flow model of the shallow aquifer in the Brindisi area (recognized to be at significant environmental risk by the Italian government) and the impact of an antrophic structure on the groundwater flow have been evaluated. The stratigraphic and hydrogeological targets used for the calibration phase of the flow model provide a means of assessing ca...

  20. Fault and dyke detectability in high resolution seismic surveys for coal: a view from numerical modelling*

    Science.gov (United States)

    Zhou, Binzhong 13Hatherly, Peter

    2014-10-01

    Modern underground coal mining requires certainty about geological faults, dykes and other structural features. Faults with throws of even just a few metres can create safety issues and lead to costly delays in mine production. In this paper, we use numerical modelling in an ideal, noise-free environment with homogeneous layering to investigate the detectability of small faults by seismic reflection surveying. If the layering is horizontal, faults with throws of 1/8 of the wavelength should be detectable in a 2D survey. In a coal mining setting where the seismic velocity of the overburden ranges from 3000 m/s to 4000 m/s and the dominant seismic frequency is ~100 Hz, this corresponds to a fault with a throw of 4-5 m. However, if the layers are dipping or folded, the faults may be more difficult to detect, especially when their throws oppose the trend of the background structure. In the case of 3D seismic surveying we suggest that faults with throws as small as 1/16 of wavelength (2-2.5 m) can be detectable because of the benefits offered by computer-aided horizon identification and the improved spatial coherence in 3D seismic surveys. With dykes, we find that Berkhout's definition of the Fresnel zone is more consistent with actual experience. At a depth of 500 m, which is typically encountered in coal mining, and a 100 Hz dominant seismic frequency, dykes less than 8 m in width are undetectable, even after migration.

  1. High-Resolution Multibeam, Sidescan, and Subbottom Surveys in and Around Monterey Canyon Using the MBARI Mapping AUV

    Science.gov (United States)

    Caress, D. W.; Thomas, H.; McEwen, R.; Henthorn, R.; Kirkwood, W. J.; Thompson, D.; Paull, C. K.; McGill, P.

    2005-12-01

    During 2004 and 2005, MBARI has conducted several high-resolution bathymetry, sidescan, and subbottom profiler surveys in and around Monterey Canyon, Monterey Bay, California. These surveys were conducted using the new MBARI Mapping Autonomous Underwater Vehicle (AUV). This torpedo-shaped, 6000 m deep rated vehicle is equipped with a 200 kHz multibeam sonar, 110 kHz and 410 kHz chirp sidescan sonar, and a 2-16 kHz sweep subbottom profiler. The sonar package can also be mounted on ROV Ventana, allowing near-bottom bathymetric surveys of sites where extreme topography (e.g. the Monterey Canyon axis) preclude safe autonomous operation. The Mapping AUV is being used to monitor sediment transport through Monterey Canyon by conducting repeated high-resolution bathymetric surveys in the upper canyon. Upper Monterey Canyon is known to have frequent sediment transport events. Four sites have been selected with canyon axis depths of 300 m, 520 m, 1000 m, and 1400 m, respectively. Each survey nominally covers a 600 m by 600 m area with a 35 m line spacing and a 20 m altitude. We are achieving sub-meter lateral resolution and a vertical precision of 0.3 m. The combined bathymetry and backscatter successfully image fine scale channel features, including bedforms, small scarps and plunge pools, and undercutting of the inner canyon walls. All four sites have been surveyed at least once, and we will revisit these sites three times annually for the foreseeable future. We have also collected in excess of 170 km of subbottom profiles around and across the upper canyon. The subbottom profiler successfully images sediment structure to subsurface depths of as much as 50 m. These profiles demonstrate that the upper canyon walls are draped with sediment rather than exposing an erosional surface. Another Mapping AUV survey target is Smooth Ridge, located immediately north of Monterey Canyon and west of Soquel canyon. The upper reaches of Smooth Ridge are connected to the shelf across a

  2. Ion Mobility Spectrometry - High Resolution LTQ-Orbitrap Mass Spectrometry for Analysis of Homemade Explosives

    Science.gov (United States)

    Hagan, Nathan; Goldberg, Ilana; Graichen, Adam; St. Jean, Amanda; Wu, Ching; Lawrence, David; Demirev, Plamen

    2017-08-01

    The detailed chemical characterization of homemade explosives (HMEs) and other chemicals that can mimic or mask the presence of explosives is important for understanding and improving the performance of commercial instrumentation used for explosive detection. To that end, an atmospheric-pressure drift tube ion mobility spectrometry (IMS) instrument has been successfully coupled to a commercial tandem mass spectrometry (MS) system. The tandem MS system is comprised of a linear ion trap and a high resolution Orbitrap analyzer. This IMS-MS combination allows extensive characterization of threat chemical compounds, including HMEs, and complex real-world background chemicals that can interfere with detection. Here, the composition of ion species originating from a specific HME, erythritol tetranitrate, has been elucidated using accurate mass measurements, isotopic ratios, and tandem MS. Gated IMS-MS and high-resolution MS have been used to identify minor impurities that can be indicative of the HME source and/or synthesis route. Comparison between data obtained on the IMS/MS system and on commercial stand-alone IMS instruments used as explosive trace detectors (ETDs) has also been performed. Such analysis allows better signature assignments of threat compounds, modified detection algorithms, and improved overall ETD performance.

  3. In-vivo high resolution corneal imaging and analysis on animal models for clinical applications

    Science.gov (United States)

    Hong, Jesmond; Shinoj, V. K.; Murukeshan, V. M.; Baskaran, M.; Aung, Tin

    2015-07-01

    A simple and low cost optical probe system for the high resolution imaging of the cornea is proposed, based on a Gaussian beam epi-illumination configuration. Corneal topography is obtained by moving the scanning spot across the eye in a raster fashion whereas pachymetry data is achieved by reconstructing the images obtained at different depths. The proposed prototype has been successfully tested on porcine eye samples ex vivo and subsequently on laboratory animals, such as the New Zealand White Rabbit, in vivo. This proposed system and methodology pave the way for realizing a simple and inexpensive optical configuration for pachymetry and keratometry readings, with achievable resolution up to the cellular level. This novel and non-contact high resolution imaging modality demonstrates high intraobserver reproducibility and repeatability. Together with its sophisticated data analysis strategies and safety profile, it is believed to complement existing imaging modalities in the assessment and evaluation of corneal diseases, which enable a decrease in morbidity and improvement in the effectiveness of subsequent treatment.

  4. Detection of Harbours from High Resolution Remote Sensing Imagery via Saliency Analysis and Feature Learning

    Science.gov (United States)

    Wang, Yetianjian; Pan, Li; Wang, Dagang; Kang, Yifei

    2016-06-01

    Harbours are very important objects in civil and military fields. To detect them from high resolution remote sensing imagery is important in various fields and also a challenging task. Traditional methods of detecting harbours mainly focus on the segmentation of water and land and the manual selection of knowledge. They do not make enough use of other features of remote sensing imagery and often fail to describe the harbours completely. In order to improve the detection, a new method is proposed. First, the image is transformed to Hue, Saturation, Value (HSV) colour space and saliency analysis is processed via the generation and enhancement of the co-occurrence histogram to help detect and locate the regions of interest (ROIs) that is salient and may be parts of the harbour. Next, SIFT features are extracted and feature learning is processed to help represent the ROIs. Then, by using classified feature of the harbour, a classifier is trained and used to check the ROIs to find whether they belong to the harbour. Finally, if the ROIs belong to the harbour, a minimum bounding rectangle is formed to include all the harbour ROIs and detect and locate the harbour. The experiment on high resolution remote sensing imagery shows that the proposed method performs better than other methods in precision of classifying ROIs and accuracy of completely detecting and locating harbours.

  5. High Resolution Triple Axis X-Ray Diffraction Analysis of II-VI Semiconductor Crystals

    Science.gov (United States)

    Volz, H. M.; Matyi, R. J.

    1999-01-01

    The objective of this research program is to develop methods of structural analysis based on high resolution triple axis X-ray diffractometry (HRTXD) and to carry out detailed studies of defect distributions in crystals grown in both microgravity and ground-based environments. HRTXD represents a modification of the widely used double axis X-ray rocking curve method for the characterization of grown-in defects in nearly perfect crystals. In a double axis rocking curve experiment, the sample is illuminated by a monochromatic X-ray beam and the diffracted intensity is recorded by a fixed, wide-open detector. The intensity diffracted by the sample is then monitored as the sample is rotated through the Bragg reflection condition. The breadth of the peak, which is often reported as the full angular width at half the maximum intensity (FWHM), is used as an indicator of the amount of defects in the sample. This work has shown that high resolution triple axis X-ray diffraction is an effective tool for characterizing the defect structure in semiconductor crystals, particularly at high defect densities. Additionally, the technique is complimentary to X-ray topography for defect characterization in crystals.

  6. Marvel Analysis of the Measured High-resolution Rovibronic Spectra of TiO

    Science.gov (United States)

    McKemmish, Laura K.; Masseron, Thomas; Sheppard, Samuel; Sandeman, Elizabeth; Schofield, Zak; Furtenbacher, Tibor; Császár, Attila G.; Tennyson, Jonathan; Sousa-Silva, Clara

    2017-02-01

    Accurate, experimental rovibronic energy levels, with associated labels and uncertainties, are reported for 11 low-lying electronic states of the diatomic {}48{{Ti}}16{{O}} molecule, determined using the Marvel (Measured Active Rotational-Vibrational Energy Levels) algorithm. All levels are based on lines corresponding to critically reviewed and validated high-resolution experimental spectra taken from 24 literature sources. The transition data are in the 2-22,160 cm-1 region. Out of the 49,679 measured transitions, 43,885 are triplet-triplet, 5710 are singlet-singlet, and 84 are triplet-singlet transitions. A careful analysis of the resulting experimental spectroscopic network (SN) allows 48,590 transitions to be validated. The transitions determine 93 vibrational band origins of {}48{{Ti}}16{{O}}, including 71 triplet and 22 singlet ones. There are 276 (73) triplet-triplet (singlet-singlet) band-heads derived from Marvel experimental energies, 123(38) of which have never been assigned in low- or high-resolution experiments. The highest J value, where J stands for the total angular momentum, for which an energy level is validated is 163. The number of experimentally derived triplet and singlet {}48{{Ti}}16{{O}} rovibrational energy levels is 8682 and 1882, respectively. The lists of validated lines and levels for {}48{{Ti}}16{{O}} are deposited in the supporting information to this paper.

  7. High-resolution X-ray microdiffraction analysis of natural teeth

    Energy Technology Data Exchange (ETDEWEB)

    Xue, Jing; Zhang, Linling; Zou, Ling; Liao, Yunmao; Li, Jiyao; Xiao, Liying; Li, Wei, E-mail: leewei2000@sina.com [State Key Laboratory of Oral Diseases, Sichuan University, People’s Republic of (China)

    2008-05-01

    In situ microzone X-ray diffraction analysis of natural teeth is presented. From our experiment, layer orientation and continuous crystal variations in teeth could be conveniently studied using fast online measurements by high-resolution X-ray microdiffraction equipment. The main component of natural teeth was determined many years ago as calcium phosphate, mostly in the form of hydroxyapatite with different crystallites. In the past, the method used in tooth crystal investigation has been mainly powder X-ray diffraction analysis, but this method has its drawbacks, i.e. the destruction of the natural tooth structure and the difficulty in examining the preferred orientation in different layers of the tooth. During the last century, microzone X-ray diffraction on the tooth surface was carried out, but, as the technology was less sophisticated, the results obtained were not very detailed. The newly developed microdiffraction equipment permits analysis of the microzone of teeth in situ. To test this new microdiffraction equipment, microdiffraction analysis of one natural healthy deciduous molar tooth and one carious deciduous molar tooth has been performed, using a Bruker D8 instrument. Phase analysis of the two teeth was performed; the crystal size at six test points in the natural healthy tooth was calculated by reflection (211), and the crystal preferred orientation of reflection (300) and reflection (002) at six test points in the natural healthy tooth were compared. The results showed that the tooth was a kind of biological mixed crystal composed of several crystal phases, the main crystal phase being hydroxyapatite. The crystal size grew larger going from the dentin to the enamel. The crystal preferred orientation mainly existed in the enamel, especially in the reflection (002). From our experiment, layer orientation and continuous crystal variations in teeth could be conveniently studied using fast online measurements by high-resolution X-ray microdiffraction

  8. High resolution Physio-chemical Tissue Analysis: Towards Non-invasive In Vivo Biopsy

    Science.gov (United States)

    Xu, Guan; Meng, Zhuo-Xian; Lin, Jian-Die; Deng, Cheri X.; Carson, Paul L.; Fowlkes, J. Brian; Tao, Chao; Liu, Xiaojun; Wang, Xueding

    2016-02-01

    Conventional gold standard histopathologic diagnosis requires information of both high resolution structural and chemical changes in tissue. Providing optical information at ultrasonic resolution, photoacoustic (PA) technique could provide highly sensitive and highly accurate tissue characterization noninvasively in the authentic in vivo environment, offering a replacement for histopathology. A two-dimensional (2D) physio-chemical spectrogram (PCS) combining micrometer to centimeter morphology and chemical composition simultaneously can be generated for each biological sample with PA measurements at multiple optical wavelengths. This spectrogram presents a unique 2D “physio-chemical signature” for any specific type of tissue. Comprehensive analysis of PCS, termed PA physio-chemical analysis (PAPCA), can lead to very rich diagnostic information, including the contents of all relevant molecular and chemical components along with their corresponding histological microfeatures, comparable to those accessible by conventional histology. PAPCA could contribute to the diagnosis of many diseases involving diffusive patterns such as fatty liver.

  9. Isotopic composition analysis and age dating of uranium samples by high resolution gamma ray spectrometry

    Science.gov (United States)

    Apostol, A. I.; Pantelica, A.; Sima, O.; Fugaru, V.

    2016-09-01

    Non-destructive methods were applied to determine the isotopic composition and the time elapsed since last chemical purification of nine uranium samples. The applied methods are based on measuring gamma and X radiations of uranium samples by high resolution low energy gamma spectrometric system with planar high purity germanium detector and low background gamma spectrometric system with coaxial high purity germanium detector. The "Multigroup γ-ray Analysis Method for Uranium" (MGAU) code was used for the precise determination of samples' isotopic composition. The age of the samples was determined from the isotopic ratio 214Bi/234U. This ratio was calculated from the analyzed spectra of each uranium sample, using relative detection efficiency. Special attention is paid to the coincidence summing corrections that have to be taken into account when performing this type of analysis. In addition, an alternative approach for the age determination using full energy peak efficiencies obtained by Monte Carlo simulations with the GESPECOR code is described.

  10. Saffron authentication based on liquid chromatography high resolution tandem mass spectrometry and multivariate data analysis.

    Science.gov (United States)

    Rubert, Josep; Lacina, Ondrej; Zachariasova, Milena; Hajslova, Jana

    2016-08-01

    Saffron is one of the oldest and most expensive spices, which is often target of fraudulent activities. In this research, a new strategy of saffron authentication based on metabolic fingerprinting was developed. In the first phase, a solid liquid extraction procedure was optimized, the main aim was to isolate as maximal representation of small molecules contained in saffron as possible. In the second step, a detection method based on liquid chromatography coupled with high-resolution mass spectrometry was developed. Initially, principal component analysis (PCA) revealed clear differences between saffron cultivated and packaged in Spain, protected designation of origin (PDO), and saffron packaged in Spain of unknown origin, labeled Spanish saffron. Afterwards, orthogonal partial least square discriminant analysis (OPLS-DA) was favorably used to discriminate between Spanish saffron. The tentative identification of markers showed glycerophospholipids and their oxidized lipids were significant markers according to their origin.

  11. The spa typing of methicillin-resistant Staphylococcus aureus isolates by High Resolution Melting (HRM) analysis.

    Science.gov (United States)

    Fasihi, Yasser; Fooladi, Saba; Mohammadi, Mohammad Ali; Emaneini, Mohammad; Kalantar-Neyestanaki, Davood

    2017-09-06

    Molecular typing is an important tool for control and prevention of infection. A suitable molecular typing method for epidemiological investigation must be easy to perform, highly reproducible, inexpensive, rapid and easy to interpret. In this study, two molecular typing methods including the conventional PCR-sequencing method and high resolution melting (HRM) analysis were used for staphylococcal protein A (spa) typing of 30 Methicillin-resistant Staphylococcus aureus (MRSA) isolates recovered from clinical samples. Based on PCR-sequencing method results, 16 different spa types were identified among the 30 MRSA isolates. Among the 16 different spa types, 14 spa types separated by HRM method. Two spa types including t4718 and t2894 were not separated from each other. According to our results, spa typing based on HRM analysis method is very rapid, easy to perform and cost-effective, but this method must be standardized for different regions, spa types, and real-time machinery.

  12. DNA-based identification of Helleborus niger by high-resolution melting analysis.

    Science.gov (United States)

    Schmiderer, Corinna; Mader, Eduard; Novak, Johannes

    2010-11-01

    Hellbori nigri rhizoma is a drug that is difficult to distinguish from other species of the genus Helleborus. In this communication we present a DNA-based identification by high-resolution melting analysis (HRM) that is able to differentiate between Helleborus niger and other species of the genus. HRM is a very specific, time- and labour-saving method for identifying DNA sequence variations and is ideally suitable for routine PCR analysis. The HRM assay developed is specific for the genus Helleborus. This method not only detects the presence of the target species H. niger but also, to a certain extent, identifies other Helleborus species by their different melting curve shapes. Markers were developed based on the trnL-trnF intergenic spacer and on the matK sequence. For an unambiguous identification of Helleborus niger, melting curves of both markers should be used. © Georg Thieme Verlag KG Stuttgart · New York.

  13. The WiggleZ Dark Energy Survey: High Resolution Kinematics of Luminous Star-Forming Galaxies

    CERN Document Server

    Wisnioski, Emily; Blake, Chris; Wyder, Ted; Martin, Chris; Poole, Gregory B; Sharp, Rob; Couch, Warrick; Kacprzak, Glenn G; Brough, Sarah; Colless, Matthew; Contreras, Carlos; Croom, Scott; Croton, Darren; Davis, Tamara; Drinkwater, Michael J; Forster, Karl; Gilbank, David G; Gladders, Michael; Jelliffe, Ben; Jurek, Russell J; Li, I-hui; Madore, Barry; Pimbblet, Kevin; Pracy, Michael; Woods, David; Yee, H K C

    2011-01-01

    We report evidence of ordered orbital motion in luminous star-forming galaxies at z~1.3. We present integral field spectroscopy (IFS) observations, performed with the OH Suppressing InfraRed Imaging Spectrograph (OSIRIS) system, assisted by laser guide star adaptive optics on the Keck telescope, of 13 star-forming galaxies selected from the WiggleZ Dark Energy Survey. Selected via ultraviolet and [OII] emission, the large volume of the WiggleZ survey allows the selection of sources which have comparable intrinsic luminosity and stellar mass to IFS samples at z>2. Multiple 1-2 kpc size sub-components of emission, or 'clumps', are detected within the Halpha spatial emission which extends over 6-10 kpc in 4 galaxies, resolved compact emission (r100 km/s) in the most compact sources. This unique data set reveals that the most luminous star-forming galaxies at z>1 are gaseous unstable disks indicating that a different mode of star formation could be feeding gas to galaxies at z>1, and lending support to theories o...

  14. Quantifying uncertainty in high-resolution remotely sensed topographic surveys for ephemeral gully channel monitoring

    Science.gov (United States)

    Wells, Robert R.; Momm, Henrique G.; Castillo, Carlos

    2017-07-01

    Spatio-temporal measurements of landform evolution provide the basis for process-based theory formulation and validation. Over time, field measurements of landforms have increased significantly worldwide, driven primarily by the availability of new surveying technologies. However, there is no standardized or coordinated effort within the scientific community to collect morphological data in a dependable and reproducible manner, specifically when performing long-term small-scale process investigation studies. Measurements of the same site using identical methods and equipment, but performed at different time periods, may lead to incorrect estimates of landform change as a result of three-dimensional registration errors. This work evaluated measurements of an ephemeral gully channel located on agricultural land using multiple independent survey techniques for locational accuracy and their applicability in generating information for model development and validation. Terrestrial and unmanned aerial vehicle photogrammetry platforms were compared to terrestrial lidar, defined herein as the reference dataset. Given the small scale of the measured landform, the alignment and ensemble equivalence between data sources was addressed through postprocessing. The utilization of ground control points was a prerequisite to three-dimensional registration between datasets and improved the confidence in the morphology information generated. None of the methods were without limitation; however, careful attention to project preplanning and data nature will ultimately guide the temporal efficacy and practicality of management decisions.

  15. High-resolution seismic structure analysis of an active submarine mud volcano area off SW Taiwan

    Science.gov (United States)

    Lin, Hsiao-Shan; Hsu, Shu-Kun; Tsai, Wan-Lin; Tsai, Ching-Hui; Lin, Shin-Yi; Chen, Song-Chuen

    2015-04-01

    In order to better understand the subsurface structure related to an active mud volcano MV1 and to understand their relationship with gas hydrate/cold seep formation, we conducted deep-towed side-scan sonar (SSS), sub-bottom profiler (SBP), multibeam echo sounding (MBES), and multi-channel reflection seismic (MCS) surveys off SW Taiwan from 2009 to 2011. As shown in the high-resolution sub-bottom profiler and EK500 sonar data, the detailed structures reveal more gas seeps and gas flares in the study area. In addition, the survey profiles show several submarine landslides occurred near the thrust faults. Based on the MCS results, we can find that the MV1 is located on top of a mud diapiric structure. It indicates that the MV1 has the same source as the associated mud diapir. The blanking of the seismic signal may indicate the conduit for the upward migration of the gas (methane or CO2). Therefore, we suggest that the submarine mud volcano could be due to a deep source of mud compressed by the tectonic convergence. Fluids and argillaceous materials have thus migrated upward along structural faults and reach the seafloor. The gas-charged sediments or gas seeps in sediments thus make the seafloor instable and may trigger submarine landslides.

  16. High-resolution marine magnetic surveys for searching underwater cultural resources

    Directory of Open Access Journals (Sweden)

    S. Monti

    2006-06-01

    Full Text Available Recently two marine magnetic surveys, combined with the use of a multi-beam sonar (Kongsberg Marittime EM 300 multibeam: 30 KHz frequency echosounder for hydrographic purposes; acoustic lobe composed of 128 beams able to cover a 150° sector a side-scan sonar (Simrad MS 992 dual-frequency sidescan sonar with echo sounder transducers 150 Hz and 330 KHz and a Remote Operated Vehicle (ROV – a mobile tools used in environments which are too dangerous for humans, were executed in two sites respectively in the Ligurian Sea and the Asinara Gulf. The aim of these investigations was to test modern instrumentations and set new working procedures for searching underwater cultural resources. The collected and processed magnetic data yielded very satisfactory results: we detected submerged and buried features of cultural interest at both sites, at depths of 40 m and 400 m respectively.

  17. Feasibility analysis of high resolution tissue image registration using 3-D synthetic data

    Directory of Open Access Journals (Sweden)

    Yachna Sharma

    2011-01-01

    Full Text Available Background: Registration of high-resolution tissue images is a critical step in the 3D analysis of protein expression. Because the distance between images (~4-5μm thickness of a tissue section is nearly the size of the objects of interest (~10-20μm cancer cell nucleus, a given object is often not present in both of two adjacent images. Without consistent correspondence of objects between images, registration becomes a difficult task. This work assesses the feasibility of current registration techniques for such images. Methods: We generated high resolution synthetic 3-D image data sets emulating the constraints in real data. We applied multiple registration methods to the synthetic image data sets and assessed the registration performance of three techniques (i.e., mutual information (MI, kernel density estimate (KDE method [1], and principal component analysis (PCA at various slice thicknesses (with increments of 1μm in order to quantify the limitations of each method. Results: Our analysis shows that PCA, when combined with the KDE method based on nuclei centers, aligns images corresponding to 5μm thick sections with acceptable accuracy. We also note that registration error increases rapidly with increasing distance between images, and that the choice of feature points which are conserved between slices improves performance. Conclusions: We used simulation to help select appropriate features and methods for image registration by estimating best-case-scenario errors for given data constraints in histological images. The results of this study suggest that much of the difficulty of stained tissue registration can be reduced to the problem of accurately identifying feature points, such as the center of nuclei.

  18. Detection of somatic mutations by high-resolution DNA melting (HRM analysis in multiple cancers.

    Directory of Open Access Journals (Sweden)

    Jesus Gonzalez-Bosquet

    Full Text Available Identification of somatic mutations in cancer is a major goal for understanding and monitoring the events related to cancer initiation and progression. High resolution melting (HRM curve analysis represents a fast, post-PCR high-throughput method for scanning somatic sequence alterations in target genes. The aim of this study was to assess the sensitivity and specificity of HRM analysis for tumor mutation screening in a range of tumor samples, which included 216 frozen pediatric small rounded blue-cell tumors as well as 180 paraffin-embedded tumors from breast, endometrial and ovarian cancers (60 of each. HRM analysis was performed in exons of the following candidate genes known to harbor established commonly observed mutations: PIK3CA, ERBB2, KRAS, TP53, EGFR, BRAF, GATA3, and FGFR3. Bi-directional sequencing analysis was used to determine the accuracy of the HRM analysis. For the 39 mutations observed in frozen samples, the sensitivity and specificity of HRM analysis were 97% and 87%, respectively. There were 67 mutation/variants in the paraffin-embedded samples, and the sensitivity and specificity for the HRM analysis were 88% and 80%, respectively. Paraffin-embedded samples require higher quantity of purified DNA for high performance. In summary, HRM analysis is a promising moderate-throughput screening test for mutations among known candidate genomic regions. Although the overall accuracy appears to be better in frozen specimens, somatic alterations were detected in DNA extracted from paraffin-embedded samples.

  19. High resolution TOF MS coupled to CE for the analysis of isotopically resolved intact proteins.

    Science.gov (United States)

    Taichrib, Angelina; Pelzing, Matthias; Pellegrino, Cristoforo; Rossi, Mara; Neusüss, Christian

    2011-06-10

    Intact protein analysis by mass spectrometry is of great interest for the characterisation of biotechnological products. Exact mass measurement in combination with isotopic resolution allows the detection of modifications leading to small mass changes like deamidation or reduction of disulfide bonds directly on the level of the intact protein. Here, a concept is presented based on time-of-flight mass spectrometry. A bench top TOF MS and a high resolution TOF MS were used to resolve the isotopes of intact recombinant human growth hormone and intact human erythropoietin, respectively. Thus, these 22 and around 30kDa large proteins can be characterised sensitively in great detail and along with capillary electrophoretic separation unambiguous identification of minor protein modifications like deamidation is possible. Copyright © 2011 Elsevier B.V. All rights reserved.

  20. Multiscaling analysis of high resolution space-time lidar-rainfall

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    P. V. Mandapaka

    2009-09-01

    Full Text Available In this study, we report results from scaling analysis of 2.5 m spatial and 1 s temporal resolution lidar-rainfall data. The high resolution spatial and temporal data from the same observing system allows us to investigate the variability of rainfall at very small scales ranging from few meters to ~1 km in space and few seconds to ~30 min in time. The results suggest multiscaling behaviour in the lidar-rainfall with the scaling regime extending down to the resolution of the data. The results also indicate the existence of a space-time transformation of the form t~Lz at very small scales, where t is the time lag, L is the spatial averaging scale and z is the dynamic scaling exponent.

  1. Optimization of high-resolution continuous flow analysis for transient climate signals in ice cores.

    Science.gov (United States)

    Bigler, Matthias; Svensson, Anders; Kettner, Ernesto; Vallelonga, Paul; Nielsen, Maibritt E; Steffensen, Jørgen Peder

    2011-05-15

    Over the past two decades, continuous flow analysis (CFA) systems have been refined and widely used to measure aerosol constituents in polar and alpine ice cores in very high-depth resolution. Here we present a newly designed system consisting of sodium, ammonium, dust particles, and electrolytic meltwater conductivity detection modules. The system is optimized for high-resolution determination of transient signals in thin layers of deep polar ice cores. Based on standard measurements and by comparing sections of early Holocene and glacial ice from Greenland, we find that the new system features a depth resolution in the ice of a few millimeters which is considerably better than other CFA systems. Thus, the new system can resolve ice strata down to 10 mm thickness and has the potential of identifying annual layers in both Greenland and Antarctic ice cores throughout the last glacial cycle.

  2. Genome-wide SNP discovery in tetraploid alfalfa using 454 sequencing and high resolution melting analysis

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    Zhao Patrick X

    2011-07-01

    Full Text Available Abstract Background Single nucleotide polymorphisms (SNPs are the most common type of sequence variation among plants and are often functionally important. We describe the use of 454 technology and high resolution melting analysis (HRM for high throughput SNP discovery in tetraploid alfalfa (Medicago sativa L., a species with high economic value but limited genomic resources. Results The alfalfa genotypes selected from M. sativa subsp. sativa var. 'Chilean' and M. sativa subsp. falcata var. 'Wisfal', which differ in water stress sensitivity, were used to prepare cDNA from tissue of clonally-propagated plants grown under either well-watered or water-stressed conditions, and then pooled for 454 sequencing. Based on 125.2 Mb of raw sequence, a total of 54,216 unique sequences were obtained including 24,144 tentative consensus (TCs sequences and 30,072 singletons, ranging from 100 bp to 6,662 bp in length, with an average length of 541 bp. We identified 40,661 candidate SNPs distributed throughout the genome. A sample of candidate SNPs were evaluated and validated using high resolution melting (HRM analysis. A total of 3,491 TCs harboring 20,270 candidate SNPs were located on the M. truncatula (MT 3.5.1 chromosomes. Gene Ontology assignments indicate that sequences obtained cover a broad range of GO categories. Conclusions We describe an efficient method to identify thousands of SNPs distributed throughout the alfalfa genome covering a broad range of GO categories. Validated SNPs represent valuable molecular marker resources that can be used to enhance marker density in linkage maps, identify potential factors involved in heterosis and genetic variation, and as tools for association mapping and genomic selection in alfalfa.

  3. High resolution spectroscopic analysis of seven giants in the bulge globular cluster NGC 6723

    Science.gov (United States)

    Rojas-Arriagada, A.; Zoccali, M.; Vásquez, S.; Ripepi, V.; Musella, I.; Marconi, M.; Grado, A.; Limatola, L.

    2016-03-01

    Context. Globular clusters associated with the Galactic bulge are important tracers of stellar populations in the inner Galaxy. High resolution analysis of stars in these clusters allows us to characterize them in terms of kinematics, metallicity, and individual abundances, and to compare these fingerprints with those characterizing field populations. Aims: We present iron and element ratios for seven red giant stars in the globular cluster NGC 6723, based on high resolution spectroscopy. Methods: High resolution spectra (R ~ 48 000) of seven K giants belonging to NGC 6723 were obtained with the FEROS spectrograph at the MPG/ESO 2.2 m telescope. Photospheric parameters were derived from ~130 Fe i and Fe ii transitions. Abundance ratios were obtained from line-to-line spectrum synthesis calculations on clean selected features. Results: An intermediate metallicity of [Fe/H] = -0.98 ± 0.08 dex and a heliocentric radial velocity of vhel = -96.6 ± 1.3 km s-1 were found for NGC 6723. Alpha-element abundances present enhancements of [O/Fe] = 0.29 ± 0.18 dex, [Mg/Fe] = 0.23 ± 0.10 dex, [Si/Fe] = 0.36 ± 0.05 dex, and [Ca/Fe] = 0.30 ± 0.07 dex. Similar overabundance is found for the iron-peak Ti with [Ti/Fe] = 0.24 ± 0.09 dex. Odd-Z elements Na and Al present abundances of [Na/Fe] = 0.00 ± 0.21 dex and [Al/Fe] = 0.31 ± 0.21 dex, respectively. Finally, the s-element Ba is also enhanced by [Ba/Fe] = 0.22 ± 0.21 dex. Conclusions: The enhancement levels of NGC 6723 are comparable to those of other metal-intermediate bulge globular clusters. In turn, these enhancement levels are compatible with the abundance profiles displayed by bulge field stars at that metallicity. This hints at a possible similar chemical evolution with globular clusters and the metal-poor of the bulge going through an early prompt chemical enrichment.

  4. Laminar Python: tools for cortical depth-resolved analysis of high-resolution brain imaging data in Python

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    Julia Huntenburg

    2017-02-01

    Full Text Available Increasingly available high-resolution brain imaging data require specialized processing tools that can leverage their anatomical detail and handle their size. Here, we present user-friendly Python tools for cortical depth resolved analysis in such data. Our implementation is based on the CBS High-Res Brain Processing framework, and aims to make high-resolution data processing tools available to the broader community.

  5. Systematic assessment of survey scan and MS2-based abundance strategies for label-free quantitative proteomics using high-resolution MS data.

    Science.gov (United States)

    Tu, Chengjian; Li, Jun; Sheng, Quanhu; Zhang, Ming; Qu, Jun

    2014-04-04

    Survey-scan-based label-free method have shown no compelling benefit over fragment ion (MS2)-based approaches when low-resolution mass spectrometry (MS) was used, the growing prevalence of high-resolution analyzers may have changed the game. This necessitates an updated, comparative investigation of these approaches for data acquired by high-resolution MS. Here, we compared survey scan-based (ion current, IC) and MS2-based abundance features including spectral-count (SpC) and MS2 total-ion-current (MS2-TIC), for quantitative analysis using various high-resolution LC/MS data sets. Key discoveries include: (i) study with seven different biological data sets revealed only IC achieved high reproducibility for lower-abundance proteins; (ii) evaluation with 5-replicate analyses of a yeast sample showed IC provided much higher quantitative precision and lower missing data; (iii) IC, SpC, and MS2-TIC all showed good quantitative linearity (R(2) > 0.99) over a >1000-fold concentration range; (iv) both MS2-TIC and IC showed good linear response to various protein loading amounts but not SpC; (v) quantification using a well-characterized CPTAC data set showed that IC exhibited markedly higher quantitative accuracy, higher sensitivity, and lower false-positives/false-negatives than both SpC and MS2-TIC. Therefore, IC achieved an overall superior performance than the MS2-based strategies in terms of reproducibility, missing data, quantitative dynamic range, quantitative accuracy, and biomarker discovery.

  6. Advances in liquid chromatography-high-resolution mass spectrometry for quantitative and qualitative environmental analysis.

    Science.gov (United States)

    Aceña, Jaume; Stampachiacchiere, Serena; Pérez, Sandra; Barceló, Damià

    2015-08-01

    This review summarizes the advances in environmental analysis by liquid chromatography-high-resolution mass spectrometry (LC-HRMS) during the last decade and discusses different aspects of their application. LC-HRMS has become a powerful tool for simultaneous quantitative and qualitative analysis of organic pollutants, enabling their quantitation and the search for metabolites and transformation products or the detection of unknown compounds. LC-HRMS provides more information than low-resolution (LR) MS for each sample because it can accurately determine the mass of the molecular ion and its fragment ions if it can be used for MS-MS. Another advantage is that the data can be processed using either target analysis, suspect screening, retrospective analysis, or non-target screening. With the growing popularity and acceptance of HRMS analysis, current guidelines for compound confirmation need to be revised for quantitative and qualitative purposes. Furthermore, new commercial software and user-built libraries are required to mine data in an efficient and comprehensive way. The scope of this critical review is not to provide a comprehensive overview of the many studies performed with LC-HRMS in the field of environmental analysis, but to reveal its advantages and limitations using different workflows.

  7. MARVEL analysis of the measured high-resolution spectra of 14NH3

    Science.gov (United States)

    Al Derzi, Afaf R.; Furtenbacher, Tibor; Tennyson, Jonathan; Yurchenko, Sergei N.; Császár, Attila G.

    2015-08-01

    Accurate, experimental rotational-vibrational energy levels and line positions, with associated labels and uncertainties, are reported for the ground electronic state of the symmetric-top 14NH3 molecule. All levels and lines are based on critically reviewed and validated high-resolution experimental spectra taken from 56 literature sources. The transition data are in the 0.7-17 000 cm-1 region, with a large gap between 7000 and 15 000 cm-1. The MARVEL (Measured Active Rotational-Vibrational Energy Levels) algorithm is used to determine the energy levels. Out of the 29 450 measured transitions 10 041 and 18 947 belong to ortho- and para-14NH3, respectively. A careful analysis of the related experimental spectroscopic network (SN) allows 28 530 of the measured transitions to be validated, 18 178 of these are unique, while 462 transitions belong to floating components. Despite the large number of spectroscopic measurements published over the last 80 years, the transitions determine only 30 vibrational band origins of 14NH3, 8 for ortho- and 22 for para-14NH3. The highest J value, where J stands for the rotational quantum number, for which an energy level is validated is 31. The number of experimental-quality ortho- and para-14NH3 rovibrational energy levels is 1724 and 3237, respectively. The MARVEL energy levels are checked against ones in the BYTe first-principles database, determined previously. The lists of validated lines and levels for 14NH3 are deposited in the Supporting Information to this paper. Combination of the MARVEL energy levels with first-principles absorption intensities yields a huge number of experimental-quality rovibrational lines, which should prove to be useful for the understanding of future complex high-resolution spectroscopy on 14NH3; these lines are also deposited in the Supporting Information to this paper.

  8. Application of high-resolution melting analysis for authenticity testing of valuable Dendrobium commercial products.

    Science.gov (United States)

    Dong, Xiaoman; Jiang, Chao; Yuan, Yuan; Peng, Daiyin; Luo, Yuqin; Zhao, Yuyang; Huang, Luqi

    2017-06-20

    The accurate identification of botanical origin in commercial products is important to ensure food authenticity and safety for consumers. The Dendrobium species have long been commercialised as functional food supplements and herbal medicines in Asia. Three valuable Dendrobium species, namely Dendrobium officinale, D. huoshanense and D. moniliforme, are often mutually adulterated in trade products in pursuit of higher profit. In this paper, a rapid and reliable semi-quantitative method for identifying the botanical origin of Dendrobium products in terminal markets was developed using high-resolution melting (HRM) analysis with specific primer pairs to target the trnL-F region. The HRM analysis method detected amounts of D. moniliforme adulterants as low as 1% in D. huoshanense or D. officinale products. The results have demonstrated that HRM analysis is a fast and effective tool for the differentiation of these Dendrobium species both for their authenticity as well as for the semi-quantitative determination of the purity of their processed products. © 2017 Society of Chemical Industry. © 2017 Society of Chemical Industry.

  9. Topological Data Analysis Generates High-Resolution, Genome-wide Maps of Human Recombination.

    Science.gov (United States)

    Camara, Pablo G; Rosenbloom, Daniel I S; Emmett, Kevin J; Levine, Arnold J; Rabadan, Raul

    2016-07-01

    Meiotic recombination is a fundamental evolutionary process driving diversity in eukaryotes. In mammals, recombination is known to occur preferentially at specific genomic regions. Using topological data analysis (TDA), a branch of applied topology that extracts global features from large data sets, we developed an efficient method for mapping recombination at fine scales. When compared to standard linkage-based methods, TDA can deal with a larger number of SNPs and genomes without incurring prohibitive computational costs. We applied TDA to 1,000 Genomes Project data and constructed high-resolution whole-genome recombination maps of seven human populations. Our analysis shows that recombination is generally under-represented within transcription start sites. However, the binding sites of specific transcription factors are enriched for sites of recombination. These include transcription factors that regulate the expression of meiosis- and gametogenesis-specific genes, cell cycle progression, and differentiation blockage. Additionally, our analysis identifies an enrichment for sites of recombination at repeat-derived loci matched by piwi-interacting RNAs.

  10. High-resolution gravity and seismic-refraction surveys of the Smoke Tree Wash area, Joshua Tree National Park, California

    Science.gov (United States)

    Langenheim, Victoria E.; Rymer, Michael J.; Catchings, Rufus D.; Goldman, Mark R.; Watt, Janet T.; Powell, Robert E.; Matti, Jonathan C.

    2016-03-02

    We describe high-resolution gravity and seismic refraction surveys acquired to determine the thickness of valley-fill deposits and to delineate geologic structures that might influence groundwater flow beneath the Smoke Tree Wash area in Joshua Tree National Park. These surveys identified a sedimentary basin that is fault-controlled. A profile across the Smoke Tree Wash fault zone reveals low gravity values and seismic velocities that coincide with a mapped strand of the Smoke Tree Wash fault. Modeling of the gravity data reveals a basin about 2–2.5 km long and 1 km wide that is roughly centered on this mapped strand, and bounded by inferred faults. According to the gravity model the deepest part of the basin is about 270 m, but this area coincides with low velocities that are not characteristic of typical basement complex rocks. Most likely, the density contrast assumed in the inversion is too high or the uncharacteristically low velocities represent highly fractured or weathered basement rocks, or both. A longer seismic profile extending onto basement outcrops would help differentiate which scenario is more accurate. The seismic velocities also determine the depth to water table along the profile to be about 40–60 m, consistent with water levels measured in water wells near the northern end of the profile.

  11. High-resolution water column survey to identify active sublacustrine hydrothermal discharge zones within Lake Rotomahana, North Island, New Zealand

    Science.gov (United States)

    Walker, Sharon L.; de Ronde, Cornel E. J.; Fornari, Daniel; Tivey, Maurice A.; Stucker, Valerie K.

    2016-03-01

    Autonomous underwater vehicles were used to conduct a high-resolution water column survey of Lake Rotomahana using temperature, pH, turbidity, and oxidation-reduction potential (ORP) to identify active hydrothermal discharge zones within the lake. Five areas with active sublacustrine venting were identified: (1) the area of the historic Pink Terraces; (2) adjacent to the western shoreline subaerial "Steaming Cliffs," boiling springs and geyser; (3) along the northern shoreline to the east of the Pink Terrace site; (4) the newly discovered Patiti hydrothermal system along the south margin of the 1886 Tarawera eruption rift zone; and (5) a location in the east basin (northeast of Patiti Island). The Pink Terrace hydrothermal system was active prior to the 1886 eruption of Mount Tarawera, but venting along the western shoreline, in the east basin, and the Patiti hydrothermal system appear to have been initiated in the aftermath of the eruption, similar to Waimangu Valley to the southwest. Different combinations of turbidity, pH anomalies (both positive and negative), and ORP responses suggest vent fluid compositions vary over short distances within the lake. The seasonal period of stratification limits vertical transport of heat to the surface layer and the hypolimnion temperature of Lake Rotomahana consequently increases with an average warming rate of ~ 0.010 °C/day due to both convective hydrothermal discharge and conductive geothermal heating. A sudden temperature increase occurred during our 2011 survey and was likely the response to an earthquake swarm just 11 days prior.

  12. Analysis of corrosion layers in ancient Roman silver coins with high resolution surface spectroscopic techniques

    Energy Technology Data Exchange (ETDEWEB)

    Keturakis, Christopher J. [Operando Molecular Spectroscopy and Catalysis Research Laboratory, Department of Chemical Engineering, Lehigh University, Bethlehem, PA 18015 (United States); Notis, Ben [Brandeis University, Waltham, MA 02453 (United States); Blenheim, Alex [Department of Mechanical Engineering, Pennsylvania State University, College Park, PA 16802 (United States); Miller, Alfred C.; Pafchek, Rob [Zettlemoyer Center for Surface Studies, Lehigh University, Bethlehem, PA 18015 (United States); Notis, Michael R., E-mail: mrn1@lehigh.edu [Department of Materials Science and Engineering, Lehigh University, Bethlehem, PA 18015 (United States); Wachs, Israel E., E-mail: iew0@lehigh.edu [Operando Molecular Spectroscopy and Catalysis Research Laboratory, Department of Chemical Engineering, Lehigh University, Bethlehem, PA 18015 (United States)

    2016-07-15

    Highlights: • Five ancient silver alloy coins (225 BCE–244 CE) were analyzed using surface characterization techniques. • Both destructive and non-destructive surface characterization methods were developed. • Alloying with copper, even in small amounts, leads to the formation of an outer Cu{sub 2}O corrosion layer. - Abstract: Determination of the microchemistry of surface corrosion layers on ancient silver alloy coins is important both in terms of understanding the nature of archaeological environmental conditions to which these ancient coins were exposed and also to help in their conservation. In this present study, five ancient silver alloy coins (225 BCE–244 CE) were used as test vehicles to measure their immediate surface microchemistry and evaluate the appropriateness and limitations of High Sensitivity-Low Energy Ion Scattering Spectroscopy (HS-LEIS, 0.3 nm depth analysis), High Resolution-X-ray Photoelectron Spectroscopy (HR-XPS, 1–3 nm depth analysis) and High Resolution-Raman Spectroscopy (HR-Raman, ∼1000 nm depth analysis). Additional information about the deeper corrosion layers, up to ∼300–1000 nm, was provided by dynamic HS-LEIS and HR-Raman spectroscopy. While not archeologically significant, the use of these coins of small commercial value provides data that is more representative of the weaker signals typically obtained from ancient corroded objects, which can be in stark contrast to pristine data often obtained from carefully prepared alloys of known composition. The oldest coins, from 225 to 214 BCE, possessed an outermost surface layer containing Cu{sub 2}O, Na, Al, Pb, and adsorbed hydrocarbons, while the more recent coins, from 98 to 244 CE, contained Cu{sub 2}O, Ag, N, F, Na, Al, S, Cl, and adsorbed hydrocarbons in similar corresponding surface layers. It thus appears that alloying with copper, even in small amounts, leads to the formation of an outer Cu{sub 2}O layer. Depth profiling revealed the presence of K, Na, Cl, and

  13. LiDAR derived high resolution topography: the next challenge for the analysis of terraces stability and vineyard soil erosion

    Directory of Open Access Journals (Sweden)

    Federico Preti

    2013-09-01

    Full Text Available The soil erosion in the vineyards is a critical issue that could affect their productivity, but also, when the cultivation is organized in terraces, increase the risk due to derived slope failure processes. If terraces are not correctly designed or maintained, a progressively increasing of gully erosion affects the structure of the walls. The results of this process is the increasing of connectivity and runoff. In order to overcome such issues it is really important to recognize in detail all the surface drainage paths, thus providing a basis upon which develop a suitable drainage system or provide structural measures for the soil erosion risk mitigation. In the last few years, the airborne LiDAR technology led to a dramatic increase in terrain information. Airborne LiDAR and Terrestrial Laser Scanner derived high-resolution Digital Terrain Models (DTMs have opened avenues for hydrologic and geomorphologic studies (Tarolli et al., 2009. In general, all the main surface process signatures are correctly recognized using a DTM with cell sizes of 1 m. However sub-meter grid sizes may be more suitable in those situations where the analysis of micro topography related to micro changes is critical for slope failures risk assessment or for the design of detailed drainage flow paths. The Terrestrial Laser Scanner (TLS has been proven to be an useful tool for such detailed field survey. In this work, we test the effectiveness of high resolution topography derived by airborne LiDAR and TLS for the recognition of areas subject to soil erosion risk in a typical terraced vineyard landscape of “Chianti Classico” (Tuscany, Italy. The algorithm proposed by Tarolli et al. (2013, for the automatic recognition of anthropic feature induced flow direction changes, has been tested. The results underline the effectiveness of LiDAR and TLS data in the analysis of soil erosion signatures in vineyards, and indicate the high resolution topography as a useful tool to

  14. High resolution melting analysis: a rapid and accurate method to detect CALR mutations.

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    Cristina Bilbao-Sieyro

    Full Text Available The recent discovery of CALR mutations in essential thrombocythemia (ET and primary myelofibrosis (PMF patients without JAK2/MPL mutations has emerged as a relevant finding for the molecular diagnosis of these myeloproliferative neoplasms (MPN. We tested the feasibility of high-resolution melting (HRM as a screening method for rapid detection of CALR mutations.CALR was studied in wild-type JAK2/MPL patients including 34 ET, 21 persistent thrombocytosis suggestive of MPN and 98 suspected secondary thrombocytosis. CALR mutation analysis was performed through HRM and Sanger sequencing. We compared clinical features of CALR-mutated versus 45 JAK2/MPL-mutated subjects in ET.Nineteen samples showed distinct HRM patterns from wild-type. Of them, 18 were mutations and one a polymorphism as confirmed by direct sequencing. CALR mutations were present in 44% of ET (15/34, 14% of persistent thrombocytosis suggestive of MPN (3/21 and none of the secondary thrombocytosis (0/98. Of the 18 mutants, 9 were 52 bp deletions, 8 were 5 bp insertions and other was a complex mutation with insertion/deletion. No mutations were found after sequencing analysis of 45 samples displaying wild-type HRM curves. HRM technique was reproducible, no false positive or negative were detected and the limit of detection was of 3%.This study establishes a sensitive, reliable and rapid HRM method to screen for the presence of CALR mutations.

  15. High Resolution Melting Analysis: A Rapid and Accurate Method to Detect CALR Mutations

    Science.gov (United States)

    Moreno, Melania; Torres, Laura; Santana-Lopez, Gonzalo; Rodriguez-Medina, Carlos; Perera, María; Bellosillo, Beatriz; de la Iglesia, Silvia; Molero, Teresa; Gomez-Casares, Maria Teresa

    2014-01-01

    Background The recent discovery of CALR mutations in essential thrombocythemia (ET) and primary myelofibrosis (PMF) patients without JAK2/MPL mutations has emerged as a relevant finding for the molecular diagnosis of these myeloproliferative neoplasms (MPN). We tested the feasibility of high-resolution melting (HRM) as a screening method for rapid detection of CALR mutations. Methods CALR was studied in wild-type JAK2/MPL patients including 34 ET, 21 persistent thrombocytosis suggestive of MPN and 98 suspected secondary thrombocytosis. CALR mutation analysis was performed through HRM and Sanger sequencing. We compared clinical features of CALR-mutated versus 45 JAK2/MPL-mutated subjects in ET. Results Nineteen samples showed distinct HRM patterns from wild-type. Of them, 18 were mutations and one a polymorphism as confirmed by direct sequencing. CALR mutations were present in 44% of ET (15/34), 14% of persistent thrombocytosis suggestive of MPN (3/21) and none of the secondary thrombocytosis (0/98). Of the 18 mutants, 9 were 52 bp deletions, 8 were 5 bp insertions and other was a complex mutation with insertion/deletion. No mutations were found after sequencing analysis of 45 samples displaying wild-type HRM curves. HRM technique was reproducible, no false positive or negative were detected and the limit of detection was of 3%. Conclusions This study establishes a sensitive, reliable and rapid HRM method to screen for the presence of CALR mutations. PMID:25068507

  16. Identification of honeycomb sandwich properties by high-resolution modal analysis

    Directory of Open Access Journals (Sweden)

    Rebillat M.

    2010-06-01

    Full Text Available A method is proposed to identify the mechanical properties of the skin and core materials of honeycomb sandwich. All the elastic coefficients and loss-factors that matter in the dynamics of a panel in the thick-plate approximation are identified. To this end, experimental natural modes (i.e. eigenmodes of the damped system are compared to the numerical modes of a large sandwich panel (lx,y/h ≃ 80. The chosen generic model for the visco-elastic behaviour of the materials is E (1 + jη. The numerical modes are computed by means of a Rayleigh-Ritz procedure and their dampings are predicted according to the visco-elastic model. The frequencies and dampings of the natural modes of the panel are estimated experimentally by means of a high-resolution modal analysis technique. An optimisation procedure yields the desired coefficients. A sensitivity analysis assess the reliability of the method.

  17. Elemental analysis of aerosol organic nitrates with electron ionization high-resolution mass spectrometry

    Directory of Open Access Journals (Sweden)

    A. W. Rollins

    2009-10-01

    Full Text Available Four hydroxynitrates (R(OHR'ONO2 representative of atmospheric volatile organic compound (VOC oxidation products were synthesized, nebulized and sampled into an Aerodyne High Resolution Time of Flight Aerosol Mass Spectrometer (HR-ToF-AMS. The resulting mass spectrum was used to evaluate calibration factors for elemental analysis of organic nitrates by AMS, and to determine the distribution of nitrogen in the detected fragments in a search for an AMS signature of organic nitrates. We find that 30% of the detected nitrogen mass is in the NO+ and NO2+ fragments, 12% at NHx+ fragments, 5% at CxHyOzN+ fragments, and 53% at various CxHyN+ fragments. Elemental analysis indicated that nitrogen was detected with higher efficiency than carbon and hydrogen, but oxygen was detected with reduced efficiency compared to previously reported results for a suite of organics which did not include organic nitrates. The results are used to suggest the maximum corrections to ambient O:C and N:C ratios based on AMS measurements.

  18. Impact of data assimilation on high-resolution rainfall forecasts: A spatial, seasonal, and category analysis

    Science.gov (United States)

    V, Rakesh; Goswami, Prashant

    2015-01-01

    a limited area model (LAM), the impact of data assimilation is likely to depend on the background state through lateral boundary forcing; this may introduce certain seasonality in the impact of data assimilation on rainfall forecasting. It is also likely that the impact of data assimilation on forecasts will have certain spatial variability. Finally, owing to the convective nature of rainfall and the roles of parameterization scheme, the impact of data assimilation may depend on the category (intensity) of rainfall. Here these aspects for rainfall forecasts at high resolution were examined. Using a LAM (An advanced version of Weather Research and Forecasting Model), we have carried out twin simulations with and without data assimilation; the simulations without data assimilation are used as the benchmark for assessing the impact of data assimilation. Analysis of simulations for 40 sample days distributed over the years 2012-2014 over Karnataka (southern state in India) is carried out to estimate impact of data assimilation. Various statistical measures show that data assimilation improved the rainfall prediction in most cases; however, there is also strong seasonality and location dependence in impact of data assimilation. Our results also show that improvement due to data assimilation is higher/lower for lower/higher rainfall categories. Analysis shows that the cases where the initial states with data assimilation depart strongly from the first guess generally result in less or even negative impact. It is pointed out that the results have important implications in design of observation system and assessment of impact of forecasts.

  19. Electrical Rhythms Revealed by Harmonic Analysis of a High-Resolution Cardiogram.

    Science.gov (United States)

    Revenko, S V; Selector, L Ya; Gavrilov, I Yu; Nesterov, A V; Limonov, E V; Mudraya, I S; Kirpatovskii, V I

    2015-05-01

    The front-end low-noise electronic amplifiers and high-throughput computing systems made it possible to record ECG with a high resolution in the low-frequency range including the respiration and Mayer frequencies and to analyze ECG with digital filtering technique and harmonic analysis. These tools yielded ECG spectra of narcotized rats, which contained the characteristic pulsatile triplets and pentaplets with splitting constant equal to respiration rate, as well as the peaks at respiration and Mayer frequencies. The harmonic analysis of ECG determined the frequency parameters employed to tune the software bandpass filters, which revealed the respiratory (R) and Mayer (M) waves in the time domain with the amplitudes of 20-30 μV amounting to 5% ECG amplitude. The depolarizing myorelaxant succinylcholine chloride capable to trigger various types of arrhythmias, transiently increased R-wave, inhibited M-wave, and provoked a negative U-wave within a heartbeat ECG cycle synchronously with inspiration. It is hypothesized that M-, R-, and U-waves in ECG reflect cardiotropic activity of autonomic nervous system. The respective spectral peaks in ECG can be employed to assess intensity of sympathetic and parasympathetic cardiotropic influences, their balance, and the risk of arrhythmias.

  20. Rapid detection of functional gene polymorphisms of TLRs and IL-17 using high resolution melting analysis

    Science.gov (United States)

    Teräsjärvi, Johanna; Hakanen, Antti; Korppi, Matti; Nuolivirta, Kirsi; Gröndahl-Yli-Hannuksela, Kirsi; Mertsola, Jussi; Peltola, Ville; He, Qiushui

    2017-01-01

    Genetic variations in toll-like receptors (TLRs) and IL-17A have been widely connected to different diseases. Associations between susceptibility and resistance to different infections and single nucleotide polymorphisms (SNPs) in TLR1 to TLR4 and IL17A have been found. In this study, we aimed to develop a rapid and high throughput method to detect functional SNPs of above mentioned proteins. The following most studied and clinically important SNPs: TLR1 (rs5743618), TLR2 (rs5743708), TLR3 (rs3775291), TLR4 (rs4986790) and IL17 (rs2275913) were tested. High resolution melting analysis (HRMA) based on real-time PCR combined with melting analysis of a saturating double stranded-DNA binding dye was developed and used. The obtained results were compared to the “standard” sequencing method. A total of 113 DNA samples with known genotypes were included. The HRMA method correctly identified all genotypes of these five SNPs. Co-efficient values of variation of intra- and inter-run precision repeatability ranged from 0.04 to 0.23%. The determined limit of qualification for testing samples was from 0.5 to 8.0 ng/μl. The identical genotyping result was obtained from the same sample with these concentrations. Compared to “standard” sequencing methods HRMA is cost-effective, rapid and simple. All the five SNPs can be analyzed separately or in combination. PMID:28148965

  1. High-resolution SNP array analysis of patients with developmental disorder and normal array CGH results

    Directory of Open Access Journals (Sweden)

    Siggberg Linda

    2012-09-01

    Full Text Available Abstract Background Diagnostic analysis of patients with developmental disorders has improved over recent years largely due to the use of microarray technology. Array methods that facilitate copy number analysis have enabled the diagnosis of up to 20% more patients with previously normal karyotyping results. A substantial number of patients remain undiagnosed, however. Methods and Results Using the Genome-Wide Human SNP array 6.0, we analyzed 35 patients with a developmental disorder of unknown cause and normal array comparative genomic hybridization (array CGH results, in order to characterize previously undefined genomic aberrations. We detected no seemingly pathogenic copy number aberrations. Most of the vast amount of data produced by the array was polymorphic and non-informative. Filtering of this data, based on copy number variant (CNV population frequencies as well as phenotypically relevant genes, enabled pinpointing regions of allelic homozygosity that included candidate genes correlating to the phenotypic features in four patients, but results could not be confirmed. Conclusions In this study, the use of an ultra high-resolution SNP array did not contribute to further diagnose patients with developmental disorders of unknown cause. The statistical power of these results is limited by the small size of the patient cohort, and interpretation of these negative results can only be applied to the patients studied here. We present the results of our study and the recurrence of clustered allelic homozygosity present in this material, as detected by the SNP 6.0 array.

  2. NLTE Analysis of High Resolution H-band Spectra. II. Neutral Magnesium

    CERN Document Server

    Zhang, Junbo; Pan, Kaike; Prieto, Carlos Allende; Liu, Chao

    2016-01-01

    Aiming at testing the validity of our magnesium atomic model and investigating the effects of non-local thermodynamical equilibrium (NLTE) on the formation of the H-band neutral magnesium lines, we derive the differential Mg abundances from selected transitions for 13 stars either adopting or relaxing the assumption of local thermodynamical equilibrium (LTE). Our analysis is based on high-resolution and high signal-to-noise ratio H-band spectra from the Apache Point Observatory Galactic Evolution Experiment (APOGEE) and optical spectra from several instruments. The absolute differences between the Mg abundances derived from the two wavelength bands are always less than 0.1 dex in the NLTE analysis, while they are slightly larger for the LTE case. This suggests that our Mg atomic model is appropriate for investigating the NLTE formation of the H-band Mg lines. The NLTE corrections for the Mg I H-band lines are sensitive to the surface gravity, becoming larger for smaller log g values, and strong lines are more...

  3. High-resolution glacier imaging and characterization by means of GPR attribute analysis

    Science.gov (United States)

    Zhao, Wenke; Forte, Emanuele; Colucci, Renato R.; Pipan, Michele

    2016-08-01

    We evaluate the applicability and the effectiveness of GPR attribute analysis for high-resolution glacier imaging and characterization, testing this approach on 4-D GPR multifrequency data collected in a small glacier in the Eastern Alps, by repeating the acquisition along the same profiles in four different periods of the year 2013. The main objectives are to image and characterize the glacier's inner structure and to quantitatively monitor the seasonal thawing of near-surface frozen materials (snow/firn). A multiattribute approach is used to characterize the subsurface through different attribute categories, including instantaneous and textural attributes considering not only amplitude-, phase- and frequency-related attributes, but also other more complex and integrated parameters. We combine information from more than one attribute into a single image with composite displays, using overlays or mixed displays. The results demonstrate that the developed GPR attribute analysis can provide significant improvements in the discrimination of GPR signals, and obtain enhanced and more constrained data interpretations.

  4. High-resolution adsorption analysis of pillared zeolites IPC-3PI and MCM-36.

    Science.gov (United States)

    Zukal, Arnošt; Kubů, Martin

    2014-07-21

    The porous structure of pillared zeolites IPC-3PI and MCM-36 and their precursors IPC-3P and MCM-22P, respectively, has been investigated by means of a high-resolution adsorption analysis. The analysis was based on argon adsorption isotherms measured at 87 K from the relative pressure of 10(-6). The isotherms were processed by means of the t-plot method, which made it possible to distinguish adsorption in micropores from adsorption in mesopores. The pore size distribution was evaluated from argon isotherms using Non-Local Density Functional Theory. The obtained results have shown that the microporous structure of the MWW layers is preserved in both pillared zeolites. In contrast to precursors IPC-3P and MCM-22P, pillared samples are characterized by the formation of a porous structure belonging to the lower mesopore region. The distribution of mesopores in the zeolite IPC-3PI is broader and is shifted to larger widths in comparison with the zeolite MCM-36.

  5. Proximity graph analysis for linear networks extraction from high-resolution satellite imagery

    Science.gov (United States)

    Skourikhine, Alexei N.

    2006-05-01

    Reliable and accurate methods for detection and extraction of linear network, such as road networks, in satellite imagery are essential to many applications. We present an approach to the road network extraction from high-resolution satellite imagery that is based on proximity graph analysis. We are jumping off from the classification provided by existing spectral and textural classification tools, which produce a set of candidate road patches. Then, constrained Delaunay triangulation and Chordal Axis transform are used to extract centerline characterization of the delineated candidate road patches. We refine produced center lines to reduce noise influence on patch boundaries, resulting in a smaller set of robust center lines authentically representing their road patches. Refined center lines are triangulated using constrained Delaunay triangulation (CDT) algorithm to generate a sub-optimal mesh of interconnections among them. The generated triangle edges connecting different center lines are used for spatial analysis of the center lines relations. A subset of the Delaunay tessellation grid contains the Euclidian Minimum Spanning Tree (EMST) that provides an approximation of road network. The approach can be generalized to the multi-criteria MST and multi-criteria shortest path algorithms to integrate other factors important for road network extraction, in addition to proximity relations considered by standard EMST.

  6. High-resolution analysis of 1 day extreme precipitation in Sicily

    Science.gov (United States)

    Maugeri, M.; Brunetti, M.; Garzoglio, M.; Simolo, C.

    2015-04-01

    Sicily, the major Mediterranean island, experienced several exceptional precipitation episodes and floods during the last century, with dramatic consequences on human life and environment. A long term, rational planning of urban development is mandatory for protecting population and avoiding huge economic losses in the future. This requires a deep knowledge of the distributional features of extreme precipitation over the complex territory of Sicily. In the present study, we address this issue, and attempt a detailed investigation of observed 1-day precipitation extremes and their frequency distribution, based on a dense data-set of high-quality, homogenized station records in 1921-2005. We extrapolate very high quantiles (return levels) corresponding to 10-, 50- and 100-year return periods, as predicted by a generalized extreme value distribution. Return level estimates are produced on a regular high-resolution grid (30 arcsec) using a variant of regional frequency analysis combined with regression techniques. Results clearly reflect the complexity of this region, and make evident the high vulnerability of its eastern and northeastern parts as those prone to the most intense and potentially damaging events. This analysis thus provides an operational tool for extreme precipitation risk assessment and, at the same time, is an useful basis for validation and downscaling of regional climate models.

  7. High-resolution melt analysis of DNA methylation to discriminate semen in biological stains.

    Science.gov (United States)

    Antunes, Joana; Silva, Deborah S B S; Balamurugan, Kuppareddi; Duncan, George; Alho, Clarice S; McCord, Bruce

    2016-02-01

    The goal of this study was to develop a method for the detection of semen in biological stains using high-resolution melt (HRM) analysis and DNA methylation. To perform this task, we used an epigenetic locus that targets a tissue-specific differentially methylated region for semen. This specific locus, ZC3H12D, contains methylated CpG sites that are hypomethylated in semen and hypermethylated in blood and saliva. Using this procedure, DNA from forensic stains can be isolated, processed using bisulfite-modified polymerase chain reaction (PCR), and detected by real-time PCR with HRM capability. The method described in this article is robust; we were able to obtain results from samples with as little as 1 ng of genomic DNA. Samples inhibited by humic acid still produced reliable results. Furthermore, the procedure is specific and will not amplify non-bisulfite-modified DNA. Because this process can be performed using real-time PCR and is quantitative, it fits nicely within the workflow of current forensic DNA laboratories. As a result, it should prove to be a useful technique for processing trace evidence samples for serological analysis.

  8. Circulation characteristics of a monsoon depression during BOBMEX-99 using high-resolution analysis

    Indian Academy of Sciences (India)

    Ananda K Das; U C Mohanty; Someshwar Das; M Mandal; S R Kalsi

    2003-06-01

    The skill and efficiency of a numerical model mostly varies with the quality of initial values, accuracy on parameterization of physical processes and horizontal and vertical resolution of the model. Commonly used low-resolution reanalyses are hardly able to capture the prominent features associated with organized convective processes in a monsoon depression. The objective is to prepare improved high-resolution analysis by the use of MM5 modelling system developed by the Pennsyl- vania State University/National Center for Atmospheric Research (PSU/NCAR). It requires the objective comparison of high and low-resolution analysis datasets in assessing the specific convective features of a monsoon depression. For this purpose, reanalysis datasets of NCAR/NCEP (National Center for Atmospheric Research/National Centers for Environmental Prediction) at a horizontal resolution of 2.5° (latitude/longitude) have been used as first guess in the objective analysis scheme. The additional asynoptic datasets obtained during BOBMEX-99 are utilized within the assimilation process. Cloud Motion Wind (CMW) data of METEOSAT satellite and SSM/I surface wind data are included for the improvement of derived analysis. The multiquadric (MQD) interpolation technique is selected and applied for meteorological objective analysis at a horizontal resolution of 30 km. After a successful inclusion of additional data, the resulting reanalysis is able to produce the structure of convective organization as well as prominent synoptic features associated with monsoon depression. Comparison and error verifications have been done with the help of available upper-air station data. The objective verification reveals the efficiency of the analysis scheme.

  9. High-resolution quantitative metabolome analysis of urine by automated flow injection NMR.

    Science.gov (United States)

    Da Silva, Laeticia; Godejohann, Markus; Martin, François-Pierre J; Collino, Sebastiano; Bürkle, Alexander; Moreno-Villanueva, María; Bernhardt, Jürgen; Toussaint, Olivier; Grubeck-Loebenstein, Beatrix; Gonos, Efstathios S; Sikora, Ewa; Grune, Tilman; Breusing, Nicolle; Franceschi, Claudio; Hervonen, Antti; Spraul, Manfred; Moco, Sofia

    2013-06-18

    Metabolism is essential to understand human health. To characterize human metabolism, a high-resolution read-out of the metabolic status under various physiological conditions, either in health or disease, is needed. Metabolomics offers an unprecedented approach for generating system-specific biochemical definitions of a human phenotype through the capture of a variety of metabolites in a single measurement. The emergence of large cohorts in clinical studies increases the demand of technologies able to analyze a large number of measurements, in an automated fashion, in the most robust way. NMR is an established metabolomics tool for obtaining metabolic phenotypes. Here, we describe the analysis of NMR-based urinary profiles for metabolic studies, challenged to a large human study (3007 samples). This method includes the acquisition of nuclear Overhauser effect spectroscopy one-dimensional and J-resolved two-dimensional (J-Res-2D) (1)H NMR spectra obtained on a 600 MHz spectrometer, equipped with a 120 μL flow probe, coupled to a flow-injection analysis system, in full automation under the control of a sampler manager. Samples were acquired at a throughput of ~20 (or 40 when J-Res-2D is included) min/sample. The associated technical analysis error over the full series of analysis is 12%, which demonstrates the robustness of the method. With the aim to describe an overall metabolomics workflow, the quantification of 36 metabolites, mainly related to central carbon metabolism and gut microbial host cometabolism, was obtained, as well as multivariate data analysis of the full spectral profiles. The metabolic read-outs generated using our analytical workflow can therefore be considered for further pathway modeling and/or biological interpretation.

  10. Ames S-32 O-16 O-18 Line List for High-Resolution Experimental IR Analysis

    Science.gov (United States)

    Huang, Xinchuan; Schwenke, David W.; Lee, Timothy J.

    2016-01-01

    By comparing to the most recent experimental data and spectra of the SO2 628 ?1/?3 bands (see Ulenikov et al., JQSRT 168 (2016) 29-39), this study illustrates the reliability and accuracy of the Ames-296K SO2 line list, which is accurate enough to facilitate such high-resolution spectroscopic analysis. The SO2 628 IR line list is computed on a recently improved potential energy surface (PES) refinement, denoted Ames-Pre2, and the published purely ab initio CCSD(T)/aug-cc-pVQZ dipole moment surface. Progress has been made in both energy level convergence and rovibrational quantum number assignments agreeing with laboratory analysis models. The accuracy of the computed 628 energy levels and line list is similar to what has been achieved and reported for SO2 626 and 646, i.e. 0.01-0.03 cm(exp -1) for bands up to 5500 cm(exp -1). During the comparison, we found some discrepancies in addition to overall good agreements. The three-IR-list based feature-by-feature analysis in a 0.25 cm(exp -1) spectral window clearly demonstrates the power of the current Ames line lists with new assignments, correction of some errors, and intensity contributions from varied sources including other isotopologues. We are inclined to attribute part of detected discrepancies to an incomplete experimental analysis and missing intensity in the model. With complete line position, intensity, and rovibrational quantum numbers determined at 296 K, spectroscopic analysis is significantly facilitated especially for a spectral range exhibiting such an unusually high density of lines. The computed 628 rovibrational levels and line list are accurate enough to provide alternatives for the missing bands or suspicious assignments, as well as helpful to identify these isotopologues in various celestial environments. The next step will be to revisit the SO2 828 and 646 spectral analyses.

  11. Ames 32S16O18O line list for high-resolution experimental IR analysis

    Science.gov (United States)

    Huang, Xinchuan; Schwenke, David W.; Lee, Timothy J.

    2016-12-01

    By comparing to the most recent experimental data and spectra of the SO2 628 ν1/ν3 bands (see Ulenikov et al., JQSRT 168 (2016) 29-39), this study illustrates the reliability and accuracy of the Ames-296K SO2 line list, which is accurate enough to facilitate such high-resolution spectroscopic analysis. The SO2 628 IR line list is computed on a recently improved potential energy surface (PES) refinement, denoted Ames-Pre2, and the published purely ab initio CCSD(T)/aug-cc-pV(Q+d)Z dipole moment surface. Progress has been made in both energy level convergence and rovibrational quantum number assignments agreeing with laboratory analysis models. The accuracy of the computed 628 energy levels and line list is similar to what has been achieved and reported for SO2 626 and 646, i.e. 0.01-0.03 cm-1 for bands up to 5500 cm-1. During the comparison, we found some discrepancies in addition to overall good agreements. The three-IR-list based feature-by-feature analysis in a 0.25 cm-1 spectral window clearly demonstrates the power of the current Ames line lists with new assignments, correction of some errors, and intensity contributions from varied sources including other isotopologues. We are inclined to attribute part of detected discrepancies to an incomplete experimental analysis and missing intensity in the model. With complete line position, intensity, and rovibrational quantum numbers determined at 296 K, spectroscopic analysis is significantly facilitated especially for a spectral range exhibiting such an unusually high density of lines. The computed 628 rovibrational levels and line list are accurate enough to provide alternatives for the missing bands or suspicious assignments, as well as helpful to identify these isotopologues in various celestial environments. The next step will be to revisit the SO2 828 and 646 spectral analyses.

  12. A robotic, compact, and extremely high resolution optical spectrograph for a close-in super-Earth survey

    Science.gov (United States)

    Ge, Jian; Powell, Scott; Zhao, Bo; Varosi, Frank; Ma, Bo; Sithajan, Sirinrat; Liu, Jian; Li, Rui; Grieves, Nolan; Schofield, Sidney; Avner, Louis; Jakeman, Hali; Yoder, William A.; Gittelmacher, Jakob A.; Singer, Michael A.; Muterspaugh, Matthew; Williamson, Michael; Maxwell, J. E.

    2014-08-01

    One of the most astonishing results from the HARPS and Kepler planet surveys is the recent discovery of close-in super-Earths orbiting more than half of FGKM dwarfs. This new population of exoplanets represents the most dominant class of planetary systems known to date, is totally unpredicted by the classical core-accretion disk planet formation model. High cadence and high precision Doppler spectroscopy is the key to characterize properties of this new population and constrain planet formation models. A new robotic, compact high resolution optical spectrograph, called TOU (formerly called EXPERT-III), was commissioned at the Automatic Spectroscopic Telescope (AST) at Fairborn Observatory in Arizona in July 2013 and has produced a spectral resolution of about 100,000 and simultaneous wavelength coverage of 0.38-0.9 μm with a 4kx4k back-illuminated Fairchild CCD detector. The instrument holds a very high vacuum of 1 micro torr and about 2 mK temperature stability over a month. The early on-sky RV measurements show that this instrument is approaching a Doppler precision of 1 m/s (rms) for bright reference stars (such as Tau Ceti) with 5 min exposures and better than 3 m/s (P-V, RMS~1 m/s) daily RV stability before calibration exposures are applied. A pilot survey of 20 Vsuper-Earth systems and known RV stable stars, is being launched and every star will be observed ~100 times over ~300 days time window between this summer and next spring, following up with a full survey of ~150 V< 10 FGKM dwarfs in 2015-2017.

  13. Geographic information system for fusion and analysis of high-resolution remote sensing and ground data

    Science.gov (United States)

    Freeman, Anthony; Way, Jo Bea; Dubois, Pascale; Leberl, Franz

    1993-01-01

    We seek to combine high-resolution remotely sensed data with models and ground truth measurements, in the context of a Geographical Information System (GIS), integrated with specialized image processing software. We will use this integrated system to analyze the data from two Case Studies, one at a boreal forest site, the other a tropical forest site. We will assess the information content of the different components of the data, determine the optimum data combinations to study biogeophysical changes in the forest, assess the best way to visualize the results, and validate the models for the forest response to different radar wavelengths/polarizations. During the 1990's, unprecedented amounts of high-resolution images from space of the Earth's surface will become available to the applications scientist from the LANDSAT/TM series, European and Japanese ERS-1 satellites, RADARSAT and SIR-C missions. When the Earth Observation Systems (EOS) program is operational, the amount of data available for a particular site can only increase. The interdisciplinary scientist, seeking to use data from various sensors to study his site of interest, may be faced with massive difficulties in manipulating such large data sets, assessing their information content, determining the optimum combinations of data to study a particular parameter, visualizing his results and validating his model of the surface. The techniques to deal with these problems are also needed to support the analysis of data from NASA's current program of Multi-sensor Airborne Campaigns, which will also generate large volumes of data. In the Case Studies outlined in this proposal, we will have somewhat unique data sets. For the Bonanza Creek Experimental Forest (Case 1) calibrated DC-8 SAR (Synthetic Aperture Radar) data and extensive ground truth measurement are already at our disposal. The data set shows documented evidence to temporal change. The Belize Forest Experiment (Case 2) will produce calibrated DC-8 SAR

  14. Geographic information system for fusion and analysis of high-resolution remote sensing and ground data

    Science.gov (United States)

    Freeman, Anthony; Way, Jo Bea; Dubois, Pascale; Leberl, Franz

    1993-01-01

    We seek to combine high-resolution remotely sensed data with models and ground truth measurements, in the context of a Geographical Information System (GIS), integrated with specialized image processing software. We will use this integrated system to analyze the data from two Case Studies, one at a boreal forest site, the other a tropical forest site. We will assess the information content of the different components of the data, determine the optimum data combinations to study biogeophysical changes in the forest, assess the best way to visualize the results, and validate the models for the forest response to different radar wavelengths/polarizations. During the 1990's, unprecedented amounts of high-resolution images from space of the Earth's surface will become available to the applications scientist from the LANDSAT/TM series, European and Japanese ERS-1 satellites, RADARSAT and SIR-C missions. When the Earth Observation Systems (EOS) program is operational, the amount of data available for a particular site can only increase. The interdisciplinary scientist, seeking to use data from various sensors to study his site of interest, may be faced with massive difficulties in manipulating such large data sets, assessing their information content, determining the optimum combinations of data to study a particular parameter, visualizing his results and validating his model of the surface. The techniques to deal with these problems are also needed to support the analysis of data from NASA's current program of Multi-sensor Airborne Campaigns, which will also generate large volumes of data. In the Case Studies outlined in this proposal, we will have somewhat unique data sets. For the Bonanza Creek Experimental Forest (Case 1) calibrated DC-8 SAR (Synthetic Aperture Radar) data and extensive ground truth measurement are already at our disposal. The data set shows documented evidence to temporal change. The Belize Forest Experiment (Case 2) will produce calibrated DC-8 SAR

  15. High-Resolution Mass Spectroscopic Analysis of Secondary Organic Aerosol Generated by Ozonolysis of Isoprene

    Energy Technology Data Exchange (ETDEWEB)

    Nguyen, Tran B; Bateman, Adam P; Bones, David L; Nizkorodov, Serguei; Laskin, Julia; Laskin, Alexander

    2010-02-01

    The chemical composition of secondary organic aerosol (SOA) generated from the ozonolysis of isoprene (C5H8) in the presence of an OH scavenger was examined using high-resolution electrospray ionization mass spectrometry (ESI-MS). The chemical composition of SOA is complex, with more than 1000 assigned peaks observed in the positive and negative ion mode spectra. Only a small fraction of peaks corresponds to known products of isoprene oxidation, such as pyruvic acid, glycolic acid, methylglyoxal, etc. The absolute majority of the detected peaks correspond to highly oxidized oligomeric constituents of SOA, with an average O:C molar ratio of ~0.6. The corresponding organic mass (OM) to organic oxygen (OO) ratio is OM/OO ~2.4. Approximately 8% of oxygen atoms in SOA are in the form of peroxides as quantified with an iodide test. Double bond equivalency (DBE) factors, representing the sum of all double bonds and rings, increase by 1 for every 2-3 additional carbon atoms in the molecule. The prevalent oligomer building blocks are therefore carbonyls or carboxylic acids with a C2-C3 skeleton. Kendrick analysis suggests that simple aldehydes, specifically formaldehyde, acetaldehyde, and methylglyoxal can serve as monomeric building blocks in the observed oligomers. The large number of reactive functional groups, especially organic peroxides and carbonyls, suggests that isoprene/O3 SOA should be prone to chemical and photochemical aging.

  16. High-resolution abundance analysis of very metal-poor r-I stars

    CERN Document Server

    Siqueira-Mello, C; Barbuy, B; Spite, M; Spite, F; Beers, T C; Caffau, E; Bonifacio, P; Cayrel, R; François, P; Schatz, H; Wanajo, S

    2014-01-01

    Moderately r-process-enriched stars (r-I) are at least four times as common as those that are greatly enriched in r-process elements (r-II), and the abundances in their atmospheres are important tools for obtaining a better understanding of the nucleosynthesis processes responsible for the origin of the elements beyond the iron peak. The main aim of this work is to derive abundances for a sample of seven metal-poor stars with classified as r-I stars, to understand the role of these stars for constraining the astrophysical nucleosynthesis event(s) that is(are) responsible for the production of the r-process, and to investigate whether they differ, in any significant way, from the r-II stars. We carried out a detailed abundance analysis based on high-resolution spectra obtained with the VLT/UVES spectrograph. The OSMARCS LTE 1D model atmosphere grid was employed, along with the spectrum synthesis code Turbospectrum. We have derived abundances of light elements Li, C, and N, alpha-elements, odd-Z elements, iron-...

  17. Multiresolution analysis of characteristic length scales with high-resolution topographic data

    Science.gov (United States)

    Sangireddy, Harish; Stark, Colin P.; Passalacqua, Paola

    2017-07-01

    Characteristic length scales (CLS) define landscape structure and delimit geomorphic processes. Here we use multiresolution analysis (MRA) to estimate such scales from high-resolution topographic data. MRA employs progressive terrain defocusing, via convolution of the terrain data with Gaussian kernels of increasing standard deviation, and calculation at each smoothing resolution of (i) the probability distributions of curvature and topographic index (defined as the ratio of slope to area in log scale) and (ii) characteristic spatial patterns of divergent and convergent topography identified by analyzing the curvature of the terrain. The MRA is first explored using synthetic 1-D and 2-D signals whose CLS are known. It is then validated against a set of MARSSIM (a landscape evolution model) steady state landscapes whose CLS were tuned by varying hillslope diffusivity and simulated noise amplitude. The known CLS match the scales at which the distributions of topographic index and curvature show scaling breaks, indicating that the MRA can identify CLS in landscapes based on the scaling behavior of topographic attributes. Finally, the MRA is deployed to measure the CLS of five natural landscapes using meter resolution digital terrain model data. CLS are inferred from the scaling breaks of the topographic index and curvature distributions and equated with (i) small-scale roughness features and (ii) the hillslope length scale.

  18. Sex determination in highly fragmented human DNA by high-resolution melting (HRM) analysis.

    Science.gov (United States)

    Álvarez-Sandoval, Brenda A; Manzanilla, Linda R; Montiel, Rafael

    2014-01-01

    Sex identification in ancient human remains is a common problem especially if the skeletons are sub-adult, incomplete or damaged. In this paper we propose a new method to identify sex, based on real-time PCR amplification of small fragments (61 and 64 bp) of the third exon within the amelogenin gene covering a 3-bp deletion on the AMELX-allele, followed by a High Resolution Melting analysis (HRM). HRM is based on the melting curves of amplified fragments. The amelogenin gene is located on both chromosomes X and Y, showing dimorphism in length. This molecular tool is rapid, sensitive and reduces the risk of contamination from exogenous genetic material when used for ancient DNA studies. The accuracy of the new method described here has been corroborated by using control samples of known sex and by contrasting our results with those obtained with other methods. Our method has proven to be useful even in heavily degraded samples, where other previously published methods failed. Stochastic problems such as the random allele drop-out phenomenon are expected to occur in a less severe form, due to the smaller fragment size to be amplified. Thus, their negative effect could be easier to overcome by a proper experimental design.

  19. Sex determination in highly fragmented human DNA by high-resolution melting (HRM analysis.

    Directory of Open Access Journals (Sweden)

    Brenda A Álvarez-Sandoval

    Full Text Available Sex identification in ancient human remains is a common problem especially if the skeletons are sub-adult, incomplete or damaged. In this paper we propose a new method to identify sex, based on real-time PCR amplification of small fragments (61 and 64 bp of the third exon within the amelogenin gene covering a 3-bp deletion on the AMELX-allele, followed by a High Resolution Melting analysis (HRM. HRM is based on the melting curves of amplified fragments. The amelogenin gene is located on both chromosomes X and Y, showing dimorphism in length. This molecular tool is rapid, sensitive and reduces the risk of contamination from exogenous genetic material when used for ancient DNA studies. The accuracy of the new method described here has been corroborated by using control samples of known sex and by contrasting our results with those obtained with other methods. Our method has proven to be useful even in heavily degraded samples, where other previously published methods failed. Stochastic problems such as the random allele drop-out phenomenon are expected to occur in a less severe form, due to the smaller fragment size to be amplified. Thus, their negative effect could be easier to overcome by a proper experimental design.

  20. Structural analysis of advanced polymeric foams by means of high resolution X-ray computed tomography

    Science.gov (United States)

    Nacucchi, M.; De Pascalis, F.; Scatto, M.; Capodieci, L.; Albertoni, R.

    2016-06-01

    Advanced polymeric foams with enhanced thermal insulation and mechanical properties are used in a wide range of industrial applications. The properties of a foam strongly depend upon its cell structure. Traditionally, their microstructure has been studied using 2D imaging systems based on optical or electron microscopy, with the obvious disadvantage that only the surface of the sample can be analysed. To overcome this shortcoming, the adoption of X-ray micro-tomography imaging is here suggested to allow for a complete 3D, non-destructive analysis of advanced polymeric foams. Unlike metallic foams, the resolution of the reconstructed structural features is hampered by the low contrast in the images due to weak X-ray absorption in the polymer. In this work an advanced methodology based on high-resolution and low-contrast techniques is used to perform quantitative analyses on both closed and open cells foams. Local structural features of individual cells such as equivalent diameter, sphericity, anisotropy and orientation are statistically evaluated. In addition, thickness and length of the struts are determined, underlining the key role played by the achieved resolution. In perspective, the quantitative description of these structural features will be used to evaluate the results of in situ mechanical and thermal test on foam samples.

  1. High-Resolution Melting Curve Analysis for Identification of Pasteurellaceae Species in Experimental Animal Facilities.

    Science.gov (United States)

    Miller, Manuel; Zorn, Julia; Brielmeier, Markus

    2015-01-01

    Pasteurellaceae are among the most prevalent bacterial pathogens isolated from mice housed in experimental animal facilities. Reliable detection and differentiation of Pasteurellaceae are essential for high-quality health monitoring. In this study, we combined a real-time PCR assay amplifying a variable region in the 16S rRNA sequence with high-resolution melting curve analysis (HRM) to identify and differentiate among the commonly isolated species Pasteurella pneumotropica biotypes "Jawetz" and "Heyl", Actinobacillus muris, and Haemophilus influenzaemurium. We used a set of six reference strains for assay development, with the melting profiles of these strains clearly distinguishable due to DNA sequence variations in the amplicon. For evaluation, we used real-time PCR/HRM to test 25 unknown Pasteurellaceae isolates obtained from an external diagnostic laboratory and found the results to be consistent with those of partial 16S rRNA sequencing. The real-time PCR/HRM method provides a sensitive, rapid, and closed-tube approach for Pasteurellaceae species identification for health monitoring of laboratory mice.

  2. High-Resolution Melting Curve Analysis for Identification of Pasteurellaceae Species in Experimental Animal Facilities.

    Directory of Open Access Journals (Sweden)

    Manuel Miller

    Full Text Available Pasteurellaceae are among the most prevalent bacterial pathogens isolated from mice housed in experimental animal facilities. Reliable detection and differentiation of Pasteurellaceae are essential for high-quality health monitoring. In this study, we combined a real-time PCR assay amplifying a variable region in the 16S rRNA sequence with high-resolution melting curve analysis (HRM to identify and differentiate among the commonly isolated species Pasteurella pneumotropica biotypes "Jawetz" and "Heyl", Actinobacillus muris, and Haemophilus influenzaemurium. We used a set of six reference strains for assay development, with the melting profiles of these strains clearly distinguishable due to DNA sequence variations in the amplicon. For evaluation, we used real-time PCR/HRM to test 25 unknown Pasteurellaceae isolates obtained from an external diagnostic laboratory and found the results to be consistent with those of partial 16S rRNA sequencing. The real-time PCR/HRM method provides a sensitive, rapid, and closed-tube approach for Pasteurellaceae species identification for health monitoring of laboratory mice.

  3. Radio-loud AGN-jet morphology and polarization: the role of ultra-high resolution radio surveys

    CERN Document Server

    Agudo, Ivan

    2016-01-01

    A review of the current challenges for the understanding of the physics of extragalactic radio jets from supermassive black holes is presented. Also, a prospect is given about how both very long baseline interferometry (VLBI) and polarimetric observations help us to understand their physics and the ones of their magnetic fields. This paper focuses on the impact that previous ultra-high resolution polarimetric surveys have had on our current knowledge on radio loud AGN. It first concentrates on the expectations about the improvement that the Square Kilometer Array, used as a super-sensitive VLBI station on existing and future very long baseline interferometric arrays, will provide in terms of access to new source classes, and in terms of a deeper portion of the Universe than currently accessible. A series of key new radio loud AGN science fields, to be opened by the Square Kilometer Array, are outlined together with a collection of preliminary ideas about possible programs of interest to deep in such fields. T...

  4. A High-Resolution Survey of HI Absorption toward the Central 200 pc of the Galactic Center

    CERN Document Server

    Lang, Cornelia C; Cyganowski, Claudia; Clubb, Kelsey I

    2010-01-01

    We present an HI absorption survey of the central 250 pc of the Galaxy. Very Large Array (VLA) observations were made at 21 cm in the DnC and CnB configurations and have a resolution of ~15"(0.6 pc at the Galactic Center (GC) distance) and a velocity resolution of ~2.5 km/s. This study provides HI data with high spatial resolution, comparable with the many high resolution observations which have been made of GC sources over the past ten years. Here we present an overview of the HI absorption toward ~40 well-known continuum sources and a detailed comparison of the ionized, atomic and molecular components of the interstellar medium for the Sgr B, Radio Arc and Sgr C regions. In these well-known regions, the atomic gas appears to be closely correlated in both velocity and distribution to the ionized and molecular gas, indicating that it resides in photo-dissociation regions related to the HII regions in the GC. Toward the majority of the radio continuum sources, HI absorption by the 3-kpc arm is detected, constr...

  5. Differentiation of five enterohepatic Helicobacter species by nested PCR with high-resolution melting curve analysis.

    Science.gov (United States)

    Wu, Miaoli; Rao, Dan; Zhu, Yujun; Wang, Jing; Yuan, Wen; Zhang, Yu; Huang, Ren; Guo, Pengju

    2017-04-01

    Enterohepatic Helicobacter species (EHS) are widespread in rodent species around the world. Several studies have demonstrated that infection with EHS can interfere with the outcomes of animal experiments in cancer research and significantly influence the study results. Therefore, it is essential to establish a rapid detection and identification of EHS for biomedical research using laboratory rodents. Our study aimed to develop a rapid and sensitive method to detect and distinguish five enterohepatic Helicobacter species. Nested PCR followed by high-resolution melting curve analysis (HRM) was developed for identification of H. bilis, H. rodentium, H. muridarum, H. typhlonius, as well as H. hepaticus. To validate the accuracy of nested PCR-HRM analysis, quantitative real-time PCR methods for five different enterohepatic Helicobacter species were developed. A total of 50 cecal samples were tested using both nested PCR-HRM analysis and qPCR method. The nested PCR-HRM method could distinguish five enterohepatic Helicobacter species by different melting temperatures. The melting curve were characterized by peaks of 78.7 ± 0.12°C for H. rodentium, 80.51 ± 0.09°C for H. bilis, 81.6 ± 0.1°C for H. typhlonius, 82.11 ± 0.18°C for H. muridarum, and 82.95 ± 0.09°C for H. hepaticus. The nested PCR-HRM assay is a simple, rapid, and cost-effective assay. This assay could be a useful tool for molecular epidemiology study of enterohepatic Helicobacter infection and an attractive alternative for genotyping of enterohepatic Helicobacter species. © 2016 John Wiley & Sons Ltd.

  6. High resolution three-dimensional magnetization mapping in Tokachidake Volcano using low altitude airborne magnetic survey data

    Science.gov (United States)

    Iwata, M.; Mogi, T.; Okuma, S.; Nakatsuka, T.

    2016-12-01

    Tokachidake Volcano, central Hokkaido, Japan erupted in 1926, 1962 and 1988-1989 in the 20th century from the central part. In recent years, expansions of the edifice of the volcano at shallow depth and increases of the volcanic smoke in the Taisho crater were observed (Meteorological Agency of Japan, 2014). Magnetic changes were observed at the 62-2 crater by repeated magnetic measurements in 2008-2009, implying a demagnetization beneath the crater (Hashimoto at al., 2010). Moreover, a very low resistivity part was found right under the 62-2 crater from an AMT survey (Yamaya et al., 2010). However, since the station numbers of the survey are limited, the area coverage is not sufficient. In this study, we have re-analyzed high-resolution aeromagnetic data to delineate the three-dimensional magnetic structure of the volcano to understand the nature of other craters.A low altitude airborne magnetic survey was conducted in 2014 mainly over the active areas of the volcano by the Ministry of Land, Infrastructure, Transport and Tourism to manage land slide risk in the volcano. The survey was flown at an altitude of 60 m above ground by a helicopter with a Cesium magnetometer in the towed-bird 30m below the helicopter. The low altitude survey enables us to delineate the detailed magnetic structure. We calculated magnetic anomaly distribution on a smooth surface assuming equivalent anomalies below the observation surface. Then the 3D magnetic imaging method (Nakatsuka and Okuma, 2014) was applied to the magnetic anomalies to reveal the three-dimensional magnetic structure.As a result, magnetization highs were seen beneath the Ground crater, Suribachi crater and Kitamuki crater. This implies that magmatic activity occurred in the past at these craters. These magma should have already solidified and acquired strong remanent magnetization. Relative magnetization lows were seen beneath the 62-2 crater and the Taisho crater where fumarolic activity is active. However a

  7. Theoretical analysis of microring resonator-based biosensor with high resolution and free of temperature influence

    Science.gov (United States)

    Jian, Aoqun; Zou, Lu; Tang, Haiquan; Duan, Qianqian; Ji, Jianlong; Zhang, Qianwu; Zhang, Xuming; Sang, Shengbo

    2017-06-01

    The issue of thermal effects is inevitable for the ultrahigh refractive index (RI) measurement. A biosensor with parallel-coupled dual-microring resonator configuration is proposed to achieve high resolution and free thermal effects measurement. Based on the coupled-resonator-induced transparency effect, the design and principle of the biosensor are introduced in detail, and the performance of the sensor is deduced by simulations. Compared to the biosensor based on a single-ring configuration, the designed biosensor has a 10-fold increased Q value according to the simulation results, thus the sensor is expected to achieve a particularly high resolution. In addition, the output signal of the mathematical model of the proposed sensor can eliminate the thermal influence by adopting an algorithm. This work is expected to have great application potentials in the areas of high-resolution RI measurement, such as biomedical discoveries, virus screening, and drinking water safety.

  8. High-resolution analysis of the 5'-end transcriptome using a next generation DNA sequencer.

    Directory of Open Access Journals (Sweden)

    Shin-ichi Hashimoto

    Full Text Available Massively parallel, tag-based sequencing systems, such as the SOLiD system, hold the promise of revolutionizing the study of whole genome gene expression due to the number of data points that can be generated in a simple and cost-effective manner. We describe the development of a 5'-end transcriptome workflow for the SOLiD system and demonstrate the advantages in sensitivity and dynamic range offered by this tag-based application over traditional approaches for the study of whole genome gene expression. 5'-end transcriptome analysis was used to study whole genome gene expression within a colon cancer cell line, HT-29, treated with the DNA methyltransferase inhibitor, 5-aza-2'-deoxycytidine (5Aza. More than 20 million 25-base 5'-end tags were obtained from untreated and 5Aza-treated cells and matched to sequences within the human genome. Seventy three percent of the mapped unique tags were associated with RefSeq cDNA sequences, corresponding to approximately 14,000 different protein-coding genes in this single cell type. The level of expression of these genes ranged from 0.02 to 4,704 transcripts per cell. The sensitivity of a single sequence run of the SOLiD platform was 100-1,000 fold greater than that observed from 5'end SAGE data generated from the analysis of 70,000 tags obtained by Sanger sequencing. The high-resolution 5'end gene expression profiling presented in this study will not only provide novel insight into the transcriptional machinery but should also serve as a basis for a better understanding of cell biology.

  9. Thin Layer Chromatography-Autography-High Resolution Mass Spectrometry Analysis: Accelerating the Identification of Acetylcholinesterase Inhibitors.

    Science.gov (United States)

    Ramallo, I Ayelen; Salazar, Mario O; Furlan, Ricardo L E

    2015-01-01

    The prevailing treatment for Alzheimer's disease is the use of acetylcholinesterase (AChE) inhibitors. Natural extracts are the principal source of AChE's inhibitors. However, their chemical complexity demands for simple, selective and rapid assays. To develop a strategy for identification of AChE inhibitors present in mixtures employing high resolution mass spectrometry (HRMS) and thin layer chromatography (TLC)-biological staining. The strategy uses an autographic assay based on the α-naphthyl acetate - fast blue B system for the detection of AChE activity. The immobilisation of AChE in agar allowed the extraction of the compounds for analysis by HRMS. Three TLC experiments employing different solvent systems were used in parallel and the mass spectra of the compounds extracted from the inhibition halos, were compared. The analysis was performed under MatLab environment. The strategy was used to detect the presence of physostigmine in an extract of Brassica rapa L. spiked with the inhibitor. Similarly, caffeine was straightforwardly spotted as responsible for the inhibitory properties of an extract of Ilex paraguariensis Saint-Hilaire. Comparison of the HRMS profiles lead to the facile identification of the [M+H](+) and [M+Na](+) of the compounds responsible for the inhibition. The proposed methodology, coupling TLC-AChE autography-HRMS, illustrates the feasibility of assigning molecular formulas of active compounds present in complex mixtures directly from autography. The new AChE agar-immobilised assay presented a more homogenous colour and a better definition than direct spraying methods, reducing the cost of the assay and improving its sensitivity. Copyright © 2015 John Wiley & Sons, Ltd.

  10. Cancer mutation screening: Comparison of high-resolution melt analysis between two platforms.

    Science.gov (United States)

    Ebili, Henry O; Ilyas, Mohammad

    2015-01-01

    High-resolution melt analysis (HRMA) is a cheap and reliable post-polymerase chain reaction (PCR) cancer mutation screening technique, which is fast gaining clinical relevance. The HRMA capabilities of the LightScanner (Idaho Technology) have been severally studied. However, the ABI 7500 HRM has not been tested against the purpose-built HRM instrument such as the LightScanner. DNA from formalin-fixed, paraffin-embedded gastric cancer, colorectal cancer, and normal tissue as well as from colorectal cancer cell lines were amplified at exons 2, 3, and 4 of KRAS, and at exons 11 and 15 of BRAF in the ABI 7500 fast real-time PCR machine and subjected to melting both on the ABI and on the LightScanner. HRMA data were analysed with the ABI HRM software v2.0.1 and the LightScanner Call-IT 2.5. We tested the ABI 7500 HRM for internal precision, accuracy, sensitivity, and specificity at mutation screening relative to the LightScanner, using crude percentage concordance, kappa statistics, and the area under the receiver operator characteristics (AUROC) curve on SPSS version 19. The results show that the ABI 7500 HRMA has a high internal precision, and excellent concordance, sensitivity, and specificity at mutation screening compared with the LightScanner. However, in contrast to the LightScanner HRM software analysis, the ABI HRM software v.2.0.1, cannot distinguish real from certain pseudovariations in PCR amplicons that are sometimes brought about by the artefacts of the melting process. In conclusion, the ABI HRM has a comparable performance level with the LightScanner, although in certain respects mentioned previously, the LightScanner has an edge over the ABI.

  11. Analysis of several high-resolution infrared bands of spiropentane, C5H8

    Energy Technology Data Exchange (ETDEWEB)

    Maki, Arthur G.; Price, Joseph E.; Harzan, J.; Nibler, Joseph W.; Weber, Alfons; Masiello, Tony; Blake, Thomas A.

    2015-06-01

    he high-resolution infrared absorption spectrum of spiropentane (C5H8) has been measured from 200 to 4000 cm 1, and a detailed analysis is presented for eight bands in the region from 700 to 2200 cm 1. Two fundamental perpendicular bands were analyzed, m22 and m24 near 1050 and 780 cm 1, respectively, along with two fundamental parallel bands, m14 and m16 near 1540 and 990 cm1, respectively. Two other fundamentals, m17 and m23, are seen as intense overlapping bands near 880 cm*1 and are Coriolis-coupled, producing a complex mixture in which only P-branch transitions could be tentatively assigned for m17. In addition, three binary combination bands were fit at about 1570, 2082, and 2098 cm*1 which are assigned as either 2m24 or m5 + m16 in the first case, m4 + m22 in the second case, and 2m22 in the latter case. The two l-type resonance constants, q+ and q*, were determined for each of the two perpendicular fundamentals m22 and m24. Those two constants were also responsible for splittings observed in the K = 3 levels of m24. For the ground state the order of the split K = 2 B1/B2 levels has been reversed from that reported previously, based on the measurements and assignments for the m24 band. Rovibrational parameters deduced from the analyses are compared with those obtained from density functional Gaussian calculations at the anharmonic level.

  12. Molecular identification of broomrape species from a single seed by High Resolution Melting analysis

    Directory of Open Access Journals (Sweden)

    Mathieu Rolland

    2016-12-01

    Full Text Available Broomrapes are holoparasitic plants spreading through seeds. Each plant produces hundreds of thousands of seeds which remain viable in the soils for decades. To limit their spread, drastic measures are being taken and the contamination of a commercial seed lot by a single broomrape seed can lead to its rejection. Considering that broomrapes species identification from a single seed is extremely difficult even for trained botanists and that among all the described species, only a few are really noxious for the crops, numerous seed lots are rejected because of the contamination by seeds of non-noxious broomrape species. The aim of this study was to develop and evaluate a High Resolution Melting assay identifying the eight most noxious and common broomrape species (P. aegyptiaca, O. cernua, O. crenata, O. cumana, O. foetida, O. hederae, O. minor, and P. ramosa from a single seed. Based on trnL and rbcL plastidial genes amplification, the designed assay successfully identifies O. cumana, O. cernua, O. crenata, O. minor, O. hederae, and O. foetida; P. ramosa and P. aegyptiaca can be differentiated from other species but not from each other. Tested on 50 seed lots, obtained results perfectly matched identifications performed by sequencing. Through the analysis of common seed lots by different analysts, the reproducibility of the assay was evaluated at 90 %. Despite an original sample preparation process it was not possible to extract enough DNA from some seeds (10% of the samples. The described assay fulfils its objectives and allows an accurate identification of the targeted broomrape species. It can be used to identify contaminants in commercial seed lots or for any other purpose. The assay might be extended to vegetative material.

  13. High Resolution Spectral Analysis of Hiss and Chorus Emissions in Ground Based Data

    Science.gov (United States)

    Hosseini Aliabad, S. P.; Golkowski, M.; Gibby, A. R.

    2015-12-01

    The dynamic evolution of the radiation belts is believed to be controlled in large part by two separate but related classes of naturally occurring plasma waves: ELF/VLF chorus and hiss emissions. Although whistler mode chorus has been extensively studied since the first reports by Storey in 1953, the source mechanism and properties are still subjects of active research. Moreover, the origin of plasmaspheric hiss, the electromagnetic emission believed to be responsible for the gap between the inner and outer radiation belts, has been debated for over four decades. Although these waves can be observed in situ on spacecraft, ground-based observing stations can provide orders of magnitude higher data volumes and decades long data coverage essential for certain long-term and statistical studies of wave properties. Recent observational and theoretical works suggest that high resolution analysis of the spectral features of both hiss and chorus emissions can provide insight into generation processes and be used to validate existing theories. Application of the classic Fourier (FFT) technique unfortunately yields a tradeoff between time and frequency resolution. In additional to Fourier spectra, we employ novel methods to make spectrograms with high time and frequency resolutions, independently using minimum variance distortionless response (MVDR). These techniques are applied to ground based data observations of hiss and chorus made in Alaska. Plasmaspheric hiss has been widely regarded as a broadband, structure less, incoherent emission. We quantify the extent to which plasmaspheric hiss can be a coherent emission with complex fine structure. Likewise, to date, researchers have differentiated between hiss and chorus coherency primarily using qualitative "naked eye" approaches to amplitude spectra. Using a quantitative approach to observed amplitude and we present more rigorous classification criteria for these emissions.

  14. The first high-resolution analysis of the 10-{mu}m absorption of thioformaldehyde

    Energy Technology Data Exchange (ETDEWEB)

    Flaud, J.-M. [LISA, CNRS and University of Paris VII and XII, 61 Avenue, General de Gaulle, 94010 Creteil (France); Lafferty, W.J. [Optical Technology Division, NIST, Gaithersburg, MD 20899 (United States)], E-mail: Walter.Lafferty@NIST.gov; Perrin, A. [LISA, CNRS and University of Paris VII and XII, 61 Avenue, General de Gaulle, 94010 Creteil (France); Kim, Y.S.; Beckers, H.; Willner, H. [Anorganische Chemie, FB C, University of Wuppertal, D-42119 Wuppertal (Germany)

    2008-04-15

    The 10 {mu}m region of thioformaldehyde (H{sub 2}CS) has been recorded at high resolution (0.005 cm{sup -1}) using a Fourier transform spectrometer. H{sub 2}CS was produced by low-pressure pyrolysis of a gas flow of C{sub 3}H{sub 5}SCH{sub 3} in Ar at 560 deg. C or CH{sub 3}SCl at 1150 deg. C, which was introduced into a multipass White cell with an optical path length of 32 m. Forty scans were recorded for the range 750-1400 cm{sup -1} at a total pressure of 0.15 mbar. A thorough analysis of the three lowest wavenumber fundamental bands, {nu}{sub 3}, {nu}{sub 4} and {nu}{sub 6}, which fall in this region, has been carried out using a Hamiltonian model, which takes explicitly into account the numerous resonances affecting the ro-vibrational energy levels; especially the massive A-type Coriolis resonance between the out-of-plane wagging mode, {nu}{sub 4}, and the in-plane rocking mode, {nu}{sub 6}. These two modes are only separated by 0.83 cm{sup -1}, and they are thoroughly mixed. From the fittings, the following band centers were derived: {nu}{sub o} ({nu}{sub 4})=990.18213(40) cm{sup -1}, {nu}{sub o} ({nu}{sub 6})=991.02021(50) cm{sup -1} and {nu}{sub o} ({nu}{sub 3})=1059.20476 (30) cm{sup -1} where the uncertainties are one standard deviation. In addition, a number of relative line intensities were measured permitting the determination of relative values of the first-order transition moments and therefore relative band intensities for all three bands. Finally, a comprehensive list of line wavenumbers and relative intensities has been generated.

  15. A Method of Survey on Object-Oriented Shadow Detection & Removal for High Resolution Urban Aerial Colour Images

    OpenAIRE

    A.Amareswar Kumar,; B Mohan Reddy

    2015-01-01

    High-resolution remote sensing images offer great possibilities for urban mapping. Unfortunately, shadows cast by buildings during this some problems occurred .This paper mainly focus to get the high resolution colour remote sensing image, and also undertaken to remove the shaded region in the both urban and rural areas. The region growing thresholding algorithm is used to detect the shadow and extract the features from shadow region. Then determine whether those neighbouring pixe...

  16. High-resolution PIV analysis of compressibility effects in turbulent jets

    NARCIS (Netherlands)

    Ceglia, G.; Violato, D.; Tuinstra, M.; Scarano, F.

    An investigation on the compressibility effects arising into the near field of turbulent jets operated at high Reynolds number at Mach numbers M=0.3, 0.9 and 1.1 (under-expanded regime) is carried out with two-components planar PIV experiments with high resolution cameras. The arrangement of the PIV

  17. Performance Analysis of a High Resolution Airborne FM-CW Synthetic Aperture Radar

    NARCIS (Netherlands)

    Wit, J.J.M. de; Hoogeboom, P.

    2003-01-01

    Compact FM-CW technology combined with high resolution SAR techniques should pave the way for a small and cost effective imaging radar. A research project has been inìtiated to investigate the feasibility of FM-CW SAR. Within the framework of the project an operational airborne FM-CW SAR demonstrato

  18. Analysis and high resolution modelling of black carbon vertical profiles measured over three Italian valleys

    Science.gov (United States)

    Gandolfi, Ilaria; Curci, Gabriele; Falasca, Serena; Ferrero, Luca

    2017-04-01

    Analysis and high resolution modelling of black carbon vertical profiles measured over three Italian valleys Ilaria Gandolfi1,2, Gabriele Curci1,2, Serena Falasca1,2, Luca Ferrero3 1 Department of Physical and Chemical Sciences, University of L'Aquila, L'Aquila, Italy 2 Center of Excellence CETEMPS, University of L'Aquila, L'Aquila, Italy 3 POLARIS Research Centre, Department of Earth and Environmental Sciences, University of Milano-Bicocca, Piazza della Scienza 1, 20126, Milan, Italy Last decades were characterized by a growing interest in aerosols: mainly for their effect on human health and on the energy balance of solar and planetary radiation, thus their role in climate change. In this study, we analyze the evolution of vertical profile of black carbon (BC) through tethered balloon observations and chemistry-transport modelling. Black carbon is regarded as the second most important anthropogenic climate forcing agent and its concentration varies significantly depending on the altitude and the sources on the territory. In winter of 2010 University Of Milan Bicocca conducted three intensive measurements campaigns over three Italian basin valleys (Terni, Po Valley, Passiria Valley). The choice of the valleys was made taking into consideration the orography and the river basin structure. The measurement campaign was based on a helium-filled tethered balloon, on which the instrumentation for the analysis has been mounted; the instrumentation consisted on a meteorological station, an OPC, a cascade impactor and a micro-Aethalometer. Subsequently, at University of L'Aquila simulations were produced to help interpretation of these vertical aerosol profiles (mass, composition and distribution) and related optical properties (scattering, absorption) using a chemistry-transport model (WRF-CHIMERE) at high horizontal resolution (1 km). The analysis focused primarily on the calculation of the heating rate and of the Direct Radiative Effect (DRE), and on the analysis of the

  19. High-resolution headlamp

    Science.gov (United States)

    Gut, Carsten; Cristea, Iulia; Neumann, Cornelius

    2016-04-01

    The following article shall describe how human vision by night can be influenced. At first, front lighting systems that are already available on the market will be described, followed by their analysis with respect to the positive effects on traffic safety. Furthermore, how traffic safety by night can be increased since the introduction of high resolution headlamps shall be discussed.

  20. Reliability of an Automated High-Resolution Manometry Analysis Program across Expert Users, Novice Users, and Speech-Language Pathologists

    Science.gov (United States)

    Jones, Corinne A.; Hoffman, Matthew R.; Geng, Zhixian; Abdelhalim, Suzan M.; Jiang, Jack J.; McCulloch, Timothy M.

    2014-01-01

    Purpose: The purpose of this study was to investigate inter- and intrarater reliability among expert users, novice users, and speech-language pathologists with a semiautomated high-resolution manometry analysis program. We hypothesized that all users would have high intrarater reliability and high interrater reliability. Method: Three expert…

  1. Evaluation of gas chromatography – electron ionization – full scan high resolution Orbitrap mass spectrometry for pesticide residue analysis

    NARCIS (Netherlands)

    Mol, Hans G.J.; Tienstra, Marc; Zomer, Paul

    2016-01-01

    Gas chromatography with electron ionization and full scan high resolution mass spectrometry with an Orbitrap mass analyzer (GC-EI-full scan Orbitrap HRMS) was evaluated for residue analysis. Pesticides in fruit and vegetables were taken as an example application. The relevant aspects for GC-MS

  2. High-throughput genome editing and phenotyping facilitated by high resolution melting curve analysis.

    Directory of Open Access Journals (Sweden)

    Holly R Thomas

    Full Text Available With the goal to generate and characterize the phenotypes of null alleles in all genes within an organism and the recent advances in custom nucleases, genome editing limitations have moved from mutation generation to mutation detection. We previously demonstrated that High Resolution Melting (HRM analysis is a rapid and efficient means of genotyping known zebrafish mutants. Here we establish optimized conditions for HRM based detection of novel mutant alleles. Using these conditions, we demonstrate that HRM is highly efficient at mutation detection across multiple genome editing platforms (ZFNs, TALENs, and CRISPRs; we observed nuclease generated HRM positive targeting in 1 of 6 (16% open pool derived ZFNs, 14 of 23 (60% TALENs, and 58 of 77 (75% CRISPR nucleases. Successful targeting, based on HRM of G0 embryos correlates well with successful germline transmission (46 of 47 nucleases; yet, surprisingly mutations in the somatic tail DNA weakly correlate with mutations in the germline F1 progeny DNA. This suggests that analysis of G0 tail DNA is a good indicator of the efficiency of the nuclease, but not necessarily a good indicator of germline alleles that will be present in the F1s. However, we demonstrate that small amplicon HRM curve profiles of F1 progeny DNA can be used to differentiate between specific mutant alleles, facilitating rare allele identification and isolation; and that HRM is a powerful technique for screening possible off-target mutations that may be generated by the nucleases. Our data suggest that micro-homology based alternative NHEJ repair is primarily utilized in the generation of CRISPR mutant alleles and allows us to predict likelihood of generating a null allele. Lastly, we demonstrate that HRM can be used to quickly distinguish genotype-phenotype correlations within F1 embryos derived from G0 intercrosses. Together these data indicate that custom nucleases, in conjunction with the ease and speed of HRM, will

  3. High Resolution Near-Infrared Survey of the Pipe Nebula I: A Deep Infrared Extinction Map of Barnard 59

    CERN Document Server

    Román-Zúñiga, Carlos G; Alves, João F

    2009-01-01

    We present our analysis of a fully sampled, high resolution dust extinction map of the Barnard 59 complex in the Pipe Nebula. The map was constructed with the infrared color excess technique applied to a photometric catalog that combines data from both ground and space based observations. The map resolves for the first time the high density center of the main core in the complex, that is associated with the formation of a small cluster of stars. We found that the central core in Barnard 59 shows an unexpected lack of significant substructure consisting of only two significant fragments. Overall, the material appears to be consistent with being a single, large core with a density profile that can be well fit by a King model. A series of NH$_3$ pointed observations towards the high column density center of the core appear to show that the core is still thermally dominated, with sub-sonic non-thermal motions. The stars in the cluster could be providing feedback to support the core against collapse, but the relat...

  4. Characterization of the submesoscale energy cascade in the Alboran Sea thermocline from spectral analysis of high-resolution MCS data

    Science.gov (United States)

    Sallares, Valenti; Mojica, Jhon F.; Biescas, Berta; Klaeschen, Dirk; Gràcia, Eulàlia

    2016-06-01

    Part of the kinetic energy that maintains ocean circulation cascades down to small scales until it is dissipated through mixing. While most steps of this downward energy cascade are well understood, an observational gap exists at horizontal scales of 103-101 m that prevents characterizing a key step in the chain: the transition from anisotropic internal wave motions to isotropic turbulence. Here we show that this observational gap can be covered using high-resolution multichannel seismic (HR-MCS) data. Spectral analysis of acoustic reflectors imaged in the Alboran Sea thermocline shows that this transition is likely caused by shear instabilities. In particular, we show that the averaged horizontal wave number spectra of the reflectors vertical displacements display three subranges that reproduce theoretical spectral slopes of internal waves (λx > 100 m), Kelvin-Helmholtz-type shear instabilities (100 m > λx > 33 m), and turbulence (λx < 33 m), indicating that the whole chain of events is occurring continuously and simultaneously in the surveyed area.

  5. Simplifying the detection of MUTYH mutations by high resolution melting analysis

    Directory of Open Access Journals (Sweden)

    López-Villar Isabel

    2010-08-01

    Full Text Available Abstract Background MUTYH-associated polyposis (MAP is a disorder caused by bi-allelic germline MUTYH mutation, characterized by multiple colorectal adenomas. In order to identify mutations in MUTYH gene we applied High Resolution Melting (HRM genotyping. HRM analysis is extensively employed as a scanning method for the detection of heterozygous mutations. Therefore, we applied HRM to show effectiveness in detecting homozygous mutations for these clinically important and frequent patients. Methods In this study, we analyzed phenotype and genotype data from 82 patients, with multiple (>= 10 synchronous (19/82 or metachronous (63/82 adenomas and negative APC study (except one case. Analysis was performed by HRM-PCR and direct sequencing, in order to identify mutations in MUTYH exons 7, 12 and 13, where the most prevalent mutations are located. In monoallelic mutation carriers, we evaluated entire MUTYH gene in search of another possible alteration. HRM-PCR was performed with strict conditions in several rounds: the first one to discriminate the heteroduplex patterns and homoduplex patterns and the next ones, in order to refine and confirm parameters. The genotypes obtained were correlated to phenotypic features (number of adenomas (synchronous or metachronous, colorectal cancer (CRC and family history. Results MUTYH germline mutations were found in 15.8% (13/82 of patients. The hot spots, Y179C (exon 7 and G396D (exon 13, were readily identified and other mutations were also detected. Each mutation had a reproducible melting profile by HRM, both heterozygous mutations and homozygous mutations. In our study of 82 patients, biallelic mutation is associated with being a carrier of ≥10 synchronous polyps (p = 0.05 and there is no association between biallelic mutation and CRC (p = 0.39 nor family history (p = 0.63. G338H non-pathogenic polymorphism (exon 12 was found in 23.1% (19/82 of patients. In all cases there was concordance between HRM (first

  6. High resolution grain boundary analysis of neutron irradiated stainless steel using FEG-TEM

    Energy Technology Data Exchange (ETDEWEB)

    Kodama, Mitsuhiro; Ishiyama, Yoshihide; Yokota, Norikatsu [Nippon Nuclear Fuel Development Co. Ltd., Oarai, Ibaraki (Japan)

    1999-09-01

    High-resolution grain boundary analyses of irradiated SUS304 stainless steel using a field emission gun equipped transmission electron microscope were carried out in order to detect radiation-induced grain boundary segregation. The effect of probe size on the measured compositional profiles was studied. The depletion of chromium and enrichment of nickel, phosphorus and silicon were detected at a grain boundary. The measured compositional profiles were affected by the probe size which impeded their interpretation. (author)

  7. Transmission and selection of macrolide resistant Mycoplasma genitalium infections detected by rapid high resolution melt analysis.

    Directory of Open Access Journals (Sweden)

    Jimmy Twin

    Full Text Available BACKGROUND: Mycoplasma genitalium (MG causes urethritis, cervicitis and pelvic inflammatory disease. The MG treatment failure rate using 1 g azithromycin at an Australian Sexual Health clinic in 2007-9 was 31% (95%CI 23-40%. We developed a rapid high resolution melt analysis (HRMA assay targeting resistance mutations in the MG 23S rRNA gene, and validated it against DNA sequencing by examining pre- and post-treatment archived samples from MG-infected patients. METHODOLOGY/PRINCIPAL FINDINGS: Available MG-positive pre-treatment (n = 82 and post-treatment samples from individuals with clinical treatment failure (n = 20 were screened for 23S rRNA gene mutations. Sixteen (20% pre-treatment samples possessed resistance mutations (A2058G, A2059G, A2059C, which were significantly more common in patients with symptomatic azithromycin-treatment failure (12/26; 44% than in those clinically cured (4/56; 7%, p<0.001. All 20 patients experiencing azithromycin-failure had detectable mutations in their post-treatment samples. In 9 of these cases, the same mutational types were present in both pre- and post-treatment samples indicating transmitted resistance, whilst in 11 of these cases (55%, mutations were absent in pre-treatment samples indicating likely selection of resistant isolates have occurred. HRMA was able to detect all mutational changes determined in this study by DNA sequencing. An additional HRMA assay incorporating an unlabelled probe was also developed to detect type 4 single-nucleotide polymorphisms found in other populations, with a slightly lower sensitivity of 90%. CONCLUSIONS/SIGNIFICANCE: Treatment failure is associated with the detection of macrolide resistance mutations, which appear to be almost equally due to selection of resistant isolates following exposure to 1 g azithromycin and pre-existing transmitted resistance. The application of a rapid molecular assay to detect resistance at the time of initial detection of infection allows

  8. Comparative Analysis of two Methods for High-Resolution Differential Conductance Measurement

    Science.gov (United States)

    Cusick, David; Naito, Michio; Ramos, Roberto

    We compare two methods of differential conductance measurement. The first is a traditional method in which current and voltage data is acquired via four-wire measurement, then averaged and differentiated numerically. The second method calculates dI / dV in real time by superimposing a small DC signal dI on the input step function, alternating between addition and subtraction of the signal with each step, then averaging the small signal voltage response over three steps to obtain dV . This requires two instruments: a DC current source and a high-resolution voltmeter. Keithley Instruments has commercially promoted the Keithley 622x current source and 2182A nanovoltmeter as means to achieve this measurement; we therefore refer to it as the Keithley method. We compare the two methods by performing high-resolution measurements of the energy gap of MgB2 thin film Josephson junctions. We show that the Keithley method has advantages of cleaner data, easier implementation, and overall faster data collection, but may lack the traditional method's high resolution. R.C.R. acknowledges support from National Science Foundation Grant # DMR-1555775.

  9. A High-Resolution Multiband Survey of Westerlund 2 With the Hubble Space Telescope. II. Mass accretion in the Pre-Main Sequence Population

    CERN Document Server

    Zeidler, Peter; Nota, Antonella; Sabbi, Elena; Pasquali, Anna; Tosi, Monica; Bonanos, Alceste Z; Christian, Carol

    2016-01-01

    We present a detailed analysis of the pre-main-sequence (PMS) population of the young star cluster Westerlund~2 (Wd2), the central ionizing cluster of the HII region RCW 49, using data from a high resolution multi-band survey with the Hubble Space Telescope. The data were acquired with the Advanced Camera for Surveys in the F555W, F814W, and F658N filters and with the Wide Field Camera 3 in the F125W, F160W, and F128N filters. We find a mean age of the region of 1.04+-0.72 Myr. The combination of dereddened F555W and F814W photometry in combination with F658N photometry allows us to study and identify stars with H_alpha excess emission. With a careful selection of 240 bona-fide PMS H_alpha excess emitters we were able to determine their H_alpha luminosity, which has a mean value L(H_alpha)=1.67 x 10^{-31} erg s^{-1}. Using the PARSEC 1.2S isochrones to obtain the stellar parameters of the PMS stars we determined a mean mass accretion rate \\dot M_acc=4.43 x 10^{-8} M_sun yr^{-1} per star. A careful analysis of...

  10. High-resolution AUV-based near bottom magnetic surveys at Palinuro volcanic complex (Southern Tyrrhenian Sea)

    Science.gov (United States)

    Cocchi, L.; Plunkett, S.; Augustin, N.; Petersen, S.

    2013-12-01

    In this paper we present the preliminary results of new near bottom magnetic datasets collected during the recent POS442 cruise using the autonomous underwater vehicle (AUV) Abyss. The Southern Tyrrhenian basin is characterized by deep seafloor interspersed with huge volcanic seamounts (e.g Vavilov and Marsili and those associated to the Aeolian volcanic arc), which were formed during eastward roll back of the Apennine subduction system. These submarine edifices often are affected by significant hydrothermal activity and associated mineral deposits such as those observed at Marsili, Palinuro and Panarea. The western part of the Palinuro volcanic complex is characterized by a half rim of a caldera-like structure and hosts hydrothermal barite-pyrite deposits. Until recently, the full extent of the hydrothermal system remained poorly defined, as exploration has been limited to a few specific sites. In November 2012, a set of high resolution near seafloor geophysical surveys were carried out using GEOMAR's AUV Abyss to attempt to better define the hydrothermal mineralization at Palinuro. Five AUV dives were performed, mapping a total area of 3.7 km2 over the western part of Palinuro. Geomar's Abyss AUV (a Remus6000 class vehicle) was equipped with an Applied Physics Systems flux gate magnetometer, writing to a stand alone data logger, powered by the AUV's main batteries. The 5 dives were performed within the same area but with different primary geophysical sensors (multibeam, sidescan sonar, subbottom profiler), survey altitudes above seafloor (100m, 40m) and line spacing (150m, 100m, 20m). Magnetic data was collect on all five dives. At the beginning of each dive, the AUV performed a set of calibration manoeuvres, involving a 360 degree heading variation, a set of three upwards/downwards pitches, and three port and starboard yaws. This magnetic data reveals the magnetization features of the seafloor in unprecedented detail, highlighting a complex pattern mostly due to

  11. PC-SEAPAK - ANALYSIS OF COASTAL ZONE COLOR SCANNER AND ADVANCED VERY HIGH RESOLUTION RADIOMETER DATA

    Science.gov (United States)

    Mcclain, C. R.

    1994-01-01

    PC-SEAPAK is a user-interactive satellite data analysis software package specifically developed for oceanographic research. The program is used to process and interpret data obtained from the Nimbus-7/Coastal Zone Color Scanner (CZCS), and the NOAA Advanced Very High Resolution Radiometer (AVHRR). PC-SEAPAK is a set of independent microcomputer-based image analysis programs that provide the user with a flexible, user-friendly, standardized interface, and facilitates relatively low-cost analysis of oceanographic satellite data. Version 4.0 includes 114 programs. PC-SEAPAK programs are organized into categories which include CZCS and AVHRR level-1 ingest, level-2 analyses, statistical analyses, data extraction, remapping to standard projections, graphics manipulation, image board memory manipulation, hardcopy output support and general utilities. Most programs allow user interaction through menu and command modes and also by the use of a mouse. Most programs also provide for ASCII file generation for further analysis in spreadsheets, graphics packages, etc. The CZCS scanning radiometer aboard the NIMBUS-7 satellite was designed to measure the concentration of photosynthetic pigments and their degradation products in the ocean. AVHRR data is used to compute sea surface temperatures and is supported for the NOAA 6, 7, 8, 9, 10, 11, and 12 satellites. The CZCS operated from November 1978 to June 1986. CZCS data may be obtained free of charge from the CZCS archive at NASA/Goddard Space Flight Center. AVHRR data may be purchased through NOAA's Satellite Data Service Division. Ordering information is included in the PC-SEAPAK documentation. Although PC-SEAPAK was developed on a COMPAQ Deskpro 386/20, it can be run on most 386-compatible computers with an AT bus, EGA controller, Intel 80387 coprocessor, and MS-DOS 3.3 or higher. A Matrox MVP-AT image board with appropriate monitor and cables is also required. Note that the authors have received some reports of

  12. High-resolution phylogenetic analysis of residual bacterial species of fouled membranes after NaOCl cleaning.

    Science.gov (United States)

    Navarro, Ronald R; Hori, Tomoyuki; Inaba, Tomohiro; Matsuo, Kazuyuki; Habe, Hiroshi; Ogata, Atsushi

    2016-05-01

    Biofouling is one of the major problems during wastewater treatment using membrane bioreactors (MBRs). In this regard, sodium hypochlorite (NaOCl) has been widely used to wash fouled membranes for maintenance and recovery purposes. Advanced chemical and biological characterization was conducted in this work to evaluate the performance of aqueous NaOCl solutions during washing of polyacrylonitrile membranes. Fouled membranes from MBR operations supplemented with artificial wastewater were washed with 0.1% and 0.5% aqueous NaOCl solutions for 5, 10 and 30 min. The changes in organics composition on the membrane surface were directly monitored by an attenuated total reflection Fourier transform infrared (ATR-FT-IR) spectrometer. In addition, high-throughput Illumina sequencing of 16S rRNA genes was applied to detect any residual microorganisms. Results from ATR-FT-IR analysis indicated the complete disappearance of functional groups representing different fouling compounds after at least 30 min of treatment with 0.1% NaOCl. However, the biomolecular survey revealed the presence of residual bacteria even after 30 min of treatment with 0.5% NaOCl solution. Evaluation of microbial diversity of treated samples using Chao1, Shannon and Simpson reciprocal indices showed an increase in evenness while no significant decline in richness was observed. These implied that only the population of dominant species was mainly affected. The high-resolution phylogenetic analysis revealed the presence of numerous operational taxonomic units (OTUs) whose close relatives exhibit halotolerance. Some OTUs related to thermophilic and acid-resistant strains were also identified. Finally, the taxonomic analysis of recycled membranes that were previously washed with NaOCl also showed the presence of numerous halotolerant-related OTUs in the early stage of fouling. This further suggested the possible contribution of such chemical tolerance on their survival against NaOCl washing, which in turn

  13. Rapid High-throughput Species Identification of Botanical Material Using Direct Analysis in Real Time High Resolution Mass Spectrometry.

    Science.gov (United States)

    Lesiak, Ashton D; Musah, Rabi A

    2016-10-02

    We demonstrate that direct analysis in real time-high resolution mass spectrometry can be used to produce mass spectral profiles of botanical material, and that these chemical fingerprints can be used for plant species identification. The mass spectral data can be acquired rapidly and in a high throughput manner without the need for sample extraction, derivatization or pH adjustment steps. The use of this technique bypasses challenges presented by more conventional techniques including lengthy chromatography analysis times and resource intensive methods. The high throughput capabilities of the direct analysis in real time-high resolution mass spectrometry protocol, coupled with multivariate statistical analysis processing of the data, provide not only class characterization of plants, but also yield species and varietal information. Here, the technique is demonstrated with two psychoactive plant products, Mitragyna speciosa (Kratom) and Datura (Jimsonweed), which were subjected to direct analysis in real time-high resolution mass spectrometry followed by statistical analysis processing of the mass spectral data. The application of these tools in tandem enabled the plant materials to be rapidly identified at the level of variety and species.

  14. Numerical simulation for accuracy of velocity analysis in small-scale high-resolution marine multichannel seismic technology

    Science.gov (United States)

    Luo, Di; Cai, Feng; Wu, Zhiqiang

    2017-06-01

    When used with large energy sparkers, marine multichannel small-scale high-resolution seismic detection technology has a high resolution, high-detection precision, a wide applicable range, and is very flexible. Positive results have been achieved in submarine geological research, particularly in the investigation of marine gas hydrates. However, the amount of traveltime difference information is reduced for the velocity analysis under conditions of a shorter spread length, thus leading to poorer focusing of the velocity spectrum energy group and a lower accuracy of the velocity analysis. It is thus currently debatable whether the velocity analysis accuracy of short-arrangement multichannel seismic detection technology is able to meet the requirements of practical application in natural gas hydrate exploration. Therefore, in this study the bottom boundary of gas hydrates (Bottom Simulating Reflector, BSR) is used to conduct numerical simulation to discuss the accuracy of the velocity analysis related to such technology. Results show that a higher dominant frequency and smaller sampling interval are not only able to improve the seismic resolution, but they also compensate for the defects of the short-arrangement, thereby improving the accuracy of the velocity analysis. In conclusion, the accuracy of the velocity analysis in this small-scale, high-resolution, multi-channel seismic detection technology meets the requirements of natural gas hydrate exploration.

  15. Rapid High-throughput Species Identification of Botanical Material Using Direct Analysis in Real Time High Resolution Mass Spectrometry

    Science.gov (United States)

    Lesiak, Ashton D.; Musah, Rabi A.

    2016-01-01

    We demonstrate that direct analysis in real time-high resolution mass spectrometry can be used to produce mass spectral profiles of botanical material, and that these chemical fingerprints can be used for plant species identification. The mass spectral data can be acquired rapidly and in a high throughput manner without the need for sample extraction, derivatization or pH adjustment steps. The use of this technique bypasses challenges presented by more conventional techniques including lengthy chromatography analysis times and resource intensive methods. The high throughput capabilities of the direct analysis in real time-high resolution mass spectrometry protocol, coupled with multivariate statistical analysis processing of the data, provide not only class characterization of plants, but also yield species and varietal information. Here, the technique is demonstrated with two psychoactive plant products, Mitragyna speciosa (Kratom) and Datura (Jimsonweed), which were subjected to direct analysis in real time-high resolution mass spectrometry followed by statistical analysis processing of the mass spectral data. The application of these tools in tandem enabled the plant materials to be rapidly identified at the level of variety and species. PMID:27768072

  16. The Seismogenic Zone in Southern Chile: Insights from high resolution receiver function analysis and seismic Tomography

    Science.gov (United States)

    Rietbrock, A.; Haberland, C.; Lange, D.; Bataille, K.

    2007-12-01

    Subduction zones, the expression of convergent plate boundaries, generate the world's largest and most destructive earthquakes. The Southern Chilean subduction zone is an ideal natural laboratory to study the processes involved in generating these devastat- ing earthquakes and is one of the main aims of the international and interdisciplinary research initiative TIPTEQ (from The Incoming Plate to megaThrust EarthQuake pro- cesses). High resolution images, using different techniques as well as different physi- cal parameters, form the base for identifying the processes involved. Here we present new data from teleseismic receiver function analysis and 3D seismic tomography to study in detail the down-dip end of the seismogenic zone in the nucleation area of the 1960 magnitude Mw=9.5 Valdivia, Chile, earthquake. Within the project TIPTEQ two dense amphibious passive seismic networks have been installed between Nov. 2004 and Oct. 2005, both covering the entire forearc from the trench to the active volcanic front. The Northern array was located between 37° and 39° South including the epicentre of the 1960 Chile earthquake. It consisted out of 120 continuously recording, three component stations on land and 10 continuously recording Ocean Bottom Seismometers/Hydrophones (OBS/H) at sea. The Southern array was located between 41.5° and 43.5° South roughly in the middle of the rupture zone of the Valdivia earthquake. It consisted out of 20 continuously recording three component stations on land and 20 continuously recording Ocean Bottom Seismometers/Hydrophones (OBS/H) at sea. Several hundreds of micro earthquakes could be located using manual picked P- and S-wave arrivals. Joint 2D/3D inversions for earthquake location, P-wave velocity and vp/vs-ratio were carried out and give a detailed image of the structure as well as a snapshot of the seismicity distribution in both study regions. The subducting Nazca plate can be clearly identified in both regions dipping at a

  17. High-resolution aeromagnetic survey in the area of Arima-Takatsuki-Rokko active fault system; Arima Takatsuki Rokko katsudanso chiiki ni okeru komitsudo kuchu jiki tansa

    Energy Technology Data Exchange (ETDEWEB)

    Nakatsuka, T.; Okuma, S.; Morijiri, R.; Makino, M. [Geological Survey of Japan, Tsukuba (Japan)

    1996-10-01

    High-resolution aeromagnetic survey was conducted in December, 1995, over the area of Arima-Takatsuki-Rokko active fault system, where the 1995 Hyogo-South (Kobe) earthquake took place. Based on the surveyed data, the magnetic anomaly distribution in the Kei-Hanshin district was illustrated. Features of magnetic anomaly observed in it were discussed. Influence of artificial structures in the coastal zone of Kobe City was tried to be removed. Distinct magnetic anomaly observed in the center of Kyoto City was located at the southern part near Shijo-Karasuma. This was mainly affected by the artificial structure. A high magnetic anomaly with a long wave length was observed in the southern part of Kyoto. There was a high magnetic anomaly in an area surrounded by central cities of Nishinomiya-Toyonaka district. At the location where positive and negative magnetic anomalies were illustrated in NEDO`s map in the coastal zone of Kobe City, the anomaly pattern was clarified. The influence of artificial structure was approximated using a point dipole. The dipole was placed in each block having a magnetic anomaly. The parameter was determined by the inverse analysis, to remove the influence. Consequently, most of magnetic anomalies due to artificial structures could be removed. 6 figs.

  18. Design techniques and analysis of high-resolution neural recording systems targeting epilepsy focus localization.

    Science.gov (United States)

    Shoaran, Mahsa; Pollo, Claudio; Leblebici, Yusuf; Schmid, Alexandre

    2012-01-01

    The design of a high-density neural recording system targeting epilepsy monitoring is presented. Circuit challenges and techniques are discussed to optimize the amplifier topology and the included OTA. A new platform supporting active recording devices targeting wireless and high-resolution focus localization in epilepsy diagnosis is also proposed. The post-layout simulation results of an amplifier dedicated to this application are presented. The amplifier is designed in a UMC 0.18µm CMOS technology, has an NEF of 2.19 and occupies a silicon area of 0.038 mm(2), while consuming 5.8 µW from a 1.8-V supply.

  19. Optimization of High-Resolution Continuous Flow Analysis for Transient Climate Signals in Ice Cores

    DEFF Research Database (Denmark)

    Bigler, Matthias; Svensson, Anders; Kettner, Ernesto

    2011-01-01

    meltwater conductivity detection modules. The system is optimized for high- resolution determination of transient signals in thin layers of deep polar ice cores. Based on standard measurements and by comparing sections of early Holocene and glacial ice from Greenland, we find that the new system features...... a depth resolution in the ice of a few millimeters which is considerably better than other CFA systems. Thus, the new system can resolve ice strata down to 10 mm thickness and has the potential of identifying annual layers in both Greenland and Antarctic ice cores throughout the last glacial cycle....

  20. Sediment Dynamics and the Burial and Exhumation of Bedrock Reefs as Elucidated by High-resolution Repetitive Sonar Surveys: Northern Monterey Bay, CA

    Science.gov (United States)

    Storlazzi, C. D.; Fregoso, T. A.; Golden, N. E.; Finlayson, D. P.

    2011-12-01

    Two high-resolution bathymetric and acoustic backscatter sonar surveys were conducted along the energetic emergent inner shelf of northern Monterey Bay, CA, USA, in the fall of 2005 and the spring of 2006 to determine the impact of winter storm waves, beach erosion, and river floods on biologically-important bedrock reef habitats. The surveys extended from water depths of 4 m to 22 m and covered an area of 3.14 km2, of which 45.8% was bedrock, gravel, and coarse-grained sand and 54.2% was fine-grained sand. Our analysis of the bathymetric and acoustic backscatter data demonstrates that during the 6 months between surveys, 11.4% of the study area was buried by fine-grained sand while erosion exposed of bedrock or coarse-grained sand over 26.5% of the study area. The probability of burial decreased with increasing water depth and rugosity; the probability of exhumation increased with increasing seabed slope and rugosity. Much of the detected change was at the boundary between bedrock and unconsolidated sediment due to burial or exhumation of bedrock. In a number of cases, however, the change in seabed character was apparently due to fluctuations in sediment grain size, where scour exposed what appeared to be an underlying coarser-grained lag or fine-grained sand buried coarser-grained sand. These findings suggest that, in some places, (a) single acoustic surveys typically employed for geologic characterization and/or habitat mapping may not adequately characterize the geomorphology and sedimentologic nature of rocky, energetic inner shelves, and (b) burial and exhumation likely play a role in the life history of the numerous organisms that inhabit these reefs and thus information on the frequency and magnitude of such processes may better constrain our understanding of physical controls on benthic species' distribution patterns.

  1. Analysis of High-Resolution Spectra From a Hybrid Interferometric/Dispersive Spectrometer

    CERN Document Server

    Ko, P; Jovanovic, I

    2015-01-01

    To more fully take advantage of a low-cost, small footprint hybrid interferometric/dispersive spectrometer, a mathematical reconstruction technique was developed to accurately capture the high-resolution and relative peak intensities from complex spectral patterns. A Fabry-Perot etalon was coupled to a Czerny-Turner spectrometer, leading to increased spectral resolution by more than an order of magnitude without the commensurate increase in spectrometer size. Measurement of the industry standard Hg 313.1555/313.1844 nm doublet yielded a ratio of 0.682, which agreed well with an independent measurement and literature values. The doublet separation (29 pm) is similar to the U isotope shift (25 pm) at 424.437 nm that is of interest to monitoring nuclear nonproliferation activities. Additionally, the technique was applied to LIBS measurement of the mineral cinnabar (HgS) and resulted in a ratio of 0.682. This reconstruction method could enable significantly smaller, portable high-resolution instruments with isoto...

  2. High-resolution DNA melt curve analysis of the clustered, regularly interspaced short-palindromic-repeat locus of Campylobacter jejuni.

    Science.gov (United States)

    Price, Erin P; Smith, Helen; Huygens, Flavia; Giffard, Philip M

    2007-05-01

    A novel method for genotyping the clustered, regularly interspaced short-palindromic-repeat (CRISPR) locus of Campylobacter jejuni is described. Following real-time PCR, CRISPR products were subjected to high-resolution melt (HRM) analysis, a new technology that allows precise melt profile determination of amplicons. This investigation shows that the CRISPR HRM assay provides a powerful addition to existing C. jejuni genotyping methods and emphasizes the potential of HRM for genotyping short sequence repeats in other species.

  3. In vitro analysis of integrated global high-resolution DNA methylation profiling with genomic imbalance and gene expression in osteosarcoma.

    Directory of Open Access Journals (Sweden)

    Bekim Sadikovic

    Full Text Available Genetic and epigenetic changes contribute to deregulation of gene expression and development of human cancer. Changes in DNA methylation are key epigenetic factors regulating gene expression and genomic stability. Recent progress in microarray technologies resulted in developments of high resolution platforms for profiling of genetic, epigenetic and gene expression changes. OS is a pediatric bone tumor with characteristically high level of numerical and structural chromosomal changes. Furthermore, little is known about DNA methylation changes in OS. Our objective was to develop an integrative approach for analysis of high-resolution epigenomic, genomic, and gene expression profiles in order to identify functional epi/genomic differences between OS cell lines and normal human osteoblasts. A combination of Affymetrix Promoter Tilling Arrays for DNA methylation, Agilent array-CGH platform for genomic imbalance and Affymetrix Gene 1.0 platform for gene expression analysis was used. As a result, an integrative high-resolution approach for interrogation of genome-wide tumour-specific changes in DNA methylation was developed. This approach was used to provide the first genomic DNA methylation maps, and to identify and validate genes with aberrant DNA methylation in OS cell lines. This first integrative analysis of global cancer-related changes in DNA methylation, genomic imbalance, and gene expression has provided comprehensive evidence of the cumulative roles of epigenetic and genetic mechanisms in deregulation of gene expression networks.

  4. A Method of Survey on Object-Oriented Shadow Detection & Removal for High Resolution Urban Aerial Colour Images

    Directory of Open Access Journals (Sweden)

    A.Amareswar Kumar,

    2015-12-01

    Full Text Available High-resolution remote sensing images offer great possibilities for urban mapping. Unfortunately, shadows cast by buildings during this some problems occurred .This paper mainly focus to get the high resolution colour remote sensing image, and also undertaken to remove the shaded region in the both urban and rural areas. The region growing thresholding algorithm is used to detect the shadow and extract the features from shadow region. Then determine whether those neighbouring pixels are added to the seed points or not. In the region growing threshold algorithm, Pixels are placed in the region based on their properties or the properties of nearby pixel values. Then the pixels containing similar properties are grouped together and distributed throughout the image. IOOPL matching is used for removing shadow from image. This method proves it can remove 80% shaded region from image efficiently.

  5. Tandem repeats analysis for the high resolution phylogenetic analysis of Yersinia pestis

    Directory of Open Access Journals (Sweden)

    Ramisse F

    2004-06-01

    Full Text Available Abstract Background Yersinia pestis, the agent of plague, is a young and highly monomorphic species. Three biovars, each one thought to be associated with the last three Y. pestis pandemics, have been defined based on biochemical assays. More recently, DNA based assays, including DNA sequencing, IS typing, DNA arrays, have significantly improved current knowledge on the origin and phylogenetic evolution of Y. pestis. However, these methods suffer either from a lack of resolution or from the difficulty to compare data. Variable number of tandem repeats (VNTRs provides valuable polymorphic markers for genotyping and performing phylogenetic analyses in a growing number of pathogens and have given promising results for Y. pestis as well. Results In this study we have genotyped 180 Y. pestis isolates by multiple locus VNTR analysis (MLVA using 25 markers. Sixty-one different genotypes were observed. The three biovars were distributed into three main branches, with some exceptions. In particular, the Medievalis phenotype is clearly heterogeneous, resulting from different mutation events in the napA gene. Antiqua strains from Asia appear to hold a central position compared to Antiqua strains from Africa. A subset of 7 markers is proposed for the quick comparison of a new strain with the collection typed here. This can be easily achieved using a Web-based facility, specifically set-up for running such identifications. Conclusion Tandem-repeat typing may prove to be a powerful complement to the existing phylogenetic tools for Y. pestis. Typing can be achieved quickly at a low cost in terms of consumables, technical expertise and equipment. The resulting data can be easily compared between different laboratories. The number and selection of markers will eventually depend upon the type and aim of investigations.

  6. Amino acid analysis in micrograms of meteorite sample by nanoliquid chromatography-high-resolution mass spectrometry.

    Science.gov (United States)

    Callahan, Michael P; Martin, Mildred G; Burton, Aaron S; Glavin, Daniel P; Dworkin, Jason P

    2014-03-07

    Amino acids and their enantiomers in a 360 microgram sample of Murchison meteorite were unambiguously identified and quantified using chemical derivatization and nanoliquid chromatography coupled to nanoelectrospray ionization high resolution orbitrap mass spectrometry techniques. The distribution and abundance of amino acids were similar to past studies of Murchison meteorite but the samples used here were three orders of magnitude lower. The analytical method was also highly sensitive, and some amino acid reference standards were successfully detected at a level of ∼200 attomoles (on column). These results may open up the possibility for investigating other less studied, sample-limited extraterrestrial samples (e.g., micrometeorites, interplanetary dust particles, and cometary particles) for biologically-relevant organic molecules.

  7. High-resolution synchrotron powder diffraction analysis of ordinary Portland cements: Phase coexistence of alite

    Science.gov (United States)

    de la Torre, Ángeles G.; Losilla, Enrique R.; Cabeza, Aurelio; Aranda, Miguel A. G.

    2005-08-01

    The mineralogical composition of four commercial and NIST RM-8488 Portland clinkers have been analysed by Rietveld methodology using high-resolution synchrotron X-ray powder diffraction data. Alite phase coexistence has been observed in four patterns. White Portland clinkers show a single alite or a very small amount of a second alite with smaller volume due to higher magnesium content. Grey Portland clinkers show a much pronounced alite phase coexistence which has been related to higher magnesium contents. Details about these analyses are given. Furthermore, the full mineralogical composition (including the non-diffracting content) has been determined from the overestimation of the added standard, α-Al2O3, in the Rietveld analyses. White clinkers contain ∼15 wt.% of non-diffracting content while this fraction is much smaller in grey clinkers, ∼7 wt.%.

  8. High-resolution synchrotron powder diffraction analysis of ordinary Portland cements: Phase coexistence of alite

    Energy Technology Data Exchange (ETDEWEB)

    Torre, Angeles G. de la [Departamento de Quimica Inorganica, Cristalografia y Mineralogia, Universidad de Malaga, 29071 Malaga (Spain); Losilla, Enrique R. [Departamento de Quimica Inorganica, Cristalografia y Mineralogia, Universidad de Malaga, 29071 Malaga (Spain); Cabeza, Aurelio [Departamento de Quimica Inorganica, Cristalografia y Mineralogia, Universidad de Malaga, 29071 Malaga (Spain); Aranda, Miguel A.G. [Departamento de Quimica Inorganica, Cristalografia y Mineralogia, Universidad de Malaga, 29071 Malaga (Spain)]. E-mail: g_aranda@uma.es

    2005-08-15

    The mineralogical composition of four commercial and NIST RM-8488 Portland clinkers have been analysed by Rietveld methodology using high-resolution synchrotron X-ray powder diffraction data. Alite phase coexistence has been observed in four patterns. White Portland clinkers show a single alite or a very small amount of a second alite with smaller volume due to higher magnesium content. Grey Portland clinkers show a much pronounced alite phase coexistence which has been related to higher magnesium contents. Details about these analyses are given. Furthermore, the full mineralogical composition (including the non-diffracting content) has been determined from the overestimation of the added standard, {alpha}-Al{sub 2}O{sub 3}, in the Rietveld analyses. White clinkers contain {approx}15 wt.% of non-diffracting content while this fraction is much smaller in grey clinkers, {approx}7 wt.%.

  9. High-resolution 3D analysis of mouse small-intestinal stroma.

    Science.gov (United States)

    Bernier-Latmani, Jeremiah; Petrova, Tatiana V

    2016-09-01

    Here we detail a protocol for whole-mount immunostaining of mouse small-intestinal villi that can be used to generate high-resolution 3D images of all gut cell types, including blood and lymphatic vessel cells, neurons, smooth muscle cells, fibroblasts and immune cells. The procedure describes perfusion, fixation, dissection, immunostaining, mounting, clearing, confocal imaging and quantification, using intestinal vasculature as an example. As intestinal epithelial cells prevent visualization with some antibodies, we also provide an optional protocol to remove these cells before fixation. In contrast to alternative current techniques, our protocol enables the entire villus to be visualized with increased spatial resolution of cell location, morphology and cell-cell interactions, thus allowing for easy quantification of phenotypes. The technique, which takes 7 d from mouse dissection to microscopic examination, will be useful for researchers who are interested in most aspects of intestinal biology, including mucosal immunology, infection, nutrition, cancer biology and intestinal microbiota.

  10. High-resolution field desorption/ionization fourier transform ion cyclotron resonance mass analysis of nonpolar molecules.

    Science.gov (United States)

    Schaub, Tanner M; Hendrickson, Christopher L; Qian, Kuangnan; Quinn, John P; Marshall, Alan G

    2003-05-01

    We report the first field desorption ionization broadband high-resolution (m/Deltam(50%) approximately 65 000) mass spectra. We have interfaced a field ionization/field desorption source to a home-built 9.4-T FT-ICR mass spectrometer. The instrumental configuration employs convenient sample introduction (in-source liquid injection) and external ion accumulation. We demonstrate the utility of this configuration by generating high-resolution positive-ion mass spectra of C(60) and a midboiling crude oil distillate. The latter contains species not accessible by common soft-ionization methods, for example, low-voltage electron ionization, electrospray ionization, and matrix-assisted laser desorption/ionization. The present work demonstrates significant advantages of FI/FD FT-ICR MS for analysis of nonpolar molecules in complex mixtures.

  11. Analysis of MESSENGER high-resolution images of Mercury's hollows and implications for hollow formation

    Science.gov (United States)

    Blewett, David T.; Stadermann, Amanda C.; Susorney, Hannah C.; Ernst, Carolyn M.; Xiao, Zhiyong; Chabot, Nancy L.; Denevi, Brett W.; Murchie, Scott L.; McCubbin, Francis M.; Kinczyk, Mallory J.; Gillis-Davis, Jeffrey J.; Solomon, Sean C.

    2016-09-01

    High-resolution images from MESSENGER provide morphological information on the nature and origin of Mercury's hollows, small depressions that likely formed when a volatile constituent was lost from the surface. Because graphite may be a component of the low-reflectance material that hosts hollows, we suggest that loss of carbon by ion sputtering or conversion to methane by proton irradiation could contribute to hollows formation. Measurements of widespread hollows in 565 images with pixel scales <20 m indicate that the average depth of hollows is 24 ± 16 m. We propose that hollows cease to increase in depth when a volatile-depleted lag deposit becomes sufficiently thick to protect the underlying surface. The difficulty of developing a lag on steep topography may account for the common occurrence of hollows on crater central peaks and walls. Disruption of the lag, e.g., by secondary cratering, could restart growth of hollows in a location that had been dormant. Images at extremely high resolution (~3 m/pixel) show that the edges of hollows are straight, as expected if the margins formed by scarp retreat. These highest-resolution images reveal no superposed impact craters, implying that hollows are very young. The width of hollows within rayed crater Balanchine suggests that the maximum time for lateral growth by 1 cm is ~10,000 yr. A process other than entrainment of dust by gases evolved in a steady-state sublimation-like process is likely required to explain the high-reflectance haloes that surround many hollows.

  12. The high resolution topographic evolution of an active retrogressive thaw slump compiled from a decade of photography, ground surveys, laser scans and satellite imagery

    Science.gov (United States)

    Crosby, B. T.; Barnhart, T. B.; Rowland, J. C.

    2015-12-01

    Remote sensing imagery has enables the temporal reconstruction of thermal erosion features including lakes, shorelines and hillslope failures in remote Arctic locations, yet these planar data limit analysis to lines and areas. This study explores the application of varying techniques to reconstruct the three dimensional evolution of a single thermal erosion feature using a mixture of opportunistic oblique photos, ground surveys and satellite imagery. At the Selawik River retrogressive thaw slump in northwest Alaska, a bush plane collected oblique aerial photos when the feature was first discovered in 2004 and in subsequent years. These images were recently processed via Structure from Motion to generate georeferenced point clouds for the years prior to the initiation of our research. High resolution ground surveys in 2007, 2009 and 2010 were completed using robotic total station. Terrestrial laser scans (TLS) were collected in the summers of 2011 and 2012. Analysis of stereo satellite imagery from 2012 and 2015 enable continued monitoring of the feature after ground campaigns ended. As accurate coregistraion between point clouds is vital to topographic change detection, all prior and subsequent datasets were georeferenced to stable features observed in the 2012 TLS scan. Though this coregistration introduces uncertainty into each image, the magnitudes of uncertainty are significantly smaller than the topographic changes detected. Upslope retreat of the slump headwall generally decreases over time as the slump floor progresses from a highly dissected gully topography to a low relief, earthflow dominated depositional plane. The decreasing slope of the slump floor diminishes transport capacity, resulting in the progressive burial of the slump headwall, thus decreasing headwall retreat rates. This self-regulation of slump size based on feature relief and transport capacity suggests a capacity to predict the maximum size a given feature can expand to before

  13. Advances In very high resolution satellite imagery analysis for Monitoring human settlements

    Energy Technology Data Exchange (ETDEWEB)

    Vatsavai, Raju [ORNL; Cheriyadat, Anil M [ORNL; Bhaduri, Budhendra L [ORNL

    2014-01-01

    The high rate of urbanization, political conflicts and ensuing internal displacement of population, and increased poverty in the 20th century has resulted in rapid increase of informal settlements. These unplanned, unauthorized, and/or unstructured homes, known as informal settlements, shantytowns, barrios, or slums, pose several challenges to the nations, as these settlements are often located in most hazardous regions and lack basic services. Though several World Bank and United Nations sponsored studies stress the importance of poverty maps in designing better policies and interventions, mapping slums of the world is a daunting and challenging task. In this paper, we summarize our ongoing research on settlement mapping through the utilization of Very high resolution (VHR) remote sensing imagery. Most existing approaches used to classify VHR images are single instance (or pixel-based) learning algorithms, which are inadequate for analyzing VHR imagery, as single pixels do not contain sufficient contextual information (see Figure 1). However, much needed spatial contextual information can be captured via feature extraction and/or through newer machine learning algorithms in order to extract complex spatial patterns that distinguish informal settlements from formal ones. In recent years, we made significant progress in advancing the state of art in both directions. This paper summarizes these results.

  14. A hybrid change detection analysis using high-resolution remote sensing image

    Science.gov (United States)

    Xu, Q. Q.; Liu, Z. J.; Yang, M. Z.; Ren, H. C.; Song, C.; Li, F. F.

    2016-11-01

    In order to reduce noise and improve the accuracy of the final change results, in this paper, we presented a hybrid change detection method based on combining pixel- and object-schemes, Firstly, the method obtained the orthogonal difference images using the pixel-based iteratively reweighted multivariate alteration detection (IR-MAD) algorithm, additionally in the process of iterative weighting, we applied the regularized scheme to stable the generalized characteristic equation for the multispectral data. Consequently, image segmentation algorithm was used to extract the image objects where the changes occurred. Finally, object-based classification method was applied to determinate the types of changes. In order to validate the effectiveness and feasibility of the proposed approach, a simple case was done by using the Horgos Port local multi-temporal and multispectral high-resolution image data in Xinjiang. Compared to the pixel-level IR-MAD, the experimental results showed that the overall accuracy has been improved, moreover successfully reduced noise and pseudo small changes in the final result.

  15. Sub-NM Beam Motion Analysis using a Standard BPM with High Resolution Electronics

    CERN Document Server

    Gasior, M; Kuzmin, A; Pfingstner, J; Schmickler, H; Sylte, M; Billing, M; Böge, M; Dehler, M

    2010-01-01

    In the Compact Linear Collider (CLIC) project high luminosity will be achieved by generating and preserving ultra low beam emittances. It will require a mechanical stability of the quadrupole magnets down to the level of 1 nmrms for frequencies above 1 Hz throughout the 24 km of linac structures. Studies are presently being undertaken to stabilize each quadrupole by means of an active feedback system based on motion sensors and piezoelectric actuators. Since it will be very difficult to prove the stability of the magnetic field down to that level of precision, an attempt was made to use a synchrotron electron beam as a sensor. The beam motion was observed with a standard button Beam Position Monitor (BPM) equipped with high resolution electronics. Beam experiments were carried out to qualify such a measurement at CesrTA (Cornell University) and at SLS (PSI, Villingen), where the residual motion of the circulating electron beams was measured in the frequency range of 5 – 700 Hz. This paper describes the resu...

  16. High-resolution analysis of the duodenal interdigestive phase III in humans.

    Science.gov (United States)

    Castedal, M; Abrahamsson, H

    2001-10-01

    To study the spatial organization of the propagating pressure waves of duodenal phase III, we performed fasting antroduodenal high-resolution manometry with a 16-channel catheter in 12 healthy subjects. The phase III pressure waves diverged in an anterograde and retrograde direction from the start site of each pressure wave. The pressure waves maintained this configuration as the activity front moved distally in the duodenum. The start site of the pressure waves moved gradually to a point approximately 12 cm (median) distal to the pylorus and remained at this point for about 40% of the phase III time before moving further distally. The length of retrograde pressure wave propagation increased to 6 cm (median) as the pressure wave origin moved aborally to a point 10-14 cm distal to the pylorus, and then decreased when the origin of pressure waves reached the distal end of the duodenum. Bidirectional pressure waves dominated in both retrograde and anterograde activity fronts. Three pressure-wave mechanisms behind the duodenal phase IV were observed. Isolated pyloric pressure waves were absent during late duodenal phase III retroperistalsis. Thus, a number of new features of the duodenal phase III-related motility were observed using high-temporospatial resolution recordings.

  17. NLTE Analysis of High Resolution H-band Spectra. I. Neutral Silicon

    CERN Document Server

    Zhang, Junbo; Pan, Kaike; Prieto, Carlos Allende; Liu, Chao

    2016-01-01

    We investigated the reliability of our silicon atomic model and the influence of non-local thermodynamical equilibrium (NLTE) on the formation of neutral silicon (Si I) lines in the near-infrared (near-IR) H-band. We derived the differential Si abundances for 13 sample stars with high-resolution H-band spectra from the Apache Point Observatory Galactic Evolution Experiment (APOGEE), as well as from optical spectra, both under local thermodynamical equilibrium (LTE) and NLTE conditions. We found that the differences between the Si abundances derived from the H-band and from optical lines for the same stars are less than 0.1 dex when the NLTE effects included, and that NLTE reduces the line-to-line scatter in the H-band spectra for most sample stars. These results suggest that our Si atomic model is appropriate for studying the formation of H-band Si lines. Our calculations show that the NLTE corrections of the Si I H-band lines are negative, i.e. the final Si abundances will be overestimated in LTE. The correc...

  18. Diagnosis of genetic predisposition for lactose intolerance by high resolution melting analysis.

    Science.gov (United States)

    Delacour, Hervé; Leduc, Amandine; Louçano-Perdriat, Andréa; Plantamura, Julie; Ceppa, Franck

    2017-02-01

    Lactose, the principle sugar in milk, is a disaccharide hydrolyzed by intestinal lactase into glucose and galactose, which are absorbed directly by diffusion in the intestine. The decline of lactase expression (or hypolactasia) in intestinal microvilli after weaning is a normal phenomenon in mammals known as lactase deficiency. It is observed in nearly 75% of the world population and is an inherited autosomal recessive trait with incomplete penetrance. It is caused by SNPs in a regulatory element for lactase gene. In Indo-European, lactase deficiency is associated with rs4982235 SNP (or -13910C>T). The aim of this study is to describe a method based on high resolution melting for rapidly detecting genetic predisposition to lactose intolerance. Analytical performance of the assay was assessed by evaluating within and betwwen-run precision and by comparing the results (n = 50 patients) obtained with the HRM assay to those obtained with the gold standard (Sanger sequencing of the region of interest). In silico prediction of HRM curves was performed to evaluate the potential impact of the other SNPs described within the PCR product on the HRM analytical performances. The assay has good performance (CV lactose intolerance.

  19. Development of High Resolution Melting Analysis for the Diagnosis of Human Malaria.

    Science.gov (United States)

    Chua, Kek Heng; Lim, Siew Chee; Ng, Ching Ching; Lee, Ping Chin; Lim, Yvonne Ai Lian; Lau, Tze Pheng; Chai, Hwa Chia

    2015-10-28

    Molecular detection has overcome limitations of microscopic examination by providing greater sensitivity and specificity in Plasmodium species detection. The objective of the present study was to develop a quantitative real-time polymerase chain reaction coupled with high-resolution melting (qRT-PCR-HRM) assay for rapid, accurate and simultaneous detection of all five human Plasmodium spp. A pair of primers targeted the 18S SSU rRNA gene of the Plasmodium spp. was designed for qRT-PCR-HRM assay development. Analytical sensitivity and specificity of the assay were evaluated. Samples collected from 229 malaria suspected patients recruited from Sabah, Malaysia were screened using the assay and results were compared with data obtained using PlasmoNex(TM), a hexaplex PCR system. The qRT-PCR-HRM assay was able to detect and discriminate the five Plasmodium spp. with lowest detection limits of 1-100 copy numbers without nonspecific amplifications. The detection of Plasmodium spp. in clinical samples using this assay also achieved 100% concordance with that obtained using PlasmoNex(TM). This indicated that the diagnostic sensitivity and specificity of this assay in Plasmodium spp. detection is comparable with those of PlasmoNex(TM). The qRT-PCR-HRM assay is simple, produces results in two hours and enables high-throughput screening. Thus, it is an alternative method for rapid and accurate malaria diagnosis.

  20. High-Resolution Analysis of Antibodies to Post-Translational Modifications Using Peptide Nanosensor Microarrays.

    Science.gov (United States)

    Lee, Jung-Rok; Haddon, D James; Gupta, Nidhi; Price, Jordan V; Credo, Grace M; Diep, Vivian K; Kim, Kyunglok; Hall, Drew A; Baechler, Emily C; Petri, Michelle; Varma, Madoo; Utz, Paul J; Wang, Shan X

    2016-12-27

    Autoantibodies are a hallmark of autoimmune diseases such as lupus and have the potential to be used as biomarkers for diverse diseases, including immunodeficiency, infectious disease, and cancer. More precise detection of antibodies to specific targets is needed to improve diagnosis of such diseases. Here, we report the development of reusable peptide microarrays, based on giant magnetoresistive (GMR) nanosensors optimized for sensitively detecting magnetic nanoparticle labels, for the detection of antibodies with a resolution of a single post-translationally modified amino acid. We have also developed a chemical regeneration scheme to perform multiplex assays with a high level of reproducibility, resulting in greatly reduced experimental costs. In addition, we show that peptides synthesized directly on the nanosensors are approximately two times more sensitive than directly spotted peptides. Reusable peptide nanosensor microarrays enable precise detection of autoantibodies with high resolution and sensitivity and show promise for investigating antibody-mediated immune responses to autoantigens, vaccines, and pathogen-derived antigens as well as other fundamental peptide-protein interactions.

  1. Identification of Brucella spp. isolated from human brucellosis in Malaysia using high-resolution melt (HRM) analysis.

    Science.gov (United States)

    Mohamed Zahidi, Jama'ayah; Bee Yong, Tay; Hashim, Rohaidah; Mohd Noor, Azura; Hamzah, Siti Hawa; Ahmad, Norazah

    2015-04-01

    Molecular approaches have been investigated to overcome difficulties in identification and differentiation of Brucella spp. using conventional phenotypic methods. In this study, high-resolution melt (HRM) analysis was used for rapid identification and differentiation of members of Brucella genus. A total of 41 Brucella spp. isolates from human brucellosis were subjected to HRM analysis using 4 sets of primers, which identified 40 isolates as Brucella melitensis and 1 as Brucella canis. The technique utilized low DNA concentration and was highly reproducible. The assay is shown to be a useful diagnostic tool, which can rapidly differentiate Brucella up to species level. Copyright © 2015 The Authors. Published by Elsevier Inc. All rights reserved.

  2. The NIRSPEC Brown Dwarf Spectroscopic Survey II: High-Resolution J-Band Spectra of M, L and T Dwarfs

    CERN Document Server

    McLean, I S; McGovern, M R; Burgasser, A J; Kirkpatrick, J D; Rice, E L; Kim, S S; Lean, Ian S. Mc; Govern, Mark R. Mc; Burgasser, Adam J.; Rice, Emily L.; Kim, Sungsoo S.

    2006-01-01

    We present a sequence of high resolution (R~20,000 or 15 km/s) infrared spectra of stars and brown dwarfs spanning spectral types M2.5 to T6. Observations of 16 objects were obtained using eight echelle orders to cover part of the J-band from 1.165-1.323 micron with NIRSPEC on the Keck II telescope. By comparing opacity plots and line lists, over 200 weak features in the J-band are identified with either FeH or H2O transitions. Absorption by FeH attains maximum strength in the mid-L dwarfs, while H2O absorption becomes systematically stronger towards later spectral types. Narrow resolved features broaden markedly after the M to L transition. Our high resolution spectra also reveal that the disappearance of neutral Al lines at the boundary between M and L dwarfs is remarkably abrupt, presumably because of the formation of grains. Neutral Fe lines can be traced to mid-L dwarfs before Fe is removed by condensation. The neutral potassium (K I) doublets that dominate the J-band have pressure broadened wings that c...

  3. High-resolution proteomic and lipidomic analysis of exosomes and microvesicles from different cell sources

    Directory of Open Access Journals (Sweden)

    Reka A. Haraszti

    2016-11-01

    Full Text Available Extracellular vesicles (EVs, including exosomes and microvesicles (MVs, are explored for use in diagnostics, therapeutics and drug delivery. However, little is known about the relationship of protein and lipid composition of EVs and their source cells. Here, we report high-resolution lipidomic and proteomic analyses of exosomes and MVs derived by differential ultracentrifugation from 3 different cell types: U87 glioblastoma cells, Huh7 hepatocellular carcinoma cells and human bone marrow-derived mesenchymal stem cells (MSCs. We identified 3,532 proteins and 1,961 lipid species in the screen. Exosomes differed from MVs in several different areas: (a The protein patterns of exosomes were more likely different from their cells of origin than were the protein patterns of MVs; (b The proteomes of U87 and Huh7 exosomes were similar to each other but different from the proteomes of MSC exosomes, whereas the lipidomes of Huh7 and MSC exosomes were similar to each other but different from the lipidomes of U87 exosomes; (c exosomes exhibited proteins of extracellular matrix, heparin-binding, receptors, immune response and cell adhesion functions, whereas MVs were enriched in endoplasmic reticulum, proteasome and mitochondrial proteins. Exosomes and MVs also differed in their types of lipid contents. Enrichment in glycolipids and free fatty acids characterized exosomes, whereas enrichment in ceramides and sphingomyelins characterized MVs. Furthermore, Huh7 and MSC exosomes were specifically enriched in cardiolipins; U87 exosomes were enriched in sphingomyelins. This study comprehensively analyses the protein and lipid composition of exosomes, MVs and source cells in 3 different cell types.

  4. A systematic comparison of quantitative high-resolution DNA methylation analysis and methylation-specific PCR

    Science.gov (United States)

    Claus, Rainer; Wilop, Stefan; Hielscher, Thomas; Sonnet, Miriam; Dahl, Edgar; Galm, Oliver; Jost, Edgar; Plass, Christoph

    2012-01-01

    Assessment of DNA methylation has become a critical factor for the identification, development and application of methylation based biomarkers. Here we describe a systematic comparison of a quantitative high-resolution mass spectrometry-based approach (MassARRAY), pyrosequencing and the broadly used methylation-specific PCR (MSP) technique analyzing clinically relevant epigenetically silenced genes in acute myeloid leukemia (AML). By MassARRAY and pyrosequencing, we identified significant DNA methylation differences at the ID4 gene promoter and in the 5′ region of members of the SFRP gene family in 62 AML patients compared with healthy controls. We found a good correlation between data obtained by MassARRAY and pyrosequencing (correlation coefficient R2 = 0.88). MSP-based assessment of the identical samples showed less pronounced differences between AML patients and controls. By direct comparison of MSP-derived and MassARRAY-based methylation data as well as pyrosequencing, we could determine overestimation of DNA methylation data by MSP. We found sequence-context dependent highly variable cut-off values of quantitative DNA methylation values serving as discriminator for the two MSP methylation categories. Moreover, good agreements between quantitative methods and MSP could not be achieved for all investigated loci. Significant correlation of the quantitative assessment but not of MSP-derived methylation data with clinically important characteristics in our patient cohort demonstrated clinical relevance of quantitative DNA methylation assessment. Taken together, while MSP is still the most commonly applied technique for DNA methylation assessment, our data highlight advantages of quantitative approaches for precise characterization and reliable biomarker use of aberrant DNA methylation in primary patient samples, particularly. PMID:22647397

  5. High-resolution proteomic and lipidomic analysis of exosomes and microvesicles from different cell sources

    Science.gov (United States)

    Haraszti, Reka A.; Didiot, Marie-Cecile; Sapp, Ellen; Leszyk, John; Shaffer, Scott A.; Rockwell, Hannah E.; Gao, Fei; Narain, Niven R.; DiFiglia, Marian; Kiebish, Michael A.; Aronin, Neil; Khvorova, Anastasia

    2016-01-01

    Extracellular vesicles (EVs), including exosomes and microvesicles (MVs), are explored for use in diagnostics, therapeutics and drug delivery. However, little is known about the relationship of protein and lipid composition of EVs and their source cells. Here, we report high-resolution lipidomic and proteomic analyses of exosomes and MVs derived by differential ultracentrifugation from 3 different cell types: U87 glioblastoma cells, Huh7 hepatocellular carcinoma cells and human bone marrow-derived mesenchymal stem cells (MSCs). We identified 3,532 proteins and 1,961 lipid species in the screen. Exosomes differed from MVs in several different areas: (a) The protein patterns of exosomes were more likely different from their cells of origin than were the protein patterns of MVs; (b) The proteomes of U87 and Huh7 exosomes were similar to each other but different from the proteomes of MSC exosomes, whereas the lipidomes of Huh7 and MSC exosomes were similar to each other but different from the lipidomes of U87 exosomes; (c) exosomes exhibited proteins of extracellular matrix, heparin-binding, receptors, immune response and cell adhesion functions, whereas MVs were enriched in endoplasmic reticulum, proteasome and mitochondrial proteins. Exosomes and MVs also differed in their types of lipid contents. Enrichment in glycolipids and free fatty acids characterized exosomes, whereas enrichment in ceramides and sphingomyelins characterized MVs. Furthermore, Huh7 and MSC exosomes were specifically enriched in cardiolipins; U87 exosomes were enriched in sphingomyelins. This study comprehensively analyses the protein and lipid composition of exosomes, MVs and source cells in 3 different cell types. PMID:27863537

  6. High Resolution Spatial Analysis of Habitat Preference of Aedes Albopictus (Diptera: Culicidae) in an Urban Environment.

    Science.gov (United States)

    Cianci, Daniela; Hartemink, Nienke; Zeimes, Caroline B; Vanwambeke, Sophie O; Ienco, Annamaria; Caputo, Beniamino

    2015-05-01

    Over the past decades, the Asian tiger mosquito (Aedes albopictus (Skuse, 1895)) has emerged in many countries, and it has colonized new environments, including urban areas. The species is a nuisance and a potential vector of several human pathogens, and a better understanding of the habitat preferences of the species is needed for help in successful prevention and control. So far, the habitat preference in urban environments has not been studied in Southern European cities. In this paper, spatial statistical models were used to evaluate the relationship between egg abundances and land cover types on the campus of Sapienza University in Rome, which is taken as an example of a European urban habitat. Predictor variables included land cover types, classified in detail on a high resolution image, as well as solar radiation and month of capture. The models account for repeated measures in the same trap and are adjusted for meteorological circumstances. Vegetation and solar radiation were found to be positively related to the number of eggs. More specifically, trees were positively related to the number of eggs and the relationship with grass was negative. These findings are consistent with the species' known preference for shaded areas. The unexpected positive relationship with solar radiation is amply discussed in the paper. This study represents a first step toward a better understanding of the spatial distribution of Ae. albopictus in urban environments. © The Authors 2015. Published by Oxford University Press on behalf of Entomological Society of America. All rights reserved. For Permissions, please email: journals.permissions@oup.com.

  7. Semi-automted analysis of high-resolution aerial images to quantify docks in Upper Midwest glacial lakes

    Science.gov (United States)

    Beck, Marcus W.; Vondracek, Bruce C.; Hatch, Lorin K.; Vinje, Jason

    2013-01-01

    Lake resources can be negatively affected by environmental stressors originating from multiple sources and different spatial scales. Shoreline development, in particular, can negatively affect lake resources through decline in habitat quality, physical disturbance, and impacts on fisheries. The development of remote sensing techniques that efficiently characterize shoreline development in a regional context could greatly improve management approaches for protecting and restoring lake resources. The goal of this study was to develop an approach using high-resolution aerial photographs to quantify and assess docks as indicators of shoreline development. First, we describe a dock analysis workflow that can be used to quantify the spatial extent of docks using aerial images. Our approach incorporates pixel-based classifiers with object-based techniques to effectively analyze high-resolution digital imagery. Second, we apply the analysis workflow to quantify docks for 4261 lakes managed by the Minnesota Department of Natural Resources. Overall accuracy of the analysis results was 98.4% (87.7% based on ) after manual post-processing. The analysis workflow was also 74% more efficient than the time required for manual digitization of docks. These analyses have immediate relevance for resource planning in Minnesota, whereas the dock analysis workflow could be used to quantify shoreline development in other regions with comparable imagery. These data can also be used to better understand the effects of shoreline development on aquatic resources and to evaluate the effects of shoreline development relative to other stressors.

  8. True 3D kinematic analysis for slope instability assessment in the Siq of Petra (Jordan), from high resolution TLS

    Science.gov (United States)

    Gigli, Giovanni; Margottini, Claudio; Spizzichino, Daniele; Ruther, Heinz; Casagli, Nicola

    2016-04-01

    Most classifications of mass movements in rock slopes use relatively simple, idealized geometries for the basal sliding surface, like planar sliding, wedge sliding, toppling or columnar failures. For small volumes, the real sliding surface can be often well described by such simple geometries. Extended and complex rock surfaces, however, can exhibit a large number of mass movements, also showing various kind of kinematisms. As a consequence, the real situation in large rock surfaces with a complicate geometry is generally very complex and a site depending analysis, such as fieldwork and compass, cannot be comprehensive of the real situation. Since the outstanding development of terrestrial laser scanner (TLS) in recent years, rock slopes can now be investigated and mapped through high resolution point clouds, reaching the resolution of few mm's and accuracy less than a cm in most advanced instruments, even from remote surveying. The availability of slope surface digital data can offer a unique chance to determine potential kinematisms in a wide distributed area for all the investigated geomorphological processes. More in detail the proposed method is based on the definition of least squares fitting planes on clusters of points extracted by moving a sampling cube on the point cloud. If the associated standard deviation is below a defined threshold, the cluster is considered valid. By applying geometric criteria it is possible to join all the clusters lying on the same surface; in this way discontinuity planes can be reconstructed, rock mass geometrical properties are calculated and, finally, potential kinematisms established. The Siq of Petra (Jordan), is a 1.2 km naturally formed gorge, with an irregular horizontal shape and a complex vertical slope, that represents the main entrance to Nabatean archaeological site. In the Siq, discontinuities of various type (bedding, joints, faults), mainly related to geomorphological evolution of the slope, lateral stress

  9. Non-target screening with high-resolution mass spectrometry : critical review using a collaborative trial on water analysis

    OpenAIRE

    Emma L. Schymanski; Singer, Heinz P.; Slobodnik, Jaroslav; Onghena, Matthias; et al

    2015-01-01

    Abstract: In this article, a dataset from a collaborative non-target screening trial organised by the NORMAN Association is used to review the state-of-the-art and discuss future perspectives of non-target screening using high-resolution mass spectrometry in water analysis. A total of 18 institutes from 12 European countries analysed an extract of the same water sample collected from the River Danube with either one or both of liquid and gas chromatography coupled with mass spectrometry detec...

  10. High-resolution melt-curve analysis of random-amplified-polymorphic-DNA markers, for the characterisation of pathogenic Leptospira

    DEFF Research Database (Denmark)

    Tulsiani, Suhella; Craig, S B; Graham, G C

    2010-01-01

    A new test for pathogenic Leptospira isolates, based on RAPD-PCR and high-resolution melt (HRM) analysis (which measures the melting temperature of amplicons in real time, using a fluorescent DNA-binding dye), has recently been developed. A characteristic profile of the amplicons can be used...... typed against 13 previously published RAPD primers, using a real-time cycler (the Corbett Life Science RotorGene 6000) and the optimised reagents from a commercial kit (Quantace SensiMix). RAPD-HRM at specific temperatures generated defining amplicon melt profiles for each of the tested serovars...

  11. Late Pliensbachian-early Toarcian paleoenvironmental changes in the Cleveland Basin: new clues from high-resolution trace element analysis

    DEFF Research Database (Denmark)

    Thibault, Nicolas Rudolph; Ruhl, Micha; Ullmann, Clemens Vinzenz

    The early Toarcian (~183 Ma ago) was characterized by massive carbon burial and a pronounced negative carbon-isotope excursion (CIE) in marine carbonate and marine and terrestrial organic matter. These features along with the high abundance of redox sensitive trace metals in that interval led...... areas for this interval is the Cleveland Basin, UK, which is well-studied for litho-, bio- and chemostratigraphy. Here, we present a new dataset of high-resolution element data produced by hand-held X-ray fluorescence analysis to test for the expression of redox-sensitive trace metals and detrital...

  12. High resolution spectral survey of symbiotic stars in the near-IR over the GAIA wavelength range

    CERN Document Server

    Marrese, P M; Munari, U; Marrese, Paola M.; Sordo, Rosanna; Munari, Ulisse

    2002-01-01

    High resolution (R~20,000), high signal-to-noise (S/N~100) spectra were collected for ~40 symbiotic stars with the Asiago echelle spectrograph over the same 8480-8740 Ang wavelength range covered by the ESA Cornerstone mission GAIA, centered on the near-IR CaII triplet and the head of the Paschen series. A large number (~140) of cool MKK giant and supergiant templates were observed with the same instrumentation to serve as a reference and classification grid. The spectra offer bright prospects in classifying and addressing the nature of the cool component of symbiotic stars (deriving T(eff), log g, [Fe/H], [alpha/Fe], V(rot)sin i both via MDM-like methods and syntetic atmosphere modeling) and mapping the physical condition and kinematics of the gas regions responsible for the emission lines.

  13. The global Mercator Ocean analysis and forecasting high resolution system and its main future updates

    Science.gov (United States)

    Lellouche, Jean-Michel; Legalloudec, Olivier; Bourdallé-Badie, Romain; Garric, Gilles; Greiner, Eric; Drévillon, Marie; Regnier, Charly; Testut, Charles-Emmanuel; Benkiran, Mounir; Drillet, Yann

    2015-04-01

    In April 2013, Mercator Ocean has performed a major upgrade of the global 1/12° high resolution system. This system currently delivers daily services, and includes numerous improvements related to the ocean/sea-ice model and the assimilation scheme. Observations are assimilated by means of a reduced-order Kalman filter with a 3D multivariate modal decomposition of the forecast error. It includes an adaptive-error estimate and a localization algorithm. Altimeter data, satellite Sea Surface Temperature and in situ temperature and salinity vertical profiles are jointly assimilated to estimate the initial conditions for numerical ocean forecasting. A 3D-Var scheme provides a correction for the slowly-evolving large-scale biases in temperature and salinity. In April 2015, Mercator Ocean will open the Copernicus Marine Environment Monitoring Service and will be in charge of the global ocean at eddy resolving resolution. In this context, R&D activities conducted during the end of the MyOcean2 and MyOcean follow-on projects to deliver an improved version of the global system will continue throughout 2015. The main new updates we plan to integrate in the next version of the global system concern: 1) A new vertical mixing scheme k-epsilon: vertical physics has been explored with a special focus on the turbulent closure problem to improve the representation of temperature and salinity in the Mixed Layer Depth. 2) An adaptive tuning of observations errors: as the prescription of observation errors in the assimilation systems is often too approximate, some diagnostics have been developed. These diagnostics consist in the computation of the Desroziers ratio which is a function of observation errors, innovations and residuals. It helps to identify inconsistency on the specified observation errors and to tune an adaptive weight coefficient acting on the error of each assimilated observation. 3) The assimilation of sea-ice concentration observations: it is introduced in the

  14. Analysis of sultriness-triggering parameters using high resolution regional climate simulations

    Science.gov (United States)

    Brecht, Benedict; Schipper, Janus Willem

    2017-04-01

    Under changing environmental conditions - which are a consequence of global climate change - living comfort should be maintained. A change of the temperature and humidity is expected, which affects the living comfort of people and is analyzed here. The study is performed in the framework of a project funded by the Baden-Württemberg foundation and couples the outdoor and the indoor climate as well as the thermal-hygric behavior of walls by thermal-energetic building simulations driven with regional climate model data. The intention is to avoid, too wet and sultry indoor climate by passive plaster systems. High resolution regional climate simulations are made with the non-hydrostatic regional climate model COSMO-CLM (CCLM) and driven by data from the global climate model (GCM) ECHAM6 for projection as well as ERA-Interim reanalysis (ECMWF) for validation. The global data are dynamically downscaled with CCLM up to a convection permitting mesh size of 2.8 km; past (1981-2010) and future (2021-2050) periods are considered. To estimate the range of possible future developments an ensemble is created by the use of two emission scenarios, RCP4.5 and RCP8.5, coupling CCLM with the soil vegetation atmosphere transfer scheme VEG3D (additionally to TERRA) and climate simulations with different GCMs as forcing models. Also a bias correction of the RCM runs is done to use them for the impact studies. The evaluation of the model simulations showed a high dependency of sultriness conditions in southwestern Germany on the large scale weather conditions. For example, if the prevailing wind direction was southwest, a quarter of the days in summer had a mean value of specific humidity over 12 g/kg (assumed as a sultriness limit here) in the Rhine valley (mean over 30 years). These large scale conditions were analyzed with the objective weather type classification of Dittmann and Bissolli. In the next step, factors affecting sultriness, for example orography, landuse or local wind

  15. Tidal analysis of GNSS data from a high resolution sensor network at Helheim Glacier

    Science.gov (United States)

    Martin, Ian; Aspey, Robin; Baugé, Tim; Edwards, Stuart; Everett, Alistair; James, Timothy; Loskot, Pavel; Murray, Tavi; O'Farrell, Tim; Rutt, Ian

    2014-05-01

    Changes in Greenland and Antarctic ice sheets due to ice flow/ice-berg calving are a major uncertainty affecting sea-level rise forecasts. Latterly GNSS (Global Navigation Satellite Systems) have been employed extensively to monitor such glacier dynamics. Until recently however, the favoured methodology has been to deploy sensors onto the glacier surface, collect data for a period of time, then retrieve and download the sensors. This approach works well in less dynamic environments where the risk of sensor loss is low. In more extreme environments e.g. approaching the glacial calving front, the risk of sensor loss and hence data loss increases dramatically. In order to provide glaciologists with new insights into flow dynamics and calving processes we have developed a novel sensor network to increase the robustness of data capture. We present details of the technological requirements for an in-situ Zigbee wireless streaming network infrastructure supporting instantaneous data acquisition from high resolution GNSS sensors thereby increasing data capture robustness. The data obtained offers new opportunities to investigate the interdependence of mass flow, uplift, velocity and geometry and the network architecture has been specifically designed for deployment by helicopter close to the calving front to yield unprecedented detailed information. Following successful field trials of a pilot three node network during 2012, a larger 20 node network was deployed on the fast-flowing Helheim glacier, south-east Greenland over the summer months of 2013. The utilisation of dual wireless transceivers in each glacier node, multiple frequencies and four 'collector' stations located on the valley sides creates overlapping networks providing enhanced capacity, diversity and redundancy of data 'back-haul', even close to 'floor' RSSI (Received Signal Strength Indication) levels around -100 dBm. Data loss through radio packet collisions within sub-networks are avoided through the

  16. Derivation and analysis of a high-resolution estimate of global permafrost zonation

    Directory of Open Access Journals (Sweden)

    S. Gruber

    2012-02-01

    Full Text Available Permafrost underlies much of Earth's surface and interacts with climate, eco-systems and human systems. It is a complex phenomenon controlled by climate and (sub- surface properties and reacts to change with variable delay. Heterogeneity and sparse data challenge the modeling of its spatial distribution. Currently, there is no data set to adequately inform global studies of permafrost. The available data set for the Northern Hemisphere is frequently used for model evaluation, but its quality and consistency are difficult to assess. Here, a global model of permafrost extent and dataset of permafrost zonation are presented and discussed, extending earlier studies by including the Southern Hemisphere, by consistent data and methods, by attention to uncertainty and scaling. Established relationships between air temperature and the occurrence of permafrost are re-formulated into a model that is parametrized using published estimates. It is run with a high-resolution (<1 km global elevation data and air temperatures based on the NCAR-NCEP reanalysis and CRU TS 2.0. The resulting data provide more spatial detail and a consistent extrapolation to remote regions, while aggregated values resemble previous studies. The estimated uncertainties affect regional patterns and aggregate number, and provide interesting insight. The permafrost area, i.e. the actual surface area underlain by permafrost, north of 60° S is estimated to be 13–18 × 106 km2 or 9–14 % of the exposed land surface. The global permafrost area including Antarctic and sub-sea permafrost is estimated to be 16–21 × 106 km2. The global permafrost region, i.e. the exposed land surface below which some permafrost can be expected, is estimated to be 22 ± 3 × 106 km2. A large proportion of this exhibits considerable topography and spatially-discontinuous permafrost, underscoring the importance of attention to scaling issues

  17. Sea level history in 3D: Data acquisition and processing for an ultra-high resolution MCS survey across IODP Expedition 313 drillsite

    Science.gov (United States)

    Nedimovic, M. R.; Mountain, G. S.; Austin, J. A., Jr.; Fulthorpe, C.; Aali, M.; Baldwin, K.; Bhatnagar, T.; Johnson, C.; Küçük, H. M.; Newton, A.; Stanley, J.

    2015-12-01

    In June-July 2015, we acquired the first 3D/2D hybrid (short/long streamer) multichannel seismic (MCS) reflection dataset. These data were collected simultaneously across IODP Exp. 313 drillsites, off New Jersey, using R/V Langsethand cover ~95% of the planned 12x50 km box. Despite the large survey area, the lateral and vertical resolution for the 3D dataset is almost a magnitude of order higher than for data gathered for standard petroleum exploration. Such high-resolution was made possible by collection of common midpoint (CMP) lines whose combined length is ~3 times the Earth's circumference (~120,000 profile km) and a source rich in high-frequencies. We present details on the data acquisition, ongoing data analysis, and preliminary results. The science driving this project is presented by Mountain et al. The 3D component of this innovative survey used an athwartship cross cable, extended laterally by 2 barovanes roughly 357.5 m apart and trailed by 24 50-m P-Cables spaced ~12.5 m with near-trace offset of 53 m. Each P-Cable had 8 single hydrophone groups spaced at 6.25 m for a total of 192 channels. Record length was 4 s and sample rate 0.5 ms, with no low cut and an 824 Hz high cut filter. We ran 77 sail lines spaced ~150 m. Receiver locations were determined using 2 GPS receivers mounted on floats and 2 compasses and depth sensors per streamer. Streamer depths varied from 2.1 to 3.7 m. The 2D component used a single 3 km streamer, with 240 9-hydrophone groups spaced at 12.5 m, towed astern with near-trace offset of 229 m. The record length was 4 s and sample rate 0.5 ms, with low cut filter at 2 Hz and high cut at 412 Hz. Receiver locations were recorded using GPS at the head float and tail buoy, combined with 12 bird compasses spaced ~300 m. Nominal streamer depth was 4.5 m. The source for both systems was a 700 in3 linear array of 4 Bolt air guns suspended at 4.5 m towing depth, 271.5 m behind the ship's stern. Shot spacing was 12.5 m. Data analysis to

  18. Sediment dynamics in paired High Arctic lakes revealed from high-resolution swath bathymetry and acoustic stratigraphy surveys

    Science.gov (United States)

    Normandeau, A.; Lamoureux, S. F.; Lajeunesse, P.; Francus, P.

    2016-09-01

    High Arctic lakes are commonly used for paleoclimatic reconstructions because they are particularly sensitive to climate variability. However, the processes leading to sediment deposition and distribution in these lakes are often poorly understood. Here for the first time in the Canadian High Arctic, we present original data resulting from swath bathymetry and subbottom surveys carried out on two lakes at Cape Bounty, Melville Island. The results reveal the dynamic nature of the lakes, in which mass movement deposits and bedforms on the deltas reflect frequent slope instabilities and hyperpycnal flow activity. The analysis of the mass movement deposits reveals that small blocky debris flows/avalanches, debris flows, and a slide occurred during the Holocene. These mass movements are believed to have been triggered by earthquakes and potentially by permafrost thawing along the shoreline. Altogether, these mass movement deposits cover more than 30% of the lake floors. Additionally, the river deltas on both lakes were mapped and reveal the presence of several gullies and bedforms. The presence of gullies along the delta front indicates that hyperpycnal flows generated at the river mouth can transport sediment in different trajectories downslope, resulting in a different sediment accumulation pattern and record. The dynamic nature of these two lakes suggests that further analysis on sediment transport and distribution within Arctic lakes is required in order to improve paleoclimatic reconstructions.

  19. Identification case of evidence in timber tracing of Pinus radiate, using high-resolution melting (HRM) analysis.

    Science.gov (United States)

    Solano, Jaime; Anabalón, Leonardo; Encina, Francisco

    2016-03-01

    Fast, accurate detection of plant species and their hybrids using molecular tools will facilitate assessment and monitoring of timber tracing evidence. In this study the origin of unknown pine samples is determined for a case of timber theft in the region of Araucania southern Chile. We evaluate the utility of the trnL marker region for species identification applied to pine wood based on High Resolution Melting. This efficient tracing methods can be incorporated into forestry applications such as certification of origin. The object of this work was genotype identification using high-resolution melting (HRM) and trnL approaches for Pinus radiata (Don) in timber tracing evidence. Our results indicate that trnL is a very sensitive marker for delimiting species and HRM analysis was used successfully for genotyping Pinus samples for timber tracing purposes. Genotyping samples by HRM analysis with the trnL1 approach allowed us to differentiate two wood samples from the Pinaceae family: Pinus radiata (Don) and Pseudotsuga menziesii (Mirb.) Franco. The same approach with Pinus trnL wood was not able to discriminate between samples of Pinus radiata, indicating that the samples were genetically indistinguishable, possibly because they have the same genotype at this locus. Timber tracing with HRM analysis is expected to contribute to future forest certification schemes, control of illegal trading, and molecular traceability of Pinus spp.

  20. A High-resolution Multiband Survey of Westerlund 2 with the Hubble Space Telescope. III. The Present-day Stellar Mass Function

    Science.gov (United States)

    Zeidler, Peter; Nota, Antonella; Grebel, Eva K.; Sabbi, Elena; Pasquali, Anna; Tosi, Monica; Christian, Carol

    2017-03-01

    We present a detailed analysis of the spatial distribution of the stellar population and the present-day mass function (PDMF) of the Westerlund 2 (Wd2) region using the data from our high-resolution multiband survey with the Hubble Space Telescope. We used state-of-the-art artificial star tests to determine spatially resolved completeness maps for each of the broadband filters. We reach a level of completeness of 50% down to F555W=24.8 mag (0.7 {M}ȯ ) and F814W=23.3 mag (0.2 {M}ȯ ) in the optical and F125W=20.2 mag and F160W=19.4 mag (both 0.12 {M}ȯ ) in the infrared throughout the field of view. We had previously reported that the core of Wd2 consists of two clumps: namely the main cluster and the northern clump. From the spatial distribution of the completeness-corrected population, we find that their stellar surface densities are 1114 {stars} {{pc}}-2 and 555 {stars} {{pc}}-2, respectively, down to F814W=21.8 mag. We find that the PDMF of Wd2 has a slope of {{Γ }}=-1.46+/- 0.06, which translates to a total stellar cluster mass of (3.6+/- 0.3)\\cdot {10}4 {M}ȯ . The spatial analysis of the PDMF reveals that the cluster population is mass-segregated and most likely primordial. In addition, we report the detection of a stellar population of spatially uniformly distributed low-mass (< 0.15 {M}ȯ ) stars, extending into the gas ridges of the surrounding gas and dust cloud, as well as a confined region of reddened stars, likely caused by a foreground CO cloud. We find hints that a cloud–cloud collision might be the origin of the formation of Wd2.

  1. Isotope dilution analysis of polychlorinated biphenyls (PCBs) in transformer oil and global commercial PCB formulations by high resolution gas chromatography-high resolution mass spectrometry.

    Science.gov (United States)

    Takasuga, Takumi; Senthilkumar, Kurunthachalam; Matsumura, Tohru; Shiozaki, Ken; Sakai, Shin-ichi

    2006-01-01

    Special polychlorinated biphenyls (PCBs) standards (native and isotope labeled) were analyzed by isotope dilution method using HRGC-HRMS. Multiple analysis of special PCBs standards by three different laboratories produced the relative response factors (RRFs) and relative standard deviations (RSDs %) was in the average of 0.979 and 3.86, respectively. Additionally, inter-laboratory analysis of various forms of transformer oil revealed the PCBs concentrations were in the following order; PCBs fortified transformer oil (940-1300 ng/g)>PCB polluted transformer oil (490-680 ng/g)>chemically degraded-transformer oil (480-490 ng/g) and PCBs free oil (ND-17 ng/g). Chemical degradation resulted in an order of magnitude decrease in the PCB concentrations. Specifically, higher chlorinated PCBs degraded into lower chlorinated PCBs. Also, composition of PCBs have been determined in PCB formulations from Japan (Kanechlor), Germany (Clophen), USA (Aroclor), Russia (Sovol) and Poland (Chlorofen). Major PCBs (24-PCB congeners) contributed 54-67%, 55-68%, 16-69%, 71% and 72% in Kanechlor, Clophen, Aroclor, Sovol and Chlorofen, respectively to total PCBs. The homologue pattern of Kanechlor, Aroclor and Clophen in technical fromulation was similar (e.g., Kanechlor-300 resembled to those of Clophen A-30 and Aroclor-1242). Furthermore, congener-specific distributions of major PCBs/dioxin-like PCBs and toxic equivalency quantities (TEQ) were calculated. Based on our tentative assumption calculations, cumulative production of five different technical PCB formulations, WHO-TEQ emission was estimated to be approximately 16.05 tons.

  2. Near-Infrared high resolution spectral survey of comets with GIANO/TNG: The CN red-system at 1.1 μm

    Science.gov (United States)

    Faggi, Sara; Villanueva, Geronimo Luis; Mumma, Michael J.; Tozzi, Gian-Paolo; Brucato, John Robert

    2016-10-01

    High-resolution spectroscopy in the near-infrared spectral range is a powerful tool to investigate chemical composition and isotopic fractionation.Comets are the best preserved relic of the enfant stages of the solar system. By targeting biologically relevant species in cometary comae and retrieving isotopic (e.g. D/H) and spin isomeric (e.g., ortho- and para- water) ratios, we can study the formation and evolution of solar system matter, address the origin of Earth's oceans and characterize the delivery of organic matter that was essential for the appearance of life on early Earth. We initiated the first high resolution spectral survey of comets ever conducted in the 0.9-2.5 μm range, targeting C/2014 Q2 (Lovejoy), C/2013 US10 (Catalina) and C/2013 X1 (Panstarrs) with GIANO - the near-IR high resolution spectrograph on Telescopio Nazionale Galileo (TNG). In comet Lovejoy, we detected eight ro-vibrational bands of H2O (Faggi et al., 2016, ApJ in press), emission from the red-system of CN, and many other emission lines whose precursors are now being identified. In this talk we will present a new quantum mechanical solar fluorescence model for the CN red system and the retrievals obtained with it from our cometary spectra. These observations open new pathways for cometary science in the near-infrared spectral range (0.9-2.5 μm) and establish the feasibility of astrobiology-related scientific investigations with future high resolution IR spectrographs on 30-m class telescopes, e.g., the HIRES spectrograph on the E-ELT telescope. This work is part of Sara Faggi's Ph.D. thesis project. NASA's Planetary Astronomy Program supported GLV and MJM through funding awarded under proposal 11-PAST11-0045 (M. J. Mumma, PI ).

  3. Effective use of principal component analysis with high resolution remote sensing data to delineate hydrothermal alteration and carbonate rocks

    Science.gov (United States)

    Feldman, Sandra C.

    1987-01-01

    Methods of applying principal component (PC) analysis to high resolution remote sensing imagery were examined. Using Airborne Imaging Spectrometer (AIS) data, PC analysis was found to be useful for removing the effects of albedo and noise and for isolating the significant information on argillic alteration, zeolite, and carbonate minerals. An effective technique for using PC analysis using an input the first 16 AIS bands, 7 intermediate bands, and the last 16 AIS bands from the 32 flat field corrected bands between 2048 and 2337 nm. Most of the significant mineralogical information resided in the second PC. PC color composites and density sliced images provided a good mineralogical separation when applied to a AIS data set. Although computer intensive, the advantage of PC analysis is that it employs algorithms which already exist on most image processing systems.

  4. Liquid chromatography-high-resolution mass spectrometry for pesticide residue analysis in fruit and vegetables: screening and quantitative studies.

    Science.gov (United States)

    Gómez-Ramos, M M; Ferrer, C; Malato, O; Agüera, A; Fernández-Alba, A R

    2013-04-26

    This work reviews the current state-of-the-art of liquid chromatography coupled to high-resolution mass spectrometry (LC-HRMS) techniques applied to the analysis of pesticides in fruit-based and vegetable-based matrices. Nowadays, simultaneous trace analysis of hundreds of pesticides from different classes is required, preferably in just one run. The most commonly used QqQ-MS technology presents certain limitations in its application in a cost and effective way when analyzing a large number of pesticides. Thus, this review includes HRMS technology as a reliable complementary alternative allowing the analysis of a wide range of pesticides in food. Its capabilities and limitations in identifying, confirming and quantifying pesticides are discussed. HRMS instruments can adequately address such issues; however, the main drawbacks are as a result of insufficient prior optimization of the operational parameters during non-target analysis in full-scan mode and due to software shortcomings.

  5. Petrophysical analysis of limestone rocks by nuclear logging and 3D high-resolution X-ray computed microtomography

    Energy Technology Data Exchange (ETDEWEB)

    Oliveira, M.F.S. [Nuclear Instrumentation Laboratory, COPPE-PEN, UFRJ, P.O. Box 68509, 21941-972 Rio de Janeiro, RJ (Brazil); Lima, I., E-mail: inaya@lin.ufrj.br [Nuclear Instrumentation Laboratory, COPPE-PEN, UFRJ, P.O. Box 68509, 21941-972 Rio de Janeiro, RJ (Brazil); Department of Mechanical Engineering and Energy, IPRJ-UERJ, Nova Friburgo, RJ (Brazil); Ferrucio, P.L.; Abreu, C.J.; Borghi, L. [Geology Department, Geosciences Institute, Rio de Janeiro Federal University, Rio de Janeiro, RJ (Brazil); Lopes, R.T. [Nuclear Instrumentation Laboratory, COPPE-PEN, UFRJ, P.O. Box 68509, 21941-972 Rio de Janeiro, RJ (Brazil)

    2011-10-01

    This study presents the pore-space system analysis of the 2-ITAB-1-RJ well cores, which were drilled in the Sao Jose do Itaborai Basin, in the state of Rio de Janeiro, Brasil. The analysis presented herein has been developed based on two techniques: nuclear logging and 3D high-resolution X-ray computed microtomography. Nuclear logging has been proven to be the technique that provides better quality and more quantitative information about the porosity using radioactive sources. The Density Gamma Probe and the Neutron Sonde used in this work provide qualitative information about bulk density variations and compensated porosity of the geological formation. The samples obtained from the well cores were analyzed by microtomography. The use of this technique in sedimentary rocks allows quantitative evaluation of pore system and generates high-resolution 3D images ({approx}microns order). The images and data obtained by microtomography were integrated with the response obtained by nuclear logging. The results obtained by these two techniques allow the understanding of the pore-size distribution and connectivity, as well as the porosity values. Both techniques are important and they complement each other.

  6. High-resolution tree canopy mapping for New York City using LIDAR and object-based image analysis

    Science.gov (United States)

    MacFaden, Sean W.; O'Neil-Dunne, Jarlath P. M.; Royar, Anna R.; Lu, Jacqueline W. T.; Rundle, Andrew G.

    2012-01-01

    Urban tree canopy is widely believed to have myriad environmental, social, and human-health benefits, but a lack of precise canopy estimates has hindered quantification of these benefits in many municipalities. This problem was addressed for New York City using object-based image analysis (OBIA) to develop a comprehensive land-cover map, including tree canopy to the scale of individual trees. Mapping was performed using a rule-based expert system that relied primarily on high-resolution LIDAR, specifically its capacity for evaluating the height and texture of aboveground features. Multispectral imagery was also used, but shadowing and varying temporal conditions limited its utility. Contextual analysis was a key part of classification, distinguishing trees according to their physical and spectral properties as well as their relationships to adjacent, nonvegetated features. The automated product was extensively reviewed and edited via manual interpretation, and overall per-pixel accuracy of the final map was 96%. Although manual editing had only a marginal effect on accuracy despite requiring a majority of project effort, it maximized aesthetic quality and ensured the capture of small, isolated trees. Converting high-resolution LIDAR and imagery into usable information is a nontrivial exercise, requiring significant processing time and labor, but an expert system-based combination of OBIA and manual review was an effective method for fine-scale canopy mapping in a complex urban environment.

  7. High-resolution melting analysis using unlabeled probe and amplicon scanning simultaneously detects several lactase persistence variants

    DEFF Research Database (Denmark)

    Janukonyté, Jurgita; Vestergaard, Else M; Ladefoged, Søren A

    2010-01-01

    Lactase persistence and thereby tolerance to lactose is a common trait in people of Northern European descent. It is linked to the LCT -13910C>T variant located in intron 13 of the MCM6 gene 13.9 kb upstream of the lactase (LCT) gene. In people of African and Middle Eastern descent, lactase...... persistence can be associated with other variants nearby the -13910C>T variant, limiting the use of the -13910C>T-based SNP analysis, e.g. TaqMan assays for the diagnosis of lactose intolerance. Using high-resolution melting analysis, we identified five samples that were heterozygous for the -13915T>G variant...... the -13910C>T and -13915T>G variants in addition to rarer variants surrounding the -13910 site. This new method may contribute to improve the diagnostic performance of the genetic analysis for lactose intolerance....

  8. Direct Observation of Cosmic Strings Via Their Strong Gravitational Lensing Effect. 1. Predictions for High Resolution Imaging Surveys

    Energy Technology Data Exchange (ETDEWEB)

    Gasparini, Maria Alice; Marshall, Phil; Treu, Tommaso; /UC, Santa Barbara; Morganson, Eric; /KIPAC, Menlo Park; Dubath, Florian; /Santa Barbara, KITP

    2007-11-14

    We use current theoretical estimates for the density of long cosmic strings to predict the number of strong gravitational lensing events in astronomical imaging surveys as a function of angular resolution and survey area. We show that angular resolution is the single most important factor, and that interesting limits on the dimensionless string tension G{mu}/c{sup 2} can be obtained by existing and planned surveys. At the resolution of the Hubble Space Telescope (0'.14), it is sufficient to survey of order a square degree -- well within reach of the current HST archive -- to probe the regime G{mu}/c{sup 2} {approx} 10{sup -8}. If lensing by cosmic strings is not detected, such a survey would improve the limit on the string tension by an order of magnitude on that available from the cosmic microwave background. At the resolution (0'.028) attainable with the next generation of large ground based instruments, both in the radio and the infra-red with adaptive optics, surveying a sky area of order ten square degrees will allow us to probe the G{mu}/c{sup 2} {approx} 10{sup -9} regime. These limits will not be improved significantly by increasing the solid angle of the survey.

  9. High resolution or optimum resolution? Spatial analysis of the Federmesser site at Andernach, Germany

    NARCIS (Netherlands)

    Stapert, D; Street, M

    1997-01-01

    This paper discusses spatial analysis at site level. It is suggested that spatial analysis has to proceed in several levels, from global to more detailed questions, and that optimum resolution should be established when applying any quantitative methods in this field. As an example, the ring and sec

  10. Automated detection, 3D segmentation and analysis of high resolution spine MR images using statistical shape models

    Science.gov (United States)

    Neubert, A.; Fripp, J.; Engstrom, C.; Schwarz, R.; Lauer, L.; Salvado, O.; Crozier, S.

    2012-12-01

    Recent advances in high resolution magnetic resonance (MR) imaging of the spine provide a basis for the automated assessment of intervertebral disc (IVD) and vertebral body (VB) anatomy. High resolution three-dimensional (3D) morphological information contained in these images may be useful for early detection and monitoring of common spine disorders, such as disc degeneration. This work proposes an automated approach to extract the 3D segmentations of lumbar and thoracic IVDs and VBs from MR images using statistical shape analysis and registration of grey level intensity profiles. The algorithm was validated on a dataset of volumetric scans of the thoracolumbar spine of asymptomatic volunteers obtained on a 3T scanner using the relatively new 3D T2-weighted SPACE pulse sequence. Manual segmentations and expert radiological findings of early signs of disc degeneration were used in the validation. There was good agreement between manual and automated segmentation of the IVD and VB volumes with the mean Dice scores of 0.89 ± 0.04 and 0.91 ± 0.02 and mean absolute surface distances of 0.55 ± 0.18 mm and 0.67 ± 0.17 mm respectively. The method compares favourably to existing 3D MR segmentation techniques for VBs. This is the first time IVDs have been automatically segmented from 3D volumetric scans and shape parameters obtained were used in preliminary analyses to accurately classify (100% sensitivity, 98.3% specificity) disc abnormalities associated with early degenerative changes.

  11. Fluorine determination in coal using high-resolution graphite furnace molecular absorption spectrometry and direct solid sample analysis

    Energy Technology Data Exchange (ETDEWEB)

    Machado, Patrícia M.; Morés, Silvane; Pereira, Éderson R. [Departamento de Química, Universidade Federal de Santa Catarina, 88040-900 Florianópolis, SC (Brazil); Welz, Bernhard, E-mail: w.bernardo@terra.com.br [Departamento de Química, Universidade Federal de Santa Catarina, 88040-900 Florianópolis, SC (Brazil); Instituto Nacional de Ciência e Tecnologia do CNPq, INCT de Energia e Ambiente, Universidade Federal da Bahia, 40170-115 Salvador, BA (Brazil); Carasek, Eduardo [Departamento de Química, Universidade Federal de Santa Catarina, 88040-900 Florianópolis, SC (Brazil); Andrade, Jailson B. de [Instituto Nacional de Ciência e Tecnologia do CNPq, INCT de Energia e Ambiente, Universidade Federal da Bahia, 40170-115 Salvador, BA (Brazil)

    2015-03-01

    The absorption of the calcium mono-fluoride (CaF) molecule has been employed in this study for the determination of fluorine in coal using direct solid sample analysis and high-resolution continuum source graphite furnace molecular absorption spectrometry (HR-CS GF MAS). The rotational line at 606.440 nm was used for measuring the molecular absorption in the gas phase. The pyrolysis and vaporization temperatures were 700 °C and 2100 °C, respectively. Different chemical modifiers have been studied, such as Pd and Ir as permanent modifiers, and Pd and the mixed Pd/Mg modifier in solution. The limit of detection and the characteristic mass were 0.3 and 0.1 ng F, respectively. One certified reference material (CRM) of coal (NIST 1635) and four CRMs with a non-certified value for F (SARM 18, SARM 20, BCR 40, BCR 180) were used to evaluate the accuracy and precision of the method, obtaining good agreement (104%) with the certified value and with the informed values (ranging from 90 to 103%). - Highlights: • High-resolution Graphite Furnace Molecular Absorption Spectrometry (HR-GF MAS) • Fluorine has been determined using HR-GF MAS of the CaF molecule. • The CaF molecule was generated in a graphite furnace at a temperature of 2100 °C • Coal samples have been analyzed using direct solid sample introduction. • Aqueous standard solutions have been used for calibration.

  12. A High-Resolution Continuous Flow Analysis System for Polar Ice Cores

    DEFF Research Database (Denmark)

    Dallmayr, Remi; Goto-Azuma, Kumiko; Kjær, Helle Astrid;

    2016-01-01

    of Polar Research (NIPR) in Tokyo. The system allows the continuous analysis of stable water isotopes and electrical conductivity, as well as the collection of discrete samples from both inner and outer parts of the core. This CFA system was designed to have sufficiently high temporal resolution to detect......In recent decades, the development of continuous flow analysis (CFA) technology for ice core analysis has enabled greater sample throughput and greater depth resolution compared with the classic discrete sampling technique. We developed the first Japanese CFA system at the National Institute...

  13. Extraction of Terraces on the Loess Plateau from High-Resolution DEMs and Imagery Utilizing Object-Based Image Analysis

    Directory of Open Access Journals (Sweden)

    Hanqing Zhao

    2017-05-01

    Full Text Available Abstract: Terraces are typical artificial landforms on the Loess Plateau, with ecological functions in water and soil conservation, agricultural production, and biodiversity. Recording the spatial distribution of terraces is the basis of monitoring their extent and understanding their ecological effects. The current terrace extraction method mainly relies on high-resolution imagery, but its accuracy is limited due to vegetation coverage distorting the features of terraces in imagery. High-resolution topographic data reflecting the morphology of true terrace surfaces are needed. Terraces extraction on the Loess Plateau is challenging because of the complex terrain and diverse vegetation after the implementation of “vegetation recovery”. This study presents an automatic method of extracting terraces based on 1 m resolution digital elevation models (DEMs and 0.3 m resolution Worldview-3 imagery as auxiliary information used for object-based image analysis (OBIA. A multi-resolution segmentation method was used where slope, positive and negative terrain index (PN, accumulative curvature slope (AC, and slope of slope (SOS were determined as input layers for image segmentation by correlation analysis and Sheffield entropy method. The main classification features based on DEMs were chosen from the terrain features derived from terrain factors and texture features by gray-level co-occurrence matrix (GLCM analysis; subsequently, these features were determined by the importance analysis on classification and regression tree (CART analysis. Extraction rules based on DEMs were generated from the classification features with a total classification accuracy of 89.96%. The red band and near-infrared band of images were used to exclude construction land, which is easily confused with small-size terraces. As a result, the total classification accuracy was increased to 94%. The proposed method ensures comprehensive consideration of terrain, texture, shape, and

  14. Electrofacies analysis for coal lithotype profiling based on high-resolution wireline log data

    Science.gov (United States)

    Roslin, A.; Esterle, J. S.

    2016-06-01

    The traditional approach to coal lithotype analysis is based on a visual characterisation of coal in core, mine or outcrop exposures. As not all wells are fully cored, the petroleum and coal mining industries increasingly use geophysical wireline logs for lithology interpretation.This study demonstrates a method for interpreting coal lithotypes from geophysical wireline logs, and in particular discriminating between bright or banded, and dull coal at similar densities to a decimetre level. The study explores the optimum combination of geophysical log suites for training the coal electrofacies interpretation, using neural network conception, and then propagating the results to wells with fewer wireline data. This approach is objective and has a recordable reproducibility and rule set.In addition to conventional gamma ray and density logs, laterolog resistivity, microresistivity and PEF data were used in the study. Array resistivity data from a compact micro imager (CMI tool) were processed into a single microresistivity curve and integrated with the conventional resistivity data in the cluster analysis. Microresistivity data were tested in the analysis to test the hypothesis that the improved vertical resolution of microresistivity curve can enhance the accuracy of the clustering analysis. The addition of PEF log allowed discrimination between low density bright to banded coal electrofacies and low density inertinite-rich dull electrofacies.The results of clustering analysis were validated statistically and the results of the electrofacies results were compared to manually derived coal lithotype logs.

  15. A High-Resolution Multiband Survey of Westerlund 2 With the Hubble Space Telescope I: Is the Massive Star Cluster Double?

    CERN Document Server

    Zeidler, Peter; Nota, Antonella; Grebel, Eva K; Tosi, Monica; Bonanos, Alceste Z; Pasquali, Anna; Christian, Carol; de Mink, Selma E; Ubeda, Leonardo

    2015-01-01

    We present first results from a high resolution multi-band survey of the Westerlund 2 region with the Hubble Space Telescope. Specifically, we imaged Westerlund 2 with the Advanced Camera for Surveys through the $F555W$, $F814W$, and $F658N$ filters and with the Wide Field Camera 3 in the $F125W$, $F160W$, and $F128N$ filters. We derive the first high resolution pixel-to-pixel map of the color excess $E(B-V)_g$ of the gas associated with the cluster, combining the H$\\alpha$ ($F658N$) and Pa$\\beta$ ($F128N$) line observations. We demonstrate that, as expected, the region is affected by significant differential reddening with a median of $E(B-V)_g=1.87$~mag. After separating the populations of cluster members and foreground contaminants using a $(F814W-F160W)$ vs. $F814W$ color-magnitude diagram, we identify a pronounced pre-main-sequence population in Westerlund 2 showing a distinct turn-on. After dereddening each star of Westerlund 2 individually in the color-magnitude diagram we find via over-plotting PARSEC...

  16. High resolution re-analysis for the Baltic Sea region during 1965-2005 period

    Energy Technology Data Exchange (ETDEWEB)

    Luhamaa, Andres; Maennik, Aarne [University of Tartu, Tartu (Estonia); Estonian Meteorological and Hydrological Institute, Tallinn (Estonia); Kimmel, Kaarel; Room, Rein [University of Tartu, Tartu (Estonia)

    2011-02-15

    Regional reanalysis database BaltAn65+ comprising meteorological data for Baltic Sea region for the time period 1965-2005 is described. For data assimilation and hindcasts, the numerical weather prediction model HIRLAM 7.1.4 is applied, with 11 km horizontal and 60-layer vertical resolution. Reanalysis includes three-dimensional weather analysis data. Standard surface observations and meteorological soundings together with ship and buoy measurements from WMO observational network are used in analysis. Boundary fields are obtained from ECMWF ERA-40 global re-analysis. The BaltAn65+ can be considered as a regional refinement of ERA-40 for Baltic Sea region, providing the historical weather and climate data with enhanced spatial resolution, which is main motivation for creation of this novel reanalysis database. (orig.)

  17. Carbon Nanostructure Examined by Lattice Fringe Analysis of High Resolution Transmission Electron Microscopy Images

    Science.gov (United States)

    VanderWal, Randy L.; Tomasek, Aaron J.; Street, Kenneth; Thompson, William K.; Hull, David R.

    2003-01-01

    The dimensions of graphitic layer planes directly affect the reactivity of soot towards oxidation and growth. Quantification of graphitic structure could be used to develop and test correlations between the soot nanostructure and its reactivity. Based upon transmission electron microscopy images, this paper provides a demonstration of the robustness of a fringe image analysis code for determining the level of graphitic structure within nanoscale carbon, i.e., soot. Results, in the form of histograms of graphitic layer plane lengths, are compared to their determination through Raman analysis.

  18. Analysis of isoplanatic high resolution stellar fields by the StarFinder code

    Science.gov (United States)

    Diolaiti, E.; Bendinelli, O.; Bonaccini, D.; Close, L.; Currie, D.; Parmeggiani, G.

    2000-12-01

    We describe a new code for the deep analysis of stellar fields, designed for Adaptive Optics (AO) Nyquist-sampled images with high and low Strehl ratio. The Point Spread Function (PSF) is extracted directly from the image frame, to take into account the actual structure of the instrumental response and the atmospheric effects. The code is written in IDL language and organized in the form of a self-contained widget-based application, provided with a series of tools for data visualization and analysis. A description of the method and some applications to AO data are presented.

  19. Program Package for the Analysis of High Resolution High Signal-To-Noise Stellar Spectra

    Science.gov (United States)

    Piskunov, N.; Ryabchikova, T.; Pakhomov, Yu.; Sitnova, T.; Alekseeva, S.; Mashonkina, L.; Nordlander, T.

    2017-06-01

    The program package SME (Spectroscopy Made Easy), designed to perform an analysis of stellar spectra using spectral fitting techniques, was updated due to adding new functions (isotopic and hyperfine splittins) in VALD and including grids of NLTE calculations for energy levels of few chemical elements. SME allows to derive automatically stellar atmospheric parameters: effective temperature, surface gravity, chemical abundances, radial and rotational velocities, turbulent velocities, taking into account all the effects defining spectral line formation. SME package uses the best grids of stellar atmospheres that allows us to perform spectral analysis with the similar accuracy in wide range of stellar parameters and metallicities - from dwarfs to giants of BAFGK spectral classes.

  20. Independent component analysis of high-resolution imaging data identifies distinct functional domains

    DEFF Research Database (Denmark)

    Reidl, Juergen; Starke, Jens; Omer, David

    2007-01-01

    . Here we demonstrate that principal component analysis (PCA) followed by spatial independent component analysis (sICA), can be exploited to reduce the dimensionality of data sets recorded in the olfactory bulb and the somatosensory cortex of mice as well as the visual cortex of monkeys, without loosing...... be automatically detected. In the visual cortex orientation columns can be extracted. In all cases artifacts due to movement, heartbeat or respiration were separated from the functional signal by sICA and could be removed from the data set. sICA is therefore a powerful technique for data compression, unbiased...

  1. Robust Change Vector Analysis (RCVA) for multi-sensor very high resolution optical satellite data

    Science.gov (United States)

    Thonfeld, Frank; Feilhauer, Hannes; Braun, Matthias; Menz, Gunter

    2016-08-01

    The analysis of rapid land cover/land use changes by means of remote sensing is often based on data acquired under varying and occasionally unfavorable conditions. In addition, such analyses frequently use data acquired by different sensor systems. These acquisitions often differ with respect to sun position and sensor viewing geometry which lead to characteristic effects in each image. These differences may have a negative impact on reliable change detection. Here, we propose an approach called Robust Change Vector Analysis (RCVA), aiming to mitigate these effects. RCVA is an improvement of the widely-used Change Vector Analysis (CVA), developed to account for pixel neighborhood effects. We used a RapidEye and Kompsat-2 cross-sensor change detection test to demonstrate the efficiency of RCVA. Our analysis showed that RCVA results in fewer false negatives as well as false positives when compared to CVA under similar test conditions. We conclude that RCVA is a powerful technique which can be utilized to reduce spurious changes in bi-temporal change detection analyses based on high- or very-high spatial resolution imagery.

  2. Evolution of Near-surface Flows Inferred from High-resolution Ring-diagram Analysis

    CERN Document Server

    Bogart, Richard S; Baldner,; Basu, Sarbani

    2015-01-01

    Ring-diagram analysis of acoustic waves observed at the photosphere can provide a relatively robust determination of the sub-surface flows at a particular time under a particular region. The depth of penetration of the waves is related to the size of the region, hence the depth extent of the measured flows is inversely proportional to the spatial resolution. Most ring-diagram analysis has focused on regions of extent ~15{\\deg} (180 Mm) or more in order to provide reasonable mode sets for inversions. HMI data analysis also provides a set of ring fit parameters on a scale three times smaller. These provide flow estimates for the outer 1% (7 Mm) of the Sun only, with very limited depth resolution, but with spatial resolution adequate to map structures potentially associated with the belts and regions of magnetic activity. There are a number of systematic effects affecting the determination of flows from local helioseismic analysis of regions over different parts of the observable disk, not all well understood. I...

  3. Buried volcanic structures in the Gulf of Naples (Southern Tyrrhenian Sea, Italy resulting from high resolution magnetic survey and seismic profiling

    Directory of Open Access Journals (Sweden)

    S. Ruggieri

    2005-06-01

    Full Text Available In this paper we present a correlation between volcanic structures and magnetic anomalies in the Gulf of Naples (Southern Tyrrhenian Sea based on high resolution magnetic profiling. A densely spaced grid of magnetic profiles coupled with multichannel seismics (seismic source Watergun 15 cubic inch was recorded in the Gulf of Naples, representing an active volcanic area during the Late Quaternary (volcanic centers of Somma-Vesuvius, Phlegraean Fields and Ischia and Procida islands. The dataset was collected during the oceanographic cruise GMS00-05 which took place during October-November 2000 in the South Tyrrhenian Sea onboard of the R/V Urania (National Research Council, Italy. Shallow volcanic structures in the subsurface of the gulf were recognized by seismo-stratigraphic analysis of high resolution profiles; the volcanic nature of some of these structures was inferred identifying the magnetic anomalies on a high resolution magnetic anomaly map of the gulf. Even if qualitative, the correlations between seismic and magnetic profiles allow us to better assess the geological structure of the Gulf of Naples.

  4. Understanding and improving mitigation strategies for reducing catchment scale nutrient loads using high resolution observations and uncertainty analysis approaches

    Science.gov (United States)

    Collins, A.; Lloyd, C.; Freer, J. E.; Johnes, P.; Stirling, M.

    2012-12-01

    cost efficient and effective management strategies. The high-resolution dataset means that there are new opportunities to explore the associated uncertainties in monitoring water quality and assessing ecological status and how that relates to current monitoring networks. For example, concurrent grab samples at the high-resolution sampling stations allow the assessment of the uncertainties which would be generated through coarser sampling strategies. This is just the beginning of the project, however, as the project progresses, the high resolution dataset will provide higher statistical power compared with previous data collection schemes and allow the employment of more complex methods such as signal decomposition e.g. wavelet analysis, which can allow us to start to decipher the complex interactions occurring at sub-catchment scale which may not be immediately detectable in bulk signals. In this paper we outline our methodological approach, present some of the initial findings of this research and how we can quantify changes to nutrient loads whilst taking account the main uncertainties and the inherent natural variability.

  5. High Resolution Microsatellite Marker Analysis of Some Rice Landraces Using Metaphor Agarose Gel Electrophoresis

    OpenAIRE

    K. Kristamtini; T. Taryono; Panjisakti Basunanda; Rudi Hari Murti

    2016-01-01

    Microsatellite markers or simple sequences repeats are DNA - based molecular techniques that are used to see the different among accessions and inbred lines. There are three methods to analysis the results of the polymerase chain reaction of microsatellite markers namely polyacrylamide gel electrophoresis (PAGE), capillary electroforesis, and Metaphor Agarose Gel Electroforesis (MAGE), and the Use of MAGE assessed more easily and economically the polymorphic pattern of DNA markers...

  6. High-resolution proton energy-loss spectrometer for surface analysis

    Energy Technology Data Exchange (ETDEWEB)

    Itoh, Noriaki; Kanasaki, Junichi; Matsunami, Noriaki; Matsuda, Kouji; Aoki, Masahiko.

    1988-11-01

    We describe a new ion-beam surface analyzer, proton energy loss spectrometer. It analyzes ions incident at 100 keV and scattered by 180degC at solid surfaces with a resolution of 5eV. The results of computer simulation of the energy spectra of scattered ions and the informations on surface electronic and atomic structures possibly derived by the analysis are described. Application of the spectrometer in several areas of science and technology is briefly discussed.

  7. An Optoelectronic Equivalent Narrowband Filter for High Resolution Optical Spectrum Analysis

    Directory of Open Access Journals (Sweden)

    Kunpeng Feng

    2017-02-01

    Full Text Available To achieve a narrow bandwidth optical filter with a wide swept range for new generation optical spectrum analysis (OSA of high performance optical sensors, an optoelectronic equivalent narrowband filter (OENF was investigated and a swept optical filter with bandwidth of several MHz and sweep range of several tens of nanometers was built using electric filters and a sweep laser as local oscillator (LO. The principle of OENF is introduced and analysis of the OENF system is presented. Two electric filters are optimized to be RBW filters for high and medium spectral resolution applications. Both simulations and experiments are conducted to verify the OENF principle and the results show that the power uncertainty is less than 1.2% and the spectral resolution can reach 6 MHz. Then, a real-time wavelength calibration system consisting of a HCN gas cell and Fabry–Pérot etalon is proposed to guarantee a wavelength accuracy of ±0.4 pm in the C-band and to reduce the influence of phase noise and nonlinear velocity of the LO sweep. Finally, OSA experiments on actual spectra of various optical sensors are conducted using the OENF system. These experimental results indicate that OENF system has an excellent capacity for the analysis of fine spectrum structures.

  8. An Optoelectronic Equivalent Narrowband Filter for High Resolution Optical Spectrum Analysis.

    Science.gov (United States)

    Feng, Kunpeng; Cui, Jiwen; Dang, Hong; Wu, Weidong; Sun, Xun; Jiang, Xuelin; Tan, Jiubin

    2017-02-10

    To achieve a narrow bandwidth optical filter with a wide swept range for new generation optical spectrum analysis (OSA) of high performance optical sensors, an optoelectronic equivalent narrowband filter (OENF) was investigated and a swept optical filter with bandwidth of several MHz and sweep range of several tens of nanometers was built using electric filters and a sweep laser as local oscillator (LO). The principle of OENF is introduced and analysis of the OENF system is presented. Two electric filters are optimized to be RBW filters for high and medium spectral resolution applications. Both simulations and experiments are conducted to verify the OENF principle and the results show that the power uncertainty is less than 1.2% and the spectral resolution can reach 6 MHz. Then, a real-time wavelength calibration system consisting of a HCN gas cell and Fabry-Pérot etalon is proposed to guarantee a wavelength accuracy of ±0.4 pm in the C-band and to reduce the influence of phase noise and nonlinear velocity of the LO sweep. Finally, OSA experiments on actual spectra of various optical sensors are conducted using the OENF system. These experimental results indicate that OENF system has an excellent capacity for the analysis of fine spectrum structures.

  9. High-resolution mapping of the gene for cystinosis, using combined biochemical and linkage analysis.

    Science.gov (United States)

    Jean, G; Fuchshuber, A; Town, M M; Gribouval, O; Schneider, J A; Broyer, M; van't Hoff, W; Niaudet, P; Antignac, C

    1996-03-01

    Infantile nephropathic cystinosis is an autosomal recessive disorder characterized biochemically by an abnormally high intracellular content of free cystine in different organs and tissues due to a transport defect of cystine through the lysosomal membrane. Affected children present with the Fanconi syndrome and usually develop progressive renal failure within the 1st decade of life. Measurement of free cystine in purified polymorphonuclear leukocytes provides an accurate method for diagnosis and detection of heterozygous carriers. In order to localize the gene locus for cystinosis we performed linkage analysis in 18 cystinosis families. However, since 17 of these were simplex families, we decided to include the phenotypes of the heterozygous carriers previously determined by their leukocyte cystine content in the linkage analysis. This approach allowed us to obtain highly significant results, confirming the localization of the cystinosis gene locus recently mapped to the short arm of chromosome 17 by the Cystinosis Collaborative Research Group. Crucial recombination events allowed us to refine the interval of the cystinosis gene to a genetic distance of 1 cM. No evidence of genetic heterogeneity was found. Our results demonstrate that the use of the previously determined phenotypes of heterozygous carriers in linkage analysis provides a reliable method for the investigation of simplex families in autosomal recessive traits.

  10. High-Resolution Electrospray Ionization Mass Spectrometry Analysis of Water- Soluble Organic Aerosols Collected with a Particle into Liquid Sampler

    Energy Technology Data Exchange (ETDEWEB)

    Bateman, Adam P.; Nizkorodov, Serguei; Laskin, Julia; Laskin, Alexander

    2010-10-01

    This work demonstrates the utility of a particle-into-liquid sampler (PILS) a technique traditionally used for identification of inorganic ions present in ambient or laboratory aerosols for the analysis of water soluble organic aerosol (OA) using high resolution electrospray ionization mass spectrometry (HR ESI-MS). Secondary organic aerosol (SOA) was produced from 0.5 ppm mixing ratios of limonene and ozone in a 5 m3 Teflon chamber. SOA was collected simultaneously using a traditional filter sampler and a PILS. The filter samples were later extracted with either water or acetonitrile, while the aqueous PILS samples were analyzed directly. In terms of peak intensities, types of detectable compounds, average O:C ratios, and organic mass to organic carbon ratios, the resulting high resolution mass spectra were essentially identical for the PILS and filter based samples. SOA compounds extracted from both filter/acetonitrile extraction and PILS/water extraction accounted for >95% of the total ion current in ESI mass spectra. This similarity was attributed to high solubility of limonene SOA in water. In contrast, significant differences in detected ions and peak abundances were observed for pine needle biomass burning organic aerosol (BBOA) collected with PILS and filter sampling. The water soluble fraction of BBOA is considerably smaller than for SOA, and a number of unique peaks were detectable only by the filter/acetonitrile method. The combination of PILS collection with HR-ESI-MS analysis offers a new approach for molecular analysis of the water-soluble organic fraction in biogenic SOA, aged photochemical smog, and BBOA.

  11. High resolution respirometry analysis of polyethylenimine-mediated mitochondrial energy crisis and cellular stress

    DEFF Research Database (Denmark)

    Hall, Arnaldur; Larsen, Anna Karina; Parhamifar, Ladan

    2013-01-01

    of PEI-mediated plasma membrane damage and subsequent ATP leakage to the extracellular medium. Studies with freshly isolated mouse liver mitochondria corroborated with bioenergetic findings and demonstrated parallel polycation concentration- and time-dependent changes in state 2 and state 4o oxygen flux...... and spectrophotometry analysis of cytochrome c oxidase activity we were able to identify complex IV (cytochrome c oxidase) as a likely specific site of PEI mediated inhibition within the electron transport system. Unraveling the mechanisms of PEI-mediated mitochondrial energy crisis is central for combinatorial design...

  12. A High-Resolution Continuous Flow Analysis System for Polar Ice Cores

    DEFF Research Database (Denmark)

    Dallmayr, Remi; Goto-Azuma, Kumiko; Kjær, Helle Astrid

    2016-01-01

    of Polar Research (NIPR) in Tokyo. The system allows the continuous analysis of stable water isotopes and electrical conductivity, as well as the collection of discrete samples from both inner and outer parts of the core. This CFA system was designed to have sufficiently high temporal resolution to detect...... signals of abrupt climate change in deep polar ice cores. To test its performance, we used the system to analyze different climate intervals in ice drilled at the NEEM (North Greenland Eemian Ice Drilling) site, Greenland. The quality of our continuous measurement of stable water isotopes has been...

  13. High-Resolution Analysis Products to Support Severe Weather and Cloud-to-Ground Lightning Threat Assessments over Florida

    Science.gov (United States)

    Case, Jonathan; Spratt, Scott; Sharp, David

    2006-01-01

    The Applied Meteorology Unit (AMU) located at the Kennedy Space Center (KSC)/Cape Canaveral Air Force Station (CCAFS) implemented an operational configuration of the Advanced Regional Prediction System (ARPS) Data Analysis System (ADAS), as well as the ARPS numerical weather prediction (NWP) model. Operational, high-resolution ADAS analyses have been produced from this configuration at the National Weather Service in Melbourne, FL (NWS MLB) and the Spaceflight Meteorology Group (SMG) over the past several years. Since that time, ADAS fields have become an integral part of forecast operations at both NWS MLB and SMG. To continue providing additional utility, the AMU has been tasked to implement visualization products to assess the potential for supercell thunderstorms and significant tornadoes, and to improve assessments of short-term cloud-to-ground (CG) lightning potential. This paper and presentation focuses on the visualization products developed by the AMU for the operational high-resolution ADAS and AR.PS at the NWS MLB and SMG. The two severe weather threat graphics implemented within ADAS/ARPS are the Supercell Composite Parameter (SCP) and Significant Tornado Parameter (SIP). The SCP was designed to identify areas with supercell thunderstorm potential through a combination of several instability and shear parameters. The SIP was designed to identify areas that favor supercells producing significant tornadoes (F2 or greater intensity) versus non-tornadic supercells. Both indices were developed by the NOAAINWS Storm Prediction Center (SPC) and were normalized by key threshold values based on previous studies. The indices apply only to discrete storms, not other convective modes. In a post-analysis mode, the AMU calculated SCP and SIP for graphical output using an ADAS configuration similar to the operational set-ups at NWS MLB and SMG. Graphical images from ADAS were generated every 15 minutes for 13 August 2004, the day that Hurricane Charley approached and

  14. Error Analysis for High Resolution Topography with Bi-Static Single-Pass SAR Interferometry

    Science.gov (United States)

    Muellerschoen, Ronald J.; Chen, Curtis W.; Hensley, Scott; Rodriguez, Ernesto

    2006-01-01

    We present a flow down error analysis from the radar system to topographic height errors for bi-static single pass SAR interferometry for a satellite tandem pair. Because of orbital dynamics the baseline length and baseline orientation evolve spatially and temporally, the height accuracy of the system is modeled as a function of the spacecraft position and ground location. Vector sensitivity equations of height and the planar error components due to metrology, media effects, and radar system errors are derived and evaluated globally for a baseline mission. Included in the model are terrain effects that contribute to layover and shadow and slope effects on height errors. The analysis also accounts for nonoverlapping spectra and the non-overlapping bandwidth due to differences between the two platforms' viewing geometries. The model is applied to a 514 km altitude 97.4 degree inclination tandem satellite mission with a 300 m baseline separation and X-band SAR. Results from our model indicate that global DTED level 3 can be achieved.

  15. Validation of a blood group genotyping method based on high-resolution melting curve analysis.

    Science.gov (United States)

    Gong, Tianxiang; Hong, Ying; Wang, Naihong; Fu, Xuemei; Zhou, Changhua

    2014-01-01

    The detection of polymorphism is the basis of blood group genotyping and phenotype prediction. Genotyping may be useful to determine blood groups when serologic results are unclear. The development and application of different methods for blood group genotyping may be needed as a substitute for blood group typing. The purpose of this study is to establish an approach for blood group genotyping based on a melting curve analysis of real-time polymerase chain reaction (PCR). Using DNA extracted from whole blood, we developed and validated a DNA typing method for detecting DO*01/DO*02, DO*01/DI*02, LU*01/LU*02, and GYPB*03/GYBP*04 alleles using a melting curve analysis. All assays were confirmed with a commercial reagent containing sequence-specific primers (PCR-SSP), and a cohort of the samples was confirmed with sequencing. Results for all blood groups were within the range of specificity and assay variability. Genotypes of 300 blood donors were fully consistent with PCR-SSP data. The obtained genotype distribution is in complete concordance with existing data for the Chinese population. There are several advantages for this approach of blood group genotyping: lower contamination rates with PCR products in this laboratory, ease of performance, automation potential, and rapid cycling time.

  16. Analysis of the Emitted Wavelet of High-Resolution Bowtie GPR Antennas

    Directory of Open Access Journals (Sweden)

    Manuel Pereira

    2009-06-01

    Full Text Available Most Ground Penetrating Radars (GPR cover a wide frequency range by emitting very short time wavelets. In this work, we study in detail the wavelet emitted by two bowtie GPR antennas with nominal frequencies of 800 MHz and 1 GHz. Knowledge of this emitted wavelet allows us to extract as much information as possible from recorded signals, using advanced processing techniques and computer simulations. Following previously published methodology used by Rial et al. [1], which ensures system stability and reliability in data acquisition, a thorough analysis of the wavelet in both time and frequency domain is performed. Most of tests were carried out with air as propagation medium, allowing a proper analysis of the geometrical attenuation factor. Furthermore, we attempt to determine, for each antenna, a time zero in the records to allow us to correctly assign a position to the reflectors detected by the radar. Obtained results indicate that the time zero is not a constant value for the evaluated antennas, but instead depends on the characteristics of the material in contact with the antenna.

  17. DNA-based identification of Peucedanum ostruthium specimens and detection of common adulterants by high-resolution melting curve analysis.

    Science.gov (United States)

    Schmiderer, Corinna; Ruzicka, Joana; Novak, Johannes

    2015-12-01

    Masterwort (Peucedanum ostruthium, syn. Imperatoria ostruthium, Apiaceae) is an old economic plant in Alpine countries cultivated as ornamental plant and used for spirits and in folk medicine. P. ostruthium is a species that has often been confused with related Apiaceae species or morphologically similar roots or tubers resulting in products of minor quality. Masterwort can be distinguished from other Apiaceae species by nrDNA (ITS1 and ITS2). The analysed chloroplast markers (trnK 5' intron, trnT-trnL, and psbA-trnH), however, showed no species-specific mutations. With the application of two primer pairs amplifying parts of ITS and developed for high-resolution melting curve analysis (HRM) the target species was distinguishable from the other Peucedanum and Apiaceae species of our reference set. A multiplex PCR/HRM was developed to detect adulterations with Gentiana spp., Aconitum napellus and Veratrum album.

  18. A study on the microstructure of Pt/TaN/Si films by high resolution TEM analysis

    CERN Document Server

    Cho, K N; Oh, J E; Park, C S; Lee, S I; Lee, M Y

    1998-01-01

    The microstructure change of Pt/amorphous TaN/Si films after various heat treatments has been investigated by high resolution transmission electron microscopy (HR-TEM) analysis. TaN thin films are deposited by remote plasma metalorganic chemical vapor deposition (RP-MOCVD) using pentakis-dimethyl-amino-tantalum (PDMATa) and radical sources, hydrogen and ammonia plasma. Deposited TaN thin film shows excellent barrier properties such as good resistance against oxidation after post-heat treatment at high temperature. In the case of hydrogen plasma, however, diffusion of Pt into TaN layer was observed, which was caused by the out-diffusion of carbon through the grain boundaries of Pt. In the case of ammonia plasma, the formation of thin oxide layer at the Pt/TaN interface was observed.

  19. High resolution chromosome analysis and fluorescence in situ hybridization in patients referred for Prader-Willi or Angelman syndrome

    Energy Technology Data Exchange (ETDEWEB)

    NONE

    1995-05-08

    Laboratory testing is helpful in the evaluation of patients suspected to have either Prader-Willi syndrome (PWS) or Angelman syndrome (AS) because most of the patients have recognizable cytogenetic deletions of 15q11q13. Maternal uniparental disomy of chromosome 15, identified by molecular genetic techniques, is found in about 20 to 25% of PWS patients. Paternal uniparental disomy of chromosome 15 is seen in 2 to 3% of AS patients. Thus, PWS and AS represent the first examples in humans of genetic imprinting or the differential expression of genetic information depending on the parental origin. Herein, I report our experience with FISH and high resolution chromosome analysis in patients referred to confirm or rule out PWS or AS. 10 refs., 1 tab.

  20. An improved continuous flow analysis system for high-resolution field measurements on ice cores.

    Science.gov (United States)

    Kaufmann, Patrik R; Federer, Urs; Hutterli, Manuel A; Bigler, Matthias; Schüpbach, Simon; Ruth, Urs; Schmitt, Jochen; Stocker, Thomas F

    2008-11-01

    Continuous flow analysis (CFA) is a well-established method to obtain information about impurity contents in ice cores as indicators of past changes in the climate system. A section of an ice core is continuously melted on a melter head supplying a sample water flow which is analyzed online. This provides high depth and time resolution of the ice core records and very efficient sample decontamination as only the inner part of the ice sample is analyzed. Here we present an improved CFA system which has been totally redesigned in view of a significantly enhanced overall efficiency and flexibility, signal quality, compactness, and ease of use. These are critical requirements especially for operations of CFA during field campaigns, e.g., in Antarctica or Greenland. Furthermore, a novel deviceto measure the total air content in the ice was developed. Subsequently, the air bubbles are now extracted continuously from the sample water flow for subsequent gas measurements.

  1. Functional exploratory data analysis for high-resolution measurements of urban particulate matter.

    Science.gov (United States)

    Ranalli, M Giovanna; Rocco, Giorgia; Jona Lasinio, Giovanna; Moroni, Beatrice; Castellini, Silvia; Crocchianti, Stefano; Cappelletti, David

    2016-09-01

    In this work we propose the use of functional data analysis (FDA) to deal with a very large dataset of atmospheric aerosol size distribution resolved in both space and time. Data come from a mobile measurement platform in the town of Perugia (Central Italy). An OPC (Optical Particle Counter) is integrated on a cabin of the Minimetrò, an urban transportation system, that moves along a monorail on a line transect of the town. The OPC takes a sample of air every six seconds and counts the number of particles of urban aerosols with a diameter between 0.28 μm and 10 μm and classifies such particles into 21 size bins according to their diameter. Here, we adopt a 2D functional data representation for each of the 21 spatiotemporal series. In fact, space is unidimensional since it is measured as the distance on the monorail from the base station of the Minimetrò. FDA allows for a reduction of the dimensionality of each dataset and accounts for the high space-time resolution of the data. Functional cluster analysis is then performed to search for similarities among the 21 size channels in terms of their spatiotemporal pattern. Results provide a good classification of the 21 size bins into a relatively small number of groups (between three and four) according to the season of the year. Groups including coarser particles have more similar patterns, while those including finer particles show a more different behavior according to the period of the year. Such features are consistent with the physics of atmospheric aerosol and the highlighted patterns provide a very useful ground for prospective model-based studies.

  2. High-resolution Fourier transform ion cyclotron resonance mass spectrometry with increased throughput for biomolecular analysis.

    Science.gov (United States)

    Nagornov, Konstantin O; Gorshkov, Mikhail V; Kozhinov, Anton N; Tsybin, Yury O

    2014-09-16

    A multielectrode ion cyclotron resonance (ICR) cell, herein referred to as the "4X cell", for signal detection at the quadruple frequency multiple was implemented and characterized on a commercial 10 T Fourier transform ICR mass spectrometer (FT-ICR MS). Notably, with the 4X cell operating at a 10 T magnetic field we achieved a 4-fold increase in MS acquisition rate per unit of resolving power for signal detection periods typically employed in FTMS, viz., shorter than 6 s. Effectively, the obtained resolution performance represents the limit of the standard measurement principle with dipolar signal detection and FT signal processing at an equivalent magnetic field of 40 T. In other words, the achieved resolving powers are 4 times higher than those provided by 10 T FT-ICR MS with a standard ICR cell. For example, resolving powers of 170,000 and 70,000 were obtained in magnitude-mode Fourier spectra of 768 and 192 ms apodized transient signals acquired for a singly charged fluorinated phosphazine (m/z 1422) and a 19-fold charged myoglobin (MW 16.9 kDa), respectively. In peptide analysis, the baseline-resolved isotopic fine structures were obtained with as short as 768 ms transients. In intact protein analysis, the average resolving power of 340,000 across the baseline-resolved (13)C isotopic pattern of multiply charged ions of bovine serum albumin was obtained with 1.5 s transients. The dynamic range and the mass measurement accuracy of the 4X cell were found to be comparable to the ones obtained for the standard ICR cell on the same mass spectrometer. Overall, the reported results validate the advantages of signal detection at frequency multiples for increased throughput in FT-ICR MS, essential for numerous applications with time constraints, including proteomics.

  3. Application of Object Based Classification and High Resolution Satellite Imagery for Savanna Ecosystem Analysis

    Directory of Open Access Journals (Sweden)

    Jane Southworth

    2010-12-01

    Full Text Available Savanna ecosystems are an important component of dryland regions and yet are exceedingly difficult to study using satellite imagery. Savannas are composed are varying amounts of trees, shrubs and grasses and typically traditional classification schemes or vegetation indices cannot differentiate across class type. This research utilizes object based classification (OBC for a region in Namibia, using IKONOS imagery, to help differentiate tree canopies and therefore woodland savanna, from shrub or grasslands. The methodology involved the identification and isolation of tree canopies within the imagery and the creation of tree polygon layers had an overall accuracy of 84%. In addition, the results were scaled up to a corresponding Landsat image of the same region, and the OBC results compared to corresponding pixel values of NDVI. The results were not compelling, indicating once more the problems of these traditional image analysis techniques for savanna ecosystems. Overall, the use of the OBC holds great promise for this ecosystem and could be utilized more frequently in studies of vegetation structure.

  4. A high-resolution genomic analysis of multidrug-resistant hospital outbreaks of Klebsiella pneumoniae.

    Science.gov (United States)

    Chung The, Hao; Karkey, Abhilasha; Pham Thanh, Duy; Boinett, Christine J; Cain, Amy K; Ellington, Matthew; Baker, Kate S; Dongol, Sabina; Thompson, Corinne; Harris, Simon R; Jombart, Thibaut; Le Thi Phuong, Tu; Tran Do Hoang, Nhu; Ha Thanh, Tuyen; Shretha, Shrijana; Joshi, Suchita; Basnyat, Buddha; Thwaites, Guy; Thomson, Nicholas R; Rabaa, Maia A; Baker, Stephen

    2015-03-01

    Multidrug-resistant (MDR) Klebsiella pneumoniae has become a leading cause of nosocomial infections worldwide. Despite its prominence, little is known about the genetic diversity of K. pneumoniae in resource-poor hospital settings. Through whole-genome sequencing (WGS), we reconstructed an outbreak of MDR K. pneumoniae occurring on high-dependency wards in a hospital in Kathmandu during 2012 with a case-fatality rate of 75%. The WGS analysis permitted the identification of two MDR K. pneumoniae lineages causing distinct outbreaks within the complex endemic K. pneumoniae. Using phylogenetic reconstruction and lineage-specific PCR, our data predicted a scenario in which K. pneumoniae, circulating for 6 months before the outbreak, underwent a series of ward-specific clonal expansions after the acquisition of genes facilitating virulence and MDR. We suggest that the early detection of a specific NDM-1 containing lineage in 2011 would have alerted the high-dependency ward staff to intervene. We argue that some form of real-time genetic characterisation, alongside clade-specific PCR during an outbreak, should be factored into future healthcare infection control practices in both high- and low-income settings.

  5. Local high-resolution crustal magnetic field analysis from satellite data

    Science.gov (United States)

    Plattner, Alain; Simons, Frederik J.

    2016-04-01

    Planetary crustal magnetic fields are key to understanding a planet or moon's structure and history. Due to satellite orbit parameters such as aerobraking (Mars) or only partial coverage (Mercury), or simply because of the strongly heterogeneous crustal field strength, satellite data of planetary magnetic fields vary regionally in their signal-to noise ratio and data coverage. To take full advantage of data quality within one region of a planet or moon without diluting the data with lower quality measurements outside of that region we resort to local methods. Slepian functions are linear combinations of spherical harmonics that provide local sensitivity to structure. Here we present a selection of crustal magnetic field models obtained from vector-valued variable-altitude satellite observations using an altitude-cognizant gradient-vector Slepian approach. This method is based on locally maximizing energy concentration within the region of data availability while simultaneously bandlimiting the model in terms of its spherical-harmonic degree and minimizing noise amplification due to downward continuation. For simple regions such as spherical caps, our method is computationally efficient and allows us to calculate local crustal magnetic field solutions beyond spherical harmonic degree 800, if the data permit. We furthermore discuss extensions of the method that are optimized for the analysis and separation of internal and external magnetic fields.

  6. A High Resolution Orbitrap Mass Spectrometer for In-Situ Analysis in Planetary Science

    Science.gov (United States)

    Briois, C.; Thirkell, L.; Boukrara, A.; Lebreton, J. P.; Thissen, R.; Puget, P.; Cottin, H.; Grand, N.; Pennanech, C.; Zapf, P.; Szopa, C.; Carrasco, N.; Chapuis, C.; Bouabdellah, A.; Berthelier, J. J.; Engrand, C.; Makarov, A.

    2012-04-01

    Solar System exploration is dealing more and more with chemically complex matter, potentially associated with astrobiology or prebiotic questions, requiring optimized methods of analysis. Due to its ability to reveal quantitatively almost any chemical element, mass spectrometry has served as an invaluable scientific analytical instruments. Nevertheless the best mass resolution (M/deltaM) currently achieved by mass spectrometers in space is about 3000 at mass 28 (ROSINA's DFMS on board ESA's comet chaser Rosetta). This resolution allows separation of peaks for only a limited number of isobaric species (e.g. N2 / CO at 28 Da). Yet, purely electrostatic orbital traps in laboratory are showing mass resolution above 100 000 for m/z <= 400 [1, 2], that provides separation for each detected isobaric species. Therefore it opens new opportunity for molecular characterization, isotopic abundance evaluation, and more generally environmental characterization. Our French consortium of laboratories, in collaboration with ThermoFischer Scientific, is currently working on the adaptation of this type of mass spectrometer for space instrumentation. We present here this innovative concept of mass analyzer for space that is lightweight, uses DC voltages, and provides ultra high resolving power capabilities. A mass resolution of 140,000 at mass 56 has been recently achieved with our prototype.

  7. Ultra-high resolution optical coherence tomography analysis of bull's eye maculopathy in chloroquine users

    Directory of Open Access Journals (Sweden)

    Celso Morita

    2014-06-01

    Full Text Available Purpose: Register and compare anatomical changes, structural and quantitative found in optical coherence tomography Stratus and Topcon 3D in chronic users of chloroquine. Methods: Five patients were diagnosed with toxic "bull's eye" maculopathy was submitted to macular optical coherence tomography examination (Stratus and Topcon 3D. Results: Both tools demonstrated an increase reflectivity of choriocapillaris unit just foveal retinal pigment epithelium atrophy. However, Topcon 3D provided to all patients better description of the line corresponding to the transition between inner and outer segments of photoreceptors. Using the possibility of assembling threedimensional images and subtraction selective retinal layers, we found a lesion with a target that reflects the greater thickness of retinal pigment epithelium in central and parafoveal region that is matched to preserve macular photoreceptors. Conclusion: it was observed better resolution and faster image capture by Topcon 3D than Stratus OCT, that provided more detailed analysis of the line corresponding to transition between outer and inner segment of photoreceptors in macular region. With Topcon 3D, it was possible to evaluate soundly the thickness of retinal pigment epithelium in central and parafoveal region that caused an increase reflectivity of choriocapillaris creating a image with a target unpublished before.

  8. An ALMA survey of submillimetre galaxies in the Extended Chandra Deep Field South: High resolution 870um source counts

    CERN Document Server

    Karim, Alexander; Hodge, Jackie; Smail, Ian; Walter, Fabian; Biggs, Andy; Simpson, James; Danielson, Alice; Alexander, David; Bertoldi, Frank; Chapman, Scott; Coppin, Kristen; Dannerbauer, Helmut; Edge, Alastair; Greve, Thomas; Ivison, Rob; Knudsen, Kirsten; Menten, Karl; Schinnerer, Eva; Wardlow, Julie; Weiß, Axel; van der Werf, Paul

    2012-01-01

    We report the first counts of faint submillimetre galaxies (SMG) in the 870-um band derived from arcsecond resolution observations with the Atacama Large Millimeter Array (ALMA). We have used ALMA to map a sample of 122 870-um-selected submillimetre sources drawn from the (0.5x0.5)deg^2 LABOCA Extended Chandra Deep Field South Submillimetre Survey (LESS). These ALMA maps have an average depth of sigma(870um)~0.4mJy, some ~3x deeper than the original LABOCA survey and critically the angular resolution is more than an order of magnitude higher, FWHM of ~1.5" compared to ~19" for the LABOCA discovery map. This combination of sensitivity and resolution allows us to precisely pin-point the SMGs contributing to the submillimetre sources from the LABOCA map, free from the effects of confusion. We show that our ALMA-derived SMG counts broadly agree with the submillimetre source counts from previous, lower-resolution single-dish surveys, demonstrating that the bulk of the submillimetre sources are not caused by blendi...

  9. High-resolution mapping and transcriptional activity analysis of chicken centromere sequences on giant lampbrush chromosomes.

    Science.gov (United States)

    Krasikova, Alla; Fukagawa, Tatsuo; Zlotina, Anna

    2012-12-01

    Exploration into morphofunctional organisation of centromere DNA sequences is important for understanding the mechanisms of kinetochore specification and assembly. In-depth epigenetic analysis of DNA fragments associated with centromeric nucleosome proteins has demonstrated unique features of centromere organisation in chicken karyotype: there are both mature centromeres, which comprise chromosome-specific homogeneous arrays of tandem repeats, and recently evolved primitive centromeres, which consist of non-tandemly organised DNA sequences. In this work, we describe the arrangement and transcriptional activity of chicken centromere repeats for Cen1, Cen2, Cen3, Cen4, Cen7, Cen8, and Cen11 and non-repetitive centromere sequences of chromosomes 5, 27, and Z using highly elongated lampbrush chromosomes, which are characteristic of the diplotene stage of oogenesis. The degree of chromatin packaging and fine spatial organisations of tandemly repetitive and non-tandemly repetitive centromeric sequences significantly differ at the lampbrush stage. Using DNA/RNA FISH, we have demonstrated that during the lampbrush stage, DNA sequences are transcribed within the centromere regions of chromosomes that lack centromere-specific tandem repeats. In contrast, chromosome-specific centromeric repeats Cen1, Cen2, Cen3, Cen4, Cen7, Cen8, and Cen11 do not demonstrate any transcriptional activity during the lampbrush stage. In addition, we found that CNM repeat cluster localises adjacent to non-repetitive centromeric sequences in chicken microchromosome 27 indicating that centromere region in this chromosome is repeat-rich. Cross-species FISH allowed localisation of the sequences homologous to centromeric DNA of chicken chromosomes 5 and 27 in centromere regions of quail orthologous chromosomes.

  10. High resolution isotopic analysis of U-bearing particles via fusion of SIMS and EDS images

    Energy Technology Data Exchange (ETDEWEB)

    Tarolli, Jay G.; Naes, Benjamin E.; Garcia, Benjamin J.; Fischer, Ashley E.; Willingham, David

    2016-01-01

    Image fusion of secondary ion mass spectrometry (SIMS) images and X-ray elemental maps from energy-dispersive spectroscopy (EDS) was performed to facilitate the isolation and re-analysis of isotopically unique U-bearing particles where the highest precision SIMS measurements are required. Image registration, image fusion and particle micromanipulation were performed on a subset of SIMS images obtained from a large area pre-screen of a particle distribution from a sample containing several certified reference materials (CRM) U129A, U015, U150, U500 and U850, as well as a standard reference material (SRM) 8704 (Buffalo River Sediment) to simulate particles collected on swipes during routine inspections of declared uranium enrichment facilities by the International Atomic Energy Agency (IAEA). In total, fourteen particles, ranging in size from 5 – 15 µm, were isolated and re-analyzed by SIMS in multi-collector mode identifying nine particles of CRM U129A, one of U150, one of U500 and three of U850. These identifications were made within a few percent errors from the National Institute of Standards and Technology (NIST) certified atom percent values for 234U, 235U and 238U for the corresponding CRMs. This work represents the first use of image fusion to enhance the accuracy and precision of isotope ratio measurements for isotopically unique U-bearing particles for nuclear safeguards applications. Implementation of image fusion is essential for the identification of particles of interests that fall below the spatial resolution of the SIMS images.

  11. Development of a translation stage for in situ noninvasive analysis and high-resolution imaging

    Science.gov (United States)

    Strivay, David; Clar, Mathieu; Rakkaa, Said; Hocquet, Francois-Philippe; Defeyt, Catherine

    2016-11-01

    Noninvasive imaging techniques and analytical instrumentation for cultural heritage object studies have undergone a tremendous development over the last years. Many new miniature and/or handheld systems have been developed and optimized. Nonetheless, these instruments are usually used with a tripod or a manual position system. This is very time consuming when performing point analysis or 2D scanning of a surface. The Centre Européen d'Archéométrie has built a translation system made of pluggable rails of 1 m long with a maximum length and height of 3 m. Three motors embedded in the system allow the platform to be moved along these axis, toward and backward from the sample. The rails hold a displacement system, providing a continuous movement. Any position can be reached with a reproducibility of 0.1 mm. The displacements are controlled by an Ethernet connection through a laptop computer running a multiplatform custom-made software written in JAVA. This software allows a complete control over the positioning using a simple, unique, and concise interface. Automatic scanning can be performed over a large surface of 3 m on 3 m. The Ethernet wires provide also the power for the different motors and, if necessary, the detection head. The platform has been originally designed for a XRF detection head (with its full power alimentation) but now can accommodate many different systems like IR reflectography, digital camera, hyperspectral camera, and Raman probes. The positioning system can be modified to combine the acquisition software of the imaging or analytical techniques and the positioning software.

  12. High-resolution melting analysis for the detection of two erythromycin-resistant Bordetella pertussis strains carried by healthy schoolchildren in China.

    Science.gov (United States)

    Zhang, Q; Li, M; Wang, L; Xin, T; He, Q

    2013-06-01

    Two erythromycin-resistant strains of Bordetella pertussis were isolated from nasopharyngeal specimens of two asymptomatic schoolchildren in China. High-resolution melting and sequencing analyses confirmed the homogeneous A2047G mutation in 23S rRNA genes of the two isolates. High-resolution melting (HRM) analysis is a useful assay for the rapid detection of erythromycin-resistant B. pertussis. The appearance of erythromycin-resistant B. pertussis strains in China is alarming.

  13. Differentiation of Campylobacter jejuni and Campylobacter coli Using Multiplex-PCR and High Resolution Melt Curve Analysis.

    Science.gov (United States)

    Banowary, Banya; Dang, Van Tuan; Sarker, Subir; Connolly, Joanne H; Chenu, Jeremy; Groves, Peter; Ayton, Michelle; Raidal, Shane; Devi, Aruna; Vanniasinkam, Thiru; Ghorashi, Seyed A

    2015-01-01

    Campylobacter spp. are important causes of bacterial gastroenteritis in humans in developed countries. Among Campylobacter spp. Campylobacter jejuni (C. jejuni) and C. coli are the most common causes of human infection. In this study, a multiplex PCR (mPCR) and high resolution melt (HRM) curve analysis were optimized for simultaneous detection and differentiation of C. jejuni and C. coli isolates. A segment of the hippuricase gene (hipO) of C. jejuni and putative aspartokinase (asp) gene of C. coli were amplified from 26 Campylobacter isolates and amplicons were subjected to HRM curve analysis. The mPCR-HRM was able to differentiate between C. jejuni and C. coli species. All DNA amplicons generated by mPCR were sequenced. Analysis of the nucleotide sequences from each isolate revealed that the HRM curves were correlated with the nucleotide sequences of the amplicons. Minor variation in melting point temperatures of C. coli or C. jejuni isolates was also observed and enabled some intraspecies differentiation between C. coli and/or C. jejuni isolates. The potential of PCR-HRM curve analysis for the detection and speciation of Campylobacter in additional human clinical specimens and chicken swab samples was also confirmed. The sensitivity and specificity of the test were found to be 100% and 92%, respectively. The results indicated that mPCR followed by HRM curve analysis provides a rapid (8 hours) technique for differentiation between C. jejuni and C. coli isolates.

  14. Automated analysis of heterogeneous carbon nanostructures by high-resolution electron microscopy and on-line image processing

    Energy Technology Data Exchange (ETDEWEB)

    Toth, P., E-mail: toth.pal@uni-miskolc.hu [Department of Chemical Engineering, University of Utah, 50 S. Central Campus Drive, Salt Lake City, UT 84112-9203 (United States); Farrer, J.K. [Department of Physics and Astronomy, Brigham Young University, N283 ESC, Provo, UT 84602 (United States); Palotas, A.B. [Department of Combustion Technology and Thermal Energy, University of Miskolc, H3515, Miskolc-Egyetemvaros (Hungary); Lighty, J.S.; Eddings, E.G. [Department of Chemical Engineering, University of Utah, 50 S. Central Campus Drive, Salt Lake City, UT 84112-9203 (United States)

    2013-06-15

    High-resolution electron microscopy is an efficient tool for characterizing heterogeneous nanostructures; however, currently the analysis is a laborious and time-consuming manual process. In order to be able to accurately and robustly quantify heterostructures, one must obtain a statistically high number of micrographs showing images of the appropriate sub-structures. The second step of analysis is usually the application of digital image processing techniques in order to extract meaningful structural descriptors from the acquired images. In this paper it will be shown that by applying on-line image processing and basic machine vision algorithms, it is possible to fully automate the image acquisition step; therefore, the number of acquired images in a given time can be increased drastically without the need for additional human labor. The proposed automation technique works by computing fields of structural descriptors in situ and thus outputs sets of the desired structural descriptors in real-time. The merits of the method are demonstrated by using combustion-generated black carbon samples. - Highlights: ► The HRTEM analysis of heterogeneous nanostructures is a tedious manual process. ► Automatic HRTEM image acquisition and analysis can improve data quantity and quality. ► We propose a method based on on-line image analysis for the automation of HRTEM image acquisition. ► The proposed method is demonstrated using HRTEM images of soot particles.

  15. A high-resolution spectroscopic survey of late-type stars: chromospheric activity, rotation, kinematics, and age

    CERN Document Server

    Lopez-Santiago, J; Galvez-Ortiz, M C; Crespo-Chacon, I; Martinez-Arnaiz, R M; Fernandez-Figueroa, M J; De Castro, E; Cornide, M

    2010-01-01

    Aims: We present a compilation of spectroscopic data from a survey of 144 chromospherically active young stars in the solar neighborhood which may be used to investigate different aspects of the formation and evolution of the solar neighborhood in terms of kinematics and stellar formation history. The data have already been used by us in several studies. With this paper, we make all these data accessible to the scientific community for future studies on different topics. Methods: We performed spectroscopic observations with echelle spectrographs to cover the entirety of the optical spectral range simultaneously. Standard data reduction was performed with the IRAF ECHELLE package. We applied the spectral subtraction technique to reveal chromospheric emission in the stars of the sample. The equivalent width of chromospheric emission lines was measured in the subtracted spectra and then converted to fluxes using equivalent width-flux relationships. Radial and rotational velocities were determined by the cross-co...

  16. High-Resolution Mapping Using a Sub-Audio Magnetic Survey at the Comet Gold Mine, Western Australia

    Directory of Open Access Journals (Sweden)

    Piyaphong Chenrai

    2011-01-01

    Full Text Available The Comet Gold Mine in the Murchison mineral field lies within the Yilgarn Craton of Western Australia. Gold mineralization in this area is associated with a series of north-northeasterly trending structures, and has a long exploration history with some previous geophysical information. Other exploration information, such as geology and drill hole data, are integrated with the geophysical results to study the geophysical responses and generate a geophysical interpretation map. The response from the sub-audio magnetic (SAM survey was investigated over an area of 13 sq km. The SAM survey was completed using a transmitter current of 5 - 8 Amp with a 50 o/o duty cycle at 4 Hz frequency, which was considered a good instrumental setting for the Comet area. SAM anomalies were compared to results obtained from other geophysical methods and then integrated with geological data to generate a geophysical interpretation map at a 1 : 5000 scale. The new interpretation of geological units and structures at the Comet area should provide a better understanding of the geological and structural setting for mineralization in the Comet area. Our results show that the Comet Fault represents a faulted limb of the Comet fold structure that has both limbs dipping to the southeast and a plunge to the northeast. Magnetic anomalies associated with sedimentary iron formation (SIF are considered to be well correlated with some gold bearing horizons and the location of the Comet Fault, which has become more siliceous and has been altered by sulphide minerals and magnetite minerals.

  17. Bi-Temporal Analysis of High-Resolution Satellite Imagery in Support of a Forest Conservation Program in Western Uganda

    Science.gov (United States)

    Thomas, N.; Lambin, E.; Audy, R.; Biryahwaho, B.; de Laat, J.; Jayachandran, S.

    2014-12-01

    Recent studies in land use sustainability have shown the conservation value of even small forest fragments in tropical smallholder agricultural regions. Forest patches provide important ecosystem services, wildlife habitat, and support human livelihoods. Our study incorporates multiple dates of high-resolution Quickbird imagery to map forest disturbance and regrowth in a smallholder agricultural landscape in western Uganda. This work is in support of a payments for ecosystem services (PES) project which uses a randomized controlled trial to assess the efficacy of PES for enhancing forest conservation. The research presented here details the remote sensing phase of this project. We developed an object-based methodology for detecting forest change from high-resolution imagery that calculates per class image reflectance and change statistics to determine persistent forest, non-forest, forest gain, and forest loss classes. The large study area (~ 2,400 km2) necessitated using a combination of 10 different image pairs of varying seasonality, sun angle, and viewing angle. We discuss the impact of these factors on mapping results. Reflectance data was used in conjunction with texture measures and knowledge-driven modeling to derive forest change maps. First, baseline Quickbird images were mapped into tree cover and non-tree categories based on segmented image objects and field inventory data, applied through a classification and regression tree (CART) classifier. Then a bi-temporal segmentation layer was generated and a series of object metrics from both image dates were extracted. A sample set of persistent forest objects that remained undisturbed was derived from the tree cover map and the red band (B3) change values. We calculated a variety of statistical indices for these persistent tree cover objects from the post- survey imagery to create maps of both forest cover loss and forest cover gain. These results are compared to visually assessed image objects in addition

  18. High speed, high resolution, and continuous chemical analysis of ice cores using a melter and ion chromatography.

    Science.gov (United States)

    Cole-Dai, Jihong; Budner, Drew M; Ferris, Dave G

    2006-11-01

    Measurement of trace chemical impurities in ice cores contributes to the reconstruction of records of the atmospheric environment and of the climate system. Ion chromatography (IC) is an effective analytical technique for ionic species in ice cores but has been used on discretely prepared ice samples, resulting in extensive and slow sample preparation and potential for contamination. A new technique has been developed that utilizes IC as the online detection technique in a melter-based continuous flow system for quantitative determination of major ionic chemical impurities. The system, called CFA-IC for continuous flow analysis with ion chromatography detection, consists of an ice core melter, several ion chromatographs, and an interface that distributes meltwater to the IC instruments. The CFA-IC technique combines the accuracy, precision, and ease of use of IC measurement with the enhanced speed and depth resolution of continuous melting systems and is capable of virtually continuous, high-speed and high-resolution chemical analysis of long ice cores. The new technique and operating procedures have been tested and validated with the analysis of over 100 m of ice cores from Antarctica. The current CFA-IC system provides an all-major-ion analysis speed of up to 8 m a day at a depth resolution of approximately 2 cm.

  19. Genotyping of the protozoan pathogen Toxoplasma gondii using high-resolution melting analysis of the repeated B1 gene.

    Science.gov (United States)

    Costa, Jean-Marc; Cabaret, Odile; Moukoury, Sandrine; Bretagne, Stéphane

    2011-09-01

    Genetic studies of the protozoan parasite Toxoplasma gondii have identified three main distinct types according to virulence in some hosts. Several methods have been developed to differentiate genotypes currently dominated by microsatellite markers targeting single-copy loci. We analyzed the possibility of using the 35-fold repetitive B1 gene via high-resolution melting (HRM) curve analysis. Sequencing of the B1 gene of 14 reference strains (four Type I, six Type II, and four Type III strains) identified 18 single nucleotide polymorphisms (SNP). Primers were designed to amplify eight of them for HRM analysis and for relative quantification of each nucleotide variation using SNaPshot mini-sequencing. Genotyping with five microsatellite markers was performed for comparison. Two to four HRM profiles were obtained depending on the SNP tested. The differences observed relied on the different ratios of nucleotides at the SNP locus as evidenced via SNaPshot mini-sequencing. The three main lineages could be distinguished by using several HRM profiles. Some HRM profiles proved more informative than the analysis based on five microsatellite markers, showing additional differences in Type I and Type II strains. Using HRM analysis, we obtained at least an equally good discrimination of the main lineages than that based on five microsatellite markers.

  20. Retrospective analysis of pesticide metabolites in urine using liquid chromatography coupled to high-resolution mass spectrometry.

    Science.gov (United States)

    López, Antonio; Dualde, Pablo; Yusà, Vicent; Coscollà, Clara

    2016-11-01

    A comprehensive retrospective analysis of pesticide metabolites in urine was developed, using liquid chromatography coupled to Orbitrap high-resolution mass spectrometry (UHPLC-HRMS) that includes both post-run target (suspect screening) and non-target screening. An accurate-mass database comprising 263 pesticide metabolites was built and used for the post-run screening analysis. For non-target analysis, a "fragmentation-degradation" relationship strategy was selected. The proposed methodology was applied to 49 real urine samples from pregnant women. In the post-target analysis 26 pesticide metabolites were tentatively identified, 8 of which (2-diethylamino-6-methyl-pyrimidinol; 3-ketocarbofuran; 4,6-dimethoxy-2-pyrimidinamine; 4-hydroxy-2-isporopyl-6-methylpyrimidine; diethyl malate; diethyl maleate; N-(2-Ethyl-6-methylphenyl)-2-hydroxyacetamide and propachlor oxanilic acid ) were confirmed using analytical standards. Likewise, one unknown degradation product, methyl-N-phenylcarbamate was elucidated in the non-target screening. Finally, the real urine samples were grouped according to their origin applying a metabolomic approach.

  1. Simultaneous mutation detection of three homoeologous genes in wheat by High Resolution Melting analysis and Mutation Surveyor®

    Directory of Open Access Journals (Sweden)

    Vincent Kate

    2009-12-01

    Full Text Available Abstract Background TILLING (Targeting Induced Local Lesions IN Genomes is a powerful tool for reverse genetics, combining traditional chemical mutagenesis with high-throughput PCR-based mutation detection to discover induced mutations that alter protein function. The most popular mutation detection method for TILLING is a mismatch cleavage assay using the endonuclease CelI. For this method, locus-specific PCR is essential. Most wheat genes are present as three similar sequences with high homology in exons and low homology in introns. Locus-specific primers can usually be designed in introns. However, it is sometimes difficult to design locus-specific PCR primers in a conserved region with high homology among the three homoeologous genes, or in a gene lacking introns, or if information on introns is not available. Here we describe a mutation detection method which combines High Resolution Melting (HRM analysis of mixed PCR amplicons containing three homoeologous gene fragments and sequence analysis using Mutation Surveyor® software, aimed at simultaneous detection of mutations in three homoeologous genes. Results We demonstrate that High Resolution Melting (HRM analysis can be used in mutation scans in mixed PCR amplicons containing three homoeologous gene fragments. Combining HRM scanning with sequence analysis using Mutation Surveyor® is sensitive enough to detect a single nucleotide mutation in the heterozygous state in a mixed PCR amplicon containing three homoeoloci. The method was tested and validated in an EMS (ethylmethane sulfonate-treated wheat TILLING population, screening mutations in the carboxyl terminal domain of the Starch Synthase II (SSII gene. Selected identified mutations of interest can be further analysed by cloning to confirm the mutation and determine the genomic origin of the mutation. Conclusion Polyploidy is common in plants. Conserved regions of a gene often represent functional domains and have high sequence

  2. Assessing subaqueous mudslide hazard on the Mississippi River delta front, Part 2: Insights revealed through high-resolution geophysical surveying

    Science.gov (United States)

    Obelcz, J.; Xu, K.; Bentley, S. J.; Georgiou, I. Y.; Maloney, J. M.; Miner, M. D.; Hanegan, K.; Keller, G.

    2014-12-01

    The northern Gulf of Mexico, including the subaqueous Mississippi River delta front (MRDF), has been productive for oil and gas development since the early 1900s. In 1969 cyclic seafloor wave loading associated with the passage of Hurricane Camille triggered subaqueous mudflows across the MRDF, destroying several offshore oil platforms. This incident spurred geophysical and geotechnical studies of the MRDF, which found that the delta front is prone to mass failures on gentle gradients (survey area can be classified into four primary sedimentary facies: mudflow gullies, mudflow lobes, undisturbed prodelta, and undisturbed delta front. Subbottom profiles reveal extensive biogenic gas from 20 to about 80 m water depths on the delta front; sidescan data show a variety of bottleneck slides, mudflow gullies and mudflow noses. Previous studies have attempted to constrain the periodicity and magnitude of subaqueous mudslides on the MRDF. However, large age gaps and varied resolution between datasets result in ambiguity regarding the cause and magnitude of observed bathymetric changes. We present high-temporal resolution MRDF bathymetric variations from 2005 (post Hurricane Katrina), 2009 (relatively quiescent storm period), and 2014 (post 2011 Mississippi River flood). These data yield better magnitude and timing estimates of mass movements. This exercise represents a first step towards (1) assembling a comprehensive geologic dataset upon which future MRDF geohazard assessments can be founded, and (2) understanding the dynamics of a massive passive margin deltaic lobe entering a phase of decline.

  3. Evidence of mud diapirism and coral colonies in the ionian sea (central mediterranean from high resolution chirp sonar survey

    Directory of Open Access Journals (Sweden)

    C. Corselli

    2006-06-01

    Full Text Available A chirp sonar survey in the Ionian Sea investigated the Calabrian margin, the Calabrian accretionary wedge, the Taranto Trench and the Apulian foreland. Shallow tectonics structures have been related to deeper ones, recognised on CROP seismic profiles. The identified echo characters have been compared with those described in the modern literature and have been related to different kinds of sediments, on the basis of core samples. Based on echo character and morphology we have recognised: 1 A widespread presence of mounds, up to 50 m high, occurring on the Apulian plateau as isolated mounds in the deepest zones (1600-800 m and in groups in the shallower ones (800-600 m; they have been interpreted as coral mounds, according to a recent discovery of living deep water coral colonies in this zone. 2 Some mud diapirs, isolated or in groups of two or three elements, widespread in the whole study area. In analogy of what has been observed on the Mediterranean Ridge, their presence suggests the activity of deep tectonic structures (thrusts and faults and a reduced thickness (or absence of Messinian evaporites in this part of the Ionian Sea.

  4. Line width and line shape analysis in the inductively coupled plasma by high resolution Fourier transform spectrometry

    Energy Technology Data Exchange (ETDEWEB)

    Faires, L.M.; Palmer, B.A.; Brault, J.W.

    1984-01-01

    High resolution Fourier transform spectrometry has been used to perform line width and line shape analysis of eighty-one iron I emision lines in the spectral range 290 to 390nm originating in the normal analytical zone of an inductively coupled plasma. Computer programs using non-linear least squares fitting techniques for line shape analysis were applied to the fully resolved spectra to determine Gaussian and Lorentzian components of the total observed line width. The effect of noise in the spectrum on the precision of the line fitting technique was assessed, and the importance of signal to noise ratio for line shape analysis is discussed. Translational (Doppler) temperatures were calculated from the Gaussian components of the line width and were found to be on the order of 6300/sup 0/K. The excitation temperature of iron I was also determined from the same spectral data by the spectroscopic slope method based on the Einstein-Boltzmann expression for spectral intensity and was found to be on the order of 4700/sup 0/K. 31 references.

  5. Chemical dereplication of marine actinomycetes by liquid chromatography-high resolution mass spectrometry profiling and statistical analysis.

    Science.gov (United States)

    Forner, David; Berrué, Fabrice; Correa, Hebelin; Duncan, Katherine; Kerr, Russell G

    2013-12-17

    Discovery of novel bioactive metabolites from marine bacteria is becoming increasingly challenging, and the development of novel approaches to improve the efficiency of early steps in the microbial drug discovery process is therefore of interest. For example, current protocols for the taxonomic dereplication of microbial strains generally use molecular tools which do not take into consideration the ability of these selected bacteria to produce secondary metabolites. As the identification of novel chemical entities is one of the key elements driving drug discovery programs, this study reports a novel methodology to dereplicate microbial strains by a metabolomics approach using liquid chromatography-high resolution mass spectrometry (LC-HRMS). In order to process large and complex three dimensional LC-HRMS datasets, the reported method uses a bucketing and presence-absence standardization strategy in addition to statistical analysis tools including principal component analysis (PCA) and cluster analysis. From a closely related group of Streptomyces isolated from geographically varied environments, we demonstrated that grouping bacteria according to the chemical diversity of produced metabolites is reproducible and provides greatly improved resolution for the discrimination of microbial strains compared to current molecular dereplication techniques. Importantly, this method provides the ability to identify putative novel chemical entities as natural product discovery leads. Copyright © 2013 Elsevier B.V. All rights reserved.

  6. Novel approaches in analysis of Fusarium mycotoxins in cereals employing ultra performance liquid chromatography coupled with high resolution mass spectrometry

    Energy Technology Data Exchange (ETDEWEB)

    Zachariasova, M.; Lacina, O.; Malachova, A.; Kostelanska, M.; Poustka, J. [Institute of Chemical Technology, Faculty of Food and Biochemical Technology, Department of Food Chemistry and Analysis, Technicka 3, 166 28 Prague 6 (Czech Republic); Godula, M. [Thermo Fisher Scientific, Czech Republic, Slunecna 27, 100 00 Prague 10 (Czech Republic); Hajslova, J., E-mail: jana.hajslova@vscht.cz [Institute of Chemical Technology, Faculty of Food and Biochemical Technology, Department of Food Chemistry and Analysis, Technicka 3, 166 28 Prague 6 (Czech Republic)

    2010-03-03

    Rapid, simple and cost-effective analytical methods with performance characteristics matching regulatory requirements are needed for effective control of occurrence of Fusarium toxins in cereals and cereal-based products to which they might be transferred during processing. Within this study, two alternative approaches enabling retrospective data analysis and identification of unknown signals in sample extracts have been implemented and validated for determination of 11 major Fusarium toxins. In both cases, ultra-high performance liquid chromatography (U-HPLC) coupled with high resolution mass spectrometry (HR MS) was employed. {sup 13}C isotopically labeled surrogates as well as matrix-matched standards were employed for quantification. As far as time of flight mass analyzer (TOF-MS) was a detection tool, the use of modified QuEChERS (quick easy cheap effective rugged and safe) sample preparation procedure, widely employed in multi-pesticides residue analysis, was shown as an optimal approach to obtain low detection limits. The second challenging alternative, enabling direct analysis of crude extract, was the use of mass analyzer based on Orbitrap technology. In addition to demonstration of full compliance of the new methods with Commission Regulation (EC) No. 401/2006, also their potential to be used for confirmatory purposes according to Commission Decision 2002/657/EC has been critically assessed.

  7. Spectral Knowledge (SK-UTALCA): Software for Exploratory Analysis of High-Resolution Spectral Reflectance Data on Plant Breeding

    Science.gov (United States)

    Lobos, Gustavo A.; Poblete-Echeverría, Carlos

    2017-01-01

    This article describes public, free software that provides efficient exploratory analysis of high-resolution spectral reflectance data. Spectral reflectance data can suffer from problems such as poor signal to noise ratios in various wavebands or invalid measurements due to changes in incoming solar radiation or operator fatigue leading to poor orientation of sensors. Thus, exploratory data analysis is essential to identify appropriate data for further analyses. This software overcomes the problem that analysis tools such as Excel are cumbersome to use for the high number of wavelengths and samples typically acquired in these studies. The software, Spectral Knowledge (SK-UTALCA), was initially developed for plant breeding, but it is also suitable for other studies such as precision agriculture, crop protection, ecophysiology plant nutrition, and soil fertility. Various spectral reflectance indices (SRIs) are often used to relate crop characteristics to spectral data and the software is loaded with 255 SRIs which can be applied quickly to the data. This article describes the architecture and functions of SK-UTALCA and the features of the data that led to the development of each of its modules. PMID:28119705

  8. Detection of Crater Rims by Image Analysis in Very High Resolution Images of Mars, Mercury and the Moon

    Science.gov (United States)

    Pina, P.; Marques, J. S.; Bandeira, L.

    2013-12-01

    The adaptive nature of automated crater detection algorithms permits achieving a high level of autonomous detections in different surfaces and consequently becoming an important tool in the update of crater catalogues. Nevertheless, the available approaches assume all craters as circular and only provide as output the radius and location of each crater. However, the delineation of impact craters following the local variability of the rims is also important to, among others, evaluate their degree of degradation or preservation, namely those studies related to ancient climate analysis. This contour determination is normally prepared in a manual way but can advantageously be done by image analysis methods, eliminating subjectivity and allowing large scale delineations. We have recently proposed a pair of independent approaches to tackle with this problem, one based on processing the crater image in polar coordinates [1], the other using morphological operators [2], which achieved a good degree of success on very high resolution images from Mars [3-4], but where enough room for improvement was still available. Thus, the integration of both approaches into a single one, suppressing the individual drawbacks of the previous approaches, permitted to strength the detection procedure. We describe now the novel sequence of processing that we have built and test it intensively in a wider variety of planetary surfaces, namely, those of Mars, Mercury and the Moon, using the very high resolution images provided by HiRISE, MDIS and LROC cameras. The automated delineations of the craters are compared to a ground-truth reference (manually delineated contours), so a quantitative evaluation can be performed; on a dataset constituted by more than one thousand impact craters we have obtained a global high delineation rate. The breakdown by crater size on each surface is performed. The whole processing procedure works on raster images and also delivers the output in the same image format

  9. High Resolution Elevation Contours

    Data.gov (United States)

    Minnesota Department of Natural Resources — This dataset contains contours generated from high resolution data sources such as LiDAR. Generally speaking this data is 2 foot or less contour interval.

  10. Application of high-resolution melt curve analysis for classification of infectious bronchitis viruses in field specimens.

    Science.gov (United States)

    Hewson, K A; Browning, G F; Devlin, J M; Ignjatovic, J; Noormohammadi, A H

    2010-10-01

    A real-time polymerase chain reaction (PCR)/high-resolution melt (HRM) curve analysis protocol was developed in our laboratory to differentiate infectious bronchitis (IB) virus reference strains. In the current study, this method was used to detect and classify IB viruses in field submissions. Over an 11-month period samples from 40 cases of suspected IB virus were received and 17 submissions were positive for IB virus by polymerase chain reaction. HRM curve analysis classified each strain as subgroup 1, 2 or 3 strain (12 submissions) or a strain that was unable to be classified (5 submissions). The 3' untranslated region (UTR) and partial S1 gene nucleotide sequences for the 17 IB virus strains were determined and their identity with those of the relative reference strains compared to confirm the classifications generated using the HRM curve analysis. Of the 12 IB field viruses classified as subgroup 1, 2, or 3 using HRM curve analysis, the 3'UTR and S1 gene nucleotide sequences had identities ≥99% with the respective subgroup reference strain. Analysis of the 3' UTR and S1 gene nucleotide sequences for the five IB virus strains that could not be classified indicated that four belonged to one of the subgroups, and one was a potential recombinant strain (between strains from subgroups 2 and 3). A novel recombinant strain was also detected. HRM curve analysis can rapidly assign the majority of IB viruses present in field submissions to known subgroups. Importantly, HRM curve analysis also identified variant genotypes that require further investigation. © 2010 The Authors. Australian Veterinary Journal © 2010 Australian Veterinary Association.

  11. High-resolution genomic fingerprinting of Campylobacter jejuni and Campylobacter coli by analysis of amplified fragment length polymorphisms

    DEFF Research Database (Denmark)

    Kokotovic, Branko; On, Stephen L.W.

    1999-01-01

    A method for high-resolution genomic fingerprinting of the enteric pathogens Campylobacter jejuni and Campylobacter coli, based on the determination of amplified fragment length polymorphism, is described. The potential of this method for molecular epidemiological studies of these species...

  12. Rapid molecular identification of Listeria species by use of real-time PCR and high-resolution melting analysis.

    Science.gov (United States)

    Jin, Dazhi; Luo, Yun; Zhang, Zheng; Fang, Weijia; Ye, Julian; Wu, Fang; Ding, Gangqiang

    2012-05-01

    Identification of Listeria species via a molecular method is critical for food safety and clinical diagnosis. In this study, an assay integrating real-time quantitative PCR (Q-PCR) with high-resolution melting (HRM) curve analysis was developed and assessed for rapid identification of six Listeria species. The ssrA gene, which encodes a transfer-messenger RNA (tmRNA) is conserved and common to all bacterial phyla, contains a variable domain in Listeria spp. Therefore, Q-PCR and a HRM profile were applied to characterize this gene. Fifty-three Listeria species and 45 non-Listeria species were detected using one primer set, with an accuracy of 100% in reference to conventional methods. There was a 93.3% correction rate to 30 artificially contaminated samples. Thus, Q-PCR with melting profiling analysis proved able to identify Listeria species accurately. Consequently, this study demonstrates that the assay we developed is a functional tool for rapidly identifying six Listeria species, and has the potential for discriminating novel species food safety and epidemiological research.

  13. LFQuant: a label-free fast quantitative analysis tool for high-resolution LC-MS/MS proteomics data.

    Science.gov (United States)

    Zhang, Wei; Zhang, Jiyang; Xu, Changming; Li, Ning; Liu, Hui; Ma, Jie; Zhu, Yunping; Xie, Hongwei

    2012-12-01

    Database searching based methods for label-free quantification aim to reconstruct the peptide extracted ion chromatogram based on the identification information, which can limit the search space and thus make the data processing much faster. The random effect of the MS/MS sampling can be remedied by cross-assignment among different runs. Here, we present a new label-free fast quantitative analysis tool, LFQuant, for high-resolution LC-MS/MS proteomics data based on database searching. It is designed to accept raw data in two common formats (mzXML and Thermo RAW), and database search results from mainstream tools (MASCOT, SEQUEST, and X!Tandem), as input data. LFQuant can handle large-scale label-free data with fractionation such as SDS-PAGE and 2D LC. It is easy to use and provides handy user interfaces for data loading, parameter setting, quantitative analysis, and quantitative data visualization. LFQuant was compared with two common quantification software packages, MaxQuant and IDEAL-Q, on the replication data set and the UPS1 standard data set. The results show that LFQuant performs better than them in terms of both precision and accuracy, and consumes significantly less processing time. LFQuant is freely available under the GNU General Public License v3.0 at http://sourceforge.net/projects/lfquant/. © 2012 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

  14. Wavelet-based analysis and power law classification of C/NOFS high-resolution electron density data

    Science.gov (United States)

    Rino, C. L.; Carrano, C. S.; Roddy, Patrick

    2014-08-01

    This paper applies new wavelet-based analysis procedures to low Earth-orbiting satellite measurements of equatorial ionospheric structure. The analysis was applied to high-resolution data from 285 Communications/Navigation Outage Forecasting System (C/NOFS) satellite orbits sampling the postsunset period at geomagnetic equatorial latitudes. The data were acquired during a period of progressively intensifying equatorial structure. The sampled altitude range varied from 400 to 800 km. The varying scan velocity remained within 20° of the cross-field direction. Time-to-space interpolation generated uniform samples at approximately 8 m. A maximum segmentation length that supports stochastic structure characterization was identified. A two-component inverse power law model was fit to scale spectra derived from each segment together with a goodness-of-fit measure. Inverse power law parameters derived from the scale spectra were used to classify the scale spectra by type. The largest category was characterized by a single inverse power law with a mean spectral index somewhat larger than 2. No systematic departure from the inverse power law was observed to scales greater than 100 km. A small subset of the most highly disturbed passes at the lowest sampled altitudes could be categorized by two-component power law spectra with a range of break scales from less than 100 m to several kilometers. The results are discussed within the context of other analyses of in situ data and spectral characteristics used for scintillation analyses.

  15. Novel genes associated with colorectal cancer are revealed by high resolution cytogenetic analysis in a patient specific manner.

    Directory of Open Access Journals (Sweden)

    Hisham Eldai

    Full Text Available Genomic abnormalities leading to colorectal cancer (CRC include somatic events causing copy number aberrations (CNAs as well as copy neutral manifestations such as loss of heterozygosity (LOH and uniparental disomy (UPD. We studied the causal effect of these events by analyzing high resolution cytogenetic microarray data of 15 tumor-normal paired samples. We detected 144 genes affected by CNAs. A subset of 91 genes are known to be CRC related yet high GISTIC scores indicate 24 genes on chromosomes 7, 8, 18 and 20 to be strongly relevant. Combining GISTIC ranking with functional analyses and degree of loss/gain we identify three genes in regions of significant loss (ATP8B1, NARS, and ATP5A1 and eight in regions of gain (CTCFL, SPO11, ZNF217, PLEKHA8, HOXA3, GPNMB, IGF2BP3 and PCAT1 as novel in their association with CRC. Pathway and target prediction analysis of CNA affected genes and microRNAs, respectively indicates TGF-β signaling pathway to be involved in causing CRC. Finally, LOH and UPD collectively affected nine cancer related genes. Transcription factor binding sites on regions of >35% copy number loss/gain influenced 16 CRC genes. Our analysis shows patient specific CRC manifestations at the genomic level and that these different events affect individual CRC patients differently.

  16. Classification of brain tumor extracts by high resolution ¹H MRS using partial least squares discriminant analysis

    Directory of Open Access Journals (Sweden)

    A.V. Faria

    2011-02-01

    Full Text Available High resolution proton nuclear magnetic resonance spectroscopy (¹H MRS can be used to detect biochemical changes in vitro caused by distinct pathologies. It can reveal distinct metabolic profiles of brain tumors although the accurate analysis and classification of different spectra remains a challenge. In this study, the pattern recognition method partial least squares discriminant analysis (PLS-DA was used to classify 11.7 T ¹H MRS spectra of brain tissue extracts from patients with brain tumors into four classes (high-grade neuroglial, low-grade neuroglial, non-neuroglial, and metastasis and a group of control brain tissue. PLS-DA revealed 9 metabolites as the most important in group differentiation: γ-aminobutyric acid, acetoacetate, alanine, creatine, glutamate/glutamine, glycine, myo-inositol, N-acetylaspartate, and choline compounds. Leave-one-out cross-validation showed that PLS-DA was efficient in group characterization. The metabolic patterns detected can be explained on the basis of previous multimodal studies of tumor metabolism and are consistent with neoplastic cell abnormalities possibly related to high turnover, resistance to apoptosis, osmotic stress and tumor tendency to use alternative energetic pathways such as glycolysis and ketogenesis.

  17. Proteome Scale-Protein Turnover Analysis Using High Resolution Mass Spectrometric Data from Stable-Isotope Labeled Plants.

    Science.gov (United States)

    Fan, Kai-Ting; Rendahl, Aaron K; Chen, Wen-Ping; Freund, Dana M; Gray, William M; Cohen, Jerry D; Hegeman, Adrian D

    2016-03-04

    Protein turnover is an important aspect of the regulation of cellular processes for organisms when responding to developmental or environmental cues. The measurement of protein turnover in plants, in contrast to that of rapidly growing unicellular organismal cultures, is made more complicated by the high degree of amino acid recycling, resulting in significant transient isotope incorporation distributions that must be dealt with computationally for high throughput analysis to be practical. An algorithm in R, ProteinTurnover, was developed to calculate protein turnover with transient stable isotope incorporation distributions in a high throughput automated manner using high resolution MS and MS/MS proteomic analysis of stable isotopically labeled plant material. ProteinTurnover extracts isotopic distribution information from raw MS data for peptides identified by MS/MS from data sets of either isotopic label dilution or incorporation experiments. Variable isotopic incorporation distributions were modeled using binomial and beta-binomial distributions to deconvolute the natural abundance, newly synthesized/partial-labeled, and fully labeled peptide distributions. Maximum likelihood estimation was performed to calculate the distribution abundance proportion of old and newly synthesized peptides. The half-life or turnover rate of each peptide was calculated from changes in the distribution abundance proportions using nonlinear regression. We applied ProteinTurnover to obtain half-lives of proteins from enriched soluble and membrane fractions from Arabidopsis roots.

  18. Analysis of the Fusarium mycotoxin moniliformin in cereal samples using 13C2-moniliformin and high-resolution mass spectrometry.

    Science.gov (United States)

    von Bargen, Katharina Walburga; Lohrey, Lilia; Cramer, Benedikt; Humpf, Hans-Ulrich

    2012-04-11

    Moniliformin is a mycotoxin produced by fungi of the Fusarium genus and occurs as a contaminant of different cereals worldwide. This study describes the first application of isotopically labeled (13)C(2)-moniliformin for the analysis of moniliformin in cereals. Moniliformin is a small and ionic molecule that forms only a single sensitive fragment ion in the collision cell of a tandem mass spectrometer. Therefore, the methods described in the literature for this kind of instrument observe only a single mass transition and show a relatively poor sensitivity. The use of high-resolution mass spectrometry was described to be a suitable alternative technique for the detection of this compound and was therefore applied in this study. The developed method is based on the use of strong anion exchange columns for cleanup prior to HPLC analysis and has a recovery rate of 75.3%, a limit of detection (LOD) of 0.7 μg/kg, and a limit of quantitation (LOQ) of 2.5 μg/kg. Twenty-three different cereal samples were analyzed for their moniliformin content. Twenty of them showed positive results with levels up to 126 ± 12.2 μg/kg.

  19. Geospatial mapping of Antarctic coastal oasis using geographic object-based image analysis and high resolution satellite imagery

    Science.gov (United States)

    Jawak, Shridhar D.; Luis, Alvarinho J.

    2016-04-01

    An accurate spatial mapping and characterization of land cover features in cryospheric regions is an essential procedure for many geoscientific studies. A novel semi-automated method was devised by coupling spectral index ratios (SIRs) and geographic object-based image analysis (OBIA) to extract cryospheric geospatial information from very high resolution WorldView 2 (WV-2) satellite imagery. The present study addresses development of multiple rule sets for OBIA-based classification of WV-2 imagery to accurately extract land cover features in the Larsemann Hills, east Antarctica. Multilevel segmentation process was applied to WV-2 image to generate different sizes of geographic image objects corresponding to various land cover features with respect to scale parameter. Several SIRs were applied to geographic objects at different segmentation levels to classify land mass, man-made features, snow/ice, and water bodies. We focus on water body class to identify water areas at the image level, considering their uneven appearance on landmass and ice. The results illustrated that synergetic usage of SIRs and OBIA can provide accurate means to identify land cover classes with an overall classification accuracy of ≍97%. In conclusion, our results suggest that OBIA is a powerful tool for carrying out automatic and semiautomatic analysis for most cryospheric remote-sensing applications, and the synergetic coupling with pixel-based SIRs is found to be a superior method for mining geospatial information.

  20. Geographic Object-based Image Analysis for Developing Cryospheric Surface Mapping Application using Remotely Sensed High-Resolution Satellite Imagery

    Science.gov (United States)

    Jawak, S. D.; Luis, A. J.

    2015-12-01

    A novel semi-automated method was devised by coupling spectral index ratios (SIRs) and geographic object-based image analysis (GEOBIA) to extract cryospheric geoinformation from very high resolution WorldView 2 (WV-2) satellite imagery. The present study addresses development of multiple rule sets for GEOBIA-based classification of WV-2 imagery to accurately extract land cover features in the Larsemann Hills, Antarctica. Multi-level segmentation process was applied to WV-2 image to generate different sizes of geographic image objects corresponding to various land cover features w.r.t scale parameter. Several SIRs were applied to geographic objects at different segmentation levels to classify landmass, man-made features, snow/ice, and water bodies. A specific attention was paid to water body class to identify water areas at the image level, considering their uneven appearance on landmass and ice. The results illustrated that synergetic usage of SIRs and GEOBIA can provide accurate means to identify land cover classes with an overall classification accuracy of ≈97%. In conclusion, the results suggest that GEOBIA is a powerful tool for carrying out automatic and semiautomatic analysis for most cryospheric remote-sensing applications, and the synergetic coupling with pixel-based SIRs is found to be a superior method for mining geoinformation.

  1. Geographic information system for fusion and analysis of high-resolution remote sensing and ground truth data

    Science.gov (United States)

    Freeman, Anthony; Way, Jo Bea; Dubois, Pascale; Leberl, Franz

    1992-01-01

    We seek to combine high-resolution remotely sensed data with models and ground truth measurements, in the context of a Geographical Information System, integrated with specialized image processing software. We will use this integrated system to analyze the data from two Case Studies, one at a bore Al forest site, the other a tropical forest site. We will assess the information content of the different components of the data, determine the optimum data combinations to study biogeophysical changes in the forest, assess the best way to visualize the results, and validate the models for the forest response to different radar wavelengths/polarizations. During the 1990's, unprecedented amounts of high-resolution images from space of the Earth's surface will become available to the applications scientist from the LANDSAT/TM series, European and Japanese ERS-1 satellites, RADARSAT and SIR-C missions. When the Earth Observation Systems (EOS) program is operational, the amount of data available for a particular site can only increase. The interdisciplinary scientist, seeking to use data from various sensors to study his site of interest, may be faced with massive difficulties in manipulating such large data sets, assessing their information content, determining the optimum combinations of data to study a particular parameter, visualizing his results and validating his model of the surface. The techniques to deal with these problems are also needed to support the analysis of data from NASA's current program of Multi-sensor Airborne Campaigns, which will also generate large volumes of data. In the Case Studies outlined in this proposal, we will have somewhat unique data sets. For the Bonanza Creek Experimental Forest (Case I) calibrated DC-8 SAR data and extensive ground truth measurement are already at our disposal. The data set shows documented evidence to temporal change. The Belize Forest Experiment (Case II) will produce calibrated DC-8 SAR and AVIRIS data, together with

  2. Geographic information system for fusion and analysis of high-resolution remote sensing and ground truth data

    Science.gov (United States)

    Freeman, Anthony; Way, Jo Bea; Dubois, Pascale; Leberl, Franz

    1992-01-01

    We seek to combine high-resolution remotely sensed data with models and ground truth measurements, in the context of a Geographical Information System, integrated with specialized image processing software. We will use this integrated system to analyze the data from two Case Studies, one at a bore Al forest site, the other a tropical forest site. We will assess the information content of the different components of the data, determine the optimum data combinations to study biogeophysical changes in the forest, assess the best way to visualize the results, and validate the models for the forest response to different radar wavelengths/polarizations. During the 1990's, unprecedented amounts of high-resolution images from space of the Earth's surface will become available to the applications scientist from the LANDSAT/TM series, European and Japanese ERS-1 satellites, RADARSAT and SIR-C missions. When the Earth Observation Systems (EOS) program is operational, the amount of data available for a particular site can only increase. The interdisciplinary scientist, seeking to use data from various sensors to study his site of interest, may be faced with massive difficulties in manipulating such large data sets, assessing their information content, determining the optimum combinations of data to study a particular parameter, visualizing his results and validating his model of the surface. The techniques to deal with these problems are also needed to support the analysis of data from NASA's current program of Multi-sensor Airborne Campaigns, which will also generate large volumes of data. In the Case Studies outlined in this proposal, we will have somewhat unique data sets. For the Bonanza Creek Experimental Forest (Case I) calibrated DC-8 SAR data and extensive ground truth measurement are already at our disposal. The data set shows documented evidence to temporal change. The Belize Forest Experiment (Case II) will produce calibrated DC-8 SAR and AVIRIS data, together with

  3. Interstitial pneumonitis in patients with systemic sclerosis. Analysis by chest x-ray high-resolution computed tomography (HRCT)

    Energy Technology Data Exchange (ETDEWEB)

    Ogawa, Kana [Toho Univ., Tokyo (Japan). School of Medicine

    1999-01-01

    Systemic sclerosis (SSc) is a severe systemic collagen vascular disease of unknown cause characterized by marked vascular and connective tissue abnormalities in the skin and other organs. The lungs are frequently involved in patients with SSc, and pulmonary disease continues to be a significant cause of morbidity and mortality. High-resolution computed tomography (HRCT) is a sensitive technique potentially useful in detecting occult interstitial lung disease in patients with SSc. In the present study, chest X-ray HRCT findings were analyzed in 26 SSc patients in order to identify the characteristic morphological changes of interstitial pneumonitis in SSc patients. Interstitial pneumonitis was found in 21 patients (81%) with SSc. Chest X-ray CT findings in SSc patients were quite uniform and were characterized by sharply bordering dense attenuation and the predominance of ring-like lesions. Main lesions were located in the lower and posterior lung fields in a peripheral lobular pattern. There was no correlation between the extent of the interstitial lung disease and the duration from onset of SSc. In conclusion, it was found that, in patients with SSc, interstitial pneumonitis can be identified by characteristic chest X-ray CT findings. Furthermore, analysis of chest X-ray CT findings is useful in assessing the severity, clinical course and prognosis of patients with SSc. (author)

  4. Analysis of Beta-Lactoglobuline Gene (LGB Polymorphism in Different Breeds of Bulls by High Resolution Melting

    Directory of Open Access Journals (Sweden)

    Martina Miluchová

    2012-05-01

    Full Text Available The goal of the paper was to identify  - lactoglobulin gene polymorphism in bulls. The  - lactoglobulin (LGB is expressed in milk and is important in the evaluation of milk production potential and butterfat and protein content. LGB is localized on bovine chromosome 11. The AA genotype of LGB is associated with higher milk yield, the BB genotype with higher fat and casein content and is more desirable for cheese making. The material involved 46 bulls (Slovak spotted breed – 41 bulls, Pinzgau breed – 3 bulls and Holstein breed – 2 bulls. Bovine genomic DNA was isolated from sperm using commercial kit NucleoSpin Tissue and used in order to estimate LGB genotypes by means of PCR RFLP method and high resolution melting analysis (HRMA. In the population of Slovak spotted breed we detected all genotypes AA, AB and BB with frequency 0.3415, 0.4390 and 0.2195, subsequently. In Pinzgau breed was detected homozygote genotypes AA and BB with frequency 0.3333 and 0.6667. In Holstein breed was observed only heterozygote genotype AB with frequency 1.

  5. The potential of high resolution melting analysis (hrma) to streamline, facilitate and enrich routine diagnostics in medical microbiology.

    Science.gov (United States)

    Ruskova, Lenka; Raclavsky, Vladislav

    2011-09-01

    Routine medical microbiology diagnostics relies on conventional cultivation followed by phenotypic techniques for identification of pathogenic bacteria and fungi. This is not only due to tradition and economy but also because it provides pure culture needed for antibiotic susceptibility testing. This review focuses on the potential of High Resolution Melting Analysis (HRMA) of double-stranded DNA for future routine medical microbiology. Search of MEDLINE database for publications showing the advantages of HRMA in routine medical microbiology for identification, strain typing and further characterization of pathogenic bacteria and fungi in particular. The results show increasing numbers of newly-developed and more tailor-made assays in this field. For microbiologists unfamiliar with technical aspects of HRMA, we also provide insight into the technique from the perspective of microbial characterization. We can anticipate that the routine availability of HRMA in medical microbiology laboratories will provide a strong stimulus to this field. This is already envisioned by the growing number of medical microbiology applications published recently. The speed, power, convenience and cost effectiveness of this technology virtually predestine that it will advance genetic characterization of microbes and streamline, facilitate and enrich diagnostics in routine medical microbiology without interfering with the proven advantages of conventional cultivation.

  6. The offshore Yangsan fault activity in the Quaternary, SE Korea: Analysis of high-resolution seismic profiles

    Science.gov (United States)

    Kim, Han-Joon; Moon, Seonghoon; Jou, Hyeong-Tae; Lee, Gwang Hoon; Yoo, Dong Geun; Lee, Sang Hoon; Kim, Kwang Hee

    2016-12-01

    The NNE-trending dextral Yangsan fault is a > 190-km-long structure in the Korean Peninsula traced to the southeastern coast. The scarcity of Quaternary deposits onland precludes any detailed investigation of the Quaternary activity and structure of the Yangsan fault using seismic reflection profiling. We acquired offshore high-resolution seismic profiles to investigate the extension of the Yangsan fault and constrain its Quaternary activity using stratigraphic markers. The seismic profiles reveal a NNE-trending fault system consisting of a main fault and an array of subsidiary faults that displaced Quaternary sequences. Stratigraphic analysis of seismic profiles indicates that the offshore faults were activated repeatedly in the Quaternary. The up-to-the-east sense of throw on the main fault and plan-view pattern of the fault system are explained by dextral strike-slip faulting. The main fault, when projected toward the Korean Peninsula along its strike, aligns well with the Yangsan fault. We suggest that the offshore fault system is a continuation of the Yangsan fault and has spatial correlation with weak but ongoing seismicity.

  7. High Resolution Melting Analysis Targeting hsp70 as a Fast and Efficient Method for the Discrimination of Leishmania Species.

    Directory of Open Access Journals (Sweden)

    Ricardo Andrade Zampieri

    2016-02-01

    Full Text Available Protozoan parasites of the genus Leishmania cause a large spectrum of clinical manifestations known as Leishmaniases. These diseases are increasingly important public health problems in many countries both within and outside endemic regions. Thus, an accurate differential diagnosis is extremely relevant for understanding epidemiological profiles and for the administration of the best therapeutic protocol.Exploring the High Resolution Melting (HRM dissociation profiles of two amplicons using real time polymerase chain reaction (real-time PCR targeting heat-shock protein 70 coding gene (hsp70 revealed differences that allowed the discrimination of genomic DNA samples of eight Leishmania species found in the Americas, including Leishmania (Leishmania infantum chagasi, L. (L. amazonensis, L. (L. mexicana, L. (Viannia lainsoni, L. (V. braziliensis, L. (V. guyanensis, L. (V. naiffi and L. (V. shawi, and three species found in Eurasia and Africa, including L. (L. tropica, L. (L. donovani and L. (L. major. In addition, we tested DNA samples obtained from standard promastigote culture, naturally infected phlebotomines, experimentally infected mice and clinical human samples to validate the proposed protocol.HRM analysis of hsp70 amplicons is a fast and robust strategy that allowed for the detection and discrimination of all Leishmania species responsible for the Leishmaniases in Brazil and Eurasia/Africa with high sensitivity and accuracy. This method could detect less than one parasite per reaction, even in the presence of host DNA.

  8. Vineyard Yield Estimation Based on the Analysis of High Resolution Images Obtained with Artificial Illumination at Night

    Directory of Open Access Journals (Sweden)

    Davinia Font

    2015-04-01

    Full Text Available This paper presents a method for vineyard yield estimation based on the analysis of high-resolution images obtained with artificial illumination at night. First, this paper assesses different pixel-based segmentation methods in order to detect reddish grapes: threshold based, Mahalanobis distance, Bayesian classifier, linear color model segmentation and histogram segmentation, in order to obtain the best estimation of the area of the clusters of grapes in this illumination conditions. The color spaces tested were the original RGB and the Hue-Saturation-Value (HSV. The best segmentation method in the case of a non-occluded reddish table-grape variety was the threshold segmentation applied to the H layer, with an estimation error in the area of 13.55%, improved up to 10.01% by morphological filtering. Secondly, after segmentation, two procedures for yield estimation based on a previous calibration procedure have been proposed: (1 the number of pixels corresponding to a cluster of grapes is computed and converted directly into a yield estimate; and (2 the area of a cluster of grapes is converted into a volume by means of a solid of revolution, and this volume is converted into a yield estimate; the yield errors obtained were 16% and −17%, respectively.

  9. Analysis of stationary fuel cell dynamic ramping capabilities and ultra capacitor energy storage using high resolution demand data

    Science.gov (United States)

    Meacham, James R.; Jabbari, Faryar; Brouwer, Jacob; Mauzey, Josh L.; Samuelsen, G. Scott

    Current high temperature fuel cell (HTFC) systems used for stationary power applications (in the 200-300 kW size range) have very limited dynamic load following capability or are simply base load devices. Considering the economics of existing electric utility rate structures, there is little incentive to increase HTFC ramping capability beyond 1 kWs -1 (0.4% s -1). However, in order to ease concerns about grid instabilities from utility companies and increase market adoption, HTFC systems will have to increase their ramping abilities, and will likely have to incorporate electrical energy storage (EES). Because batteries have low power densities and limited lifetimes in highly cyclic applications, ultra capacitors may be the EES medium of choice. The current analyses show that, because ultra capacitors have a very low energy storage density, their integration with HTFC systems may not be feasible unless the fuel cell has a ramp rate approaching 10 kWs -1 (4% s -1) when using a worst-case design analysis. This requirement for fast dynamic load response characteristics can be reduced to 1 kWs -1 by utilizing high resolution demand data to properly size ultra capacitor systems and through demand management techniques that reduce load volatility.

  10. Molecular differentiation of Opisthorchis viverrini and Clonorchis sinensis eggs by multiplex real-time PCR with high resolution melting analysis.

    Science.gov (United States)

    Kaewkong, Worasak; Intapan, Pewpan M; Sanpool, Oranuch; Janwan, Penchom; Thanchomnang, Tongjit; Laummaunwai, Porntip; Lulitanond, Viraphong; Doanh, Pham Ngoc; Maleewong, Wanchai

    2013-12-01

    Opisthorchis viverrini and Clonorchis sinensis are parasites known to be carcinogenic and causative agents of cholangiocarcinoma in Asia. The standard method for diagnosis for those parasite infections is stool examination to detect parasite eggs. However, the method has low sensitivity, and eggs of O. viverrini and C. sinensis are difficult to distinguish from each other and from those of some other trematodes. Here, we report a multiplex real-time PCR coupled with high resolution melting (HRM) analysis for the differentiation of O. viverrini and C. sinensis eggs in fecal samples. Using 2 pairs of species-specific primers, DNA sequences from a portion of the mitochondrial NADH dehydrogenase subunit 2 (nad 2) gene, were amplified to generate 209 and 165 bp products for O. viverrini and C. sinensis, respectively. The distinct characteristics of HRM patterns were analyzed, and the melting temperatures peaked at 82.4±0.09℃ and 85.9±0.08℃ for O. viverrini and C. sinensis, respectively. This technique was able to detect as few as 1 egg of O. viverrini and 2 eggs of C. sinensis in a 150 mg fecal sample, which is equivalent to 7 and 14 eggs per gram of feces, respectively. The method is species-specific, rapid, simple, and does not require fluorescent probes or post-PCR processing for discrimination of eggs of the 2 species. It offers a new tool for differentiation and detection of Asian liver fluke infections in stool specimens.

  11. Rapid detection and differentiation of Clonorchis sinensis and Opisthorchis viverrini using real-time PCR and high resolution melting analysis.

    Science.gov (United States)

    Cai, Xian-Quan; Yu, Hai-Qiong; Li, Rong; Yue, Qiao-Yun; Liu, Guo-Hua; Bai, Jian-Shan; Deng, Yan; Qiu, De-Yi; Zhu, Xing-Quan

    2014-01-01

    Clonorchis sinensis and Opisthorchis viverrini are both important fish-borne pathogens, causing serious public health problem in Asia. The present study developed an assay integrating real-time PCR and high resolution melting (HRM) analysis for the specific detection and rapid identification of C. sinensis and O. viverrini. Primers targeting COX1 gene were highly specific for these liver flukes, as evidenced by the negative amplification of closely related trematodes. Assays using genomic DNA extracted from the two flukes yielded specific amplification and their identity was confirmed by sequencing, having the accuracy of 100% in reference to conventional methods. The assay was proved to be highly sensitive with a detection limit below 1 pg of purified genomic DNA, 5 EPG, or 1 metacercaria of C. sinensis. Moreover, C. sinensis and O. viverrini were able to be differentiated by their HRM profiles. The method can reduce labor of microscopic examination and the contamination of agarose electrophoresis. Moreover, it can differentiate these two flukes which are difficult to be distinguished using other methods. The established method provides an alternative tool for rapid, simple, and duplex detection of C. sinensis and O. viverrini.

  12. Rapid Detection and Differentiation of Clonorchis sinensis and Opisthorchis viverrini Using Real-Time PCR and High Resolution Melting Analysis

    Directory of Open Access Journals (Sweden)

    Xian-Quan Cai

    2014-01-01

    Full Text Available Clonorchis sinensis and Opisthorchis viverrini are both important fish-borne pathogens, causing serious public health problem in Asia. The present study developed an assay integrating real-time PCR and high resolution melting (HRM analysis for the specific detection and rapid identification of C. sinensis and O. viverrini. Primers targeting COX1 gene were highly specific for these liver flukes, as evidenced by the negative amplification of closely related trematodes. Assays using genomic DNA extracted from the two flukes yielded specific amplification and their identity was confirmed by sequencing, having the accuracy of 100% in reference to conventional methods. The assay was proved to be highly sensitive with a detection limit below 1 pg of purified genomic DNA, 5 EPG, or 1 metacercaria of C. sinensis. Moreover, C. sinensis and O. viverrini were able to be differentiated by their HRM profiles. The method can reduce labor of microscopic examination and the contamination of agarose electrophoresis. Moreover, it can differentiate these two flukes which are difficult to be distinguished using other methods. The established method provides an alternative tool for rapid, simple, and duplex detection of C. sinensis and O. viverrini.

  13. High-resolution broadband spectroscopy using externally dispersed interferometry at the Hale telescope: Part 1, data analysis and results

    Science.gov (United States)

    Erskine, David J.; Edelstein, Jerry; Wishnow, Edward H.; Sirk, Martin; Muirhead, Philip S.; Muterspaugh, Matthew W.; Lloyd, James P.; Ishikawa, Yuzo; McDonald, Eliza A.; Shourt, William V.; Vanderburg, Andrew M.

    2016-04-01

    High-resolution broadband spectroscopy at near-infrared wavelengths (950 to 2450 nm) has been performed using externally dispersed interferometry (EDI) at the Hale telescope at Mt. Palomar. Observations of stars were performed with the "TEDI" interferometer mounted within the central hole of the 200-in. primary mirror in series with the comounted TripleSpec near-infrared echelle spectrograph. These are the first multidelay EDI demonstrations on starlight, as earlier measurements used a single delay or laboratory sources. We demonstrate very high (10×) resolution boost, from original 2700 to 27,000 with current set of delays (up to 3 cm), well beyond the classical limits enforced by the slit width and detector pixel Nyquist limit. Significantly, the EDI used with multiple delays rather than a single delay as used previously yields an order of magnitude or more improvement in the stability against native spectrograph point spread function (PSF) drifts along the dispersion direction. We observe a dramatic (20×) reduction in sensitivity to PSF shift using our standard processing. A recently realized method of further reducing the PSF shift sensitivity to zero is described theoretically and demonstrated in a simple simulation which produces a 350× times reduction. We demonstrate superb rejection of fixed pattern noise due to bad detector pixels-EDI only responds to changes in pixel intensity synchronous to applied dithering. This part 1 describes data analysis, results, and instrument noise. A section on theoretical photon limited sensitivity is in a companion paper, part 2.

  14. Fluorine determination in coal using high-resolution graphite furnace molecular absorption spectrometry and direct solid sample analysis

    Science.gov (United States)

    Machado, Patrícia M.; Morés, Silvane; Pereira, Éderson R.; Welz, Bernhard; Carasek, Eduardo; de Andrade, Jailson B.

    2015-03-01

    The absorption of the calcium mono-fluoride (CaF) molecule has been employed in this study for the determination of fluorine in coal using direct solid sample analysis and high-resolution continuum source graphite furnace molecular absorption spectrometry (HR-CS GF MAS). The rotational line at 606.440 nm was used for measuring the molecular absorption in the gas phase. The pyrolysis and vaporization temperatures were 700 °C and 2100 °C, respectively. Different chemical modifiers have been studied, such as Pd and Ir as permanent modifiers, and Pd and the mixed Pd/Mg modifier in solution. The limit of detection and the characteristic mass were 0.3 and 0.1 ng F, respectively. One certified reference material (CRM) of coal (NIST 1635) and four CRMs with a non-certified value for F (SARM 18, SARM 20, BCR 40, BCR 180) were used to evaluate the accuracy and precision of the method, obtaining good agreement (104%) with the certified value and with the informed values (ranging from 90 to 103%).

  15. High resolution analysis of the chromatin landscape of the IgE switch region in human B cells.

    Directory of Open Access Journals (Sweden)

    Sandeep Dayal

    Full Text Available Antibodies are assembled by a highly orchestrated series of recombination events during B cell development. One of these events, class switch recombination, is required to produce the IgG, IgE and IgA antibody isotypes characteristic of a secondary immune response. The action of the enzyme activation induced cytidine deaminase is now known to be essential for the initiation of this recombination event. Previous studies have demonstrated that the immunoglobulin switch regions acquire distinct histone modifications prior to recombination. We now present a high resolution analysis of these histone modifications across the IgE switch region prior to the initiation of class switch recombination in primary human B cells and the human CL-01 B cell line. These data show that upon stimulation with IL-4 and an anti-CD40 antibody that mimics T cell help, the nucleosomes of the switch regions are highly modified on histone H3, accumulating acetylation marks and tri-methylation of lysine 4. Distinct peaks of modified histones are found across the switch region, most notably at the 5' splice donor site of the germline (I exon, which also accumulates AID. These data suggest that acetylation and K4 tri-methylation of histone H3 may represent marks of recombinationally active chromatin and further implicates splicing in the regulation of AID action.

  16. High Resolution Melting Analysis for Rapid Mutation Screening in Gyrase and Topoisomerase IV Genes in Quinolone-Resistant Salmonella enterica

    Directory of Open Access Journals (Sweden)

    Soo Tein Ngoi

    2014-01-01

    Full Text Available The increased Salmonella resistance to quinolones and fluoroquinolones is a public health concern in the Southeast Asian region. The objective of this study is to develop a high resolution melt curve (HRM assay to rapidly screen for mutations in quinolone-resistant determining region (QRDR of gyrase and topoisomerase IV genes. DNA sequencing was performed on 62 Salmonella strains to identify mutations in the QRDR of gyrA, gyrB, parC, and parE genes. Mutations were detected in QRDR of gyrA (n=52; S83F, S83Y, S83I, D87G, D87Y, and D87N and parE (n=1; M438I. Salmonella strains with mutations within QRDR of gyrA are generally more resistant to nalidixic acid (MIC 16>256 μg/mL. Mutations were uncommon within the QRDR of gyrB, parC, and parE genes. In the HRM assay, mutants can be distinguished from the wild-type strains based on the transition of melt curves, which is more prominent when the profiles are displayed in difference plot. In conclusion, HRM analysis allows for rapid screening for mutations at the QRDRs of gyrase and topoisomerase IV genes in Salmonella. This assay markedly reduced the sequencing effort involved in mutational studies of quinolone-resistance genes.

  17. High-resolution dynamic imaging and quantitative analysis of lung cancer xenografts in nude mice using clinical PET/CT

    Science.gov (United States)

    Wang, Ying Yi; Wang, Kai; Xu, Zuo Yu; Song, Yan; Wang, Chu Nan; Zhang, Chong Qing; Sun, Xi Lin; Shen, Bao Zhong

    2017-01-01

    Considering the general application of dedicated small-animal positron emission tomography/computed tomography is limited, an acceptable alternative in many situations might be clinical PET/CT. To estimate the feasibility of using clinical PET/CT with [F-18]-fluoro-2-deoxy-D-glucose for high-resolution dynamic imaging and quantitative analysis of cancer xenografts in nude mice. Dynamic clinical PET/CT scans were performed on xenografts for 60 min after injection with [F-18]-fluoro-2-deoxy-D-glucose. Scans were reconstructed with or without SharpIR method in two phases. And mice were sacrificed to extracting major organs and tumors, using ex vivo γ-counting as a reference. Strikingly, we observed that the image quality and the correlation between the all quantitive data from clinical PET/CT and the ex vivo counting was better with the SharpIR reconstructions than without. Our data demonstrate that clinical PET/CT scanner with SharpIR reconstruction is a valuable tool for imaging small animals in preclinical cancer research, offering dynamic imaging parameters, good image quality and accurate data quatification. PMID:28881772

  18. High Resolution Melt (HRM analysis is an efficient tool to genotype EMS mutants in complex crop genomes

    Directory of Open Access Journals (Sweden)

    Lochlainn Seosamh Ó

    2011-12-01

    Full Text Available Abstract Background Targeted Induced Loci Lesions IN Genomes (TILLING is increasingly being used to generate and identify mutations in target genes of crop genomes. TILLING populations of several thousand lines have been generated in a number of crop species including Brassica rapa. Genetic analysis of mutants identified by TILLING requires an efficient, high-throughput and cost effective genotyping method to track the mutations through numerous generations. High resolution melt (HRM analysis has been used in a number of systems to identify single nucleotide polymorphisms (SNPs and insertion/deletions (IN/DELs enabling the genotyping of different types of samples. HRM is ideally suited to high-throughput genotyping of multiple TILLING mutants in complex crop genomes. To date it has been used to identify mutants and genotype single mutations. The aim of this study was to determine if HRM can facilitate downstream analysis of multiple mutant lines identified by TILLING in order to characterise allelic series of EMS induced mutations in target genes across a number of generations in complex crop genomes. Results We demonstrate that HRM can be used to genotype allelic series of mutations in two genes, BraA.CAX1a and BraA.MET1.a in Brassica rapa. We analysed 12 mutations in BraA.CAX1.a and five in BraA.MET1.a over two generations including a back-cross to the wild-type. Using a commercially available HRM kit and the Lightscanner™ system we were able to detect mutations in heterozygous and homozygous states for both genes. Conclusions Using HRM genotyping on TILLING derived mutants, it is possible to generate an allelic series of mutations within multiple target genes rapidly. Lines suitable for phenotypic analysis can be isolated approximately 8-9 months (3 generations from receiving M3 seed of Brassica rapa from the RevGenUK TILLING service.

  19. Evaluation of the U.S. Geological Survey Landsat burned area essential climate variable across the conterminous U.S. using commercial high-resolution imagery

    Science.gov (United States)

    Vanderhoof, Melanie; Brunner, Nicole M.; Beal, Yen-Ju G.; Hawbaker, Todd J.

    2017-01-01

    The U.S. Geological Survey has produced the Landsat Burned Area Essential Climate Variable (BAECV) product for the conterminous United States (CONUS), which provides wall-to-wall annual maps of burned area at 30 m resolution (1984–2015). Validation is a critical component in the generation of such remotely sensed products. Previous efforts to validate the BAECV relied on a reference dataset derived from Landsat, which was effective in evaluating the product across its timespan but did not allow for consideration of inaccuracies imposed by the Landsat sensor itself. In this effort, the BAECV was validated using 286 high-resolution images, collected from GeoEye-1, QuickBird-2, Worldview-2 and RapidEye satellites. A disproportionate sampling strategy was utilized to ensure enough burned area pixels were collected. Errors of omission and commission for burned area averaged 22 ± 4% and 48 ± 3%, respectively, across CONUS. Errors were lowest across the western U.S. The elevated error of commission relative to omission was largely driven by patterns in the Great Plains which saw low errors of omission (13 ± 13%) but high errors of commission (70 ± 5%) and potentially a region-growing function included in the BAECV algorithm. While the BAECV reliably detected agricultural fires in the Great Plains, it frequently mapped tilled areas or areas with low vegetation as burned. Landscape metrics were calculated for individual fire events to assess the influence of image resolution (2 m, 30 m and 500 m) on mapping fire heterogeneity. As the spatial detail of imagery increased, fire events were mapped in a patchier manner with greater patch and edge densities, and shape complexity, which can influence estimates of total greenhouse gas emissions and rates of vegetation recovery. The increasing number of satellites collecting high-resolution imagery and rapid improvements in the frequency with which imagery is being collected means greater opportunities to utilize these sources

  20. Stereo analysis of high-resolution SAR images for building height estimation in cases of orthogonal aspect directions

    Science.gov (United States)

    Soergel, Uwe; Michaelsen, Eckart; Thiele, Antje; Cadario, Erich; Thoennessen, Ulrich

    SAR stereo image analysis for 3D information extraction is mostly carried out based on imagery taken under same-side or opposite-side viewing conditions. For urban scenes in practice stereo is up to now usually restricted to the first configuration, because increasing image dissimilarity connected with rising illumination direction differences leads to a lack of suitable features for matching, especially in the case of low or medium resolution data. However, due to two developments SAR stereo from arbitrary viewing conditions becomes an interesting option for urban information extraction. The first one is the availability of airborne sensor systems, which are capable of more flexible data acquisition in comparison to satellite sensors. This flexibility enables multi-aspect analysis of objects in built-up areas for various kinds of purpose, such as building recognition, road network extraction, or traffic monitoring. The second development is the significant improvement of the geometric resolution providing a high level of detail especially of roof features, which can be observed from a wide span of viewpoints. In this paper, high-resolution SAR images of an urban scene are analyzed in order to infer buildings and their height from the different layover effects in views taken from orthogonal aspect angles. High level object matching is proposed that relies on symbolic data, representing suitable features of urban objects. Here, a knowledge-based approach is applied, which is realized by a production system that codes a set of suitable principles of perceptual grouping in its production rules. The images are analyzed separately for the presence of certain object groups and their characteristics frequently appearing on buildings, such as salient rows of point targets, rectangular structures or symmetries. The stereo analysis is then accomplished by means of productions that combine and match these 2D image objects and infer their height by 3D clustering. The approach

  1. High-resolution long-reach distributed Brillouin sensing based on combined time-domain and correlation-domain analysis.

    Science.gov (United States)

    Elooz, David; Antman, Yair; Levanon, Nadav; Zadok, Avi

    2014-03-24

    A new scheme for distributed Brillouin sensing of strain and temperature in optical fibers is proposed, analyzed and demonstrated experimentally. The technique combines between time-domain and correlation-domain analysis. Both Brillouin pump and signal waves are repeatedly co-modulated by a relatively short, high-rate phase sequence, which introduces Brillouin interactions in a large number of discrete correlation peaks. In addition, the pump wave is also modulated by a single amplitude pulse, which leads to a temporal separation between the generation of different peaks. The Brillouin amplification of the signal wave at individual peak locations is resolved in the time domain. The technique provides the high spatial resolution and long range of unambiguous measurement offered by correlation-domain Brillouin analysis, together with reduced acquisition time through the simultaneous interrogation of a large number of resolution points. In addition, perfect Golomb codes are used in the phase modulation of the two waves instead of random sequences, in order to reduce noise due to residual, off-peak Brillouin interactions. The principle of the method is supported by extensive numerical simulations. Using the proposed scheme, the Brillouin gain spectrum is mapped experimentally along a 400 m-long fiber under test with a spatial resolution of 2 cm, or 20,000 resolution points, with only 127 scans per choice of frequency offset between pump and signal. Compared with corresponding phase-coded, Brillouin correlation domain analysis schemes with equal range and resolution, the acquisition time is reduced by a factor of over 150. A 5 cm-long hot spot, located towards the output end of the pump wave, is properly identified in the measurements. The method represents a significant advance towards practical high-resolution and long range Brillouin sensing systems.

  2. Strain-level characterization of nonstarter lactic acid bacteria in Norvegia cheese by high-resolution melt analysis.

    Science.gov (United States)

    Porcellato, D; Østlie, H M; Liland, K H; Rudi, K; Isaksson, T; Skeie, S B

    2012-09-01

    The nonstarter lactic acid bacteria (NSLAB) constitute an important microbial group found during cheese ripening and they are thought to be fundamental to the quality of cheese. Rapid and accurate diagnostic tests for NSLAB are important for cheese quality control and in understanding the cheese ripening process. Here, we present a novel rapid approach for strain-level characterization through combined 16S rRNA gene and repetitive sequence-based high-resolution melt analysis (HRM). The approach was demonstrated through the characterization of 94 isolates from Norvegia, a Gouda-type cheese. The HRM profiles of the V1 and V3 variable regions of the 16S rRNA gene of the isolates were compared with the HRM profiles of 13 reference strains. The HRM profile comparison of the V1 and V3 regions of the 16S rRNA gene allowed discrimination of isolates and reference strains. Among the cheese isolates, Lactobacillus casei/paracasei (62 isolates) and Lactobacillus plantarum/Lactobacillus pentosus (27 isolates) were the dominant species, whereas Lactobacillus curvatus/Lactobacillus sakei were found occasionally (5 isolates). The HRM profiling of repetitive sequence-based PCR using the (GTG)(5) primer was developed for strain-level characterization. The clustering analysis of the HRM profiles showed high discriminatory power, similar to that of cluster analysis based on the gel method. In conclusion, the HRM approach in this study may be applied as a fast, accurate, and reproducible method for characterization of the NSLAB microflora in cheese and may be applicable to other microbial environments following selective plate culturing. Copyright © 2012 American Dairy Science Association. Published by Elsevier Inc. All rights reserved.

  3. High resolution mass spectrometry coupled with multivariate data analysis revealing plasma lipidomic alteration in ovarian cancer in Asian women.

    Science.gov (United States)

    Zhang, Yangyang; Liu, Yingying; Li, Lin; Wei, Jinchao; Xiong, Shaoxiang; Zhao, Zhenwen

    2016-04-01

    Ovarian cancer (OC) is the most common cause of death from gynecologic malignancies in women. The identification of reliable diagnostic biomarkers for the early detection of this deadly disease is critical for reducing the mortality rate of OC. Plasma lysophosphatidic acid (LPA) levels were increased from OC patients vs. healthy controls. Therefore, lipidomics may represent an excellent developing prospect for the discovery of diagnostic biomarkers of OC. In this study, a nontargeted lipidomics approach based on ultra performance liquid chromatography-electrospray ionization-QTOF-mass spectrometry (UPLC-ESI-QTOF-MS) combined with multivariate data analysis, including principal component analysis (PCA) and (orthogonal) partial least squared discriminant analysis [(O)PLS-DA] was applied for the investigation of potential diagnostic biomarkers in plasma of OC patients. Patients with OC could be distinguished from healthy individuals and patients with benign gynecological tumor disease by this method, which shows a significant lipid perturbation in this disease. With the assistance of high resolution and high accuracy of MS and MS/MS data, the potential markers including lysophosphatidylcholines (LPCs), phosphatidylcholines (PCs) and triacylglycerols (TGs) with specific fatty acid chains, were identified. Interestingly, LPCs were up-regulated and PCs and TGs were down-regulated, compared OC group with benign tumor and normal control groups, and the glycerophospholipid metabolism emerged as a key pathway, in particular, the phospholipase A2 (PLA2) enzyme activity, that was disregulated in the disease. This study may provide new insight into underlying mechanisms for OC and proves that MS-based lipidomics is a powerful method in discovering new potential clinical biomarkers for diseases. Copyright © 2015 Elsevier B.V. All rights reserved.

  4. ISDoT: in situ decellularization of tissues for high-resolution imaging and proteomic analysis of native extracellular matrix

    DEFF Research Database (Denmark)

    Mayorca-Guiliani, Alejandro E.; Madsen, Chris D.; Cox, Thomas R.

    2017-01-01

    decellularization of tissues (ISDoT), it allows whole organs to be decellularized, leaving native ECM architecture intact. These three-dimensional decellularized tissues can be studied using high-resolution fluorescence and second harmonic imaging, and can be used for quantitative proteomic interrogation of the ECM....... Our method is superior to other methods tested in its ability to preserve the structural integrity of the ECM, facilitate high-resolution imaging and quantitatively detect ECM proteins. In particular, we performed high-resolution sub-micron imaging of matrix topography in normal tissue and over......The extracellular matrix (ECM) is a master regulator of cellular phenotype and behavior. It has a crucial role in both normal tissue homeostasis and disease pathology. Here we present a fast and efficient approach to enhance the study of ECM composition and structure. Termed in situ...

  5. Optical high-resolution analysis of rotational movement: testing circular spatial filter velocimetry (CSFV) with rotating biological cells

    Science.gov (United States)

    Schaeper, M.; Schmidt, R.; Kostbade, R.; Damaschke, N.; Gimsa, J.

    2016-07-01

    Circular spatial filtering velocimetry (CSFV) was tested during the microscopic registration of the individual rotations of baker’s yeast cells. Their frequency-dependent rotation (electrorotation; ER) was induced in rotating electric fields, which were generated in a glass chip chamber with four electrodes (600 μm tip-to-tip distance). The electrodes were driven with sinusoidal quadrature signals of 5 or 8 V PP with frequencies up to 3 MHz. The observed cell rotation was of the order of 1-100 s per revolution. At each measuring frequency, the independent rotations of up to 20 cells were simultaneously recorded with a high-speed camera. CSFV was software-implemented using circular spatial filters with harmonic gratings. ER was proportional to the phase shift between the values of the spatial filtering signal of consecutive frames. ER spectra obtained by CSFV from the rotation velocities at different ER-field frequencies agreed well with manual measurements and theoretical spectra. Oscillations in the rotation velocity of a single cell in the elliptically polarized field near an electrode, which were resolved by CSFV, could not be visually discerned. ER step responses after field-on were recorded at 2500 frames per second. Analysis proved the high temporal resolution of CSFV and revealed a largely linear torque-friction relation during the acceleration phase of ER. Future applications of CSFV will allow for the simple and cheap automated high-resolution analysis of rotational movements where mechanical detection has too low a resolution or is not possible, e.g. in polluted environments or for gas and fluid vortices, microscopic objects, etc.

  6. Detecting differential allelic expression using high-resolution melting curve analysis: application to the breast cancer susceptibility gene CHEK2

    Directory of Open Access Journals (Sweden)

    Sinilnikova Olga

    2011-05-01

    Full Text Available Abstract Background The gene CHEK2 encodes a checkpoint kinase playing a key role in the DNA damage pathway. Though CHEK2 has been identified as an intermediate breast cancer susceptibility gene, only a small proportion of high-risk families have been explained by genetic variants located in its coding region. Alteration in gene expression regulation provides a potential mechanism for generating disease susceptibility. The detection of differential allelic expression (DAE represents a sensitive assay to direct the search for a functional sequence variant within the transcriptional regulatory elements of a candidate gene. We aimed to assess whether CHEK2 was subject to DAE in lymphoblastoid cell lines (LCLs from high-risk breast cancer patients for whom no mutation in BRCA1 or BRCA2 had been identified. Methods We implemented an assay based on high-resolution melting (HRM curve analysis and developed an analysis tool for DAE assessment. Results We observed allelic expression imbalance in 4 of the 41 LCLs examined. All four were carriers of the truncating mutation 1100delC. We confirmed previous findings that this mutation induces non-sense mediated mRNA decay. In our series, we ruled out the possibility of a functional sequence variant located in the promoter region or in a regulatory element of CHEK2 that would lead to DAE in the transcriptional regulatory milieu of freely proliferating LCLs. Conclusions Our results support that HRM is a sensitive and accurate method for DAE assessment. This approach would be of great interest for high-throughput mutation screening projects aiming to identify genes carrying functional regulatory polymorphisms.

  7. Quantitative evaluation of DNMT3B promoter methylation in breast cancer patients using differential high resolution melting analysis.

    Science.gov (United States)

    Naghitorabi, M; Mohammadi Asl, J; Mir Mohammad Sadeghi, H; Rabbani, M; Jafarian-Dehkordi, A; Javanmard, Haghjooye S

    2013-07-01

    DNA methylation plays an important role in carcinogenesis through epigenetic silencing of tumor suppressor genes. Aberrant methylation usually results from changes in the activity of DNA methyltransferases (DNMTs). Some studies show that the overexpression of the DNMTs may lead to aberrant methylation of tumor suppressor genes. Also the overexpression of DNMTs may be related to methylation status of their genes. Due to limited number of studies on DNMT3B promoter methylation, this study was performed to quantitatively measure the methylation level of DNMT3B gene in archival formalin fixed paraffin embedded (FFPE) tissues from breast cancer patients. Using differential high resolution melting analysis (D-HRMA) technology, the methylation level of DNMT3B gene promoter was quantified in 98 breast cancer FFPE tissues and also 10 fresh frozen normal tissue samples. Statistical analyses used for analyzing the correlation between the methylation and clinical variables. All the normal samples were found to be methylated at the DNMT3B promoter (the average methylation level 3.34%). Patients were identified as hypo-methylated (mean methylation level 0.8%), methylated (mean methylation level 2.48%) and hyper-methylated (mean methylation level 10.5%). Statistical analysis showed a significant correlation between the methylation status and the sample type, cancer type and tumor size. Also the methylation level was significantly associated with histologic grade. It is concluded that quantification of DNMT3B promoter methylation might be used as a reliable and sensitive diagnostic and prognostic tool in breast cancer. Also D-HRMA is demonstrated as a rapid and cost effective method for quantitative evaluation of promoter methylation.

  8. Arterial elasticity imaging: comparison of finite-element analysis models with high-resolution ultrasound speckle tracking

    Directory of Open Access Journals (Sweden)

    Park Dae

    2010-06-01

    Full Text Available Abstract Background The nonlinear mechanical properties of internal organs and tissues may be measured with unparalleled precision using ultrasound imaging with phase-sensitive speckle tracking. The many potential applications of this important noninvasive diagnostic approach include measurement of arterial stiffness, which is associated with numerous major disease processes. The accuracy of previous ultrasound measurements of arterial stiffness and vascular elasticity has been limited by the relatively low strain of nonlinear structures under normal physiologic pressure and the measurement assumption that the effect of the surrounding tissue modulus might be ignored in both physiologic and pressure equalized conditions. Methods This study performed high-resolution ultrasound imaging of the brachial artery in a healthy adult subject under normal physiologic pressure and the use of external pressure (pressure equalization to increase strain. These ultrasound results were compared to measurements of arterial strain as determined by finite-element analysis models with and without a surrounding tissue, which was represented by homogenous material with fixed elastic modulus. Results Use of the pressure equalization technique during imaging resulted in average strain values of 26% and 18% at the top and sides, respectively, compared to 5% and 2%, at the top and sides, respectively, under physiologic pressure. In the artery model that included surrounding tissue, strain was 19% and 16% under pressure equalization versus 9% and 13% at the top and sides, respectively, under physiologic pressure. The model without surrounding tissue had slightly higher levels of strain under physiologic pressure compared to the other model, but the resulting strain values under pressure equalization were > 60% and did not correspond to experimental values. Conclusions Since pressure equalization may increase the dynamic range of strain imaging, the effect of the

  9. Two- and three-dimensional quantitative image analysis of coronary arteries from high-resolution histological sections

    Science.gov (United States)

    Holmes, David R., III; Robb, Richard A.

    2000-05-01

    The study of coronary arteries has evolved from examining gross anatomy and morphology to scrutinizing micro-anatomy and cellular composition. Technological advances such as high-powered digital microscopes and high precision cutting devices have allowed clinicians to examine coronary artery morphology and pathology at micron resolution. Our work explores the composition of normal coronary arteries in order to provide the foundation for further study of remodeled tissue. The first of two coronary arteries was sliced into 442 sections with 4 micron inter-slice spacing. Each slice was stained for elastin and collagen. The second coronary artery was sectioned into 283 slices, also with 4 micron resolution. These slices were stained for cellular nuclei and smooth muscle. High sectioned into 283 slices, also with 4 micron resolution. These slices were stained for cellular nuclei and smooth muscle. High resolution light microscopy was used to image the sections. The data was analyzed for collagen/elastin content and nuclei density, respectively. Processing of this type of data is challenging in the areas of segmentation, visualization and quantification. Segmentation was confounded by variation in image quality as well as complexity of the coronary tissue. These problems were overcome by the development of 'smart' thresholding algorithms for segmentation. In addition, morphology and image statistics were used to further refine the result of the segmentation. Specificity/sensitivity analysis suggests that automatic segmentation can be very effective. 3D visualization of coronary arteries is challenging due to multiple tissue layers. Method such as summed voxel projection and maximum intensity projection appear to be effective. Shading methods also provide adequate visualization, however it is important to incorporate combined 2D and 3D displays. Surface rendering techniques are useful tools for visualizing parametric data. Quantification in 3D is simple in practice but

  10. Multiplex Real-Time PCR Assay with High-Resolution Melting Analysis for Characterization of Antimicrobial Resistance in Neisseria gonorrhoeae.

    Science.gov (United States)

    Donà, Valentina; Kasraian, Sara; Lupo, Agnese; Guilarte, Yuvia N; Hauser, Christoph; Furrer, Hansjakob; Unemo, Magnus; Low, Nicola; Endimiani, Andrea

    2016-08-01

    Resistance to antibiotics used against Neisseria gonorrhoeae infections is a major public health concern. Antimicrobial resistance (AMR) testing relies on time-consuming culture-based methods. Development of rapid molecular tests for detection of AMR determinants could provide valuable tools for surveillance and epidemiological studies and for informing individual case management. We developed a fast (<1.5-h) SYBR green-based real-time PCR method with high-resolution melting (HRM) analysis. One triplex and three duplex reactions included two sequences for N. gonorrhoeae identification and seven determinants of resistance to extended-spectrum cephalosporins (ESCs), azithromycin, ciprofloxacin, and spectinomycin. The method was validated by testing 39 previously fully characterized N. gonorrhoeae strains, 19 commensal Neisseria species strains, and an additional panel of 193 gonococcal isolates. Results were compared with results of culture-based AMR determination. The assay correctly identified N. gonorrhoeae and the presence or absence of the seven AMR determinants. There was some cross-reactivity with nongonococcal Neisseria species, and the detection limit was 10(3) to 10(4) genomic DNA (gDNA) copies/reaction. Overall, the platform accurately detected resistance to ciprofloxacin (sensitivity and specificity, 100%), ceftriaxone (sensitivity, 100%; specificity, 90%), cefixime (sensitivity, 92%; specificity, 94%), azithromycin (sensitivity and specificity, 100%), and spectinomycin (sensitivity and specificity, 100%). In conclusion, our methodology accurately detects mutations that generate resistance to antibiotics used to treat gonorrhea. Low assay sensitivity prevents direct diagnostic testing of clinical specimens, but this method can be used to screen collections of gonococcal isolates for AMR more quickly than current culture-based AMR testing.

  11. High-Resolution Live-Cell Imaging and Analysis by Laser Desorption/Ionization Droplet Delivery Mass Spectrometry.

    Science.gov (United States)

    Lee, Jae Kyoo; Jansson, Erik T; Nam, Hong Gil; Zare, Richard N

    2016-05-17

    We have developed a new ambient-ionization mass spectrometric technique named laser desorption/ionization droplet delivery mass spectrometry (LDIDD-MS). LDIDD-MS permits high-resolution, high-sensitivity imaging of tissue samples as well as measurements of both single-cell apoptosis and live-cell exocytosis. A pulsed (15 Hz) UV laser beam (266 nm) is focused on a surface covered with target analytes to trigger their desorption and ionization. A spray of liquid droplets is simultaneously directed onto the laser-focused surface region to capture the ionized analytes and deliver them to a mass spectrometer. The approach of rapid and effective capturing of molecules after laser desorption/ionization allows the limit of detection for the amino acid lysine to be as low as 2 amol under ambient ionization conditions. Two-dimensional maps of the desorbed/ionized species are recorded by moving the sample on an XY translational stage. The spatial resolution for imaging with LDIDD-MS was determined to be 2.4 μm for an ink-printed pattern and 3 μm for mouse brain tissue. We applied LDIDD-MS to single-cell analysis of apoptotic HEK cells. Differences were observed in the profiles of fatty acids and lipids between healthy HEK cells and those undergoing apoptosis. We observed upregulation of phosphatidylcholine (PC) with a relatively shorter carbon chain length and downregulation of PC with a relatively longer carbon chain length. We also applied LDIDD-MS for a real-time direct measurements of live-cell exocytosis. The catecholamine dopamine and trace amines (phenethylamine and tyramine) were detected from live PC12 cells without damaging them.

  12. Primate genotyping via high resolution melt analysis: rapid and reliable identification of color vision status in wild lemurs.

    Science.gov (United States)

    Jacobs, Rachel L; Spriggs, Amanda N; MacFie, Tammie S; Baden, Andrea L; Irwin, Mitchell T; Wright, Patricia C; Louis, Edward E; Lawler, Richard R; Mundy, Nicholas I; Bradley, Brenda J

    2016-10-01

    Analyses of genetic polymorphisms can aid our understanding of intra- and interspecific variation in primate sociality, ecology, and behavior. Studies of primate opsin genes are prime examples of this, as single nucleotide variants (SNVs) in the X-linked opsin gene underlie variation in color vision. For primate species with polymorphic trichromacy, genotyping opsin SNVs can generally indicate whether individual primates are red-green color-blind (denoted homozygous M or homozygous L) or have full trichromatic color vision (heterozygous ML). Given the potential influence of color vision on behavior and fitness, characterizing the color vision status of study subjects is becoming commonplace for many primate field projects. Such studies traditionally involve a multi-step sequencing-based method that can be costly and time-consuming. Here we present a new reliable, rapid, and relatively inexpensive method for characterizing color vision in primate populations using high resolution melt analysis (HRMA). Using lemurs as a case study, we characterized variation at exons 3 and/or 5 of the X-linked opsin gene for 87 individuals representing nine species. We scored opsin genotypes and color vision status using both traditional sequencing-based methods as well as our novel melting-curve based HRMA protocol. For each species, the melting curves of varying genotypes (homozygous M, homozygous L, heterozygous ML) differed in melting temperature and/or shape. Melting curves for each sample were consistent across replicates, and genotype-specific melting curves were consistent across DNA sources (blood vs. feces). We show that opsin genotypes can be quickly and reliably scored using HRMA once lab-specific reference curves have been developed based on known genotypes. Although the protocol presented here focuses on genotyping lemur opsin loci, we also consider the larger potential for applying this approach to various types of genetic studies of primate populations.

  13. A new method for high-resolution methane measurements on polar ice cores using continuous flow analysis.

    Science.gov (United States)

    Schüpbach, Simon; Federer, Urs; Kaufmann, Patrik R; Hutterli, Manuel A; Buiron, Daphné; Blunier, Thomas; Fischer, Hubertus; Stocker, Thomas F

    2009-07-15

    Methane (CH4) is the second most important anthropogenic greenhouse gas in the atmosphere. Rapid variations of the CH4 concentration, as frequently registered, for example, during the last ice age, have been used as reliable time markers for the definition of a common time scale of polar ice cores. In addition, these variations indicate changes in the sources of methane primarily associated with the presence of wetlands. In order to determine the exact time evolution of such fast concentration changes, CH4 measurements of the highest resolution in the ice core archive are required. Here, we present a new, semicontinuous and field-deployable CH4 detection method, which was incorporated in a continuous flow analysis (CFA) system. In CFA, samples cut along the axis of an ice core are melted at a melt speed of typically 3.5 cm/min. The air from bubbles in the ice core is extracted continuously from the meltwater and forwarded to a gas chromatograph (GC) for high-resolution CH4 measurements. The GC performs a measurement every 3.5 min, hence, a depth resolution of 15 cm is achieved atthe chosen melt rate. An even higher resolution is not necessary due to the low pass filtering of air in ice cores caused by the slow bubble enclosure process and the diffusion of air in firn. Reproducibility of the new method is 3%, thus, for a typical CH4 concentration of 500 ppb during an ice age, this corresponds to an absolute precision of 15 ppb, comparable to traditional analyses on discrete samples. Results of CFA-CH4 measurements on the ice core from Talos Dome (Antarctica) illustrate the much higher temporal resolution of our method compared with established melt-refreeze CH4 measurements and demonstrate the feasibility of the new method.

  14. High resolution melting curve analysis as a new tool for rapid identification of canine parvovirus type 2 strains.

    Science.gov (United States)

    Bingga, Gali; Liu, Zhicheng; Zhang, Jianfeng; Zhu, Yujun; Lin, Lifeng; Ding, Shuangyang; Guo, Pengju

    2014-01-01

    A high resolution melting (HRM) curve method was developed to identify canine parvovirus type 2 (CPV-2) strains by nested PCR. Two sets of primers, CPV-426F/426R and CPV-87R/87F, were designed that amplified a 52 bp and 53 bp product from the viral VP2 capsid gene. The region amplified by CPV-426F/426R included the A4062G and T4064A mutations in CPV-2a, CPV-2b and CPV-2c. The region amplified by CPV-87F/87R included the A3045T mutation in the vaccine strains of CPV-2 and CPV-2a, CPV-2b and CPV-2c. Faecal samples were obtained from 30 dogs that were CPV antigen-positive. The DNA was isolated from the faecal samples and PCR-amplified using the two sets of primers, and genotyped by HRM curve analysis. The PCR-HRM assay was able to distinguish single nucleotide polymorphisms between CPV-2a, CPV-2b and CPV-2c using CPV-426F/426R. CPV-2a was distinguished from CPV-2b and CPV-2c by differences in the melting temperature. CPV-2b and CPV-2c could be distinguished based on the shape of the melting curve after generating heteroduplexes using a CPV-2b reference sample. The vaccine strains of CPV-2 were identified using CPV-87F/87R. Conventional methods for genotyping CPV strains are labor intensive, expensive or time consuming; the present PCR-based HRM assay might be an attractive alternative.

  15. Non-target screening with high-resolution mass spectrometry: critical review using a collaborative trial on water analysis.

    Science.gov (United States)

    Schymanski, Emma L; Singer, Heinz P; Slobodnik, Jaroslav; Ipolyi, Ildiko M; Oswald, Peter; Krauss, Martin; Schulze, Tobias; Haglund, Peter; Letzel, Thomas; Grosse, Sylvia; Thomaidis, Nikolaos S; Bletsou, Anna; Zwiener, Christian; Ibáñez, María; Portolés, Tania; de Boer, Ronald; Reid, Malcolm J; Onghena, Matthias; Kunkel, Uwe; Schulz, Wolfgang; Guillon, Amélie; Noyon, Naïke; Leroy, Gaëla; Bados, Philippe; Bogialli, Sara; Stipaničev, Draženka; Rostkowski, Pawel; Hollender, Juliane

    2015-08-01

    In this article, a dataset from a collaborative non-target screening trial organised by the NORMAN Association is used to review the state-of-the-art and discuss future perspectives of non-target screening using high-resolution mass spectrometry in water analysis. A total of 18 institutes from 12 European countries analysed an extract of the same water sample collected from the River Danube with either one or both of liquid and gas chromatography coupled with mass spectrometry detection. This article focuses mainly on the use of high resolution screening techniques with target, suspect, and non-target workflows to identify substances in environmental samples. Specific examples are given to emphasise major challenges including isobaric and co-eluting substances, dependence on target and suspect lists, formula assignment, the use of retention information, and the confidence of identification. Approaches and methods applicable to unit resolution data are also discussed. Although most substances were identified using high resolution data with target and suspect-screening approaches, some participants proposed tentative non-target identifications. This comprehensive dataset revealed that non-target analytical techniques are already substantially harmonised between the participants, but the data processing remains time-consuming. Although the objective of a "fully-automated identification workflow" remains elusive in the short term, important steps in this direction have been taken, exemplified by the growing popularity of suspect screening approaches. Major recommendations to improve non-target screening include better integration and connection of desired features into software packages, the exchange of target and suspect lists, and the contribution of more spectra from standard substances into (openly accessible) databases. Graphical Abstract Matrix of identification approach versus identification confidence.

  16. Detection of Schistosoma mansoni and Schistosoma haematobium by Real-Time PCR with High Resolution Melting Analysis.

    Science.gov (United States)

    Sady, Hany; Al-Mekhlafi, Hesham M; Ngui, Romano; Atroosh, Wahib M; Al-Delaimy, Ahmed K; Nasr, Nabil A; Dawaki, Salwa; Abdulsalam, Awatif M; Ithoi, Init; Lim, Yvonne A L; Chua, Kek Heng; Surin, Johari

    2015-07-16

    The present study describes a real-time PCR approach with high resolution melting-curve (HRM) assay developed for the detection and differentiation of Schistosoma mansoni and S. haematobium in fecal and urine samples collected from rural Yemen. The samples were screened by microscopy and PCR for the Schistosoma species infection. A pair of degenerate primers were designed targeting partial regions in the cytochrome oxidase subunit I (cox1) gene of S. mansoni and S. haematobium using real-time PCR-HRM assay. The overall prevalence of schistosomiasis was 31.8%; 23.8% of the participants were infected with S. haematobium and 9.3% were infected with S. mansoni. With regards to the intensity of infections, 22.1% and 77.9% of S. haematobium infections were of heavy and light intensities, respectively. Likewise, 8.1%, 40.5% and 51.4% of S. mansoni infections were of heavy, moderate and light intensities, respectively. The melting points were distinctive for S. mansoni and S. haematobium, categorized by peaks of 76.49 ± 0.25 °C and 75.43 ± 0.26 °C, respectively. HRM analysis showed high detection capability through the amplification of Schistosoma DNA with as low as 0.0001 ng/µL. Significant negative correlations were reported between the real-time PCR-HRM cycle threshold (Ct) values and microscopic egg counts for both S. mansoni in stool and S. haematobium in urine (p < 0.01). In conclusion, this closed-tube HRM protocol provides a potentially powerful screening molecular tool for the detection of S. mansoni and S. haematobium. It is a simple, rapid, accurate, and cost-effective method. Hence, this method is a good alternative approach to probe-based PCR assays.

  17. High-Resolution Melting Analysis as a Powerful Tool to Discriminate and Genotype Pseudomonas savastanoi Pathovars and Strains

    Science.gov (United States)

    Gori, Andrea; Cerboneschi, Matteo; Tegli, Stefania

    2012-01-01

    Pseudomonas savastanoi is a serious pathogen of Olive, Oleander, Ash, and several other Oleaceae. Its epiphytic or endophytic presence in asymptomatic plants is crucial for the spread of Olive and Oleander knot disease, as already ascertained for P. savastanoi pv. savastanoi (Psv) on Olive and for pv. nerii (Psn) on Oleander, while no information is available for pv. fraxini (Psf) on Ash. Nothing is known yet about the distribution on the different host plants and the real host range of these pathovars in nature, although cross-infections were observed following artificial inoculations. A multiplex Real-Time PCR assay was recently developed to simultaneously and quantitatively discriminate in vitro and in planta these P. savastanoi pathovars, for routine culture confirmation and for epidemiological and diagnostical studies. Here an innovative High-Resolution Melting Analysis (HRMA)-based assay was set up to unequivocally discriminate Psv, Psn and Psf, according to several single nucleotide polymorphisms found in their Type Three Secretion System clusters. The genetic distances among 56 P. savastanoi strains belonging to these pathovars were also evaluated, confirming and refining data previously obtained by fAFLP. To our knowledge, this is the first time that HRMA is applied to a bacterial plant pathogen, and one of the few multiplex HRMA-based assays developed so far. This protocol provides a rapid, sensitive, specific tool to differentiate and detect Psv, Psn and Psf strains, also in vivo and against other related bacteria, with lower costs than conventional multiplex Real-Time PCR. Its application is particularly suitable for sanitary certification programs for P. savastanoi, aimed at avoiding the spreading of this phytopathogen through asymptomatic plants. PMID:22295075

  18. Detection of Schistosoma mansoni and Schistosoma haematobium by Real-Time PCR with High Resolution Melting Analysis

    Directory of Open Access Journals (Sweden)

    Hany Sady

    2015-07-01

    Full Text Available The present study describes a real-time PCR approach with high resolution melting-curve (HRM assay developed for the detection and differentiation of Schistosoma mansoni and S. haematobium in fecal and urine samples collected from rural Yemen. The samples were screened by microscopy and PCR for the Schistosoma species infection. A pair of degenerate primers were designed targeting partial regions in the cytochrome oxidase subunit I (cox1 gene of S. mansoni and S. haematobium using real-time PCR-HRM assay. The overall prevalence of schistosomiasis was 31.8%; 23.8% of the participants were infected with S. haematobium and 9.3% were infected with S. mansoni. With regards to the intensity of infections, 22.1% and 77.9% of S. haematobium infections were of heavy and light intensities, respectively. Likewise, 8.1%, 40.5% and 51.4% of S. mansoni infections were of heavy, moderate and light intensities, respectively. The melting points were distinctive for S. mansoni and S. haematobium, categorized by peaks of 76.49 ± 0.25 °C and 75.43 ± 0.26 °C, respectively. HRM analysis showed high detection capability through the amplification of Schistosoma DNA with as low as 0.0001 ng/µL. Significant negative correlations were reported between the real-time PCR-HRM cycle threshold (Ct values and microscopic egg counts for both S. mansoni in stool and S. haematobium in urine (p < 0.01. In conclusion, this closed-tube HRM protocol provides a potentially powerful screening molecular tool for the detection of S. mansoni and S. haematobium. It is a simple, rapid, accurate, and cost-effective method. Hence, this method is a good alternative approach to probe-based PCR assays.

  19. Analysis of the hyperfine structures and Λ doubling of high-resolution LMR spectra of 15N16O (X2Ⅱ)

    Institute of Scientific and Technical Information of China (English)

    2000-01-01

    From the theories of the nuclear hyperfine structure (HFS) and Λ doubling of diatomic molecules, several brief algebraic equations for interpretation of HFS and Λ doubling of transitions of diatomic molecule have been developed. A few important parameters of HFS and Λ doubling of 15N16O have been efficiently and accurately obtained from the analysis of the high resolution spectra of 15N16O (X2Ⅱ) observed in our experiments with these equations. This method can provide an effective approach to obtain important hyperfine parameters of novel radicals from their high resolution laser magnetic resonance spectra.

  20. State of the art of aeromagnetic survey. High-resolution aeromagnetic survey; Kuchu jiki tansa no saizensen. Kobunkaino kuchu jiki tansa

    Energy Technology Data Exchange (ETDEWEB)

    Okuma, S.; Makino, M.; Morijiri, R.; Nakatsuka, T. [Geological Survey of Japan, Tsukuba (Japan)

    1997-04-01

    This paper describes the technology trend of aeromagnetic survey in Japan and overseas countries. For the aeromagnetic survey, intensity of geomagnetism (total force) is measured in the air using a probe with a magnetometer. Recently, low-altitude high-density aeromagnetic survey can be done with a support of positioning technique using GPS (global positioning system). In Japan, the aeromagnetic survey is utilized for the surveys of latent active faults and internal structure of volcanoes. In the U.S., magnetometers developed for the detection of submarines were utilized for the aeromagnetic survey after the war. At the initial stage, they were used for the survey of hydrocarbon resources. In addition, they have been used for the survey of mineral resources, and the survey covers the whole US mainland. A data base of magnetic anomaly has been also constructed. In the West Coast, the surveys of latent active faults and internal structure of volcanoes are conducted to reduce the disasters due to earthquakes and volcanic activities. In Canada and Australia, the aeromagnetic surveys are positively performed for the exploration of mineral resources. 22 refs., 9 figs.

  1. Identification of chlorinated solvents degradation zones in clay till by high resolution chemical, microbial and compound specific isotope analysis

    DEFF Research Database (Denmark)

    Damgaard, Ida; Bjerg, Poul Løgstrup; Bælum, Jacob;

    2013-01-01

    The degradation of chlorinated ethenes and ethanes in clay till was investigated at a contaminated site (Vadsby, Denmark) by high resolution sampling of intact cores combined with groundwater sampling. Over decades of contamination, bioactive zones with degradation of trichloroethene (TCE) and 1,...

  2. Ultra high resolution cation analysis of NGRIP deep ice via cryo-cell UV-laser-ablation ICPMS

    Science.gov (United States)

    Della Lunga, Damiano; Muller, Wolfgang; Olander Rasmussen, Sune; Svensson, Anders

    2014-05-01

    , K.K., Bigler, M., Clausen, H.B., Dahl-Jensen, D., Fischer, H., Goto-Azuma, K., Hansson, M., Johnsen, S.J., Jouzel, J., Masson-Delmotte, V., Popp, T., Rasmussen, S.O., Rothlisberger, R., Ruth, U., Stauffer, B., Siggaard-Andersen, M.L., Sveinbjornsdottir, A.E., Svensson, A., White, J.W.C., 2008. High-resolution Greenland Ice Core data show abrupt climate change happens in few years. Science 321, 680-684.

  3. High Resolution Spatio Temporal Moments Analysis of Solute Migration Captured using Pre-clinical Medical Imaging Techniques

    Science.gov (United States)

    Dogan, M.; Moysey, S. M.; Powell, B. A.; DeVol, T. A.

    2016-12-01

    Advances in medical imaging technologies are continuously expanding the range of applications enabled within the earth sciences. While computed x-ray tomography (CT) scans have traditionally been used for investigating the structure of geologic materials, it is now possible to perform 3D time-lapse imaging of dynamic processes, such as monitoring the infiltration of water into a soil, with sub-millimeter resolution. Likewise, single photon emission computed tomography (SPECT) can provide information on the evolution of solute transport with spatial resolution on the order of a millimeter by tracking the migration of gamma-ray emitting isotopes like 99mTc and 111In. While these imaging techniques are revolutionizing our ability to look within porous media, techniques for the analysis of such rich and large data sets are limited. The spatial and temporal moments of a plume have long been used to provide quantitative measures to describe plume movement in a wide range of settings from the lab to field. Moment analysis can also be used to estimate the hydrologic properties of the porous media. In this research, we investigate the use of moments for analyzing a high resolution 4D SPECT data set collected during a 99mTc transport experiment performed in a heterogeneous column. The 4D nature of the data set makes it amenable to the use of data mining and pattern recognition methods, such as cluster analysis, to identify regions or zones within the data that exhibit abnormal or unexpected behaviors. We then compare anomalous features within the SPECT data to similar features identified within the CT image to relate the flow behavior to pore-scale structures, such as porosity differences and macropores. Such comparisons help to identify whether these features are good predictors of preferential transport. Likewise, we evaluate whether local analysis of moments can be used to infer apparent parameters governing non-conservative transport in a heterogeneous porous media, such

  4. High resolution melting curve analysis, a rapid and affordable method for mutation analysis in childhood acute myeloid leukemia

    Directory of Open Access Journals (Sweden)

    Yin eLiu

    2014-09-01

    Full Text Available Background: Molecular genetic alterations with prognostic significance have been described in childhood acute myeloid leukemia (AML. The aim of this study was to establish cost-effective techniques to detect mutations of FMS-like tyrosine kinase 3 (FLT3, Nucleophosmin 1 (NPM1, and a partial tandem duplication within the mixed lineage leukemia (MLL-PTD genes in childhood AML. Procedure: Ninety-nine children with newly diagnosed AML were included in this study. We developed a fluoresent dye SYTO-82 based high resolution melting curve (HRM anaylsis to detect FLT3 internal tandem duplication (FLT3-ITD, FLT3 tyrosine kinase domain (FLT3-TKD and NPM1 mutations. MLL-PTD was screened by real-time quantitative PCR. Results: The HRM methodology correlated well with gold standard Sanger sequencing with less cost. Among the 99 patients studied, the FLT3-ITD mutation was associated with significantly worse event free survival (EFS. Patients with the NPM1 mutation had significantly better EFS and overall survival. However, HRM was not sensitive enough for minimal residual disease monitoring. Conclusions: HRM was a rapid and efficient method for screening of FLT3 and NPM1 gene mutations. It was both affordable and accurate, especially in resource underprivileged regions. Our results indicated that HRM could be a useful clinical tool for rapid and cost effective screening of the FLT3 and NPM1 mutations in AML patients.

  5. Using object-based image analysis to conduct high-resolution conifer extraction at regional spatial scales

    Science.gov (United States)

    Coates, Peter S.; Gustafson, K. Benjamin; Roth, Cali L.; Chenaille, Michael P.; Ricca, Mark A.; Mauch, Kimberly; Sanchez-Chopitea, Erika; Kroger, Travis J.; Perry, William M.; Casazza, Michael L.

    2017-08-10

    The distribution and abundance of pinyon (Pinus monophylla) and juniper (Juniperus osteosperma, J. occidentalis) trees (hereinafter, "pinyon-juniper") in sagebrush (Artemisia spp.) ecosystems of the Great Basin in the Western United States has increased substantially since the late 1800s. Distributional expansion and infill of pinyon-juniper into sagebrush ecosystems threatens the ecological function and economic viability of these ecosystems within the Great Basin, and is now a major contemporary challenge facing land and wildlife managers. Particularly, pinyon-juniper encroachment into intact sagebrush ecosystems has been identified as a primary threat facing populations of greater sage-grouse (Centrocercus urophasianus; hereinafter, "sage-grouse"), which is a sagebrush obligate species. Even seemingly innocuous scatterings of isolated pinyon-juniper in an otherwise intact sagebrush landscape can negatively affect survival and reproduction of sage-grouse. Therefore, accurate and high-resolution maps of pinyon-juniper distribution and abundance (indexed by canopy cover) across broad geographic extents would help guide land management decisions that better target areas for pinyon-juniper removal projects (for example, fuel reduction, habitat improvement for sage-grouse, and other sagebrush species) and facilitate science that further quantifies ecological effects of pinyon-juniper encroachment on sage-grouse populations and sagebrush ecosystem processes. Hence, we mapped pinyon-juniper (referred to as conifers for actual mapping) at a 1 × 1-meter (m) high resolution across the entire range of previously mapped sage-grouse habitat in Nevada and northeastern California.We used digital orthophoto quad tiles from National Agriculture Imagery Program (2010, 2013) as base imagery, and then classified conifers using automated feature extraction methodology with the program Feature Analyst™. This method relies on machine learning algorithms that extract features from

  6. Detection of monoclonal immunoglobulin heavy chain gene rearrangement (FR3 in Thai malignant lymphoma by High Resolution Melting curve analysis

    Directory of Open Access Journals (Sweden)

    Pongpruttipan Tawatchai

    2010-05-01

    Full Text Available Abstract Malignant lymphoma, especially non-Hodgkin lymphoma, is one of the most common hematologic malignancies in Thailand. The diagnosis of malignant lymphoma is often problematic, especially in early stages of the disease. Detection of antigen receptor gene rearrangement including T cell receptor (TCR and immunoglobulin heavy chain (IgH by polymerase chain reaction followed by heteroduplex has currently become standard whereas fluorescent fragment analysis (GeneScan has been used for confirmation test. In this study, three techniques had been compared: thermocycler polymerase chain reaction (PCR followed by heteroduplex and polyacrylamide gel electrophoresis, GeneScan analysis, and real time PCR with High Resolution Melting curve analysis (HRM. The comparison was carried out with DNA extracted from paraffin embedded tissues diagnosed as B- cell non-Hodgkin lymphoma. Specific PCR primers sequences for IgH gene variable region 3, including fluorescence labeled IgH primers were used and results were compared with HRM. In conclusion, the detection IgH gene rearrangement by HRM in the LightCycler System showed potential for distinguishing monoclonality from polyclonality in B-cell non-Hodgkin lymphoma. Introduction Malignant lymphoma, especially non-Hodgkin lymphoma, is one of the most common hematologic malignancies in Thailand. The incidence rate as reported by Ministry of Public Health is 3.1 per 100,000 population in female whereas the rate in male is 4.5 per 100,000 population 1. At Siriraj Hospital, the new cases diagnosed as malignant lymphoma were 214.6 cases/year 2. The diagnosis of malignant lymphoma is often problematic, especially in early stages of the disease. Therefore, detection of antigen receptor gene rearrangement including T cell receptor (TCR and immunoglobulin heavy chain (IgH by polymerase chain reaction (PCR assay has recently become a standard laboratory test for discrimination of reactive from malignant clonal

  7. High-resolution melt-curve analysis of random amplified polymorphic DNA (RAPD-HRM) for the characterisation of pathogenic leptospires

    DEFF Research Database (Denmark)

    Tulsiani, Suhella; Craig, S B; Graham, G C;

    2010-01-01

    High-resolution melt-curve analysis of random amplified polymorphic DNA (RAPD-HRM) is a novel technology that has emerged as a possible method to characterise leptospires to serovar level. RAPD-HRM has recently been used to measure intra-serovar convergence between strains of the same serovar...

  8. Fluorescent labeling of nano-sized vesicles released by cells and subsequent quantitative and qualitative analysis by high-resolution flow cytometry.

    NARCIS (Netherlands)

    van der Vlist, E.J.; Nolte-'t Hoen, E.N.M.; Stoorvogel, W.; Arkesteijn, G.; Wauben, M.H.M.

    2012-01-01

    We provide a protocol for a high-resolution flow cytometry–based method for quantitative and qualitative analysis of individual nano-sized vesicles released by cells, as developed and previously described by our group. The method involves (i) bright fluorescent labeling of cell-derived vesicles and

  9. High-resolution gas chromatography/mas spectrometry method for characterization and quantitative analysis of ginkgolic acids in ginkgo biloba plants, extracts, and dietary supplements

    Science.gov (United States)

    A high resolution GC/MS with Selected Ion Monitor (SIM) method focusing on the characterization and quantitative analysis of ginkgolic acids (GAs) in Ginkgo biloba L. plant materials, extracts and commercial products was developed and validated. The method involved sample extraction with (1:1) meth...

  10. HIGH-RESOLUTION 8 mm AND 1 cm POLARIZATION OF IRAS 4A FROM THE VLA NASCENT DISK AND MULTIPLICITY (VANDAM) SURVEY

    Energy Technology Data Exchange (ETDEWEB)

    Cox, Erin G.; Harris, Robert J.; Looney, Leslie W.; Segura-Cox, Dominique M. [Department of Astronomy, University of Illinois at Urbana-Champaign, Urbana, IL 61801 (United States); Tobin, John [Leiden Observatory, Leiden University, P.O. Box 9513, 2000-RA Leiden (Netherlands); Li, Zhi-Yun [Department of Astronomy, University of Virginia, Charlottesville, VA 22903 (United States); Tychoniec, Łukasz [Astronomical Observatory Institute, Faculty of Physics, A. Mickiewicz University, Słoneczna 36, PL-60-268 Poznań (Poland); Chandler, Claire J.; Perez, Laura M. [National Radio Astronomy Observatory, Socorro, NM 87801 (United States); Dunham, Michael M. [Harvard-Smithsonian Center for Astrophysics, Cambridge, MA 02138 (United States); Kratter, Kaitlin [Steward Observatory, University of Arizona, Tucson, AZ 85721 (United States); Melis, Carl [Center for Astrophysics and Space Sciences, University of California, San Diego, CA 92093 (United States); Sadavoy, Sarah I., E-mail: egcox2@illinois.edu [Max-Planck-Institut für Astronomie, D-69117 Heidelberg (Germany)

    2015-12-01

    Magnetic fields can regulate disk formation, accretion, and jet launching. Until recently, it has been difficult to obtain high-resolution observations of the magnetic fields of the youngest protostars in the critical region near the protostar. The VANDAM survey is observing all known protostars in the Perseus Molecular Cloud. Here we present the polarization data of IRAS 4A. We find that with ∼0.″2 (50 AU) resolution at λ = 8.1 and 10.3 mm, the inferred magnetic field is consistent with a circular morphology, in marked contrast with the hourglass morphology seen on larger scales. This morphology is consistent with frozen-in field lines that were dragged in by rotating material entering the infall region. The field morphology is reminiscent of rotating circumstellar material near the protostar. This is the first polarization detection of a protostar at these wavelengths. We conclude from our observations that the dust emission is optically thin with β ∼ 1.3, suggesting that millimeter-/centimeter-sized grains have grown and survived in the short lifetime of the protostar.

  11. High Resolution 8 mm and 1 cm Polarization of IRAS 4A from the VLA Nascent Disk and Multiplicity (VANDAM) Survey

    CERN Document Server

    Cox, Erin G; Looney, Leslie W; Segura-Cox, Dominique M; Tobin, John; Li, Zhi-Yun; Tychoniec, Łukasz; Chandler, Claire J; Dunham, Michael M; Kratter, Kaitlin; Melis, Carl; Perez, Laura M; Sadavoy, Sarah I

    2015-01-01

    Magnetic fields can regulate disk formation, accretion and jet launching. Until recently, it has been difficult to obtain high resolution observations of the magnetic fields of the youngest protostars in the critical region near the protostar. The VANDAM survey is observing all known protostars in the Perseus Molecular Cloud. Here we present the polarization data of IRAS 4A. We find that with ~ 0.2'' (50 AU) resolution at {\\lambda} = 8.1 and 10.3 mm, the inferred magnetic field is consistent with a circular morphology, in marked contrast with the hourglass morphology seen on larger scales. This morphology is consistent with frozen-in field lines that were dragged in by rotating material entering the infall region. The field morphology is reminiscent of rotating circumstellar material near the protostar. This is the first polarization detection of a protostar at these wavelengths. We conclude from our observations that the dust emission is optically thin with {\\beta} ~ 1.3, suggesting that mm/cm-sized grains h...

  12. Factor analysis of combined organic and inorganic aerosol mass spectra from high resolution aerosol mass spectrometer measurements

    Directory of Open Access Journals (Sweden)

    Y. L. Sun

    2012-05-01

    Full Text Available The high resolution mass spectra of organic and inorganic aerosols from aerosol mass spectrometer (AMS measurements were first combined into positive matrix factorization (PMF analysis to investigate the sources and evolution processes of atmospheric aerosols. The new approach is able to study the mixing of organic aerosols (OA and inorganic species, the acidity of OA factors, and the fragment ion patterns related to photochemical processing. In this study, PMF analysis of the unified AMS spectral matrices resolved 8 factors for the submicron aerosols measured at Queens College in New York City in summer 2009. The hydrocarbon-like OA (HOA and cooking OA (COA contain very minor inorganic species, indicating the different sources and mixing characteristics between primary OA and secondary species. The two factors that are primarily ammonium sulfate (SO4-OA and ammonium nitrate (NO3-OA, respectively, are overall neutralized, of which the OA in SO4-OA shows the highest oxidation state (O/C = 0.69 among OA factors. The semi-volatile oxygenated OA comprises two components, i.e., a less oxidized (LO-OOA and a more oxidized (MO-OOA. The MO-OOA represents a local photochemical product with the diurnal profile exhibiting a pronounced noon peak, consistent with those of formaldehyde (HCHO and Ox (= O3+NO2. The much higher NO+/NO2+ fragment ion ratio in MO-OOA than that from ammonium nitrate alone provides evidence for the formation of organic nitrates. The amine-related nitrogen-enriched OA (NOA contains ~25% of acidic inorganic salts, elucidating the formation of secondary OA from amines in acidic environments. The size distributions derived from 3-dimensional size-resolved mass spectra show distinct diurnal evolving behaviors for different OA factors, but overall a progressing evolution from smaller to larger particle mode as a function of oxidation states

  13. Sea Level History in 3D: Early results of an ultra-high resolution MCS survey across IODP Expedition 313 drillsites

    Science.gov (United States)

    Mountain, G. S.; Kucuk, H. M.; Nedimovic, M. R.; Austin, J. A., Jr.; Fulthorpe, C.; Newton, A.; Baldwin, K.; Johnson, C.; Stanley, J. N.; Bhatnagar, T.

    2015-12-01

    Although globally averaged sea level is rising at roughly 3 mm/yr (and is accelerating), rates of local sea-level change measured at coastlines may differ from this number by a factor of two or more; at some locations, sea level may even be falling. This is due to local processes that can match or even reverse the global trend, making it clear that reliable predictions of future impacts of sea-level rise require a firm understanding of processes at the local level. The history of local sea-level change and shoreline response is contained in the geologic record of shallow-water sediments. We report on a continuing study of sea-level history in sediments at the New Jersey continental margin, where compaction and glacial isostatic adjustment are currently adding 2 mm/yr to the globally averaged rise. We collected 570 sq km of ultra-high resolution 3D MCS data aboard the R/V Langseth in June-July 2015; innovative recording and preliminary results are described by Nedimovic et al. in this same session. The goal was to provide regional context to coring and logging at IODP Exp 313 sites 27-29 that were drilled 750 m into the New Jersey shelf in 2009. These sites recovered a nearly continuous record of post-Eocene sediments from non-marine soils, estuaries, shoreface, delta front, pro-delta and open marine settings. Existing seismic data are good but are 2D high-resolution profiles at line spacings too wide to enable mapping of key nearshore features. The Langseth 3D survey used shallow towing of a tuned air gun array to preserve high frequencies, and twenty-four 50-m PCables each 12.5 apart provided 6.25 x 3.125 m common-midpoint bins along seventy-seven 50-km sail lines. With this especially dense spatial resolution of a pre-stack time migrated volume we expect to map rivers, incised valleys, barrier islands, inlets and bays, pro-delta clinoforms, tidal deltas, sequence boundaries, debris flow aprons, and more. Seismic attributes linked to sedimentary facies and

  14. Miniaturised 'lab-on-a-chip' nitrate analyser applied to high resolution in situ analysis of glacial meltwater

    Science.gov (United States)

    Beaton, A.; Mowlem, M.; Wadham, J. L.

    2013-12-01

    In situ chemical measurements of glacial meltwater can provide high temporal and spatial resolution data that allow us to infer biogeochemical processes and calculate export from glacial systems. Despite this, in situ measurements of single chemical parameters in glacial meltwater have so far largely been restricted to pH and dissolved oxygen. The lack of high performance ruggedized in situ sensors for other analytes means that the laboratory-based analysis of manually collected samples is still routine. Microfluidics (through lab-on-a-chip technology) permits the miniaturisation of established chemical analysis techniques so that they can be performed in situ. The advantages of decreased size and low power and reagent consumption make these systems suitable for deployment in extreme and inaccessible environments where regular manual sample collection is logistically difficult. We present data from a novel stand-alone microfluidic wet chemical nitrate analyser that has been deployed to monitor a proglacial meltwater river draining from the Greenland ice sheet. By performing a measurement every 20 minutes, the analyser was able to reveal diurnal fluctuations and short term trends in nitrate concentrations that would not discernible using standard daily sampling. High resolution in situ measurements such as these can allow a more accurate determination of nutrient export fluxes from glacial systems into the polar oceans, and allow enhanced interpretation of water quality datasets. Steps have been taken to ruggedize the system so that it can survive the freeze-thaw conditions, dilute concentrations and high sediment loads that can be associated with cryospheric environments. The system is small, has low power consumption and detects nitrate and nitrite with a limit of detection (LOD) of 0.025 μM, which is sufficient for low nutrient glacial environments. On-going work looks to deploy similar nutrient analysers more widely, not only in glacial systems, but also in

  15. Investigating Cardiac Motion Patterns Using Synthetic High-Resolution 3D Cardiovascular Magnetic Resonance Images and Statistical Shape Analysis

    Science.gov (United States)

    Biffi, Benedetta; Bruse, Jan L.; Zuluaga, Maria A.; Ntsinjana, Hopewell N.; Taylor, Andrew M.; Schievano, Silvia

    2017-01-01

    Diagnosis of ventricular dysfunction in congenital heart disease is more and more based on medical imaging, which allows investigation of abnormal cardiac morphology and correlated abnormal function. Although analysis of 2D images represents the clinical standard, novel tools performing automatic processing of 3D images are becoming available, providing more detailed and comprehensive information than simple 2D morphometry. Among these, statistical shape analysis (SSA) allows a consistent and quantitative description of a population of complex shapes, as a way to detect novel biomarkers, ultimately improving diagnosis and pathology understanding. The aim of this study is to describe the implementation of a SSA method for the investigation of 3D left ventricular shape and motion patterns and to test it on a small sample of 4 congenital repaired aortic stenosis patients and 4 age-matched healthy volunteers to demonstrate its potential. The advantage of this method is the capability of analyzing subject-specific motion patterns separately from the individual morphology, visually and quantitatively, as a way to identify functional abnormalities related to both dynamics and shape. Specifically, we combined 3D, high-resolution whole heart data with 2D, temporal information provided by cine cardiovascular magnetic resonance images, and we used an SSA approach to analyze 3D motion per se. Preliminary results of this pilot study showed that using this method, some differences in end-diastolic and end-systolic ventricular shapes could be captured, but it was not possible to clearly separate the two cohorts based on shape information alone. However, further analyses on ventricular motion allowed to qualitatively identify differences between the two populations. Moreover, by describing shape and motion with a small number of principal components, this method offers a fully automated process to obtain visually intuitive and numerical information on cardiac shape and motion

  16. Integrated High Resolution Microearthquake Analysis and Monitoring for Optimizing Steam Production at The Geysers Geothermal Field, California

    Energy Technology Data Exchange (ETDEWEB)

    Majer, Ernest; Peterson, John; Stark, Mitch; Smith, Bill; Rutqvist, Jonny; Kennedy, Mack

    2004-04-26

    In December of 2003 a large amount of water from the Santa Rosa wastewater project began being pumped to The Geysers for injection. Millions of dollars are being spent on this injection project in the anticipation that the additional fluid will not only extend the life of The Geysers but also greatly increase the net amount of energy extracted. Optimal use of the injected water, however, will require that the water be injected at the right place, in the right amount and at the proper rate. It has been shown that Microearthquake (MEQ) generation is a direct indicator of the effect of fluid injection at The Geysers (Majer and McEvilly 1979; Eberhart-Phillips and Oppenheimer 1984; Enedy et al. 1992; Stark 1992; Kirkpatrick et al. 1999; Smith et al. 2000). It is one of the few, if not only methods, practical to monitor the volumetric effect of water injection at The Geysers. At the beginning of this project there was not a detailed MEQ response, Geysers-wide, to a large influx of water such as will be the case from the Santa Rosa injection project. New technology in MEQ acquisition and analysis, while used in parts of The Geysers for short periods of time had not been applied reservoir-wide to obtain an integrated analysis of the reservoir. Also needed was a detailed correlation with the production and injection data on a site wide basis. Last but not least, needed was an assurance to the community that the induced seismicity is documented and understood such that if necessary, mitigation actions can be undertaken in a timely manner. This project was necessary not only for optimizing the heat recovery from the resource, but for assuring the community that there is no hazard associated with the increased injection activities. Therefore, the primary purpose of this project was to develop and apply high-resolution micro earthquake methodology for the entire Geysers geothermal field such that at the end of this project a monitoring and process definition methodology will

  17. Comparison of infrared spectroscopy techniques: developing an efficient method for high resolution analysis of sediment properties from long records

    Science.gov (United States)

    Hahn, Annette; Rosén, Peter; Kliem, Pierre; Ohlendorf, Christian; Persson, Per; Zolitschka, Bernd; Pasado Science Team

    2010-05-01

    The analysis of sediment samples in visible to mid-infrared spectra is ideal for high-resolution records. It requires only small amounts (0.01-0.1g dry weight) of sample material and facilitates rapid and cost efficient analysis of a wide variety of biogeochemical properties on minerogenic and organic substances (Kellner et al. 1998). One of these techniques, the Diffuse Reflectance Fourier Transform Infrared Spectrometry (DRIFTS), has already been successfully applied to lake sediment from very different settings and has shown to be a promising technique for high resolution analyses of long sedimentary records on glacial-interglacial timescales (Rosén et al. 2009). However, the DRIFTS technique includes a time-consuming step where sediment samples are mixed with KBr. To assess if alternative and more rapid infrared (IR) techniques can be used, four different IR spectroscopy techniques are compared for core catcher sediment samples from Laguna Potrok Aike - an ICDP site located in southernmost South America. Partial least square (PLS) calibration models were developed using the DRIFTS technique. The correlation coefficients (R) for correlations between DRIFTS-inferred and conventionally measured biogeochemical properties show values of 0.80 for biogenic silica (BSi), 0.95 for total organic carbon (TOC), 0.91 for total nitrogen (TN), and 0.92 for total inorganic carbon (TIC). Good statistical performance was also obtained by using the Attenuated Total Reflectance Fourier Transform Infrared Spectroscopy ATR-FTIRS technique which requires less sample preparation. Two devices were used, the full-sized Bruker Equinox 252 and the smaller and less expensive Bruker Alpha. R for ATR-FTIRS-inferred and conventionally measured biogeochemical properties were 0.87 (BSi), 0.93 (TOC), 0.90 (TN), and 0.91 (TIC) for the Alpha, and 0.78 (TOC), 0.85 (TN), 0.79 (TIC) for the Equinox 252 device. As the penetration depth of the IR beam is frequency dependent, a firm surface contact of

  18. Close-range airborne Structure-from-Motion Photogrammetry for high-resolution beach morphometric surveys: Examples from an embayed rotating beach

    Science.gov (United States)

    Brunier, Guillaume; Fleury, Jules; Anthony, Edward J.; Gardel, Antoine; Dussouillez, Philippe

    2016-05-01

    The field of photogrammetry has seen significant new developments essentially related to the emergence of new computer-based applications that have fostered the growth of the workflow technique called Structure-from-Motion (SfM). Low-cost, user-friendly SfM photogrammetry offers interesting new perspectives in coastal and other fields of geomorphology requiring high-resolution topographic data. The technique enables the construction of topographic products such as digital surface models (DSMs) and orthophotographs, and combines the advantages of the reproducibility of GPS surveys and the high density and accuracy of airborne LiDAR, but at very advantageous cost compared to the latter. Three SfM-based photogrammetric experiments were conducted on the embayed beach of Montjoly in Cayenne, French Guiana, between October 2013 and 2014, in order to map morphological changes and quantify sediment budgets. The beach is affected by a process of rotation induced by the alongshore migration of mud banks from the mouths of the Amazon River that generate spatial and temporal changes in wave refraction and incident wave angles, thus generating the reversals in longshore drift that characterise this process. Sub-vertical aerial photographs of the beach were acquired from a microlight aircraft that flew alongshore at low elevation (275 m). The flight plan included several parallel flight axes with an overlap of 85% between pictures in the lengthwise direction and 50% between paths. Targets of 40 × 40 cm, georeferenced by RTK-DGPS, were placed on the beach, spaced 100 m apart. These targets served in optimizing the model and in producing georeferenced 3D products. RTK-GPS measurements of random points and cross-shore profiles were used to validate the photogrammetry results and assess their accuracy. We produced dense point clouds with 150 to 200 points/m², from which we generated DSMs and orthophotos with respective resolutions of 10 cm and 5 cm. Compared to the GPS control

  19. Ultra high resolution tomography

    Energy Technology Data Exchange (ETDEWEB)

    Haddad, W.S.

    1994-11-15

    Recent work and results on ultra high resolution three dimensional imaging with soft x-rays will be presented. This work is aimed at determining microscopic three dimensional structure of biological and material specimens. Three dimensional reconstructed images of a microscopic test object will be presented; the reconstruction has a resolution on the order of 1000 A in all three dimensions. Preliminary work with biological samples will also be shown, and the experimental and numerical methods used will be discussed.

  20. High Resolution Acoustical Imaging

    Science.gov (United States)

    1989-05-01

    1028 (September 1982). 26 G. Arfken , Mathematical Methods for Physicists (Academic Press, New York, 1971), 2nd printing, pp.662-666. 27 W. R. Hahn...difference in the approach used by the two methods , as noted in the previous paragraph, forming a direct mathematical com- parison may be impossible...examines high resolution methods which use a linear array to locate stationary objects which have scattered the fressure waves. Several;- new methods

  1. High-resolution rovibrational analysis of CH281BrF in the range 920–980cm−1

    DEFF Research Database (Denmark)

    Visinoni, R.; Baldacci, A.; Stoppa, P.;

    2013-01-01

    The high-resolution infrared spectrum of CH281BrF has been studied in part of the atmospheric window between 920 and 980cm−1, the region characterized by the v9 and v5+v6 absorptions. The v9 emerges as a pseudo a-type band, with selection rule ΔKa=ΔKc=0, ±2, and v5+v6 exhibits a predominant a...

  2. High-resolution spatial analysis of cholera patients reported in Artibonite department, Haiti in 2010-2011.

    Science.gov (United States)

    Allan, Maya; Grandesso, Francesco; Pierre, Ronald; Magloire, Roc; Coldiron, Matthew; Martinez-Pino, Isabel; Goffeau, Thierry; Gitenet, Romain; François, Gwenola; Olson, David; Porten, Klaudia; Luquero, Francisco J

    2016-03-01

    Cholera is caused by Vibrio cholerae, and is transmitted through fecal-oral contact. Infection occurs after the ingestion of the bacteria and is usually asymptomatic. In a minority of cases, it causes acute diarrhea and vomiting, which can lead to potentially fatal severe dehydration, especially in the absence of appropriate medical care. Immunity occurs after infection and typically lasts 6-36 months. Cholera is responsible for outbreaks in many African and Asian developing countries, and caused localised and episodic epidemics in South America until the early 1990s. Haiti, despite its low socioeconomic status and poor sanitation, had never reported cholera before the recent outbreak that started in October 2010, with over 720,000 cases and over 8700 deaths (Case fatality rate: 1.2%) through 8 december 2014. So far, this outbreak has seen 3 epidemic peaks, and it is expected that cholera will remain in Haiti for some time. To trace the path of the early epidemic and to identify hot spots and potential transmission hubs during peaks, we examined the spatial distribution of cholera patients during the first two peaks in Artibonite, the second-most populous department of Haiti. We extracted the geographic origin of 84,000 patients treated in local health facilities between October 2010 and December 2011 and mapped these addresses to 63 rural communal sections and 9 urban cities. Spatial and cluster analysis showed that during the first peak, cholera spread along the Artibonite River and the main roads, and sub-communal attack rates ranged from 0.1% to 10.7%. During the second peak, remote mountain areas were most affected, although sometimes to very different degrees even in closely neighboring locations. Sub-communal attack rates during the second peak ranged from 0.2% to 13.7%. The relative risks at the sub-communal level during the second phase showed an inverse pattern compared to the first phase. These findings demonstrate the value of high-resolution mapping

  3. Rapid identification of bovine mastitis pathogens by high-resolution melt analysis of 16S rDNA sequences.

    Science.gov (United States)

    Ajitkumar, Praseeda; Barkema, Herman W; De Buck, Jeroen

    2012-03-23

    Accurate identification of mastitis pathogens is often compromised when using conventional culture-based methods. Here, we report a novel, rapid assay tested for speciation of bacterial mastitis pathogens using high-resolution melt analysis (HRMA) of 16S rDNA sequences. Real-time PCR amplification of 16S rRNA gene fragment, spanning the variable region V5 and V6 was performed with a resulting amplicon of 290bp. First, a library was generated of melt curves of 9 common pathogens that are implicated in bovine mastitis. Six of the isolates, Escherichia coli, Streptococcus agalactiae, Klebsiella pneumoniae, Streptococcus uberis, Staphylococcus aureus and Mycoplasma bovis, were type strains while the other 3, Arcanobacterium pyogenes, Corynebacterium bovis and Streptococcus dysgalactiae, were bovine mastitis field isolates. Four of the type strains, E. coli, S. agalactiae, K. pneumoniae and S. aureus, were found to be of human origin, while the other 3 type strains were isolated from bovine infections. Secondly, the melt curves and corresponding amplicon sequences of A. pyogenes, E. coli, S. agalactiae, S. dysgalactiae, K. pneumoniae, S. uberis and S. aureus were compared with 10 bovine mastitis field isolates of each pathogen. Based on the distinct differences in melt curves and sequences between human and bovine isolates of E. coli and K. pneumoniae, it was deemed necessary to select a set of bovine strains for these pathogens to be used as reference strains in the HRMA. Next, the HRMA was validated by three interpreters analyzing the differential clustering pattern of melt curves of 60 bacterial cultures obtained from mastitis milk samples. The three test interpreters were blinded to the culture and sequencing results of the isolates. Overall accuracy of the validation assay was 95% as there was difficulty in identifying the streptococci due to heterogeneity observed in the PCR amplicons of S. uberis. The present study revealed that broad-range real-time PCR with

  4. ISDoT: in situ decellularization of tissues for high-resolution imaging and proteomic analysis of native extracellular matrix.

    Science.gov (United States)

    Mayorca-Guiliani, Alejandro E; Madsen, Chris D; Cox, Thomas R; Horton, Edward R; Venning, Freja A; Erler, Janine T

    2017-07-01

    The extracellular matrix (ECM) is a master regulator of cellular phenotype and behavior. It has a crucial role in both normal tissue homeostasis and disease pathology. Here we present a fast and efficient approach to enhance the study of ECM composition and structure. Termed in situ decellularization of tissues (ISDoT), it allows whole organs to be decellularized, leaving native ECM architecture intact. These three-dimensional decellularized tissues can be studied using high-resolution fluorescence and second harmonic imaging, and can be used for quantitative proteomic interrogation of the ECM. Our method is superior to other methods tested in its ability to preserve the structural integrity of the ECM, facilitate high-resolution imaging and quantitatively detect ECM proteins. In particular, we performed high-resolution sub-micron imaging of matrix topography in normal tissue and over the course of primary tumor development and progression to metastasis in mice, providing the first detailed imaging of the metastatic niche. These data show that cancer-driven ECM remodeling is organ specific, and that it is accompanied by comprehensive changes in ECM composition and topological structure. We also describe differing patterns of basement-membrane organization surrounding different types of blood vessels in healthy and diseased tissues. The ISDoT procedure allows for the study of native ECM structure under normal and pathological conditions in unprecedented detail.

  5. Reduction of artificial source effect in the high-resolution aeromagnetic survey in the Hanshin region; Hanshin chiiki no komitsudo kuchu jiki tansa ni okeru jinko noise source no eikyo no jokyo

    Energy Technology Data Exchange (ETDEWEB)

    Nakatsuka, T.; Makino, M.; Morijiri, R.; Okuma, S. [Geological Survey of Japan, Tsukuba (Japan)

    1997-05-27

    A high-resolution aeromagnetic survey was carried out in December 1995 on areas from Kobe City to Kyoto City in relation to the Hyogoken-nanbu Earthquake in 1995. It was found in the survey that effects of electric trains driven by direct current and man-made structures cannot be avoided, working as a large noise factor in extraction and analysis of geological information. This paper describes a quantitative analysis on magnetic anomaly suspected to have been caused from artificial sources seen in the magnetic map of the Hanshin area obtained from the above exploration data. The paper also gives considerations on methods to remove the effects therefrom. It then describes a quantitative analysis and the result of attempts on removal of the anomaly, taking up the following factors: (1) distribution of specific and remarkable magnetic anomalies which correspond to railroad positions of the Hanshin Railways running through the Nishinomiya-Toyonaka area, (2) the magnetic anomaly trend in positive and negative pair seen in the seafront area of Kobe City, and (3) typical bipolar isolated type magnetic anomaly in the north-west part of Kobe City. The cause for (1) was loop current flown for the railway operation, that for (2) was man-made structures in the improved seafront area, and that for (3) was a provisionally built metal waste storage yard. 9 figs.

  6. Quantitating the effect of prosthesis design on femoral remodeling using high-resolution region-free densitometric analysis (DXA-RFA)

    DEFF Research Database (Denmark)

    Farzi, Mohsen; Morris, Richard M; Penny, Jeannette

    2017-01-01

    are not readily resolved using conventional DXA analysis. DXA region free analysis (DXA RFA) is a novel computational image analysis technique that provides a high-resolution quantitation of periprosthetic BMD. Here, we applied the technique to quantitate the magnitude and areal size of periprosthetic BMD changes...... using scans acquired during two previous randomized clinical trials (2004 to 2009); one comparing three cemented prosthesis design geometries, and the other comparing a hip resurfacing versus a conventional cementless prosthesis. DXA RFA resolved subtle differences in magnitude and area of bone......-resurfacing prosthesis, where BMD increase was widespread across the metaphysis (p RFA provides high-resolution insights into the effect of prosthesis design on the local strain environment in bone. © 2017 The Authors Journal of Orthopaedic Research published by Wiley Periodicals, Inc. on behalf...

  7. Saturn's rings - high resolution

    Science.gov (United States)

    1981-01-01

    Voyager 2 obtained this high-resolution picture of Saturn's rings Aug. 22, when the spacecraft was 4 million kilometers (2.5 million miles) away. Evident here are the numerous 'spoke' features, in the B-ring; their very sharp, narrow appearance suggests short formation times. Scientists think electromagnetic forces are responsible in some way for these features, but no detailed theory has been worked out. Pictures such as this and analyses of Voyager 2's spoke movies may reveal more clues about the origins of these complex structures. The Voyager project is managed for NASA by the Jet Propulsion Laboratory, Pasadena, Calif.

  8. High-resolution spatial analysis of cholera patients reported in Artibonite department, Haiti in 2010–2011

    Directory of Open Access Journals (Sweden)

    Maya Allan

    2016-03-01

    Conclusion/significance: These findings demonstrate the value of high-resolution mapping for pinpointing locations most affected by cholera, and in the future could help prioritize the places in need of interventions such as improvement of sanitation and vaccination. The findings also describe spatio-temporal transmission patterns of the epidemic in a cholera-naïve country such as Haiti. By identifying transmission hubs, it is possible to target prevention strategies that, over time, could reduce transmission of the disease and eventually eliminate cholera in Haiti.

  9. High Resolution Seismic Survey off the Pacific Shore of Costa Rica - Detailed Imaging of Deformational Patterns, Fluid Venting and Carbonate Mounds

    Science.gov (United States)

    Fekete, N.; Spiess, V.; Heidersdorf, F.; v. Lom, H.; Zuehlsdorff, L.; Denil, D.; Huguen, C.; Schnabel, M.

    2003-04-01

    R/V METEOR Research Cruise M54/1 in summer 2002 from Balboa (Panama) to Caldera (Costa Rica) aimed at imaging the near sea floor sedimentary structures of both the continental and oceanic plates of the Costa Rican Subduction Zone with the high resolution seismic method. The cruise evolved from a cooperation of the Marine Seismics Group of the University of Bremen with the DFG funded Special Research Project 574 - Fluids and Volatiles in Subduction Zones - and is intended to supplement the marine geophysical, geological and geochemical as well as oceanographic data collected during R/V SONNE cruises in the area, as well as subsequent R/V METEOR cruises M54/2 and /3. The objectives of SFB 574 are the investigation of shallow and deep processes in subduction zones through near surface sampling of fluid vent sites and gas hydrate occurrences, as well as through detailed seismic and acoustic imaging of related structures. The main objectives of the cruise were to study 1) the volatile and material input into the sedimentary system on the oceanic plate, 2) the distribution of gas hydrates within the sediments, and 3) possible pathways and resulting structures of fluid/gas escape. Several working areas were selected, which had been identified as highly fractured sediment packages above subducting seamounts (Jaco Scar, Parrita Scar, Rio Bongo, Hongo area), areas of pronounced decollement reflection, major slump masses (Nicoya slide), regions of major fracturing of the oceanic crust, or carbonate mounds (Hongo area, Mound Culebra) during previous cruises. For calibration of seismic data, survey lines were also shot in the vicinity of ODP Leg 170 drill sites. Several seismic examples from various survey sites will be shown. Closely spaced profiles, allowing the acquisition of 3D and 2.5D seismic data in the Hongo area and near Mound Culebra, respectively, reveal the complex internal structure of fluid pathways, the distribution of gas hydrates, and the tectonic framework of

  10. Late Pliensbachian-early Toarcian paleoenvironmental changes in the Cleveland Basin: new clues from high-resolution trace element analysis

    Science.gov (United States)

    Thibault, N.; Ruhl, M.; Ullmann, C. V.; Korte, C.; Kemp, D. B.; Hesselbo, S. P.

    2013-12-01

    The early Toarcian (~183 Ma ago) was characterized by massive carbon burial and a pronounced negative carbon-isotope excursion (CIE) in marine carbonate and marine and terrestrial organic matter. These features along with the high abundance of redox sensitive trace metals in that interval led to the recognition of a major oceanic anoxic event (OAE). More recently, an earlier companion of the early Toarcian CIE has been documented at the Pliensbachian/Toarcian (Pl/To) boundary in sections of NW Europe, but its expression in the sediment and possible causes are less constrained. One of the most studied areas for this interval is the Cleveland Basin, UK, which is well-studied for litho-, bio- and chemostratigraphy. Here, we present a new dataset of high-resolution element data produced by hand-held X-ray fluorescence analysis to test for the expression of redox-sensitive trace metals and detrital elements across the late Pliensbachian to middle Toarcian of the Cleveland Basin. The Pl/To boundary CIE is associated with low Total Organic Carbon (TOCoxygenation events that prevented massive deposition of organic matter. Trends from redox-sensitive elements such as Fe, V, Mo and U are in agreement with previous findings and scenarios of basin restriction across and after the early Toarcian OAE (McArthur et al., 2008). An interval of maximum enrichment in these elements immediately after the CIE is a feature very similar to the recent observations of Hermoso et al. (2013) in the Paris Basin. This suggests a similar tempo of regional anoxia and black shale deposition in NW Europe. These results also shed light on the behaviour of elements associated with organic matter and the sulphur cycle such as Ni, Cu, Zn and As. Cu is well-correlated to the TOC whereas As shows an enrichment in the interval of black shale deposition after the CIE and two distinct correlation lines with sulphur, one before and during the event, and one after the CIE. This suggests that more As could be

  11. Close-range airborne photogrammetry: an effective tool for high-resolution sandy beach morphometric surveys. Examples from embayed beaches in French Guyana.

    Science.gov (United States)

    Brunier, Guillaume; Fleury, Jules; Anthony, Edward; Gardel, Antoine; Dussouillez, Philippe

    2015-04-01

    have a mean vertical accuracy less than +/- 5 cm compared to the GPS control points, with a maximum of 20 cm in marginal sectors near vegetation and in the swash zone in low-water conditions. To our knowledge, this is the first time a poorly textured surface composed of sand is reconstructed by photogrammetry, contrast in the studied object being necessary for this method. Our highly accurate photo resolution and pre-processing permitted imaging enough texture to proceed. Morphological features in the upper surf zone such as rip channels, and subaerial features, such as erosion scarps and aeolian forms, clearly appear. The comparison between the DSM validates the estimation of sediment transfers and the rotation process on this beach, unlike traditional beach monitoring with GPS, which involves large uncertainty linked to sparse point acquisition. It can be claimed that photogrammetry is low-cost, user-friendly, and offers new perspectives for non-specialist users in geomorphology and other fields recquiring high-resolution topographic data. It combines the advantages of the reproducibility of GPS topographic surveys and the high density and accuracy of LIDAR, but at very advantageous cost compared to the latter.

  12. High-resolution-cone beam tomography analysis of bone microarchitecture in patients with acromegaly and radiological vertebral fractures.

    Science.gov (United States)

    Maffezzoni, Filippo; Maddalo, Michele; Frara, Stefano; Mezzone, Monica; Zorza, Ivan; Baruffaldi, Fabio; Doglietto, Francesco; Mazziotti, Gherardo; Maroldi, Roberto; Giustina, Andrea

    2016-11-01

    Vertebral fractures are an emerging complication of acromegaly but their prediction is still difficult occurring even in patients with normal bone mineral density. In this study we evaluated the ability of high-resolution cone-beam computed tomography to provide information on skeletal abnormalities associated with vertebral fractures in acromegaly. 40 patients (24 females, 16 males; median age 57 years, range 25-72) and 21 healthy volunteers (10 females, 11 males; median age 60 years, range: 25-68) were evaluated for trabecular (bone volume/trabecular volume ratio, mean trabecular separation, and mean trabecular thickness) and cortical (thickness and porosity) parameters at distal radius using a high-resolution cone-beam computed tomography system. All acromegaly patients were evaluated for morphometric vertebral fractures and for mineral bone density by dual-energy X-ray absorptiometry at lumbar spine, total hip, femoral neck, and distal radius. Acromegaly patients with vertebral fractures (15 cases) had significantly (p cone-beam computed tomography at the distal radius may be useful to evaluate and predict the effects of acromegaly on bone microstructure.

  13. Genome-wide mapping of copy number variation in humans: comparative analysis of high resolution array platforms.

    Directory of Open Access Journals (Sweden)

    Rajini R Haraksingh

    Full Text Available Accurate and efficient genome-wide detection of copy number variants (CNVs is essential for understanding human genomic variation, genome-wide CNV association type studies, cytogenetics research and diagnostics, and independent validation of CNVs identified from sequencing based technologies. Numerous, array-based platforms for CNV detection exist utilizing array Comparative Genome Hybridization (aCGH, Single Nucleotide Polymorphism (SNP genotyping or both. We have quantitatively assessed the abilities of twelve leading genome-wide CNV detection platforms to accurately detect Gold Standard sets of CNVs in the genome of HapMap CEU sample NA12878, and found significant differences in performance. The technologies analyzed were the NimbleGen 4.2 M, 2.1 M and 3×720 K Whole Genome and CNV focused arrays, the Agilent 1×1 M CGH and High Resolution and 2×400 K CNV and SNP+CGH arrays, the Illumina Human Omni1Quad array and the Affymetrix SNP 6.0 array. The Gold Standards used were a 1000 Genomes Project sequencing-based set of 3997 validated CNVs and an ultra high-resolution aCGH-based set of 756 validated CNVs. We found that sensitivity, total number, size range and breakpoint resolution of CNV calls were highest for CNV focused arrays. Our results are important for cost effective CNV detection and validation for both basic and clinical applications.

  14. High-resolution abundance analysis of red giants in the metal-poor bulge globular cluster HP~1

    CERN Document Server

    Barbuy, B; Vemado, A; Ernandes, H; Ortolani, S; Saviane, I; Bica, E; Minniti, D; Dias, B; Momany, Y; Hill, V; Zoccali, M; Siqueira-Mello, C

    2016-01-01

    The globular cluster HP~1 is projected at only 3.33 degrees from the Galactic center. Together with its distance, this makes it one of the most central globular clusters in the Milky Way. It has a blue horizontal branch (BHB) and a metallicity of [Fe/H]~-1.0. This means that it probably is one of the oldest objects in the Galaxy. Abundance ratios can reveal the nucleosynthesis pattern of the first stars as well as the early chemical enrichment and early formation of stellar populations. High-resolution spectra obtained for six stars were analyzed to derive the abundances of the light elements C, N, O, Na, and Al, the alpha-elements Mg, Si, Ca, and Ti, and the heavy elements Sr, Y , Zr, Ba, La, and Eu.} High-resolution spectra of six red giants that are confirmed members of the bulge globular cluster HP~1 were obtained with the 8m VLT UT2-Kueyen telescope with the UVES spectrograph in FLAMES-UVES configuration. The spectroscopic parameter derivation was based on the excitation and ionization equilibrium of FeI...

  15. The Gaia FGK Benchmark Stars - High resolution spectral library

    CERN Document Server

    Blanco-Cuaresma, S; Jofré, P; Heiter, U

    2014-01-01

    Context. An increasing number of high resolution stellar spectra is available today thanks to many past and ongoing spectroscopic surveys. Consequently, numerous methods have been developed in order to perform an automatic spectral analysis on a massive amount of data. When reviewing published results, biases arise and they need to be addressed and minimized. Aims. We are providing a homogeneous library with a common set of calibration stars (known as the Gaia FGK Benchmark Stars) that will allow to assess stellar analysis methods and calibrate spectroscopic surveys. Methods. High resolution and signal-to-noise spectra were compiled from different instruments. We developed an automatic process in order to homogenize the observed data and assess the quality of the resulting library. Results. We built a high quality library that will facilitate the assessment of spectral analyses and the calibration of present and future spectroscopic surveys. The automation of the process minimizes the human subjectivity and e...

  16. Laser hazard analysis for LASIRIS Model MAG-501L-670M-1000-45[degree]-K diode laser associated with high resolution pulsed scanner.

    Energy Technology Data Exchange (ETDEWEB)

    Augustoni, Arnold L.

    2004-11-01

    A laser hazard analysis and safety assessment was performed for the LASIRISTM Model MAG-501L-670M-1000-45o-K diode laser associated with the High Resolution Pulse Scanner based on the ANSI Standard Z136.1-2000, American National Standard for the Safe Use of Lasers and the ANSI Standard Z136.6-2000, American National Standard for the Safe Use of Lasers Outdoors. The laser was evaluated for both indoor and outdoor use.

  17. High-Resolution DNA Melt Curve Analysis of the Clustered, Regularly Interspaced Short-Palindromic-Repeat Locus of Campylobacter jejuni▿ †

    OpenAIRE

    Price, Erin P; Smith, Helen; Huygens, Flavia; Giffard, Philip M.

    2007-01-01

    A novel method for genotyping the clustered, regularly interspaced short-palindromic-repeat (CRISPR) locus of Campylobacter jejuni is described. Following real-time PCR, CRISPR products were subjected to high-resolution melt (HRM) analysis, a new technology that allows precise melt profile determination of amplicons. This investigation shows that the CRISPR HRM assay provides a powerful addition to existing C. jejuni genotyping methods and emphasizes the potential of HRM for genotyping short ...

  18. High Resolution Laboratory Spectroscopy

    CERN Document Server

    Brünken, Sandra

    2016-01-01

    In this short review we will highlight some of the recent advancements in the field of high-resolution laboratory spectroscopy that meet the needs dictated by the advent of highly sensitive and broadband telescopes like ALMA and SOFIA. Among these is the development of broadband techniques for the study of complex organic molecules, like fast scanning conventional absorption spectroscopy based on multiplier chains, chirped pulse instrumentation, or the use of synchrotron facilities. Of similar importance is the extension of the accessible frequency range to THz frequencies, where many light hydrides have their ground state rotational transitions. Another key experimental challenge is the production of sufficiently high number densities of refractory and transient species in the laboratory, where discharges have proven to be efficient sources that can also be coupled to molecular jets. For ionic molecular species sensitive action spectroscopic schemes have recently been developed to overcome some of the limita...

  19. High-resolution nanomechanical analysis of suspended electrospun silk fibers with the torsional harmonic atomic force microscope

    Directory of Open Access Journals (Sweden)

    Mark Cronin-Golomb

    2013-04-01

    Full Text Available Atomic force microscopes have become indispensable tools for mechanical characterization of nanoscale and submicron structures. However, materials with complex geometries, such as electrospun fiber networks used for tissue scaffolds, still pose challenges due to the influence of tension and bending modulus on the response of the suspended structures. Here we report mechanical measurements on electrospun silk fibers with various treatments that allow discriminating among the different mechanisms that determine the mechanical behavior of these complex structures. In particular we were able to identify the role of tension and boundary conditions (pinned versus clamped in determining the mechanical response of electrospun silk fibers. Our findings show that high-resolution mechanical imaging with torsional harmonic atomic force microscopy provides a reliable method to investigate the mechanics of materials with complex geometries.

  20. Structural characterization of anhydrous naloxone- and naltrexone hydrochloride by high resolution laboratory X-ray powder diffraction and thermal analysis.

    Science.gov (United States)

    Sugimoto, Kunihisa; Dinnebier, Robert E; Zakrzewski, Marek

    2007-12-01

    The crystal structures of the analgesic compounds anhydrous naloxone and naltrexone hydrochloride were determined ab initio from high resolution laboratory X-ray powder diffraction data. Both compounds crystallize in the orthorhombic space group P2(1)2(1)2(1) with lattice parameters of a = 14.6588(10) A, b = 17.4363(9) A, c = 7.96200(22) A, and V = 2035.06(23) A(3) for naloxone hydrochloride and a = 15.4560(5) A, b = 14.9809(4) A, c = 7.84121(18) A, and V = 1815.58(11) A(3) for naltrexone hydrochloride. The crystal structure of anhydrous naloxone hydrochloride forms one-dimensional chains through hydrogen bonds. In the crystal structure of anhydrous naltrexone hydrochloride, two-dimensional sheets are formed by hydrogen bonds. The dehydration processes of naloxone hydrochloride dehydrate and naltrexone hydrochloride tetrahydrate was analyzed by DTA, DSC, TG, and MG.

  1. Analysis of Properties of Reflectance Reference Targets for Permanent Radiometric Test Sites of High Resolution Airborne Imaging Systems

    Directory of Open Access Journals (Sweden)

    Eero Ahokas

    2010-08-01

    Full Text Available Reliable and optimal exploitation of rapidly developing airborne imaging methods requires geometric and radiometric quality assurance of production systems in operational conditions. Permanent test sites are the most promising approach for cost-efficient performance assessment. Optimal construction of permanent radiometric test sites for high resolution airborne imaging systems is an unresolved issue. The objective of this study was to assess the performance of commercially available gravels and painted and unpainted concrete targets for permanent, open-air radiometric test sites under sub-optimal climate conditions in Southern Finland. The reflectance spectrum and reflectance anisotropy and their stability were characterized during the summer of 2009. The management of reflectance anisotropy and stability were shown to be the key issues for better than 5% reflectance accuracy.

  2. High-resolution digital elevation dataset for Newberry Volcano and vicinity, Oregon, based on lidar survey of August-September, 2010 and bathymetric survey of June, 2001

    Science.gov (United States)

    Bard, Joseph A.; Ramsey, David W.

    2016-01-01

    Newberry Volcano, one of the largest Quaternary volcanoes in the conterminous United States, is a broad shield-shaped volcano measuring 60 km north-south by 30 km east-west with a maximum elevation of more than 2 km above sea level. It is the product of deposits from thousands of eruptions, including at least 25 in (approximately) the last 12,000 years (the Holocene Epoch). Newberry Volcano has erupted as recently as 1,300 years ago, but isotopic ages indicate that the volcano began its growth as early as 0.6 million years ago. Such a long eruptive history together with recent activity suggests that Newberry Volcano is likely to erupt in the future. This DEM (digital elevation model) of Newberry Volcano contributes to natural hazard monitoring efforts, the study of regional geology, volcanic landforms, and landscape modification during and after future volcanic eruptions, both at Newberry Volcano or elsewhere globally. In collaboration with the USGS, the Oregon Department of Geology and Mineral Industries-led Oregon Lidar Consortium contracted Watershed Sciences to collect 500 square miles of high-precision airborne lidar (Light Detection and Ranging) data. These data provide a digital map of the ground surface beneath forest cover. The lidar-derived DEM is amended to include bathymetric surveys of East Lake and Paulina Lake. The bathymetric surveys were performed in June, 2001 by Bob Reynolds of Central Oregon Community College, Bend, Oregon. The bathymetry is mosaicked into the DEM in place of the lidar derived lake surfaces. This release is comprised of a DEM dataset accompanied by a hillshade raster, each divided into eighteen tiles. Each tile’s bounding rectangle is identical to the extent of the USGS 7.5 minute topographic quadrangles covering the same area. The names of the DEM tiles are eleven characters long (e.g., dem_xxxxxx) with the prefix, "dem", indicating the file is a DEM and the last seven characters corresponding to the map reference code of the

  3. Analysis and amelioration about the cross-sensitivity of a high resolution MOEMS accelerometer based on diffraction grating

    Science.gov (United States)

    Lu, Qianbo; Bai, Jian; Wang, Kaiwei; Lou, Shuqi; Jiao, Xufen; Han, Dandan

    2016-10-01

    Cross-sensitivity is a crucial parameter since it detrimentally affect the performance of an accelerometer, especially for a high resolution accelerometer. In this paper, a suite of analytical and finite-elements-method (FEM) models for characterizing the mechanism and features of the cross-sensitivity of a single-axis MOEMS accelerometer composed of a diffraction grating and a micromachined mechanical sensing chip are presented, which have not been systematically investigated yet. The mechanism and phenomena of the cross-sensitivity of this type MOEMS accelerometer based on diffraction grating differ quite a lot from the traditional ones owing to the identical sensing principle. By analyzing the models, some ameliorations and the modified design are put forward to suppress the cross-sensitivity. The modified design, achieved by double sides etching on a specific double-substrate-layer silicon-on-insulator (SOI) wafer, is validated to have a far smaller cross-sensitivity compared with the design previously reported in the literature. Moreover, this design can suppress the cross-sensitivity dramatically without compromising the acceleration sensitivity and resolution.

  4. Analysis of phenolics in wine by high performance thin-layer chromatography with gradient elution and high resolution plate imaging.

    Science.gov (United States)

    Agatonovic-Kustrin, Snezana; Hettiarachchi, Chandima G; Morton, David W; Razic, Slavica

    2015-01-01

    Health benefits of wine, especially with red wine, have been linked to the presence of a wide range of phenolic antioxidants. Thus, the aim of this study was to develop a simple, high performance thin layer chromatographic (HPTLC) method combined with high resolution digital plate images to visually compare multiple wine samples simultaneously on a single chromatographic plate and to quantify levels of gallic acid, caffeic acid, resveratrol and rutin, as representatives of the four different classes of phenolics found in wines. We also wanted to investigate the contribution of the investigated phenolic compounds to the total polyphenolic content (TPC) and total antioxidant capacity (TAC) of the wine samples. The average concentrations of caffeic acid, gallic acid, resveratrol, and rutin in the red wines were 2.15, 30.17, 0.59 and 2.47 mg/L respectively with their concentration below limit of quantification in the white wine samples. The highest concentration of resveratrol and rutin is found in the Cabernet and Shiraz wine samples. The amounts of gallic acid are correlated with TPC (r=0.58). Italian wines have the highest correlation between TPC and TAC (r=0.99) although they do not contain detectable amounts of resveratrol, they contain significant amount of rutin. Therefore, antioxidant properties might be associated with the presence of flavanols in these wines.

  5. Retooling Laser Speckle Contrast Analysis Algorithm to Enhance Non-Invasive High Resolution Laser Speckle Functional Imaging of Cutaneous Microcirculation

    Science.gov (United States)

    Gnyawali, Surya C.; Blum, Kevin; Pal, Durba; Ghatak, Subhadip; Khanna, Savita; Roy, Sashwati; Sen, Chandan K.

    2017-01-01

    Cutaneous microvasculopathy complicates wound healing. Functional assessment of gated individual dermal microvessels is therefore of outstanding interest. Functional performance of laser speckle contrast imaging (LSCI) systems is compromised by motion artefacts. To address such weakness, post-processing of stacked images is reported. We report the first post-processing of binary raw data from a high-resolution LSCI camera. Sharp images of low-flowing microvessels were enabled by introducing inverse variance in conjunction with speckle contrast in Matlab-based program code. Extended moving window averaging enhanced signal-to-noise ratio. Functional quantitative study of blood flow kinetics was performed on single gated microvessels using a free hand tool. Based on detection of flow in low-flow microvessels, a new sharp contrast image was derived. Thus, this work presents the first distinct image with quantitative microperfusion data from gated human foot microvasculature. This versatile platform is applicable to study a wide range of tissue systems including fine vascular network in murine brain without craniotomy as well as that in the murine dorsal skin. Importantly, the algorithm reported herein is hardware agnostic and is capable of post-processing binary raw data from any camera source to improve the sensitivity of functional flow data above and beyond standard limits of the optical system. PMID:28106129

  6. Development of an autonomic portable single-board computer based high resolution NIRS device for microcirculation analysis.

    Science.gov (United States)

    Rajkumar, E R; Safaie, J; Gupta, R; Pattnaik, D; Abrishamimoghaddam, H; Grebe, R; Wallois, F

    2012-01-01

    Near Infrared Spectroscopy (NIRS) is a wellestablished non-invasive technique for measuring metabolic changes in biological tissue. In this paper we describe the design and development of an autonomic portable single board computer based high resolution NIRS device, which allows quantification of these changes. The sensor-patch consisting of 8LEDs and 2photo-detectorsprovides8 channels for each detector, offering increased depth resolution for monitoring microcirculatory activity..NIRS data is acquired with a sampling rate of about 2Hz per channel using the data acquisition board which consists of a 16 bit ADC, a LED driver and programmable gain amplifiers. The components on the data acquisition board are controlled via the Advantech's PCM-3355L SBC based on Windows XP platform. The software was created using Visual Basic 6.0 and Microsoft Visual C++ 6.0. It offers optionally a real time 'monitoring' and a static data (offline) visualization mode. The most unique feature of the system is its ability to auto-calibrate itself i.e. Adopt the intensity of the LEDs output light to different experimental conditions, e.g. local melanin content, density of the tissue, and emitter-detector distances. To validate the device various experiments have been carried out such as measurements on resting and working gastrocnemius and biceps muscle in ambulatory situations. The achieved results confirmed adequate performance and reliability of the device.

  7. Evaluation of spa-typing of methicillin-resistant Staphylococcus aureus using high-resolution melting analysis.

    Science.gov (United States)

    Mazi, Waleed; Sangal, Vartul; Sandstrom, Gunnar; Saeed, Amir; Yu, Jun

    2015-09-01

    spa-typing of methicillin-resistant Staphylococcus aureus (MRSA) has been used widely in clinical diagnostics and epidemiological studies. The aim of this study was to evaluate high-resolution melting (HRM) as a rapid and cost-effective method, to replace DNA-sequencing, for spa-typing in a global collection of 50 MRSA isolates. The polymorphic X region of the spa gene was amplified by colony PCR using the SensiMix HRM kit, and the melting temperature (Tm) and melting curves of the amplicons were analyzed in close tubes using a Rotor-Gene 6000 instrument. Fifteen out of 19 spa-types each had a distinct Tm, which was sufficient to unambiguously type each of these spa-types. The remaining four spa-types could not be separated by Tm alone: t008 and t2770 shared a Tm (80.3°C) and t021 and t311 shared a Tm (80.0°C). However, they could be separated based on the shapes of their melting curves. There are discrepancies between the findings of the present study and those of previous studies, suggesting that standardization remains a challenge for cross-referencing. HRM-based spa-typing is reproducible, simple, rapid, and cost-effective. t037 is prevalent in Brazil and Sudan, while diverse spa-types are found in Scotland and Saudi Arabia. Standardization is required for cross-referencing between laboratories globally. Copyright © 2015. Published by Elsevier Ltd.

  8. High-resolution seismic analysis of the coastal Mecklenburg Bay (North German Basin): the pre-Alpine evolution

    Science.gov (United States)

    Zöllner, H.; Reicherter, K.; Schikowsky, P.

    2008-09-01

    The pre-Alpine structural and geological evolution in the northern part of the North German Basin have been revealed on the basis of a very dense reflection seismic profile grid. The study area is situated in the coastal Mecklenburg Bay (Germany), part of the southwestern Baltic Sea. From the central part of the North German Basin to the northern basin margin in the Grimmen High area a series of high-resolution maps show the evolution from the base Zechstein to the Lower Jurassic. We present a map of basement faults affecting the pre-Zechstein. The pre-Alpine structural evolution of the region has been determined from digital mapping of post-Permian key horizons traced on the processed seismic time sections. The geological evolution of the North German Basin can be separated into four distinct periods in the Rerik study area. During Late Permian and Early Triassic evaporites and clastics were deposited. Salt movement was initiated after the deposition of the Middle Triassic Muschelkalk. Salt pillows, which were previously unmapped in the study area, are responsible for the creation of smaller subsidence centers and angular unconformities in the Late Triassic Keuper, especially in the vicinity of the fault-bounded Grimmen High. In this area, partly Lower Jurassic sediments overlie the Keuper unconformably. The change from extension to compression in the regional stress field remobilized the salt, leading to a major unconformity marked at the base of the Late Cretaceous.

  9. Functional high-resolution time-course expression analysis of human embryonic stem cells undergoing cardiac induction

    Directory of Open Access Journals (Sweden)

    Ilaria Piccini

    2016-12-01

    Full Text Available Cardiac induction of human embryonic stem cells (hESCs is a process bearing increasing medical relevance, yet it is poorly understood from a developmental biology perspective. Anticipated technological progress in deriving stably expandable cardiac precursor cells or in advancing cardiac subtype specification protocols will likely require deeper insights into this fascinating system. Recent improvements in controlling hESC differentiation now enable a near-homogeneous induction of the cardiac lineage. This is based on an optimized initial stimulation of mesoderm-inducing signaling pathways such as Activin and/or FGF, BMP, and WNT, followed by WNT inhibition as a secondary requirement. Here, we describe a comprehensive data set based on varying hESC differentiation conditions in a systematic manner and recording high-resolution differentiation time-courses analyzed by genome-wide expression profiling (GEO accession number GSE67154. As a baseline, hESCs were differentiated into cardiomyocytes under optimal conditions. Moreover, in additional time-series, individual signaling factors were withdrawn from the initial stimulation cocktail to reveal their specific roles via comparison to the standard condition. Hence, this data set presents a rich resource for hypothesis generation in studying human cardiac induction, as we reveal numbers of known as well as uncharacterized genes prominently marking distinct intermediate stages in the process. These data will also be useful for identifying putative cardiac master regulators in the human system as well as for characterizing expandable cardiac stem cells.

  10. Local impact analysis of climate change on precipitation extremes: are high-resolution climate models needed for realistic simulations?

    Science.gov (United States)

    Tabari, Hossein; De Troch, Rozemien; Giot, Olivier; Hamdi, Rafiq; Termonia, Piet; Saeed, Sajjad; Brisson, Erwan; Van Lipzig, Nicole; Willems, Patrick

    2016-09-01

    This study explores whether climate models with higher spatial resolutions provide higher accuracy for precipitation simulations and/or different climate change signals. The outputs from two convection-permitting climate models (ALARO and CCLM) with a spatial resolution of 3-4 km are compared with those from the coarse-scale driving models or reanalysis data for simulating/projecting daily and sub-daily precipitation quantiles. Validation of historical design precipitation statistics derived from intensity-duration-frequency (IDF) curves shows a better match of the convection-permitting model results with the observations-based IDF statistics compared to the driving GCMs and reanalysis data. This is the case for simulation of local sub-daily precipitation extremes during the summer season, while the convection-permitting models do not appear to bring added value to simulation of daily precipitation extremes. Results moreover indicate that one has to be careful in assuming spatial-scale independency of climate change signals for the delta change downscaling method, as high-resolution models may show larger changes in extreme precipitation. These larger changes appear to be dependent on the timescale, since such intensification is not observed for daily timescales for both the ALARO and CCLM models.

  11. Analysis of a high-resolution regional climate simulation for Alpine temperature. Validation and influence of the NAO

    Energy Technology Data Exchange (ETDEWEB)

    Proemmel, K. [GKSS-Forschungszentrum Geesthacht GmbH (Germany). Inst. fuer Kuestenforschung

    2008-11-06

    To determine whether the increase in resolution of climate models improves the representation of climate is a crucial topic in regional climate modelling. An improvement over coarser-scale models is expected especially in areas with complex orography or along coastlines. However, some studies have shown no clear added value for regional climate models. In this study a high-resolution regional climate model simulation performed with REMO over the period 1958-1998 is analysed for 2m temperature over the orographically complex European Alps and their surroundings called the Greater Alpine Region (GAR). The model setup is in hindcast mode meaning that the simulation is driven with perfect boundary conditions by the ERA40 reanalysis through prescribing the values at the lateral boundaries and spectral nudging of the large-scale wind field inside the model domain. The added value is analysed between the regional climate simulation with a resolution of 1/6 and the driving reanalysis with a resolution of 1.125 . Before analysing the added value both the REMO simulation and the ERA40 reanalysis are validated against different station datasets of monthly and daily mean 2m temperature. The largest dataset is the dense, homogenised and quality controlled HISTALP dataset covering the whole GAR, which gave the opportunity for the validation undertaken in this study. The temporal variability of temperature, as quantified by correlation, is well represented by both REMO and ERA40. However, both show considerable biases. The REMO bias reaches 3 K in summer in regions known to experience a problem with summer drying in a number of regional models. In winter the bias is strongly influenced by the choice of the temperature lapse rate, which is applied to compare grid box and station data at different altitudes, and has the strongest influence on inner Alpine subregions where the altitude differences are largest. By applying a constant lapse rate the REMO bias in winter in the high

  12. Love-Hate ligands for high resolution analysis of strain in ultra-stable protein/small molecule interaction.

    Science.gov (United States)

    Fairhead, Michael; Shen, Di; Chan, Louis K M; Lowe, Ed D; Donohoe, Timothy J; Howarth, Mark

    2014-10-01

    The pathway of ligand dissociation and how binding sites respond to force are not well understood for any macromolecule. Force effects on biological receptors have been studied through simulation or force spectroscopy, but not by high resolution structural experiments. To investigate this challenge, we took advantage of the extreme stability of the streptavidin-biotin interaction, a paradigm for understanding non-covalent binding as well as a ubiquitous research tool. We synthesized a series of biotin-conjugates having an unchanged strong-binding biotin moiety, along with pincer-like arms designed to clash with the protein surface: 'Love-Hate ligands'. The Love-Hate ligands contained various 2,6-di-ortho aryl groups, installed using Suzuki coupling as the last synthetic step, making the steric repulsion highly modular. We determined binding affinity, as well as solving 1.1-1.6Å resolution crystal structures of streptavidin bound to Love-Hate ligands. Striking distortion of streptavidin's binding contacts was found for these complexes. Hydrogen bonds to biotin's ureido and thiophene rings were preserved for all the ligands, but biotin's valeryl tail was distorted from the classic conformation. Streptavidin's L3/4 loop, normally forming multiple energetically-important hydrogen bonds to biotin, was forced away by clashes with Love-Hate ligands, but Ser45 from L3/4 could adapt to hydrogen-bond to a different part of the ligand. This approach of preparing conflicted ligands represents a direct way to visualize strained biological interactions and test protein plasticity.

  13. Ultra high-resolution gene centric genomic structural analysis of a non-syndromic congenital heart defect, Tetralogy of Fallot.

    Directory of Open Access Journals (Sweden)

    Douglas C Bittel

    Full Text Available Tetralogy of Fallot (TOF is one of the most common severe congenital heart malformations. Great progress has been made in identifying key genes that regulate heart development, yet approximately 70% of TOF cases are sporadic and nonsyndromic with no known genetic cause. We created an ultra high-resolution gene centric comparative genomic hybridization (gcCGH microarray based on 591 genes with a validated association with cardiovascular development or function. We used our gcCGH array to analyze the genomic structure of 34 infants with sporadic TOF without a deletion on chromosome 22q11.2 (n male = 20; n female = 14; age range of 2 to 10 months. Using our custom-made gcCGH microarray platform, we identified a total of 613 copy number variations (CNVs ranging in size from 78 base pairs to 19.5 Mb. We identified 16 subjects with 33 CNVs that contained 13 different genes which are known to be directly associated with heart development. Additionally, there were 79 genes from the broader list of genes that were partially or completely contained in a CNV. All 34 individuals examined had at least one CNV involving these 79 genes. Furthermore, we had available whole genome exon arrays from right ventricular tissue in 13 of our subjects. We analyzed these for correlations between copy number and gene expression level. Surprisingly, we could detect only one clear association between CNVs and expression (GSTT1 for any of the 591 focal genes on the gcCGH array. The expression levels of GSTT1 were correlated with copy number in all cases examined (r = 0.95, p = 0.001. We identified a large number of small CNVs in genes with varying associations with heart development. Our results illustrate the complexity of human genome structural variation and underscore the need for multifactorial assessment of potential genetic/genomic factors that contribute to congenital heart defects.

  14. Analysis of Biophysical Mechanisms of Gilgai Microrelief Formation in Dryland Swelling Soils Using Ultra-High Resolution Aerial Imagery

    Science.gov (United States)

    Krell, N.; DeCarlo, K. F.; Caylor, K. K.

    2015-12-01

    Microrelief formations ("gilgai"), which form due to successive wetting-drying cycles typical of swelling soils, provide ecological hotspots for local fauna and flora, including higher and more robust vegetative growth. The distribution of these gilgai suggests a remarkable degree of regularity. However, it is unclear to what extent the mechanisms that drive gilgai formation are physical, such as desiccation-induced fracturing, or biological in nature, namely antecedent vegetative clustering. We investigated gilgai genesis and pattern formation in a 100 x 100 meter study area with swelling soils in a semiarid grassland at the Mpala Research Center in central Kenya. Our ongoing experiment is composed of three 9m2 treatments: we removed gilgai and limited vegetative growth by herbicide application in one plot, allowed for unrestricted seed dispersal in another, and left gilgai unobstructed in a control plot. To estimate the spatial frequencies of the repeating patterns of gilgai, we obtained ultra-high resolution (0.01-0.03m/pixel) images with an unmanned aerial vehicle (UAV) from which digital elevation models were also generated. Geostatistical analyses using wavelet and fourier methods in 1- and 2-dimensions were employed to characterize gilgai size and distribution. Preliminary results support regular spatial patterning across the gilgaied landscape and heterogeneities may be related to local soil properties and biophysical influences. Local data on gilgai and fracture characteristics suggest that gilgai form at characteristic heights and spacing based on fracture morphology: deep, wide cracks result in large, highly vegetated mounds whereas shallow cracks, induced by animal trails, are less correlated with gilgai size and shape. Our experiments will help elucidate the links between shrink-swell processes and gilgai-vegetation patterning in high activity clay soils and advance our understanding of the mechanisms of gilgai formation in drylands.

  15. Complete protocol for slow-spinning high-resolution magic-angle spinning NMR analysis of fragile tissues.

    Science.gov (United States)

    André, Marion; Dumez, Jean-Nicolas; Rezig, Lamya; Shintu, Laetitia; Piotto, Martial; Caldarelli, Stefano

    2014-11-04

    High-resolution magic-angle spinning (HR-MAS) nuclear magnetic resonance (NMR) is an essential tool to characterize a variety of semisolid systems, including biological tissues, with virtually no sample preparation. The "non-destructive" nature of NMR is typically compromised, however, by the extreme centrifugal forces experienced under conventional HR-MAS frequencies of several kilohertz. These features limit the usefulness of current HR-MAS approaches for fragile samples. Here, we introduce a full protocol for acquiring high-quality HR-MAS NMR spectra of biological tissues at low spinning rates (down to a few hundred hertz). The protocol first consists of a carefully designed sample preparation, which yields spectra without significant spinning sidebands at low spinning frequency for several types of sample holders, including the standard disposable inserts classically used in HR-MAS NMR-based metabolomics. Suppression of broad spectral features is then achieved using a modified version of the recently introduced PROJECT experiment with added water suppression and rotor synchronization, which deposits limited power in the sample and which can be suitably rotor-synchronized at low spinning rates. The performance of the slow HR-MAS NMR procedure is demonstrated on conventional (liver tissue) and very delicate (fish eggs) samples, for which the slow-spinning conditions are shown to preserve the structural integrity and to minimize intercompartmental leaks of metabolites. Taken together, these results expand the applicability and reliability of HR-MAS NMR spectroscopy. These results have been obtained at 400 and 600 MHz and suggest that high-quality slow HR-MAS spectra can be expected at higher magnetic fields using the described protocol.

  16. High Resolution Melting Analysis for Detecting p53 Gene Mutations in Patients with Non-small Cell Lung Cancer

    Directory of Open Access Journals (Sweden)

    Zhihong CHEN

    2011-10-01

    Full Text Available Background and objective It has been proven that p53 gene was related to many human cancers. The mutations in p53 gene play an important role in carcinogensis and mostly happened in exon 5-8. The aim of this study is to establish a high resolution melting (HRM assay to detect p53 mutations from patients with non-small cell lung cancer (NSCLC, to investigate the characteristics of p53 gene mutations, and to analyze the relationship between p53 mutations and evolution regularity of pathogenesis. Methods p53 mutations in exon 5-8 were detected by HRM assay on DNA insolated from 264 NSCLC samples derived from tumor tissues and 54 control samples from pericancerous pulmonary tissues. The mutation samples by the HRM assay were confirmed by sequencing technique. Samples which were positive by HRM but wild type by sequencing were further confirmed by sub-clone and sequencing. Results No mutation was found in 54 pericancerous pulmonary samples by HRM assay. 104 of the 264 tumor tissues demonstrated mutation curves by HRM assay, 102 samples were confirmed by sequencing, including 95 point mutations and 7 frame shift mutations by insertion or deletion. The mutation rate of p53 gene was 39.4%. The mutation rate from exon 5-8 were 11.7%, 8%, 12.5% and 10.6%, respectively and there was no statistically significant difference between them (P=0.35. p53 mutations were significantly more frequent in males than that in females, but not related to the other clinicopathologic characteristics. Conclusion The results indicate that HRM is a sensitive in-tube methodology to detect for mutations in clinical samples. The results suggest that the arising p53 mutations in NSCLC may be due to spontaneous error in DNA synthesis and repair.

  17. 3D tissue-engineered construct analysis via conventional high-resolution microcomputed tomography without X-ray contrast.

    Science.gov (United States)

    Voronov, Roman S; VanGordon, Samuel B; Shambaugh, Robert L; Papavassiliou, Dimitrios V; Sikavitsas, Vassilios I

    2013-05-01

    As the field of tissue engineering develops, researchers are faced with a large number of degrees of freedom regarding the choice of material, architecture, seeding, and culturing. To evaluate the effectiveness of a tissue-engineered strategy, histology is typically done by physically slicing and staining a construct (crude, time-consuming, and unreliable). However, due to recent advances in high-resolution biomedical imaging, microcomputed tomography (μCT) has arisen as a quick and effective way to evaluate samples, while preserving their structure in the original state. However, a major barrier for using μCT to do histology has been its inability to differentiate between materials with similar X-ray attenuation. Various contrasting strategies (hardware and chemical staining agents) have been proposed to address this problem, but at a cost of additional complexity and limited access. Instead, here we suggest a strategy for how virtual 3D histology in silico can be conducted using conventional μCT, and we provide an illustrative example from bone tissue engineering. The key to our methodology is an implementation of scaffold surface architecture that is ordered in relation to cells and tissue, in concert with straightforward image-processing techniques, to minimize the reliance on contrasting for material segmentation. In the case study reported, μCT was used to image and segment porous poly(lactic acid) nonwoven fiber mesh scaffolds that were seeded dynamically with mesenchymal stem cells and cultured to produce soft tissue and mineralized tissue in a flow perfusion bioreactor using an osteogenic medium. The methodology presented herein paves a new way for tissue engineers to identify and distinguish components of cell/tissue/scaffold constructs to easily and effectively evaluate the tissue-engineering strategies that generate them.

  18. Instantaneous Shoreline Extraction Utilizing Integrated Spectrum and Shadow Analysis From LiDAR Data and High-resolution Satellite Imagery

    Science.gov (United States)

    Lee, I.-Chieh

    manually connected, for its length was less than 3% of the total shoreline length in our dataset. Secondly, the parameters for satellite image classification needed to be manually determined. The need for manpower was significantly less compared to the ground surveying or aerial photogrammetry. The first phase of shoreline extraction was to utilize Normalized Difference Vegetation Index (NDVI), Mean-Shift segmentation on the coordinate (X, Y, Z), and attributes (multispectral bands from satellite images) of the LiDAR points to classify each LiDAR point into land or water surface. Boundary of the land points were then traced to create the shoreline. The second phase of shoreline extraction solely from satellite images utilized spectrum, NDVI, and shadow analysis to classify the satellite images into classes. These classes were then refined by mean-shift segmentation on the panchromatic band. By tracing the boundary of the water surface, the shoreline can be created. Since these two shorelines may represent different shoreline instances in time, evaluating the changes of shoreline was the first to be done. Then an independent scenario analysis and a procedure are performed for the shoreline of each of the three conditions: in the process of erosion, in the process of accession, and remaining the same. With these three conditions, we could analysis the actual terrain type and correct the classification errors to obtain a more accurate shoreline. Meanwhile, methods of evaluating the quality of shorelines had also been discussed. The experiment showed that there were three indicators could best represent the quality of the shoreline. These indicators were: (1) shoreline accuracy, (2) land area difference between extracted shoreline and ground truth shoreline, and (3) bias factor from shoreline quality metrics.

  19. Assessment of constituents in Allium by multivariate data analysis, high-resolution α-glucosidase inhibition assay and HPLC-SPE-NMR

    DEFF Research Database (Denmark)

    Schmidt, Jeppe Secher; Nyberg, Nils; Stærk, Dan

    2014-01-01

    Bulbs and leaves of 35 Allium species and cultivars bought or collected in 2010–2012 were investigated with multivariate data analysis, high-resolution α-glucosidase inhibition assays and HPLC-HRMS-SPE-NMR with the aim of exploring the potential of Allium as a future functional food for management...... analytes with α-glucosidase inhibitory activity, and subsequent HPLC-HRMS-SPE-NMR experiments allowed identification of these as N-p-coumaroyloctopamine, N-p-coumaroyltyramine, and quercetin. The distribution of these three compounds was mapped for all samples by HPLC-ESI-HRMS. Unsupervised principal...

  20. Allele frequency of hereditary equine regional dermal asthenia in American Quarter horses in Brazil determined by quantitative real-time PCR with high resolution melting analysis.

    Science.gov (United States)

    Badial, Peres R; Oliveira-Filho, José P; Winand, Nena J; Borges, Alexandre S

    2014-02-01

    Hereditary equine regional dermal asthenia (HERDA) is a genetic disorder that occurs in the American Quarter horse (AQH) and is caused by a c.115G>A missense mutation in the peptidylprolyl isomerase B (PPIB) gene. Using a quantitative real-time PCR high resolution melting analysis genotyping assay for the PPIB mutation, the estimated HERDA allele and carrier frequencies in a sample of Brazilian AQHs were 2.9% and 5.8%, respectively. Copyright © 2013 Elsevier Ltd. All rights reserved.

  1. HRSC: High resolution stereo camera

    Science.gov (United States)

    Neukum, G.; Jaumann, R.; Basilevsky, A.T.; Dumke, A.; Van Gasselt, S.; Giese, B.; Hauber, E.; Head, J. W.; Heipke, C.; Hoekzema, N.; Hoffmann, H.; Greeley, R.; Gwinner, K.; Kirk, R.; Markiewicz, W.; McCord, T.B.; Michael, G.; Muller, Jan-Peter; Murray, J.B.; Oberst, J.; Pinet, P.; Pischel, R.; Roatsch, T.; Scholten, F.; Willner, K.

    2009-01-01

    The High Resolution Stereo Camera (HRSC) on Mars Express has delivered a wealth of image data, amounting to over 2.5 TB from the start of the mapping phase in January 2004 to September 2008. In that time, more than a third of Mars was covered at a resolution of 10-20 m/pixel in stereo and colour. After five years in orbit, HRSC is still in excellent shape, and it could continue to operate for many more years. HRSC has proven its ability to close the gap between the low-resolution Viking image data and the high-resolution Mars Orbiter Camera images, leading to a global picture of the geological evolution of Mars that is now much clearer than ever before. Derived highest-resolution terrain model data have closed major gaps and provided an unprecedented insight into the shape of the surface, which is paramount not only for surface analysis and geological interpretation, but also for combination with and analysis of data from other instruments, as well as in planning for future missions. This chapter presents the scientific output from data analysis and highlevel data processing, complemented by a summary of how the experiment is conducted by the HRSC team members working in geoscience, atmospheric science, photogrammetry and spectrophotometry. Many of these contributions have been or will be published in peer-reviewed journals and special issues. They form a cross-section of the scientific output, either by summarising the new geoscientific picture of Mars provided by HRSC or by detailing some of the topics of data analysis concerning photogrammetry, cartography and spectral data analysis.

  2. High Resolution Formaldehyde Photochemistry

    Science.gov (United States)

    Ernest, C. T.; Bauer, D.; Hynes, A. J.

    2010-12-01

    Formaldehyde (HCHO) is the most abundant and most important organic carbonyl compound in the atmosphere. The sources of formaldehyde are the oxidation of methane, isoprene, acetone, and other volatile organic compounds (VOCs); fossil fuel combustion; and biomass burning. The dominant loss mechanism for formaldehyde is photolysis which occurs via two pathways: (R1) HCHO + hv → HCO + H (R2) HCHO + hv → H2 + CO The first pathway (R1) is referred to as the radical channel, while the second pathway (R2) is referred to as the molecular channel. The products of both pathways play a significant role in atmospheric chemistry. The CO that is produced in the molecular channel undergoes further oxidation to produce CO2. Under atmospheric conditions, the H atom and formyl radical that are produced in the radical channel undergo rapid reactions with O2 to produce the hydroperoxyl radical (HO2) via (R3) and (R4). (R3) HCO + O2 → HO2 + CO (R4) H + O2 → HO2 Thus, for every photon absorbed, the photolysis of formaldehyde can contribute one CO2 molecule to the global greenhouse budget or two HO2 radicals to the tropospheric HOx (OH + HO2) cycle. The HO2 radicals produced during formaldehyde photolysis have also been implicated in the formation of photochemical smog. The HO2 radicals act as radical chain carriers and convert NO to NO2, which ultimately results in the catalytic production of O3. Constraining the yield of HO2 produced via HCHO photolysis is essential for improving tropospheric chemistry models. In this study, both the absorption cross section and the quantum yield of the radical channel (R1) were measured at high resolution over the tropospherically relevant wavelength range 304-330 nm. For the cross section measurements a narrow linewidth Nd:YAG pumped dye laser was used with a multi-pass cell. Partial pressures of HCHO were kept below 0.3 torr. Simultaneous measurement of OH LIF in a flame allowed absolute calibration of the wavelength scale. Pressure

  3. A detailed analysis of the high-resolution X-ray spectra of NGC 3516: variability of the ionized absorbers

    Energy Technology Data Exchange (ETDEWEB)

    Huerta, E. M.; Krongold, Y.; Jimenez-Bailon, E. [Departamento de Astronomia Extragalactica y Cosmologia, Instituto de Astronomia, Universidad Nacional Autonoma de Mexico (UNAM), Apartado Postal 70-264, 04510 Mexico D.F. (Mexico); Nicastro, F. [Osservatorio Astronomico di Roma-INAF, Via di Frascati 33, I-00040 Monte Porzio Catone, RM (Italy); Mathur, S. [Astronomy Department, The Ohio State University, Enarson Hall, 140 West 18th Avenue, Columbus, OH 43210 (United States); Longinotti, A. L. [European Space Astronomy Centre of ESA, E-28691, Madrid (Spain)

    2014-09-20

    The 1.5 Seyfert galaxy NGC 3516 presents a strong time variability in X-rays. We re-analyzed the nine observations performed in 2006 October by XMM-Newton and Chandra in the 0.3 to 10 keV energy band. An acceptable model was found for the XMM-Newton data fitting the EPIC-PN and RGS spectra simultaneously; later, this model was successfully applied to the contemporary Chandra high-resolution data. The model consists of a continuum emission component (power law + blackbody) absorbed by four ionized components (warm absorbers), and 10 narrow emission lines. Three absorbing components are warm, producing features only in the soft X-ray band. The fourth ionization component produces Fe XXV and Fe XXVI in the hard-energy band. We study the time response of the absorbing components to the well-detected changes in the X-ray luminosity of this source and find that the two components with the lower ionization state show clear opacity changes consistent with gas close to photoionization equilibrium. These changes are supported by the models and by differences in the spectral features among the nine observations. On the other hand, the two components with higher ionization state do not seem to respond to continuum variations. The response time of the ionized absorbers allows us to constrain their electron density and location. We find that one component (with intermediate ionization) must be located within the obscuring torus at a distance 2.7 × 10{sup 17} cm from the central engine. This outflowing component likely originated in the accretion disk. The three remaining components are at distances larger than 10{sup 16}-10{sup 17} cm. Two of the absorbing components in the soft X-rays have similar outflow velocities and locations. These components may be in pressure equilibrium, forming a multi-phase medium, if the gas has metallicity larger than the solar one (≳ 5 Z {sub ☉}). We also search for variations in the covering factor of the ionized absorbers (although partial

  4. Clinical pharmacogenomic testing of KRAS, BRAF and EGFR mutations by high resolution melting analysis and ultra-deep pyrosequencing

    Directory of Open Access Journals (Sweden)

    Agúndez José AG

    2011-09-01

    Full Text Available Abstract Background Epidermal growth factor receptor (EGFR and its downstream factors KRAS and BRAF are mutated in several types of cancer, affecting the clinical response to EGFR inhibitors. Mutations in the EGFR kinase domain predict sensitivity to the tyrosine kinase inhibitors gefitinib and erlotinib in lung adenocarcinoma, while activating point mutations in KRAS and BRAF confer resistance to the anti-EGFR monoclonal antibody cetuximab in colorectal cancer. The development of new generation methods for systematic mutation screening of these genes will allow more appropriate therapeutic choices. Methods We describe a high resolution melting (HRM assay for mutation detection in EGFR exons 19-21, KRAS codon 12/13 and BRAF V600 using formalin-fixed paraffin-embedded samples. Somatic variation of KRAS exon 2 was also analysed by massively parallel pyrosequencing of amplicons with the GS Junior 454 platform. Results We tested 120 routine diagnostic specimens from patients with colorectal or lung cancer. Mutations in KRAS, BRAF and EGFR were observed in 41.9%, 13.0% and 11.1% of the overall samples, respectively, being mutually exclusive. For KRAS, six types of substitutions were detected (17 G12D, 9 G13D, 7 G12C, 2 G12A, 2 G12V, 2 G12S, while V600E accounted for all the BRAF activating mutations. Regarding EGFR, two cases showed exon 19 deletions (delE746-A750 and delE746-T751insA and another two substitutions in exon 21 (one showed L858R with the resistance mutation T590M in exon 20, and the other had P848L mutation. Consistent with earlier reports, our results show that KRAS and BRAF mutation frequencies in colorectal cancer were 44.3% and 13.0%, respectively, while EGFR mutations were detected in 11.1% of the lung cancer specimens. Ultra-deep amplicon pyrosequencing successfully validated the HRM results and allowed detection and quantitation of KRAS somatic mutations. Conclusions HRM is a rapid and sensitive method for moderate

  5. Chapter 2: Stream and riparian habitat analysis and monitoring with a high-resolution terrestrial-aquatic LiDAR

    Science.gov (United States)

    Jim McKean; Dan Isaak; Wayne. Wright

    2009-01-01

    Management of aquatic habitat in streams requires description of conditions and processes both inside the channels and in the adjacent riparian zones. Biological and physical processes in these environments operate over a range of spatial scales from microhabitat to whole river networks. Limitations of previous survey technologies have focused management and research...

  6. High resolution spectroscopy of planet bearing stars

    Directory of Open Access Journals (Sweden)

    M. C. Gálvez

    2007-01-01

    Full Text Available We present here the first steps of an extended spectroscopic survey in order to characterize the stellar hosts of extra-solar planets. We have selected several known stars with plan- ets and using high resolution spectroscopy, we have studied their properties.

  7. High resolution melting analysis is a more sensitive and effective alternative to gel-based platforms in analysis of SSR--an example in citrus.

    Science.gov (United States)

    Distefano, Gaetano; Caruso, Marco; La Malfa, Stefano; Gentile, Alessandra; Wu, Shu-Biao

    2012-01-01

    High resolution melting curve analysis (HRM) has been used as an efficient, accurate and cost-effective tool to detect single nucleotide polymorphisms (SNPs) or insertions or deletions (INDELs). However, its efficiency, accuracy and applicability to discriminate microsatellite polymorphism have not been extensively assessed. The traditional protocols used for SSR genotyping include PCR amplification of the DNA fragment and the separation of the fragments on electrophoresis-based platform. However, post-PCR handling processes are laborious and costly. Furthermore, SNPs present in the sequences flanking repeat motif cannot be detected by polyacrylamide-gel-electrophoresis based methods. In the present study, we compared the discriminating power of HRM with the traditional electrophoresis-based methods and provided a panel of primers for HRM genotyping in Citrus. The results showed that sixteen SSR markers produced distinct polymorphic melting curves among the Citrus spp investigated through HRM analysis. Among those, 10 showed more genotypes by HRM analysis than capillary electrophoresis owing to the presence of SNPs in the amplicons. For the SSR markers without SNPs present in the flanking region, HRM also gave distinct melting curves which detected same genotypes as were shown in capillary electrophoresis (CE) analysis. Moreover, HRM analysis allowed the discrimination of most of the 15 citrus genotypes and the resulting genetic distance analysis clustered them into three main branches. In conclusion, it has been approved that HRM is not only an efficient and cost-effective alternative of electrophoresis-based method for SSR markers, but also a method to uncover more polymorphisms contributed by SNPs present in SSRs. It was therefore suggested that the panel of SSR markers could be used in a variety of applications in the citrus biodiversity and breeding programs using HRM analysis. Furthermore, we speculate that the HRM analysis can be employed to analyse SSR

  8. High resolution melting analysis is a more sensitive and effective alternative to gel-based platforms in analysis of SSR--an example in citrus.

    Directory of Open Access Journals (Sweden)

    Gaetano Distefano

    Full Text Available High resolution melting curve analysis (HRM has been used as an efficient, accurate and cost-effective tool to detect single nucleotide polymorphisms (SNPs or insertions or deletions (INDELs. However, its efficiency, accuracy and applicability to discriminate microsatellite polymorphism have not been extensively assessed. The traditional protocols used for SSR genotyping include PCR amplification of the DNA fragment and the separation of the fragments on electrophoresis-based platform. However, post-PCR handling processes are laborious and costly. Furthermore, SNPs present in the sequences flanking repeat motif cannot be detected by polyacrylamide-gel-electrophoresis based methods. In the present study, we compared the discriminating power of HRM with the traditional electrophoresis-based methods and provided a panel of primers for HRM genotyping in Citrus. The results showed that sixteen SSR markers produced distinct polymorphic melting curves among the Citrus spp investigated through HRM analysis. Among those, 10 showed more genotypes by HRM analysis than capillary electrophoresis owing to the presence of SNPs in the amplicons. For the SSR markers without SNPs present in the flanking region, HRM also gave distinct melting curves which detected same genotypes as were shown in capillary electrophoresis (CE analysis. Moreover, HRM analysis allowed the discrimination of most of the 15 citrus genotypes and the resulting genetic distance analysis clustered them into three main branches. In conclusion, it has been approved that HRM is not only an efficient and cost-effective alternative of electrophoresis-based method for SSR markers, but also a method to uncover more polymorphisms contributed by SNPs present in SSRs. It was therefore suggested that the panel of SSR markers could be used in a variety of applications in the citrus biodiversity and breeding programs using HRM analysis. Furthermore, we speculate that the HRM analysis can be employed to

  9. High Resolution Melting Analysis Is a More Sensitive and Effective Alternative to Gel-Based Platforms in Analysis of SSR – An Example in Citrus

    Science.gov (United States)

    Distefano, Gaetano; Caruso, Marco; La Malfa, Stefano; Gentile, Alessandra; Wu, Shu-Biao

    2012-01-01

    High resolution melting curve analysis (HRM) has been used as an efficient, accurate and cost-effective tool to detect single nucleotide polymorphisms (SNPs) or insertions or deletions (INDELs). However, its efficiency, accuracy and applicability to discriminate microsatellite polymorphism have not been extensively assessed. The traditional protocols used for SSR genotyping include PCR amplification of the DNA fragment and the separation of the fragments on electrophoresis-based platform. However, post-PCR handling processes are laborious and costly. Furthermore, SNPs present in the sequences flanking repeat motif cannot be detected by polyacrylamide-gel-electrophoresis based methods. In the present study, we compared the discriminating power of HRM with the traditional electrophoresis-based methods and provided a panel of primers for HRM genotyping in Citrus. The results showed that sixteen SSR markers produced distinct polymorphic melting curves among the Citrus spp investigated through HRM analysis. Among those, 10 showed more genotypes by HRM analysis than capillary electrophoresis owing to the presence of SNPs in the amplicons. For the SSR markers without SNPs present in the flanking region, HRM also gave distinct melting curves which detected same genotypes as were shown in capillary electrophoresis (CE) analysis. Moreover, HRM analysis allowed the discrimination of most of the 15 citrus genotypes and the resulting genetic distance analysis clustered them into three main branches. In conclusion, it has been approved that HRM is not only an efficient and cost-effective alternative of electrophoresis-based method for SSR markers, but also a method to uncover more polymorphisms contributed by SNPs present in SSRs. It was therefore suggested that the panel of SSR markers could be used in a variety of applications in the citrus biodiversity and breeding programs using HRM analysis. Furthermore, we speculate that the HRM analysis can be employed to analyse SSR

  10. [Application of gas chromatography-high resolution quadrupole time of flight mass spectrometry to the analysis of benzaldehyde, benzyl alcohol acetophenone and phenylacetaldehyde in complex aromatic samples].

    Science.gov (United States)

    Liu, Junyan; Cao, Zhe; Li, Jiwen; Wang, Zheming; Wang, Chuan; Gu, Songyuan

    2015-02-01

    The study focuses on the quantitative analytical characterization of benzaldehyde, benzyl alcohol, acetophenone and phenylacetaldehyde in complex aromatic samples by gas chromatography-high resolution quadrupole time of flight mass spectrometry (GC-QTOF MS). The four compounds in real sample were accurately qualified and quantified through a comprehensive analysis of the GC retention times and the accurate masses of the ion fragments obtained by the high resolution MS. The new method therefore effectively avoids the interference of the real sample substrate, which reduces the accuracy of the analysis results. The peak area of the characteristic ion fragment for each compound was used for quantitation calculation. The MS signal responses of the four compounds showed good linear relationships with the corresponding mass concentrations and the linear regression coefficients were greater than 0. 99. The method recoveries were 87. 97% - 103.01%. The limits of detection (LODs) were 0. 01, 0. 03, 0. 02 and 0. 01 mg/L for benzaldehyde, benzyl alcohol, acetophenone and phenylacetaldehyde respectively. The contents of the four compounds in three real samples were analyzed. The study provided a new strategy for oxygenate analysis in complex aromatic samples using GC-QTOF MS. By measuring the accurate masses, the new method reduces the reliance on chromatographic separation ability and makes up the shortcomings of the traditional GC-MS methods.

  11. Applications of the method of high resolution melting analysis for diagnosis of Leber's disease and the three primary mutation spectrum of LHON in the Han Chinese population.

    Science.gov (United States)

    Cui, Guanglin; Ding, Hu; Xu, Yujun; Li, Bin; Wang, Dao Wen

    2013-01-01

    Current screening methods, such as single strand conformational polymorphism (SSCP), denaturing high performance liquid chromatography (dHPLC) and direct DNA sequencing that are used for detecting mutation in Leber's hereditary optic neuropathy (LHON) subjects are time consuming and costly. Here we tested high-resolution melt (HRM) analysis for mtDNA primary mutations in LHON patients. In this study, we applied the high resolution melting (HRM) technology to screen mtDNA primary mutations in 50 LHON patients from their peripheral blood. In order to evaluate the reliability of this technique, we compared the results obtained by HRM and direct mtDNA sequencing. We also investigated the spectrum of three most common mtDNA mutations implicated in LHON in the Han Chinese population. The results showed HRM analysis differentiated all of the mtDNA primary mutations and identified 4 additional mtDNA mutations from 50 patients in the blind study. The prevalence of three primary mutations were 11778G>A (87.9%), 14484T>C (6.5%) and 3460G>A (1.7%) in the Han Chinese population. In conclusion, HRM analysis is a rapid, reliable, and low-cost tool for detecting mtDNA primary mutations and has practical applications in molecular genetics.

  12. Evaluation of effects of pharmaceutical processing on structural disorders of active pharmaceutical ingredient crystals using nanoindentation and high-resolution total scattering pair distribution function analysis.

    Science.gov (United States)

    Chen, Shuang; Sheikh, Ahmad Y; Ho, Raimundo

    2014-12-01

    Pharmaceutical unit operations such as milling and compaction can often generate disordered regions in crystals of active pharmaceutical ingredients (APIs). This may lead to changes in a number of important pharmaceutical properties including dissolution, stability, hygroscopicity, and so on. It is therefore important for pharmaceutical industry to evaluate the effects of pharmaceutical processing on API structural orders, and to investigate and develop analytical tools that are capable of accurately detecting and assessing subtle process-induced structural disorders in pharmaceutical crystals. In this study, nanoindentation was first used to determine the intrinsic mechanical properties including hardness and Young's modulus of two API crystals, compounds 1 and 2. These crystals of different mechanical properties were then milled and compacted under various conditions. The resulting structural disorders in these crystals were subsequently evaluated using synchrotron-based high-resolution total scattering pair distribution function (TS-PDF) analysis. Furthermore, principal component analysis was applied to the PDF data to assess the relative extents of disorders in the API crystals, which showed a good correlation with the process conditions. The study demonstrates that high-resolution TS-PDF analysis coupled with nanoindentation measurement is a valuable and effective tool for detecting and assessing process-induced subtle structural disorders in API crystals. © 2014 Wiley Periodicals, Inc. and the American Pharmacists Association.

  13. Sensitivity analysis of high resolution gamma-ray detection for safeguards monitoring at natural uranium conversion facilities

    Science.gov (United States)

    Dewji, S. A.; Croft, S.; Hertel, N. E.

    2017-03-01

    Under the policies proposed by recent International Atomic Energy Agency (IAEA) circulars and policy papers, implementation of safeguards exists when any purified aqueous uranium solution or uranium oxides suitable for isotopic enrichment or fuel fabrication exists. Under IAEA Policy Paper 18, the starting point for nuclear material under safeguards was reinterpreted, suggesting that purified uranium compounds should be subject to safeguards procedures no later than the first point in the conversion process. In response to this technical need, a combination of simulation models and experimental measurements were employed in previous work to develop and validate gamma-ray nondestructive assay monitoring systems in a natural uranium conversion plant (NUCP). In particular, uranyl nitrate (UO2(NO3)2) solution exiting solvent extraction was identified as a key measurement point (KMP). Passive nondestructive assay techniques using high resolution gamma-ray spectroscopy were evaluated to determine their viability as a technical means for drawing safeguards conclusions at NUCPs, and if the IAEA detection requirements of 1 significant quantity (SQ) can be met in a timely manner. Building upon the aforementioned previous validation work on detector sensitivity to varying concentrations of uranyl nitrate via a series of dilution measurements, this work investigates detector response parameter sensitivities to gamma-ray signatures of uranyl nitrate. The full energy peak efficiency of a detection system is dependent upon the sample, geometry, absorption, and intrinsic efficiency parameters. Perturbation of these parameters translates into corresponding variations of the 185.7 keV peak area of the 235U in uranyl nitrate. Such perturbations in the assayed signature impact the quality or versatility of the safeguards conclusions drawn. Given the potentially high throughput of uranyl nitrate in NUCPs, the ability to assay 1 SQ of material requires uncertainty «1%. Accounting for

  14. In vivo application of 3D-line skeleton graph analysis (LSGA) technique with high-resolution magnetic resonance imaging of trabecular bone structure.

    Science.gov (United States)

    Pothuaud, Laurent; Newitt, David C; Lu, Ying; MacDonald, Brian; Majumdar, Sharmila

    2004-05-01

    Over the last several years magnetic resonance (MR) imaging has emerged as a means of measuring in vivo 3D trabecular bone structure. In particular, MR based diagnosis could be used to complement standard bone mineral density (BMD) methods for assessing osteoporosis and evaluating longitudinal changes. The aim of this study was to demonstrate the feasibility of using the 3D-LSGA technique for the evaluation of trabecular bone structure of high-resolution MR images, particularly for assessing longitudinal changes, in vivo. First, the reproducibility of topological 3D-LSGA based measurements was evaluated in a set of seven volunteers, and coefficients of variations ranged from 3.5% to 6%. Second, high-resolution MR images of the radius in 30 postmenopausal women from a placebo controlled drug study (Idoxifene), divided into placebo ( n=9) and treated ( n=21) groups, were obtained at baseline (BL) and after 1 year of treatment (follow-up, FU). In addition, dual X-ray absorptiometry (DXA) measures of BMD were obtained in the distal radius. Standard morphological measurements based on the mean intercept length (MIL) technique as well as 3D-LSGA based measurements were applied to the 3D MR images. Significant changes from BL to FU were detected, in the treated group, using the topological 3D-LSGA based measurements, morphological measures of volume of connected trabeculae and App Tb.N from MIL analysis. The duration of the study was short, and the number of patients remaining in the study was small, hence these results cannot be interpreted with regard to a true therapeutic response. Furthermore, the site (wrist) and the drug (idoxifene) are not optimal for follow-up study. However, this paper demonstrated the feasibility of using 3D-LSGA based evaluation coupled with in vivo high-resolution MR imaging as a complementary approach for the monitoring of trabecular bone changes in individual subjects.

  15. Analysis of bromotryptophan and hydroxyproline modifications by high-resolution, high-accuracy precursor ion scanning utilizing fragment ions with mass-deficient mass tags.

    Science.gov (United States)

    Steen, Hanno; Mann, Matthias

    2002-12-15

    Protein modifications are often detected by precursor ion scanning. When quadrupole TOF mass spectrometers are used for precursor ion scanning with high-resolution, high-accuracy fragment ion selection, "reporter" ions are required to have a unique mass within +/-0.04 Da or less instead of +/-0.5 Da on triple quadrupole mass spectrometers, the traditional instrument used for precursor ion scanning. Thus, characteristic fragment ions can be utilized even if other fragment ions have the same nominal mass as long as the characteristic fragment ions are slightly mass deficient as compared to the other fragments, i.e., when they have an inherent mass-deficient mass tag. Here, the immonium ions of bromotryptophan and hydroxyproline are described as two fragment ions characteristic for tryptophan-brominated and proline-hydroxylated peptides, respectively. The "reporter" ion of trytophan-brominated peptides is highly mass deficient due to the presence of bromine, thereby allowing the selective detection of these species and the distinction from other dipeptidic a-, b-, and y-fragment ions by high-resolution, high-accuracy precursor ion scanning. This strategy also enables the differentiation between precursors giving rise to the oxygen-containing immonium ion of hydroxyproline and precursors of the immonium ions of near-ubiquitous leucine/isoleucine. Both immonium ions have the same nominal mass of 86 Da, but the exact masses differ by less than 0.04 Da. High-resolution, high-accuracy precursor ion scanning enabled the identification of proline-hydroxylated and tryptophan-brominated species and the directed analysis of species carrying these modifications in a highly complex Conus textile conotoxin mixture. This lead to the characterization of one novel C. textile conotoxin containing a bromotryptophan residue and one novel C. textile conotoxin carrying two hydroxyproline residues.

  16. Rapid species identification within the Mycobacterium chelonae-abscessus group by high-resolution melting analysis of hsp65 PCR products.

    Science.gov (United States)

    Odell, Ian D; Cloud, Joann L; Seipp, Michael; Wittwer, Carl T

    2005-01-01

    Polymerase chain reaction (PCR) amplification of the heat shock protein 65 (hsp65) gene followed by high-resolution melting analysis with LCGreen I (Idaho Technology, Salt Lake City, UT) was used to differentiate the mycobacteria species Mycobacterium chelonae, Mycobacterium abscessus, and Mycobacterium immunogenum in less than 20 minutes. A 105-base-pair amplicon that clustered the different species by predicted melting temperature was found from available GenBank hsp65 sequences. We identified 24 clinical isolates within the M chelonae-abscessus group by proximal 16S ribosomal RNA and hsp65 gene sequencing. Rapid-cycle PCR followed by high-resolution melting analysis clustered these samples into the following groups: M abscessus, 12; M abscessus sequence variant, 2; M chelonae, 7; unexpected M chelonae sequence variant, 1; and M immunogenum, 2. The M chelonae variant had a single base change not found in reported GenBank sequences. Advantages of the method include speed, low risk of amplicon contamination (closed-tube), and no need for separation steps (sequencing, electrophoresis, high-performance liquid chromatography) or real-time monitoring.

  17. Imaging Analysis of the Hard X-Ray Telescope ProtoEXIST2 and New Techniques for High-resolution Coded-aperture Telescopes

    Science.gov (United States)

    Hong, Jaesub; Allen, Branden; Grindlay, Jonathan; Barthelmy, Scott

    2017-01-01

    Wide-field (≳100 deg{}2) hard X-ray coded-aperture telescopes with high angular resolution (≲2‧) will enable a wide range of time domain astrophysics. For instance, transient sources such as gamma-ray bursts can be precisely localized without the assistance of secondary focusing X-ray telescopes to enable rapid followup studies. On the other hand, high angular resolution in coded-aperture imaging introduces a new challenge in handling the systematic uncertainty: the average photon count per pixel is often too small to establish a proper background pattern or model the systematic uncertainty in a timescale where the model remains invariant. We introduce two new techniques to improve detection sensitivity, which are designed for, but not limited to, a high-resolution coded-aperture system: a self-background modeling scheme which utilizes continuous scan or dithering operations, and a Poisson-statistics based probabilistic approach to evaluate the significance of source detection without subtraction in handling the background. We illustrate these new imaging analysis techniques in high resolution coded-aperture telescope using the data acquired by the wide-field hard X-ray telescope ProtoEXIST2 during a high-altitude balloon flight in fall 2012. We review the imaging sensitivity of ProtoEXIST2 during the flight, and demonstrate the performance of the new techniques using our balloon flight data in comparison with a simulated ideal Poisson background.

  18. Urban land use/land cover mapping with high-resolution SAR imagery by integrating support vector machines into object-based analysis

    Science.gov (United States)

    Hu, Hongtao; Ban, Yifang

    2008-10-01

    This paper investigates the capability of high-resolution SAR data for urban landuse/land-cover mapping by integrating support vector machines (SVMs) into object-based analysis. Five-date RADARSAT fine-beam C-HH SAR images with a pixel spacing of 6.25 meter were acquired over the rural-urban fringe of the Great Toronto Area (GTA) during May to August in 2002. First, the SAR images were segmented using multi-resolution segmentation algorithm and two segmentation levels were created. Next, a range of spectral, shape and texture features were selected and calculated for all image objects on both levels. The objects on the lower level then inherited features of their super objects. In this way, the objects on the lower level received detailed descriptions about their neighbours and contexts. Finally, SVM classifiers were used to classify the image objects on the lower level based on the selected features. For training the SVM, sample image objects on the lower level were used. One-against-one approach was chosen to apply SVM to multiclass classification of SAR images in this research. The results show that the proposed method can achieve a high accuracy for the classification of high-resolution SAR images over urban areas.

  19. High-resolution microarray analysis unravels complex Xq28 aberrations in patients and carriers affected by X-linked blue cone monochromacy.

    Science.gov (United States)

    Yatsenko, S A; Bakos, H A; Vitullo, K; Kedrov, M; Kishore, A; Jennings, B J; Surti, U; Wood-Trageser, M A; Cercone, S; Yatsenko, A N; Rajkovic, A; Iannaccone, A

    2016-01-01

    The human X chromosome contains ∼ 1600 genes, about 15% of which have been associated with a specific genetic condition, mainly affecting males. Blue cone monochromacy (BCM) is an X-linked condition caused by a loss-of-function of both the OPN1LW and OPN1MW opsin genes. The cone opsin gene cluster is composed of 2-9 paralogs with 99.8% sequence homology and is susceptible to deletions, duplications, and mutations. Current diagnostic tests employ polymerase chain reaction (PCR)-based technologies; however, alterations remain undetermined in 10% of patients. Furthermore, carrier testing in females is limited or unavailable. High-resolution X chromosome-targeted CGH microarray was applied to test for rearrangements in males with BCM and female carriers from three unrelated families. Pathogenic alterations were revealed in all probands, characterized by sequencing of the breakpoint junctions and quantitative real-time PCR. In two families, we identified a novel founder mutation that consisted of a complex 3-kb deletion that embraced the cis-regulatory locus control region and insertion of an additional aberrant OPN1MW gene. The application of high-resolution X-chromosome microarray in clinical diagnosis brings significant advantages in detection of small aberrations that are beyond the resolution of clinically available aCGH analysis and which can improve molecular diagnosis of the known conditions and unravel previously unrecognized X-linked diseases.

  20. Evaluation and identification of dioxin exposure biomarkers in human urine by high-resolution metabolomics, multivariate analysis and in vitro synthesis.

    Science.gov (United States)

    Jeanneret, Fabienne; Tonoli, David; Hochstrasser, Denis; Saurat, Jean-Hilaire; Sorg, Olivier; Boccard, Julien; Rudaz, Serge

    2016-01-05

    A previous high-resolution metabolomic study pointed out a dysregulation of urinary steroids and bile acids in human cases of acute dioxin exposure. A subset of 24 compounds was highlighted as putative biomarkers. The aim of the current study was (i) to evaluate the 24 biomarkers in an independent human cohort exposed to dioxins released from the incineration fumes of a municipal waste incinerator and; (ii) to identify them by comparison with authentic chemical standards and biosynthesised products obtained with in vitro metabolic reactions. An orthogonal projection to latent structures discriminant analysis built on biomarker profiles measured in the intoxicated cohort and the controls separated both groups with reported values of 93.8%; 100% and 87.5% for global accuracy; sensitivity and specificity; respectively. These results corroborated the 24 compounds as exposure biomarkers; but a definite identification was necessary for a better understanding of dioxin toxicity. Dehydroepiandrosterone 3β-sulfate, androsterone 3α-glucuronide, androsterone 3α-sulfate, pregnanediol 3α-glucuronide and 11-ketoetiocholanolone 3α-glucuronide were identified by authentic standards. Metabolic reactions characterised four biomarkers: glucuronide conjugates of 11β-hydroxyandrosterone; glycochenodeoxycholic acid and glycocholic acid produced in human liver microsomes and glycoursodeoxycholic acid sulfate generated in cytosol fraction. The combination of metabolomics by high-resolution mass spectrometry with in vitro metabolic syntheses confirmed a perturbed profile of steroids and bile acids in human cases of dioxin exposure.

  1. The GMAO OSSE for Weather Analysis and Prediction Using the High-Resolution GEOS-5 Nature Run

    Science.gov (United States)

    Errico, Ronald; Prive, Nikki; Da Silva Carvalho, David

    2017-01-01

    Applications of OSSEs:1. Estimate effects of proposed instruments (and their competing designs)on analysis skill by exploiting simulated environment, and 2. Evaluate present and proposed techniques for data assimilation by exploiting known truth.

  2. Analysis of the high resolution Mg XI X-ray spectra. Pt. 3. Non-thermal interpretation of some spectra

    Energy Technology Data Exchange (ETDEWEB)

    Siarkowski, M.; Sylwester, J. (Polska Akademia Nauk, Wroclaw. Centrum Badan Kosmicznych); Bromboszcs, G. (Wroclaw Univ. (Poland). Obserwatorium Astronomiczne); Korneev, V.V.; Mandelshtam, S.L.; Oparin, S.N.; Urnov, A.M.; Zhitnik, I.A. (AN SSSR, Moscow. Fizicheskij Inst.)

    1982-11-01

    In part III of the paper containing the analysis of the INTERCOSMOS 16 ADP spectra, it is shown that by assuming the existence of a small admixture (1%) of non-thermal electrons in the active-region plasma it is possible to improve the agreement between measured and calculated fluxes for some spectra. The analysis follows the suggestion contained in the paper by Karev et al. (1980).

  3. Semi-targeted analysis of metabolites using capillary-flow ion chromatography coupled to high-resolution mass spectrometry.

    Science.gov (United States)

    Burgess, Karl; Creek, Darren; Dewsbury, Paul; Cook, Ken; Barrett, Michael P

    2011-11-30

    This work describes a novel application of capillary-flow ion chromatography mass spectrometry for metabolomic analysis, and comparison of the technique to octadecyl silica and hydrophilic interaction chromatography (HILIC)-based mass spectrometry. While liquid chromatography/mass spectrometry (LC/MS) is rapidly becoming the standard technique for metabolomic analysis, metabolomic samples are extremely heterogeneous, leading to a requirement for multiple methods of analysis and separation techniques to perform a 'global' metabolomic analysis. While C18 is suitable for hydrophobic metabolites and has been used extensively in pharmaceutical drug metabolism studies, HILIC is, in general, efficient at separating polar metabolites. Phosphorylated species and organic acids are challenging to analyse and effectively quantitate on both systems. There is therefore a requirement for an MS-compatible analytical technique that can separate negatively charged compounds, such as ion-exchange chromatography. Evaluation of capillary flow ion chromatography with electrolytic suppression was performed on a library of metabolite standards and was shown to effectively separate organic acids and sugar di- and tri-phosphates. Limits of detection for these compounds range from 0.01 to 100 pmol on-column. Application of capillary ion chromatography to a comparative analysis of energy metabolism in procyclic forms of the parasitic protozoan Trypanosoma brucei where cells were grown on glucose or proline as a carbon source was demonstrated to be more effective than HILIC for detection of the organic acids that comprise glucose central metabolism and the tricarboxylic acid (TCA) cycle.

  4. (Un)targeted Scanning of Locks of Hair for Drugs of Abuse by Direct Analysis in Real Time-High-Resolution Mass Spectrometry.

    Science.gov (United States)

    Duvivier, Wilco F; van Putten, Marc R; van Beek, Teris A; Nielen, Michel W F

    2016-02-16

    Forensic hair evidence can be used to obtain retrospective timelines of drug use by analysis of hair segments. However, this is a laborious and time-consuming process, and mass spectrometric (MS) imaging techniques, which show great potential for single-hair targeted analysis, are less useful due to differences in hair growth rate between individual hairs. As an alternative, a fast untargeted analysis method was developed that uses direct analysis in real time-high-resolution mass spectrometry (DART-HRMS) to longitudinally scan intact locks of hair without extensive sample preparation or segmentation. The hair scan method was validated for cocaine against an accredited liquid chromatography/tandem mass spectrometry (LC/MS/MS) method. The detection limit for cocaine in hair was found to comply with the cutoff value of 0.5 ng/mg recommended by the Society of Hair Testing; that is, the DART hair scan method is amenable to forensic cases. Under DART conditions, no significant thermal degradation of cocaine occurred. The standard DART spot size of 5.1 ± 1.1 mm could be improved to 3.3 ± 1.0 mm, corresponding to approximately 10 days of hair growth, by using a high spatial resolution exit cone. By use of data-dependent product ion scans, multiple drugs of abuse could be detected in a single drug user hair scan with confirmation of identity by both exact mass and MS/HRMS fragmentation patterns. Furthermore, full-scan high-resolution data were retrospectively interrogated versus a list of more than 100 compounds and revealed additional hits and temporal profiles in good correlation with reported drug use.

  5. High-Resolution Autoradiography

    Science.gov (United States)

    1955-01-01

    measurements see appendix ehrbide containced 6.68 percent carbon while the alpha iron 13). Theii Oak Ridge National Laboratory analysis gave (,t(e matrix...the cementite phase leaving only a (5) The sample was fixed for a minute, washed in water for very small amount of activity in the alpha iron phase. a

  6. Mutation analysis of SLC26A4 for Pendred syndrome and nonsyndromic hearing loss by high-resolution melting

    DEFF Research Database (Denmark)

    Chen, Neng; Tranebjærg, Lisbeth; Rendtorff, Nanna Dahl

    2011-01-01

    Pendred syndrome and DFNB4 (autosomal recessive nonsyndromic congenital deafness, locus 4) are associated with autosomal recessive congenital sensorineural hearing loss and mutations in the SLC26A4 gene. Extensive allelic heterogeneity, however, necessitates analysis of all exons and splice sites...

  7. MULTIPLE ENZYME RESTRICTION FRAGMENT LENGTH POLYMORPHISM ANALYSIS FOR HIGH RESOLUTION DISTINCTION OF PSEUDOMONAS (SENSU STRICTO) 16S RRNA GENES

    Science.gov (United States)

    Pseudomonas specific 16S rDNA PCR amplification and multiple enzyme restriction fragment length polymorphism (MERFLP) analysis using a single digestion mixture of Alu I, Hinf I, Rsa I, and Tru 9I distinguished 150 published sequences and reference strains of authentic Pseudomonas...

  8. Application of random amplified polymorphic DNA (RAPD) analysis coupled with microchip electrophoresis for high-resolution identification of Monascus strains.

    Science.gov (United States)

    Shinzato, Naoya; Namihira, Tomoyuki; Tamaki, Yasutomo; Tsukahara, Masatoshi; Matsui, Toru

    2009-04-01

    Monascus fungi are commonly used for a variety of food products in Asia, and are also known to produce some biologically active compounds. Since the use of Monascus is expected to increase in food industries, strain-level identification and management of Monascus will be needed in the near future. In the present study, random amplified polymorphic DNA (RAPD) analysis coupled with microchip electrophoresis was applied for this purpose. Evaluations of the analysis stability revealed that reproducible results could be obtained, although template DNA fragmentation could influence the resulting RAPD pattern. RAPD analysis using 15 Monascus strains consisting of four species, M. ruber, M. pilosus, M. purpureus, and M. kaoliang showed that each strain generated a unique RAPD pattern, which allows strain-level identification of Monascus. In addition, the phylogenetic tree constructed from RAPD patterns reflected M. ruber-M. pilosus and M. purpureus-M. kaoliang clusters inferred from both ITS and beta-tubulin gene sequences, which indicated that the RAPD pattern could reflect their phylogenetic traits to a certain extent. On the other hand, RAPD analysis did not support the monophyletic clustering of the four Monascus species used in this study, which suggests the necessity of reexamination of species boundaries in Monascus.

  9. Evolution of the Near-surface Flows Inferred from High-resolution Ring-diagram Analysis of HMI Data

    Science.gov (United States)

    Bogart, Richard S.; Baldner, Charles; Basu, Sarbani

    2014-06-01

    Ring-diagram analysis of acoustic waves observed at the photosphere provides in principle a relatively robust determination of the sub-surface flows at a particular time under a particular region. The depth of penetration of the waves is related to the size of the region, hence the depth extent of the measured flows is inversely proportional to the spatial resolution. Most ring-analysis has focused on regions of extent ~15 deg (200 Mm) or more in order to provide reasonable mode sets for inversions. The HMI analysis pipeline however also provides a set of ring fit parameters on a scale three times smaller. These provide flow estimates for the outer 1% (7 Mm) of the Sun only, with very limited depth resolution, but with spatial resolution adequate to map structures.potentially associated with the belts and regions of magnetic activity. There are a number of systematic effects affecting the determination of flows from local helioseismic analysis of regions over different parts of the observable disc, not all well-understood. In this study we characterize those systematic effects with higher spatial resolution. This enable us to remove them more effectively as we map the temporal and spatial evolution of the flows, leaving open the question of their mean structure which is most affected by the systematics. We present results for the ring-diagram determination of the flow anomalies corresponding to the torsional oscillation pattern in differential rotation and analogous patterns in the meridional cell structure over the early part of the current solar cycle observed by HMI.

  10. Normalization to specific gravity prior to analysis improves information recovery from high resolution mass spectrometry metabolomic profiles of human urine.

    Science.gov (United States)

    Edmands, William M B; Ferrari, Pietro; Scalbert, Augustin

    2014-11-04

    Extraction of meaningful biological information from urinary metabolomic profiles obtained by liquid-chromatography coupled to mass spectrometry (MS) necessitates the control of unwanted sources of variability associated with large differences in urine sample concentrations. Different methods of normalization either before analysis (preacquisition normalization) through dilution of urine samples to the lowest specific gravity measured by refractometry, or after analysis (postacquisition normalization) to urine volume, specific gravity and median fold change are compared for their capacity to recover lead metabolites for a potential future use as dietary biomarkers. Twenty-four urine samples of 19 subjects from the European Prospective Investigation into Cancer and nutrition (EPIC) cohort were selected based on their high and low/nonconsumption of six polyphenol-rich foods as assessed with a 24 h dietary recall. MS features selected on the basis of minimum discriminant selection criteria were related to each dietary item by means of orthogonal partial least-squares discriminant analysis models. Normalization methods ranked in the following decreasing order when comparing the number of total discriminant MS features recovered to that obtained in the absence of normalization: preacquisition normalization to specific gravity (4.2-fold), postacquisition normalization to specific gravity (2.3-fold), postacquisition median fold change normalization (1.8-fold increase), postacquisition normalization to urinary volume (0.79-fold). A preventative preacquisition normalization based on urine specific gravity was found to be superior to all curative postacquisition normalization methods tested for discovery of MS features discriminant of dietary intake in these urinary metabolomic datasets.

  11. Soil depth map definition on a terraced slope for a following distributed, high resolution, numerical modelling analysis

    Science.gov (United States)

    Camera, C.; Apuani, T.; Mele, M.; Kuriakose, S. L.; Giudici, M.

    2012-04-01

    The soil thickness represents a key data for every environmental analysis involving soil, but its determination is not always simple. In this particular case, the study area is represented by a small terraced slope (0.6 km2) of Valtellina (Northern Italy), and the soil depth map is necessary for a coupled hydrogeological-stability analysis in a raster environment. During this work geometrical/morphological and geostatistical interpolation techniques were tested to obtain a satisfying soil depth map. At the end, the final product has been validated with geo-electrical resistivity inverse models. In this particular context, the presence of dry-stone retaining walls is of primary importance, since they have an influence on the morphology of the entire area as well as on the physical processes of water infiltration and slope stability. In order to consider the dry-stone walls in the analysis, it is necessary to have base maps with an adequate resolution (cells 1 m x 1 m). Assuming that the walls might be founded on bedrock or in its proximity, it was decided to use the heights of walls and the distribution of rock outcrops as soil depth input data. It was impossible to obtain direct measures with the knocking pole method, being pebbles frequently presents in the backfill soil . Except zero depth values, 682 measures were performed. The initial data set was divided into two subsets in order to use one as training points (76 % of the total) and the second as test points (24 %). Various techniques were tested, from linear multiple regressions with environmental predictors, to ordinary kriging, regression kriging with the same environmental variables, and Gaussian stochastic simulations. At the end, the best result was obtained with co-kriging, using a soil depth class map drawn from the field measures as co-variable. The result is a little bit guided but it was the only solution to obtain a map that partially takes into account the morphology of the slope. To verify the

  12. High resolution three-dimensional cardiac perfusion imaging using compartment-based k-t principal component analysis

    DEFF Research Database (Denmark)

    Vitanis, Viton; Manka, Robert; Giese, Daniel;

    2011-01-01

    -t principal component analysis reconstructions. Comparison of the two methods based on rest and stress three-dimensional perfusion data acquired with 2.3 × 2.3 × 10 mm(3) during a 225 msec acquisition window in patients confirms the findings and demonstrates the potential of compartment-based k-t principal...... permits three-dimensional perfusion imaging at 10-fold nominal acceleration. Using numerical simulations, it is shown that the compartment-based method results in accurate representations of dynamic signal intensity changes with significant improvements of temporal fidelity in comparison to conventional k...

  13. Advantage in Bright-blood and Black-blood Magnetic Resonance Imaging with High-resolution for Analysis of Carotid Atherosclerotic Plaques

    Directory of Open Access Journals (Sweden)

    Mei Li

    2015-01-01

    Full Text Available Background: About 50% of the cerebral ischemia events are induced by intracranial and extracranial atherosclerosis. This study aimed to evaluate the feasibility and accuracy for displaying atherosclerotic plaques in carotid arteries and analyzing their ingredients by using high-resolution new magnetic resonance imaging (MRI techniques. Methods: Totally, 49 patients suspected of extracranial carotid artery stenosis were subjected to cranial MRI scan and magnetic resonance angiography (MRA examination on carotid arteries, and high-resolution bright-blood and black-blood MRI analysis was carried out within 1 week. Digital subtraction angiography (DSA examination was carried out for 16 patients within 1 month. Results: Totally, 103 plaques were detected in the 49 patients, which were characterized by localized or diffusive thickening of the vessel wall, with the intrusion of crescent-shaped abnormal signal into lumens. Fibrous cap was displayed as isointensity in T1-weighted image (T1WI and hyperintensities in proton density weighted image (PDWI and T2-weighted image (T2WI, lipid core was displayed as isointensity or slight hyperintensities in T1WI, isointensity, hyperintensities or hypointensity in PDWI, and hypointensity in T2WI. Calcification in plaques was detected in 11 patients. Eight patients were detected with irregular plaque surface or ulcerative plaques, which were characterized by irregular intravascular space surface in the black-blood sequences, black hypointensity band was not detected in three-dimensional time-of-flight, or the hypointensity band was not continuous, and intrusion of hyperintensities into plaques can be detected. Bright-blood and black-blood techniques were highly correlated with the diagnosis of contrast-enhanced MRA in angiostenosis degree, Rs = 0.97, P < 0.001. In comparison to DSA, the sensitivity, specificity, and accuracy of MRI diagnosis of stenosis for ≥50% were 88.9%, 100%, and 97.9%, respectively

  14. High Resolution Melting (HRM) analysis for mutation screening of RGSL1,RGS16 and RGS8 in breast cancer

    DEFF Research Database (Denmark)

    Wiechec, Emilia; Wiuf, Carsten Henrik; Overgaard, Jens

    2011-01-01

    Abstract BACKGROUND: Identification of specific mutation targets in cancer may lead to discovery of the genes modulating cancer susceptibility and/or prognosis. The RGSL1, RGS16, and RGS8 genes within the 1q25.3 region belong to the novel family of regulators of G protein signaling (RGS) genes...... coding exons of RGSL1, RGS16, and RGS8 in tumors from 200 breast cancer patients. All sequence variants detected by HRM resulted in abnormal shape of the melting curves. The identified mutations and known single nucleotide polymorphisms (SNP) were subsequently confirmed by sequencing, and distribution...... of the SNP genotypes was determined by SNaPshot analysis. A case-control analysis of genotype frequencies was carried out. RESULTS: We identified three tumor specific missense mutations in RGSL1 (ex6 c.664 G>A (Val222Ile), ex13 c.2262 C>G (Asp754Glu), and ex13 c.2316 C>T (Ser772Leu) in three different breast...

  15. A high-resolution line survey of IRC +10216 with Herschel/HIFI. First results: Detection of warm silicon dicarbide (SiC2)

    NARCIS (Netherlands)

    Cernicharo, J.; Waters, L.B.F.M.; Decin, L.; Encrenaz, P.; Tielens, A. G. G. M.; Agúndez, M.; De Beck, E.; Müller, H. S. P.; Goicoechea, J. R.; Barlow, M.J.; Benz, A.; Crimier, N.; Daniel, F.; Di Giorgio, A. M.; Fich, M.; Gaier, T.; García-Lario, P.; de Koter, A.; Khouri, T.; Liseau, R.; Lombaert, R.; Erickson, N.; Pardo, J. R.; Pearson, J. C.; Shipman, R.; Sánchez Contreras, C.; Teyssier, D.

    2010-01-01

    We present the first results of a high-spectral-resolution survey of the carbon-rich evolved star IRC+10216 that was carried out with the HIFI spectrometer onboard Herschel. This survey covers all HIFI bands, with a spectral range from 488 to 1901 GHz. In this letter we focus on the band-1b spectrum

  16. Detection and identification of vegetative insecticidal proteins vip3 genes of Bacillus thuringiensis strains using polymerase chain reaction-high resolution melt analysis.

    Science.gov (United States)

    Li, Haitao; Shu, Changlong; He, Xiaoming; Gao, JiGuo; Liu, Rongmei; Huang, Dafang

    2012-05-01

    In this study, vegetative insecticidal proteins vip3 genes from Bacillus thuringiensis strains were detected based on polymerase chain reaction-high resolution melt (PCR-HRM) analysis. A pair of primers was designed according to the conservative sequences in 150 bp region of the known vip3 subfamily. The 150 bp regions of difference vip3 genes have only a few nucleotide difference vip3 genes were detected in 8 of 11 standard B. thuringiensis strains, and vip3Aa genes, vip3Af genes and vip3Ba gene can be distinguished as different melting curves by this method. The results demonstrate the utility of the HRM assay for mutant screening using vip3 gene. The PCR-HRM method may be a valuable and reliable tool for specific detection and identification of vip3 genes.

  17. A Physically-Intuitive Method for Calculation of the Local Lattice Constant from a High-Resolution Transmission Electron Microscopy Image by Fourier Analysis

    CERN Document Server

    Teherani, James T

    2013-01-01

    We have developed a physically-intuitive method to calculate the local lattice constant as a function of position in a high-resolution transmission electron microscopy image by performing a two-dimensional fast Fourier transform. We apply a Gaussian filter with appropriate spatial full-width-half-max (FWHM) bandwidth to the image centered at the desired location to calculate the local lattice constant (as opposed to the average lattice constant). Fourier analysis of the filtered image yields the vertical and horizontal lattice constants at this location. The process is repeated by stepping the Gaussian filter across the image to produce a set of local lattice constants in the vertical and horizontal direction as a function of position in the image. The method has been implemented in a freely available tool on nanoHUB.

  18. Detection of plant oil DNA using high resolution melting (HRM) post PCR analysis: a tool for disclosure of olive oil adulteration.

    Science.gov (United States)

    Vietina, Michelangelo; Agrimonti, Caterina; Marmiroli, Nelson

    2013-12-15

    Extra virgin olive oil is frequently subjected to adulterations with addition of oils obtained from plants other than olive. DNA analysis is a fast and economic tool to identify plant components in oils. Extraction and amplification of DNA by PCR was tested in olives, in milled seeds and in oils, to investigate its use in olive oil traceability. DNA was extracted from different oils made of hazelnut, maize, sunflower, peanut, sesame, soybean, rice and pumpkin. Comparing the DNA melting profiles in reference plant materials and in the oils, it was possible to identify any plant components in oils and mixtures of oils. Real-Time PCR (RT-PCR) platform has been added of the new methodology of high resolution melting (HRM), both were used to analyse olive oils mixed with different percentage of other oils. Results showed HRM a cost effective method for efficient detection of adulterations in olive oils. Copyright © 2013 Elsevier Ltd. All rights reserved.

  19. Dynamic Cluster Analysis: An Unbiased Method for Identifying A+2 Element Containing Compounds in Liquid Chromatographic High-Resolution TOF Mass Spectrometric Data

    DEFF Research Database (Denmark)

    Andersen, Aaron John Christian; Hansen, Per Juel; Jørgensen, Kevin

    2016-01-01

    Dynamic Cluster Analysis (DCA) is an automated, unbiased technique which can identify Cl, Br, S, and other A+2 element containing metabolites in liquid chromatographic high resolution mass spectrometric data. DCA is based on three features, primarily the previously unutilised A+1 to A+2 isotope...... cluster spacing which is a strong classifier in itself, but improved with the addition of the monoisotopic mass, and the well-known A:A+2 intensity ratio. Utilizing only the A+1 to A+2 isotope cluster spacing and the monoisotopic mass it was possible to filter a chromatogram for metabolites which contain...... Cl, Br, and S. Screening simulated isotope patterns of the Antibase Natural Products Database it was determined that the A+1 to A+2 isotope cluster spacing can be used to correctly classify 97.4% of molecular formulas containing these elements, only misclassifying a few metabolites which were either...

  20. High-Resolution Fourier Transform Infrared Spectroscopy of Vinyl Alcohol: Rotational Analysis of the nu(13) CH(2) Wagging Fundamental at 817 cm(-1).

    Science.gov (United States)

    Joo; Merer; Clouthier

    1999-09-01

    The first high-resolution infrared spectra of the unstable molecule vinyl alcohol are reported. The spectra have been obtained using a new precursor, 2-chloroethanol, which when pyrolyzed at 1050 degrees C gives strong infrared spectra of vinyl alcohol free of interfering hydrocarbon absorption bands. In this work, we have analyzed the strong nu(13) fundamental at 817 cm(-1) and substantially improved the ground state rotational constants by a simultaneous fitting of previous microwave data and a large number of infrared combination differences. The 13(1) upper state was found to be perturbed by the 15(2) "dark" state at 775.7 cm(-1), and a complete analysis of the perturbed rotational structure has been achieved using an interacting two-state model. Further small perturbations at high K(a) and J have been identified as interactions with the nu(10) and nu(12) fundamentals at 948 and 960 cm(-1), respectively. Copyright 1999 Academic Press.

  1. Imaging and Analysis of Void-defects in Solder Joints Formed in Reduced Gravity using High-Resolution Computed Tomography

    Science.gov (United States)

    Easton, John W.; Struk, Peter M.; Rotella, Anthony

    2008-01-01

    As a part of efforts to develop an electronics repair capability for long duration space missions, techniques and materials for soldering components on a circuit board in reduced gravity must be developed. This paper presents results from testing solder joint formation in low gravity on a NASA Reduced Gravity Research Aircraft. The results presented include joints formed using eutectic tin-lead solder and one of the following fluxes: (1) a no-clean flux core, (2) a rosin flux core, and (3) a solid solder wire with external liquid no-clean flux. The solder joints are analyzed with a computed tomography (CT) technique which imaged the interior of the entire solder joint. This replaced an earlier technique that required the solder joint to be destructively ground down revealing a single plane which was subsequently analyzed. The CT analysis technique is described and results presented with implications for future testing as well as implications for the overall electronics repair effort discussed.

  2. Stochasticity of Road Traffic Dynamics: Comprehensive Linear and Nonlinear Time Series Analysis on High Resolution Freeway Traffic Records

    CERN Document Server

    Siegel, H; Siegel, Helge; Belomestnyi, Dennis

    2006-01-01

    The dynamical properties of road traffic time series from North-Rhine Westphalian motorways are investigated. The article shows that road traffic dynamics is well described as a persistent stochastic process with two fixed points representing the freeflow (non-congested) and the congested state regime. These traffic states have different statistical properties, with respect to waiting time distribution, velocity distribution and autocorrelation. Logdifferences of velocity records reveal non-normal, obviously leptocurtic distribution. Further, linear and nonlinear phase-plane based analysis methods yield no evidence for any determinism or deterministic chaos to be involved in traffic dynamics on shorter than diurnal time scales. Several Hurst-exponent estimators indicate long-range dependence for the free flow state. Finally, our results are not in accordance to the typical heuristic fingerprints of self-organized criticality. We suggest the more simplistic assumption of a non-critical phase transition between...

  3. Field-portable high-resolution EDXRF analysis with HgI[sub 2]-detector-based instrumentati