WorldWideScience

Sample records for rapid generation time

  1. Global Navigation Satellite System (GNSS) Ultra-Rapid Orbit Product (sub-daily files, generated 4 times/day) from NASA CDDIS

    Data.gov (United States)

    National Aeronautics and Space Administration — This derived product set consists of Global Navigation Satellite System Ultra-Rapid Orbit Product (daily files, generated daily) from the NASA Crustal Dynamics Data...

  2. Marriage timing over the generations

    NARCIS (Netherlands)

    van Poppel, F.W.A.; Monden, C.; Mandemakers, K.

    2008-01-01

    Strong relationships have been hypothesized between the timing of marriage and the familial environment of the couple. Sociologists have identified various mechanisms via which the age at marriage in the parental generation might be related to the age at marriage of the children. In our paper we

  3. Time-Tag Generation Script

    Science.gov (United States)

    Jackson, Dan E.

    2010-01-01

    Time-Tag Generation Script (TTaGS) is an application program, written in the AWK scripting language, for generating commands for aiming one Ku-band antenna and two S-band antennas for communicating with spacecraft. TTaGS saves between 2 and 4 person-hours per every 24 hours by automating the repetitious process of building between 150 and 180 antenna-control commands. TTaGS reads a text database of communication satellite schedules and a text database of satellite rise and set times and cross-references items in the two databases. It then compares the scheduled start and stop with the geometric rise and set to compute the times to execute antenna control commands. While so doing, TTaGS determines whether to generate commands for guidance, navigation, and control computers to tell them which satellites to track. To help prevent Ku-band irradiation of the Earth, TTaGS accepts input from the user about horizon tolerance and accordingly restricts activation and effects deactivation of the transmitter. TTaGS can be modified easily to enable tracking of additional satellites and for such other tasks as reading Sun-rise/set tables to generate commands to point the solar photovoltaic arrays of the International Space Station at the Sun.

  4. PRECISION TIME-DELAY GENERATOR

    Science.gov (United States)

    Carr, B.J.; Peckham, V.D.

    1959-06-16

    A precision time-delay generator circuit with low jitter is described. The first thyratron has a series resonant circuit and a diode which is connected to the second thyratron. The first thyratron is triggered at the begin-ning of a time delay and a capacitor is discharged through the first thyratron and the diode, thereby, triggering the second thyratron. (T.R.H.) l6l9O The instrument described can measure pressures between sea level and 300,000 ft. The pressure- sensing transducer of the instrument is a small cylindrical tube with a thin foil of titanium-tritium fastened around the inside of the tube. Output is a digital signal which can be used for storage or telemetering more conveniently than an analog signal. (W.D.M.) l6l9l An experimental study was made on rolling contacts in the temperature range of 550 to 1000 deg F. Variables such as material composition, hardness, and operating conditions were investigated in a rolling test stand. Ball bearing tests were run to determine the effect of design parameters, bearing materials, lubricants, and operating conditions. (auth)

  5. Real-time scene generator

    Science.gov (United States)

    Lord, Eric; Shand, David J.; Cantle, Allan J.

    1996-05-01

    This paper describes the techniques which have been developed for an infra-red (IR) target, countermeasure and background image generation system working in real time for HWIL and Trial Proving applications. Operation is in the 3 to 5 and 8 to 14 micron bands. The system may be used to drive a scene projector (otherwise known as a thermal picture synthesizer) or for direct injection into equipment under test. The provision of realistic IR target and countermeasure trajectories and signatures, within representative backgrounds, enables the full performance envelope of a missile system to be evaluated. It also enables an operational weapon system to be proven in a trials environment without compromising safety. The most significant technique developed has been that of line by line synthesis. This minimizes the processing delays to the equivalent of 1.5 frames from input of target and sightline positions to the completion of an output image scan. Using this technique a scene generator has been produced for full closed loop HWIL performance analysis for the development of an air to air missile system. Performance of the synthesis system is as follows: 256 * 256 pixels per frame; 350 target polygons per frame; 100 Hz frame rate; and Gouraud shading, simple reflections, variable geometry targets and atmospheric scaling. A system using a similar technique has also bee used for direct insertion into the video path of a ground to air weapon system in live firing trials. This has provided realistic targets without degrading the closed loop performance. Delay of the modified video signal has been kept to less than 5 lines. The technique has been developed using a combination of 4 high speed Intel i860 RISC processors in parallel with the 4000 series XILINX field programmable gate arrays (FPGA). Start and end conditions for each line of target pixels are prepared and ordered in the I860. The merging with background pixels and output shading and scaling is then carried out in

  6. Providing Rapid Feedback in Generated Modular Language Environments

    NARCIS (Netherlands)

    Kats, L.C.L.; De Jonge, M.; Nilsson-Nyman, E.; Visser, E.

    2009-01-01

    This paper is a pre-print of: Providing Rapid Feedback in Generated Modular Language Environments. Adding Error Recovery to Scannerless Generalized-LR Parsing. In: Gary T. Leavens, editor, Proceedings of the 24th ACM SIGPLAN Conference on Object-Oriented Programing, Systems, Languages, and

  7. Rapid Conditioning for the Next Generation Melting System

    Energy Technology Data Exchange (ETDEWEB)

    Rue, David M. [Gas Technology Institute, Des Plaines, IL (United States)

    2015-06-17

    This report describes work on Rapid Conditioning for the Next Generation Melting System under US Department of Energy Contract DE-FC36-06GO16010. The project lead was the Gas Technology Institute (GTI). Partners included Owens Corning and Johns Manville. Cost share for this project was provided by NYSERDA (the New York State Energy Research and Development Authority), Owens Corning, Johns Manville, Owens Illinois, and the US natural gas industry through GTI’s SMP and UTD programs. The overreaching focus of this project was to study and develop rapid refining approaches for segmented glass manufacturing processes using high-intensity melters such as the submerged combustion melter. The objectives of this project were to 1) test and evaluate the most promising approaches to rapidly condition the homogeneous glass produced from the submerged combustion melter, and 2) to design a pilot-scale NGMS system for fiberglass recycle.

  8. Evaluation of the Determine™ fourth generation HIV rapid assay.

    Science.gov (United States)

    Brauer, Marieke; De Villiers, Johanna C; Mayaphi, Simnikiwe H

    2013-04-01

    Assays that detect p24 antigen reduce the diagnostic window period of HIV testing. Most point-of-care HIV assays have poor sensitivity to diagnose acute HIV infection as they only detect antibodies against HIV-1 and HIV-2 (HIV-1/2). This was a cross-sectional laboratory-based study that evaluated the performance of the Determine™ HIV-1/2 Ag/Ab Combo fourth generation rapid strip - currently the only rapid assay that detects both HIV-1/2 antibodies and p24 antigen. A total of 79 serum specimens (29 positive for HIV antibodies only, 14 positive for HIV antibodies and p24 antigen, 20 HIV-negative, and 16 positive for p24 antigen only) were used for the evaluation. Results were compared with those from validated fourth generation HIV ELISAs. The Determine™ Combo rapid strips had a sensitivity of 90.7% and a specificity of 100% for the detection of HIV-1/2 antibodies. Its sensitivity for the detection of p24 antigen was only 10% (3 out of 30 p24 antigen positive specimens). This implies that most acute HIV infections will be missed with this assay. The need for a point-of-care assay which can detect acute HIV infection reliably still remains, particularly for use in a high prevalence setting such as South Africa. Copyright © 2013 Elsevier B.V. All rights reserved.

  9. Rapidly reconfigurable high-fidelity optical arbitrary waveform generation in heterogeneous photonic integrated circuits.

    Science.gov (United States)

    Feng, Shaoqi; Qin, Chuan; Shang, Kuanping; Pathak, Shibnath; Lai, Weicheng; Guan, Binbin; Clements, Matthew; Su, Tiehui; Liu, Guangyao; Lu, Hongbo; Scott, Ryan P; Ben Yoo, S J

    2017-04-17

    This paper demonstrates rapidly reconfigurable, high-fidelity optical arbitrary waveform generation (OAWG) in a heterogeneous photonic integrated circuit (PIC). The heterogeneous PIC combines advantages of high-speed indium phosphide (InP) modulators and low-loss, high-contrast silicon nitride (Si3N4) arrayed waveguide gratings (AWGs) so that high-fidelity optical waveform syntheses with rapid waveform updates are possible. The generated optical waveforms spanned a 160 GHz spectral bandwidth starting from an optical frequency comb consisting of eight comb lines separated by 20 GHz channel spacing. The Error Vector Magnitude (EVM) values of the generated waveforms were approximately 16.4%. The OAWG module can rapidly and arbitrarily reconfigure waveforms upon every pulse arriving at 2 ns repetition time. The result of this work indicates the feasibility of truly dynamic optical arbitrary waveform generation where the reconfiguration rate or the modulator bandwidth must exceed the channel spacing of the AWG and the optical frequency comb.

  10. Friction Induced Wear of Rapid Prototyping Generated Materials: A Review

    Directory of Open Access Journals (Sweden)

    A. Tsouknidas

    2011-01-01

    Full Text Available Additive manufacturing has been introduced in the early 80s and has gained importance as a manufacturing process ever since. Even though the inception of the implicated processes predominantly focused on prototyping purposes, during the last years rapid prototyping (RP has emerged as a key enabling technology for the fabrication of highly customized, functionally gradient materials. This paper reviews friction-related wear phenomena and the corresponding deterioration mechanisms of RP-generated components as well as the potential of improving the implicated materials' wear resistance without significantly altering the process itself. The paper briefly introduces the concept of RP technologies and the implicated materials, as a premises to the process-dependent wear progression of the generated components for various degeneration scenarios (dry sliding, fretting, etc..

  11. Multiple output timing and trigger generator

    Energy Technology Data Exchange (ETDEWEB)

    Wheat, Robert M. [Los Alamos National Laboratory; Dale, Gregory E [Los Alamos National Laboratory

    2009-01-01

    In support of the development of a multiple stage pulse modulator at the Los Alamos National Laboratory, we have developed a first generation, multiple output timing and trigger generator. Exploiting Commercial Off The Shelf (COTS) Micro Controller Units (MCU's), the timing and trigger generator provides 32 independent outputs with a timing resolution of about 500 ns. The timing and trigger generator system is comprised of two MCU boards and a single PC. One of the MCU boards performs the functions of the timing and signal generation (the timing controller) while the second MCU board accepts commands from the PC and provides the timing instructions to the timing controller. The PC provides the user interface for adjusting the on and off timing for each of the output signals. This system provides 32 output or timing signals which can be pre-programmed to be in an on or off state for each of 64 time steps. The width or duration of each of the 64 time steps is programmable from 2 {micro}s to 2.5 ms with a minimum time resolution of 500 ns. The repetition rate of the programmed pulse train is only limited by the time duration of the programmed event. This paper describes the design and function of the timing and trigger generator system and software including test results and measurements.

  12. Revisiting algorithms for generating surrogate time series

    CERN Document Server

    Raeth, C; Papadakis, I E; Brinkmann, W

    2011-01-01

    The method of surrogates is one of the key concepts of nonlinear data analysis. Here, we demonstrate that commonly used algorithms for generating surrogates often fail to generate truly linear time series. Rather, they create surrogate realizations with Fourier phase correlations leading to non-detections of nonlinearities. We argue that reliable surrogates can only be generated, if one tests separately for static and dynamic nonlinearities.

  13. Rapid Flood Map Generation from Spaceborne SAR Observations

    Science.gov (United States)

    Yun, S. H.; Liang, C.; Manipon, G.; Jung, J.; Gurrola, E. M.; Owen, S. E.; Hua, H.; Agram, P. S.; Webb, F.; Sacco, G. F.; Rosen, P. A.; Simons, M.

    2016-12-01

    The Advanced Rapid Imaging and Analysis (ARIA) team has responded to the January 2016 US Midwest Floods along the Mississippi River. Daily teleconferences with FEMA, NOAA, NGA, and USGS, provided information on precipitation and flood crest migration, based on which we coordinated with the Japanese Aerospace Exploration Agency (JAXA) through NASA headquarters for JAXA's ALOS-2 timely tasking over two paths. We produced flood extent maps using ALOS-2 SM3 mode Level 1.5 data that were provided through the International Charter and stored at the US Geological Survey's Hazards Data Distribution System (HDDS) archive. On January 6, the first four frames (70 km x 240 km) were acquired, which included the City of Memphis. We registered post-event SAR images to pre-event images, applied radiometric calibration, took a logarithm of the ratio of the two images. Two thresholds were applied to represent flooded areas that became open water (colored in blue) and flooded areas with tall vegetation (colored in red). The second path was acquired on January 11 further down along the Mississippi River. Seven frames (70 km x 420 km) were acquired and flood maps were created in the similar fashion. The maps were delivered to the FEMA as well as posted on ARIA's public website. The FEMA stated that SAR provides inspection priority for optical imagery and ground response. The ALOS-2 data and the products have been a very important source of information during this response as the flood crest has moved down stream. The SAR data continue to be an important resource during times when optical observations are often not useful. In close collaboration with FEMA and USGS, we also work on other flood events including June 2016 China Floods using European Space Agency's (ESA's) Sentienl-1 data, to produce flood extent maps and identify algorithmic needs and ARIA system's requirements to automate and rapidly produce and deliver flood maps for future events. With the addition of Sentinel-1B

  14. Rapid near-optimal aerospace plane trajectory generation and guidance

    Science.gov (United States)

    Corban, J. E.; Calise, A. J.; Flandro, G. A.

    1991-01-01

    Problems associated with onboard trajectory optimization, propulsion system cycle selection, and the synthesis of guidance laws are addressed for ascent to low earth orbit of an airbreathing, single-stage-to-orbit vehicle. A multicycle propulsion system is assumed that incorporates turbojet, ramjet, scramjet, and rocket engines. An energy state approximation is applied to a singularly perturbed, four-state dynamic model for flight of a point mass over a spherical nonrotating earth. An algorithm is then derived for generating both the fuel-optimal climb profile and the guidance commands required to follow that profile. In particular, analytic switching conditions are derived that, under appropriate assumptions, efficiently govern optimal transition from one propulsion cycle to another. The algorithm proves to be computationally efficient and suitable for real-time implementation. The paper concludes with the presentation of representative numerical results that illustrate the nature of the fuel-optimal climb paths and the tracking performance of the guidance algorithm.

  15. Rapid Analysis Model: Reducing Analysis Time without Sacrificing Quality.

    Science.gov (United States)

    Lee, William W.; Owens, Diana

    2001-01-01

    Discusses the performance technology design process and the fact that the analysis phase is often being eliminated to speed up the process. Proposes a rapid analysis model that reduces time needed for analysis and still ensures more successful value-added solutions that focus on customer satisfaction. (LRW)

  16. Diagnosing herpesvirus infections by real time amplification and rapid culture.

    NARCIS (Netherlands)

    J. Guldemeester; A.D.M.E. Osterhaus (Albert); H.G.M. Niesters (Bert); G.J.J. van Doornum (Gerard)

    2003-01-01

    textabstractProcedures using real-time technique were developed to demonstrate the presence of herpes simplex virus type 1 (HSV-1) and HSV-2, varicella zoster virus (VZV), and cytomegalovirus (CMV) in miscellaneous clinical specimens. The assays were compared to rapid culture using centrifugation

  17. Development and implementation of a rapid real-time polymerase ...

    African Journals Online (AJOL)

    Assays which use real-time polymerase chain reaction (PCR) technology can be developed for the rapid identification of genetic sequences carried by waterborne pathogens. Rand Water has established facilities within which a selection of PCR assays will be developed. This paper reports on the optimisation and ...

  18. Development and implementation of a rapid real-time polymerase ...

    African Journals Online (AJOL)

    6–10 May 2012. * To whom all correspondence should be addressed. ☎ +27 16 430-8403; fax: +27 16 455-2055; e-mail: nleat@randwater.co.za. Development and implementation of a rapid real-time polymerase chain reaction assay for the detection of toxigenic Vibrio cholerae in water. Neil Leat* and Monique Grundlingh.

  19. Rapid Global Imagery Management and Generation In Action

    Science.gov (United States)

    Huang, T.; Alarcon, C.; Thompson, C. K.; Roberts, J. T.; Hall, J. R.; Cechini, M. F.; Schmaltz, J. E.; McGann, J. M.; Boller, R. A.; Murphy, K. J.; Bingham, A. W.

    2013-12-01

    NASA's Global Imagery Browse Services (GIBS) project has positioned itself to be the global imagery solution for the Earth Observation System (EOS), delivering global, full-resolution satellite imagery in a highly responsive manner. This is an ambitious goal for supporting a growing a collection of distributed archives consist of heterogeneous near real-time (NRT) and science products with varied and often disparate provenance pertaining to source platforms and instruments, spatial resolutions, processing algorithms, metadata models and packaging specifications. GIBS consists of two major subsystems, OnEarth and The Imagery Exchange (TIE). OnEarth is the Open Geospatial Consortium (OGC)-compliant Web Map Tile Service (WMTS), which efficiently serves multi-resolution imagery to clients (e.g., http://podaac-tools.jpl.nasa.gov/soto/ and http://earthdata.nasa.gov/labs/worldview/). TIE is the GIBS imagery workflow management solution that is a specialization of the horizontally scaled Data Management and Archive System (DMAS) developed at the Jet Propulsion Laboratory. Like DMAS, TIE is an Open Archival Information System (OAIS) responsible for orchestrating the workflow for acquisition, preparation, generation, and archiving of imagery to be served by OnEarth. The workflow collects imagery provenance throughout a product's lifecycle by leveraging the EOS Clearing House (ECHO) and other long-term metadata repositories in order to promote reproducibility and retain lineage with source observational artifacts. This talk focuses on the current TIE development activities and some of the patterns and architectures that have proven successful in building a horizontal-scaling workflow data systems. As a data solution developed using open source technologies. This talk also discusses current activities in getting DMAS and TIE to the open source community.

  20. Rapid Time Response: A solution for Manufacturing Issue

    Directory of Open Access Journals (Sweden)

    Norazlin N.

    2017-01-01

    Full Text Available Respond time in manufacturing give the major impact that able to contribute too many manufacturing issues. Based on two worst case scenario occurred where Toyota in 2009 made a massive vehicles call due to car complexity of 11 major models and over 9 million vehicles. The recalls cost at least $2 billion in cost of repair, lost deals and result in lost 5% of its market share in United State of America, while A380 was reported on missing target in new production and leads to delayed market entry due to their weak product life cycle management (PLM. These cases give a sign to all industries to possess and optimize the facilities for better traceability in shortest time period. In Industry 4.0, the traceability and time respond become the factors for high performance manufacturing and rapid time respond able to expedite the traceability process and strengthen the communication level between man, machine and management. The round trip time (RTT experiment gives variant time respond between two difference operating system for intra and inter-platform signal. If this rapid time respond is adopted in any manufacturing process, the delay in traceability on every issue that lead to losses can be successfully avoided.

  1. Rapid quantification of DNA libraries for next-generation sequencing.

    Science.gov (United States)

    Buehler, Bernd; Hogrefe, Holly H; Scott, Graham; Ravi, Harini; Pabón-Peña, Carlos; O'Brien, Scott; Formosa, Rachel; Happe, Scott

    2010-04-01

    The next-generation DNA sequencing workflows require an accurate quantification of the DNA molecules to be sequenced which assures optimal performance of the instrument. Here, we demonstrate the use of qPCR for quantification of DNA libraries used in next-generation sequencing. In addition, we find that qPCR quantification may allow improvements to current NGS workflows, including reducing the amount of library DNA required, increasing the accuracy in quantifying amplifiable DNA, and avoiding amplification bias by reducing or eliminating the need to amplify DNA before sequencing. Copyright 2010. Published by Elsevier Inc.

  2. Next generation chemical proteomic tools for rapid enzyme profiling.

    Science.gov (United States)

    Uttamchandani, Mahesh; Lu, Candy H S; Yao, Shao Q

    2009-08-18

    Sequencing of the human genome provided a wealth of information about the genomic blueprint of a cell. But genes do not tell the entire story of life and living processes; identifying the roles of enzymes and mapping out their interactions is also crucial. Enzymes catalyze virtually every cellular process and metabolic exchange. They not only are instrumental in sustaining life but also are required for its regulation and diversification. Diseases such as cancer can be caused by minor changes in enzyme activities. In addition, the unique enzymes of pathogenic organisms are ripe targets for combating infections. Consequently, nearly one-third of all current drug targets are enzymes. An estimated 18-29% of eukaryotic genes encode enzymes, but only a limited proportion of enzymes have thus far been characterized. Therefore, little is understood about the physiological roles, substrate specificity, and downstream targets of the vast majority of these important proteins. A key step toward the biological characterization of enzymes, as well as their adoption as drug targets, is the development of global solutions that bridge the gap in understanding these proteins and their interactions. We herein present technological advances that facilitate the study of enzymes and their properties in a high-throughput manner. Over the years, our group has introduced and developed a variety of such enabling platforms for many classes of enzymes, including kinases, phosphatases, and proteases. For each of these different types of enzymes, specific design considerations are required to develop the appropriate chemical tools to characterize each class. These tools include activity-based probes and chemical compound libraries, which are rapidly assembled using efficient combinatorial synthesis or "click chemistry" strategies. The resulting molecular assortments may then be screened against the target enzymes in high-throughput using microplates or microarrays. These techniques offer

  3. Internal and ancestral controls of cell-generation times

    Science.gov (United States)

    Kubitschek, H. E.

    1969-01-01

    Lateral and longitudinal correlations between related cells reveal associations between the generation times of cells for an intermediate period /three generations in bacteral cultures/. Generation times of progeny are influenced by nongenetic factors transmitted from their ancestors.

  4. [Evaluation of an immunochromatographic fourth generation test for the rapid diagnosis of acute HIV infection].

    Science.gov (United States)

    Kawahata, Takuya; Nagashima, Mami; Sadamasu, Kenji; Kojima, Yoko; Mori, Haruyo

    2013-07-01

    The early diagnosis of human immunodeficiency virus (HIV) infection is important to provide effective antiviral treatment and to prevent transmission of HIV. One of the key issues to achieve this goal is to shorten the so-called "diagnostic window period" when the humoral immune response toward the virus is not fully developed during the acute phase of HIV-1 infection. In 2008, the Espline HIV Ag/Ab test kit (E4G, Fujirebio Inc. Japan) was marketed in Japan belonging to the fourth generation of HIV test kits characterized by its ability to detect both viral antigens (Ag) and anti-HIV-1/2 antibodies (Ab). E4G is the first and only fourth generation immunochromatographic HIV test kit approved in Japan at present. To evaluate its performance to diagnose acute HIV infection (AHI), E4G was compared with fourth generation Ag/Ab ELISA test kits, a third generation PA test kit, WB and real-time PCR for the testing of 25 AHI clinical specimens. E4G detected HIV infection in 18/25 specimens (sensitivity : 72.0%), of which the viral Ag was detected in only 2 specimens (8.0%) bearing a viral load > 10 million copies/mL. No spesimens were simultaneously reactive to both Ag and Ab against HIV. The third generation PA achieved a positive score of 17/ 25 specimens (68.0%), which was almost the same as the E4G figure. In contrast the fourth generation Ag/ Ab ELISA scored all the 25 AHI specimens positive (sensitivity : 100%). Overall, although having the merit of offering a rapid diagnostic test for HIV infection, E4G does not provide a sensitivity in AHI diagnosis superior to test kits currently available.

  5. Miniaturized Antimicrobial Susceptibility Test by Combining Concentration Gradient Generation and Rapid Cell Culturing

    Directory of Open Access Journals (Sweden)

    Samuel C. Kim

    2015-10-01

    Full Text Available Effective treatment of bacterial infection relies on timely diagnosis and proper prescription of antibiotic drugs. The antimicrobial susceptibility test (AST is one of the most crucial experimental procedures, providing the baseline information for choosing effective antibiotic agents and their dosages. Conventional methods, however, require long incubation times or significant instrumentation costs to obtain test results. We propose a lab-on-a-chip approach to perform AST in a simple, economic, and rapid manner. Our assay platform miniaturizes the standard broth microdilution method on a microfluidic device (20 × 20 mm that generates an antibiotic concentration gradient and delivers antibiotic-containing culture media to eight 30-nL chambers for cell culture. When tested with 20 μL samples of a model bacterial strain (E. coli ATCC 25922 treated with ampicillin or streptomycin, our method allows for the determination of minimum inhibitory concentrations consistent with the microdilution test in three hours, which is almost a factor of ten more rapid than the standard method.

  6. Real-Time Contour Surface Display Generation,

    Science.gov (United States)

    1984-09-01

    set of trees generated for the two-dimensional grid such that duplicate edges in separate trees are eliminated. This solution has the added benefit that...of SI GGRAPH- ACAI , Vol. 16, No. 3 (July 1982), p, 135. 20. Zyda. Michael J. "Multiprocessor Considerations in the Design of a Readl-Timne Contour

  7. Blast-Wave Generation and Propagation in Rapidly Heated Laser-Irradiated Targets

    Science.gov (United States)

    Ivancic, S. T.; Stillman, C. R.; Nilson, P. M.; Solodov, A. A.; Froula, D. H.

    2017-10-01

    Time-resolved extreme ultraviolet (XUV) spectroscopy was used to study the creation and propagation of a >100-Mbar blast wave in a target irradiated by an intense (>1018WWcm2 cm2) laser pulse. Blast waves provide a platform to generate immense pressures in the laboratory. A temporal double flash of XUV radiation was observed when viewing the rear side of the target, which is attributed to the emergence of a blast wave following rapid heating by a fast-electron beam generated from the laser pulse. The time-history of XUV emission in the photon energy range of 50 to 200 eV was recorded with an x-ray streak camera with 7-ps temporal resolution. The heating and expansion of the target was simulated with an electron transport code coupled to 1-D radiation-hydrodynamics simulations. The temporal delay between the two flashes measured in a systematic study of target thickness and composition was found to evolve in good agreement with a Sedov-Taylor blast-wave solution. This material is based upon work supported by the Department of Energy National Nuclear Security Administration under Award Number DE-NA0001944 and Department of Energy Office of Science Award Number DE-SC-0012317.

  8. Sensitivity of HIV rapid tests compared with fourth-generation enzyme immunoassays or HIV RNA tests.

    Science.gov (United States)

    Tan, Wei Sheng; Chow, Eric P F; Fairley, Christopher K; Chen, Marcus Y; Bradshaw, Catriona S; Read, Tim R H

    2016-07-31

    Determine the sensitivity of HIV rapid tests compared with fourth-generation enzyme immunoassays (EIA) or nucleic acid amplification tests (NAAT) in clinical settings. Systematic review and meta-analysis. Medline, PubMed, Embase, Cochrane Controlled Trials Register, Cochrane reviews and Cumulative Index to Nursing and Allied Health Literature were searched until 14 July 2015 for studies of adults comparing point-of-care HIV rapid tests to fourth-generation HIV EIA antibody/p24 antigen or HIV NAAT. From 953 titles, 18 studies were included, involving 110 122 HIV rapid test results. Compared with EIA, the estimated sensitivity (random effects) of HIV rapid tests was 94.5% [95% confidence interval (CI): 87.4-97.7]. Compared with NAAT, the sensitivity of HIV rapid tests was 93.7% (95% CI: 88.7-96.5). The sensitivity of HIV rapid tests in high-income countries was 85.7% (95% CI: 81.9-88.9) and in low-income countries was 97.7% (95% CI: 95.2-98.9) compared with either EIA or NAAT (P HIV rapid tests were less sensitive in high-income countries compared with low-income countries, missing about one in seven infections, possibly because of the larger proportion of acute infections in targeted populations. This suggests that in high-income countries, HIV rapid tests should be used in combination with fourth-generation EIA or NAAT tests, except in special circumstances. Prospective Registration of Systematic Reviews registration number CRD42015020154.Supplementary video link: http://links.lww.com/QAD/A924.

  9. Field accuracy of fourth-generation rapid diagnostic tests for acute HIV-1: a systematic review

    OpenAIRE

    Lewis, Joseph M; MacPherson, Peter; Adams, Emily R.; Ochodo, Eleanor; Sands, Anita; Taegtmeyer, Miriam

    2015-01-01

    Introduction: Fourth-generation HIV-1 rapid diagnostic tests (RDTs) detect HIV-1 p24 antigen to screen for acute HIV-1. However, diagnostic accuracy during clinical use may be suboptimal. Methods: Clinical sensitivity and specificity of fourth-generation RDTs for acute HIV-1 were collated from field evaluation studies in adults identified by a systematic literature search. Results: Four studies with 17?381 participants from Australia, Swaziland, the United Kingdom and Malawi were identified. ...

  10. Response time distributions in rapid chess: A large-scale decision making experiment

    Directory of Open Access Journals (Sweden)

    Mariano Sigman

    2010-10-01

    Full Text Available Rapid chess provides an unparalleled laboratory to understand decision making in a natural environment. In a chess game, players choose consecutively around 40 moves in a finite time budget. The goodness of each choice can be determined quantitatively since current chess algorithms estimate precisely the value of a position. Web-based chess produces vast amounts of data, millions of decisions per day, incommensurable with traditional psychological experiments. We generated a database of response times and position value in rapid chess games. We measured robust emergent statistical observables: 1 Response time (RT distributions are long-tailed and show qualitatively distinct forms at different stages of the game, 2 RT of successive moves are highly correlated both for intra- and inter-player moves. These findings have theoretical implications since they deny two basic assumptions of sequential decision making algorithms: RTs are not stationary and can not be generated by a state function. Our results also have practical implications. First, we characterized the capacity of blunders and score fluctuations to predict a player strength, which is yet an open problem in chess softwares. Second, we show that the winning likelihood can be reliably estimated from a weighted combination of remaining times and position evaluation.

  11. Rapid Generation and Testing of a Lassa Fever Vaccine Using VaxCelerate Platform

    Science.gov (United States)

    2014-08-28

    981959472 222357 In silico analysis of Mtb HSP70 subdomains for modification University of Washington 1100 NE 45th Street, Suite 300 Seattle WA 981054696...222357 In silico analysis of Mtb HSP70 subdomains for modification 1 a. 1 a. 6 Grant Title: Rapid Generation and Testing of a Lassa Fever Vaccine...14 Figure 6: Linear Structure of the Mtb HSP70 Variants

  12. Peculiar Emission Line Generation from Ultra-Rapid Quasi-Periodic ...

    Indian Academy of Sciences (India)

    The purpose of this article is to alert astronomers, particularly those using spectroscopic surveys, to the fact that exotic astronomical objects (e.g. quasars or active galactic nuclei) that send ultra-rapid quasi periodic pulses of optical light would generate spectroscopic features that look like emission lines. This gives a simple ...

  13. Generating k-independent variables in constant time

    DEFF Research Database (Denmark)

    Christiani, Tobias Lybecker; Pagh, Rasmus

    2014-01-01

    The generation of pseudorandom elements over finite fields is fundamental to the time, space and randomness complexity of randomized algorithms and data structures. We consider the problem of generating k-independent random values over a finite field F in a word RAM model equipped with constant...... time addition and multiplication in F, and present the first nontrivial construction of a generator that outputs each value in constant time, not dependent on k. Our generator has period length |F| poly log k and uses k poly (log k) log |F| bits of space, which is optimal up to a poly log k factor. We...

  14. Global Navigation Satellite System (GNSS) Rapid Clock Product (30 second resolution, daily files, generated daily) from NASA CDDIS

    Data.gov (United States)

    National Aeronautics and Space Administration — This derived product set consists of Global Navigation Satellite System Rapid Satellite and Receiver Clock Product (30-second granularity, daily files, generated...

  15. Generalization of prior information for rapid Bayesian time estimation.

    Science.gov (United States)

    Roach, Neil W; McGraw, Paul V; Whitaker, David J; Heron, James

    2017-01-10

    To enable effective interaction with the environment, the brain combines noisy sensory information with expectations based on prior experience. There is ample evidence showing that humans can learn statistical regularities in sensory input and exploit this knowledge to improve perceptual decisions and actions. However, fundamental questions remain regarding how priors are learned and how they generalize to different sensory and behavioral contexts. In principle, maintaining a large set of highly specific priors may be inefficient and restrict the speed at which expectations can be formed and updated in response to changes in the environment. However, priors formed by generalizing across varying contexts may not be accurate. Here, we exploit rapidly induced contextual biases in duration reproduction to reveal how these competing demands are resolved during the early stages of prior acquisition. We show that observers initially form a single prior by generalizing across duration distributions coupled with distinct sensory signals. In contrast, they form multiple priors if distributions are coupled with distinct motor outputs. Together, our findings suggest that rapid prior acquisition is facilitated by generalization across experiences of different sensory inputs but organized according to how that sensory information is acted on.

  16. Time evolution of the wave equation using rapid expansion method

    KAUST Repository

    Pestana, Reynam C.

    2010-07-01

    Forward modeling of seismic data and reverse time migration are based on the time evolution of wavefields. For the case of spatially varying velocity, we have worked on two approaches to evaluate the time evolution of seismic wavefields. An exact solution for the constant-velocity acoustic wave equation can be used to simulate the pressure response at any time. For a spatially varying velocity, a one-step method can be developed where no intermediate time responses are required. Using this approach, we have solved for the pressure response at intermediate times and have developed a recursive solution. The solution has a very high degree of accuracy and can be reduced to various finite-difference time-derivative methods, depending on the approximations used. Although the two approaches are closely related, each has advantages, depending on the problem being solved. © 2010 Society of Exploration Geophysicists.

  17. Rapid calculation of the compression wave generated by a train entering a tunnel with a vented hood: Short hoods

    Science.gov (United States)

    Howe, M. S.; Winslow, A.; Iida, M.; Fukuda, T.

    2008-03-01

    A numerical procedure for the rapid prediction of the compression wave generated by a high-speed train entering a tunnel was presented and validated by Howe et al. [Rapid calculation of the compression wave generated by a train entering a tunnel with a vented hood, Journal of Sound and Vibration 297 (2006) 267-292]. The method was devised to deal principally with compression wave generation in long hoods typically of length ˜10 times the tunnel height and 'vented' by means of a series of windows distributed along the hood walls. Hoods of this kind will be needed to control wave generation by newer trains operating at speeds U exceeding about 350 km/h. In this paper experimental results are presented and compared with predictions in order to extend the range of applicability of the numerical method of Howe et al. (2006) to include short hoods with lengths as small as just twice the tunnel height (the situation for most hoods currently deployed on the Japanese Shinkansen) and for U as large as 400 km/h.

  18. Improved sensitivity over time with rapid prescreening in gynecologic cytology.

    Science.gov (United States)

    Dudding, Nick; Renshaw, Andrew A; Ellis, Kay

    2011-06-01

    Rapid prescreening (RPS) is a powerful tool to measure and improve performance in the cytology laboratory. Long-term use of RPS has been shown to result in improved sensitivity and precision in routine screening. The effect of long-term RPS on RPS itself is not known. We compared the sensitivity of 100% RPS of Surepath™ liquid-based cytology over a 4-year period in a laboratory of 11 cytotechnologists (CTs). In comparison with the first 2 years, RPS for the laboratory showed a significant increase in sensitivity for all abnormalities (72.2% vs. 67.3%, P < 0.001) and ASCUS + LSIL (68.5% vs. 62.1%, P < 0.001). For individual CTs s, the lowest sensitivity for all abnormalities increased from 59.0 to 63.2%, whereas, for HSIL, it increased from 71.4% to 75.0%. We conclude that long-term use of RPS leads to significant increase in the sensitivity of RPS. Copyright © 2010 Wiley-Liss, Inc.

  19. Rapid Response Teams: Is it Time to Reframe the Questions of Rapid Response Team Measurement?

    Science.gov (United States)

    Salvatierra, Gail G; Bindler, Ruth C; Daratha, Kenn B

    2016-11-01

    The purpose of this article is to present an overview of rapid response team (RRT) history in the United States, provide a review of prior RRT effectiveness research, and propose the reframing of four new questions of RRT measurement that are designed to better understand RRTs in the context of contemporary nursing practice as well as patient outcomes. RRTs were adopted in the United States because of their intuitive appeal, and despite a lack of evidence for their effectiveness. Subsequent studies used mortality and cardiac arrest rates to measure whether or not RRTs "work." Few studies have thoroughly examined the effect of RRTs on nurses and on nursing practice. An extensive literature review provided the background. Suppositions and four critical, unanswered questions arising from the literature are suggested. The results of RRT effectiveness, which have focused on patient-oriented outcomes, have been ambiguous, contradictory, and difficult to interpret. Additionally, they have not taken into account the multiple ways in which these teams have impacted nurses and nursing practice as well as patient outcomes. What happens in terms of RRT process and utilization is likely to have a major impact on nurses and nursing care on general medical and surgical wards. What that impact will be depends on what we can learn from measuring with an expanded yardstick, in order to answer the question, "Do RRTs work?" Evidence for the benefits of RRTs depends on proper framing of questions relating to their effectiveness, including the multiple ways RRTs contribute to nursing efficacy. © 2016 Sigma Theta Tau International.

  20. Field accuracy of fourth-generation rapid diagnostic tests for acute HIV-1: a systematic review.

    Science.gov (United States)

    Lewis, Joseph M; Macpherson, Peter; Adams, Emily R; Ochodo, Eleanor; Sands, Anita; Taegtmeyer, Miriam

    2015-11-28

    Fourth-generation HIV-1 rapid diagnostic tests (RDTs) detect HIV-1 p24 antigen to screen for acute HIV-1. However, diagnostic accuracy during clinical use may be suboptimal. Clinical sensitivity and specificity of fourth-generation RDTs for acute HIV-1 were collated from field evaluation studies in adults identified by a systematic literature search. Four studies with 17 381 participants from Australia, Swaziland, the United Kingdom and Malawi were identified. All reported 0% sensitivity of the HIV-1 p24 component for acute HIV-1 diagnosis; 26 acute infections were missed. Specificity ranged from 98.3 to 99.9%. Fourth-generation RDTs are currently unsuitable for the detection of acute HIV-1.

  1. Rapid generation and manipulation of microfluidic vortex flows induced by AC electrokinetics with optical illumination.

    Science.gov (United States)

    Park, Choongbae; Wereley, Steven T

    2013-04-07

    We demonstrate a rapid generation of twin opposing microvortices (TOMVs) induced by non-uniform alternating current (AC) electric fields together with a laser beam on a patterned pair of indium tin oxide (ITO) electrodes. A fast and strong jet flow region between twin microvortices is also generated. Its pattern and direction, such as whether it is symmetric or asymmetric, are controlled mainly by the location of a single laser spot relative to the ITO electrodes. With two laser beams, two separate flows are superposed to give a new one. In situ generation and control of the TOMV flow are tested in suspensions of fluorescent polystyrene particles, as well as in milk emulsions. This technique has great potential for dynamically manipulating micro-fluid flows, functioning as a micro-pump or mixer.

  2. Effectiveness Analysis of a Part-Time Rapid Response System During Operation Versus Nonoperation.

    Science.gov (United States)

    Kim, Youlim; Lee, Dong Seon; Min, Hyunju; Choi, Yun Young; Lee, Eun Young; Song, Inae; Park, Jong Sun; Cho, Young-Jae; Jo, You Hwan; Yoon, Ho Il; Lee, Jae Ho; Lee, Choon-Taek; Do, Sang Hwan; Lee, Yeon Joo

    2017-06-01

    To evaluate the effect of a part-time rapid response system on the occurrence rate of cardiopulmonary arrest by comparing the times of rapid response system operation versus nonoperation. Retrospective cohort study. A 1,360-bed tertiary care hospital. Adult patients admitted to the general ward were screened. Data were collected over 36 months from rapid response system implementation (October 2012 to September 2015) and more than 45 months before rapid response system implementation (January 2009 to September 2012). None. The rapid response system operates from 7 AM to 10 PM on weekdays and from 7 AM to 12 PM on Saturdays. Primary outcomes were the difference of cardiopulmonary arrest incidence between pre-rapid response system and post-rapid response system periods and whether the rapid response system operating time affects the cardiopulmonary arrest incidence. The overall cardiopulmonary arrest incidence (per 1,000 admissions) was 1.43. Although the number of admissions per month and case-mix index were increased (3,555.18 vs 4,564.72, p times (0.82 vs 0.49/1,000 admissions; p = 0.001) but remained similar during rapid response system nonoperating times (0.77 vs 0.73/1,000 admissions; p = 0.729). The implementation of a part-time rapid response system reduced the cardiopulmonary arrest incidence based on the reduction of cardiopulmonary arrest during rapid response system operating times. Further analysis of the cost effectiveness of part-time rapid response system is needed.

  3. Upper body contributions to power generation during rapid, overhand throwing in humans.

    Science.gov (United States)

    Roach, Neil T; Lieberman, Daniel E

    2014-06-15

    High-speed and accurate throwing is a distinctive human behavior. Achieving fast projectile speeds during throwing requires a combination of elastic energy storage at the shoulder, as well as the transfer of kinetic energy from proximal body segments to distal segments. However, the biomechanical bases of these mechanisms are not completely understood. We used inverse dynamics analyses of kinematic data from 20 baseball players fitted with four different braces that inhibit specific motions to test a model of power generation at key joints during the throwing motion. We found that most of the work produced during throwing is generated at the hips, and much of this work (combined with smaller contributions from the pectoralis major) is used to load elastic elements in the shoulder and power the rapid acceleration of the projectile. Despite rapid angular velocities at the elbow and wrist, the restrictions confirm that much of the power generated to produce these distal movements comes from larger proximal segments, such as the shoulder and torso. Wrist hyperextension enhances performance only modestly. Together, our data also suggest that heavy reliance on elastic energy storage may help explain some common throwing injuries and can provide further insight into the evolution of the upper body and when our ancestors first developed the ability to produce high-speed throws. © 2014. Published by The Company of Biologists Ltd.

  4. Time-Optimal Real-Time Test Case Generation using UPPAAL

    DEFF Research Database (Denmark)

    Hessel, Anders; Larsen, Kim Guldstrand; Nielsen, Brian

    2004-01-01

    Testing is the primary software validation technique used by industry today, but remains ad hoc, error prone, and very expensive. A promising improvement is to automatically generate test cases from formal models of the system under test. We demonstrate how to automatically generate real......-time conformance test cases from timed automata specifications. Specifically we demonstrate how to fficiently generate real-time test cases with optimal execution time i.e test cases that are the fastest possible to execute. Our technique allows time optimal test cases to be generated using manually formulated...

  5. Grammar-based feature generation for time-series prediction

    CERN Document Server

    De Silva, Anthony Mihirana

    2015-01-01

    This book proposes a novel approach for time-series prediction using machine learning techniques with automatic feature generation. Application of machine learning techniques to predict time-series continues to attract considerable attention due to the difficulty of the prediction problems compounded by the non-linear and non-stationary nature of the real world time-series. The performance of machine learning techniques, among other things, depends on suitable engineering of features. This book proposes a systematic way for generating suitable features using context-free grammar. A number of feature selection criteria are investigated and a hybrid feature generation and selection algorithm using grammatical evolution is proposed. The book contains graphical illustrations to explain the feature generation process. The proposed approaches are demonstrated by predicting the closing price of major stock market indices, peak electricity load and net hourly foreign exchange client trade volume. The proposed method ...

  6. Real-Time Digital Bright Field Technology for Rapid Antibiotic Susceptibility Testing.

    Science.gov (United States)

    Canali, Chiara; Spillum, Erik; Valvik, Martin; Agersnap, Niels; Olesen, Tom

    2018-01-01

    Optical scanning through bacterial samples and image-based analysis may provide a robust method for bacterial identification, fast estimation of growth rates and their modulation due to the presence of antimicrobial agents. Here, we describe an automated digital, time-lapse, bright field imaging system (oCelloScope, BioSense Solutions ApS, Farum, Denmark) for rapid and higher throughput antibiotic susceptibility testing (AST) of up to 96 bacteria-antibiotic combinations at a time. The imaging system consists of a digital camera, an illumination unit and a lens where the optical axis is tilted 6.25° relative to the horizontal plane of the stage. Such tilting grants more freedom of operation at both high and low concentrations of microorganisms. When considering a bacterial suspension in a microwell, the oCelloScope acquires a sequence of 6.25°-tilted images to form an image Z-stack. The stack contains the best-focus image, as well as the adjacent out-of-focus images (which contain progressively more out-of-focus bacteria, the further the distance from the best-focus position). The acquisition process is repeated over time, so that the time-lapse sequence of best-focus images is used to generate a video. The setting of the experiment, image analysis and generation of time-lapse videos can be performed through a dedicated software (UniExplorer, BioSense Solutions ApS). The acquired images can be processed for online and offline quantification of several morphological parameters, microbial growth, and inhibition over time.

  7. Development of a Marx-coupled trigger generator with high voltages and low time delay

    Science.gov (United States)

    Hu, Yixiang; Zeng, Jiangtao; Sun, Fengju; Cong, Peitian; Su, Zhaofeng; Yang, Shi; Zhang, Xinjun; Qiu, Ai'ci

    2016-10-01

    Coupled by the Marx of the "JianGuang-I" facility, a high voltage, low time-delay trigger generator was developed. Working principles of this trigger generator and its key issues were described in detail. Structures of this generator were also carefully designed and optimized. Based on the "JianGuang-I" Marx generator, a test stand was established. And a series of experiment tests were carried out to the study performance of this trigger generator. Experiment results show that the output voltage of this trigger generator can be continuously adjusted from 58 kV to 384 kV. The time delay (from the beginning of the Marx-discharging pulse to the time that the output pulse of the trigger generator arises) of this trigger pulse is about 200 ns and its peak time (0%˜100%) is less than 50 ns. Experiment results also indicate that the time-delay jitter of trigger voltages decreases rapidly with the increase in the peak voltage of trigger pulses. When the trigger voltage is higher than 250 kV, the time-delay jitters (the standard deviation) are less than 7.7 ns.

  8. Real-time data flow and product generating for GNSS

    Science.gov (United States)

    Muellerschoen, Ronald J.; Caissy, Mark

    2004-01-01

    The last IGS workshop with the theme 'Towards Real-Time' resulted in the design of a prototype for real-time data and sharing within the IGS. A prototype real-time network is being established that will serve as a test bed for real-time activities within the IGS. We review the developments of the prototype and discuss some of the existing methods and related products of real-time GNSS systems. Recommendations are made concerning real-time data distribution and product generation.

  9. Finite Time Analysis of a Tri-Generation Cycle

    OpenAIRE

    Agnew, Brian; Walker, Sara; Ng, Bobo; Tam, Ivan

    2015-01-01

    A review of the literature indicates that current tri-generation cycles show low thermal performance, even when optimised for maximum useful output. This paper presents a Finite Time analysis of a tri-generation cycle that is based upon coupled power and refrigeration Carnot cycles. The analysis applies equally well to Stirling cycles or any cycle that exhibits isothermal heat transfer with the environment and is internally reversible. It is shown that it is possible to obtain a significantly...

  10. Multifractal analysis of time series generated by discrete Ito equations

    Science.gov (United States)

    Telesca, Luciano; Czechowski, Zbigniew; Lovallo, Michele

    2015-06-01

    In this study, we show that discrete Ito equations with short-tail Gaussian marginal distribution function generate multifractal time series. The multifractality is due to the nonlinear correlations, which are hidden in Markov processes and are generated by the interrelation between the drift and the multiplicative stochastic forces in the Ito equation. A link between the range of the generalized Hurst exponents and the mean of the squares of all averaged net forces is suggested.

  11. Rapid and Efficient Generation of Regulatory T Cells to Commensal Antigens in the Periphery

    Directory of Open Access Journals (Sweden)

    Katherine Nutsch

    2016-09-01

    Full Text Available Commensal bacteria shape the colonic regulatory T (Treg cell population required for intestinal tolerance. However, little is known about this process. Here, we use the transfer of naive commensal-reactive transgenic T cells expressing colonic Treg T cell receptors (TCRs to study peripheral Treg (pTreg cell development in normal hosts. We found that T cells were activated primarily in the distal mesenteric lymph node. Treg cell induction was rapid, generating >40% Foxp3+ cells 1 week after transfer. Contrary to prior reports, Foxp3+ cells underwent the most cell divisions, demonstrating that pTreg cell generation can be the dominant outcome from naive T cell activation. Moreover, Notch2-dependent, but not Batf3-dependent, dendritic cells were involved in Treg cell selection. Finally, neither deletion of the conserved nucleotide sequence 1 (CNS1 region in Foxp3 nor blockade of TGF-β (transforming growth factor-β-receptor signaling completely abrogated Foxp3 induction. Thus, these data show that pTreg cell selection to commensal bacteria is rapid, is robust, and may be specified by TGF-β-independent signals.

  12. Identifying HIV infection in South African women: How does a fourth generation HIV rapid test perform?

    Directory of Open Access Journals (Sweden)

    Kapila Bhowan

    2011-12-01

    Full Text Available Background: HIV rapid tests (RT play an important role in tackling the HIV pandemic in South Africa. Third generation RT that detect HIV antibodies are currently used to diagnose HIV infection at the point of care. Determine Combo (DC is the first fourth generation RT that detects both p24 antigen (p24Ag and HIV antibodies (Ab, theoretically reducing the window period and increasing detection rates. Early detection of maternal HIV infection is important to mitigate the high risk of vertical transmission associated with acute maternal infection. Objectives: We assessed the performance of the DC RT against third generation RT in antenatal and post-partum women. Methods: Third generation RT Advance Quality and Acon were used in a serial algorithm to diagnose HIV infection in antenatal and post-partum women over six months at a tertiary hospital in Johannesburg, South Africa. This data provided the reference against which the DC RT was compared on plasma and whole blood samples. Results: The 1019 participants comprised 345 (34% antenatal and 674 (66% post-partum women. Ninety women (8.8% tested HIV-positive of whom 59 (66% were tested antenatally, and 31 (34% post-partum yielding prevalence rates of 17.1% and 4.6% respectively. The sensitivity and specificity of the Ab component of DC on plasma antenatally was 100% (93.8% – 100% and 100% (98.6% – 100% respectively and post-partum was 100% (88.9% – 100% and 99.6% (98.8% – 99.9% respectively. One false positive and not a single true positive p24Ag was detected. Of 505 post-partum women who tested HIV-negative 6–12 months prior to enrolment, 12 (2.4% seroconverted. Conclusion: The fourth generation DC offered no advantage over current third generation RT in the diagnosis of HIV infection.

  13. Semi-autonomous remote sensing time series generation tool

    Science.gov (United States)

    Babu, Dinesh Kumar; Kaufmann, Christof; Schmidt, Marco; Dhams, Thorsten; Conrad, Christopher

    2017-10-01

    High spatial and temporal resolution data is vital for crop monitoring and phenology change detection. Due to the lack of satellite architecture and frequent cloud cover issues, availability of daily high spatial data is still far from reality. Remote sensing time series generation of high spatial and temporal data by data fusion seems to be a practical alternative. However, it is not an easy process, since it involves multiple steps and also requires multiple tools. In this paper, a framework of Geo Information System (GIS) based tool is presented for semi-autonomous time series generation. This tool will eliminate the difficulties by automating all the steps and enable the users to generate synthetic time series data with ease. Firstly, all the steps required for the time series generation process are identified and grouped into blocks based on their functionalities. Later two main frameworks are created, one to perform all the pre-processing steps on various satellite data and the other one to perform data fusion to generate time series. The two frameworks can be used individually to perform specific tasks or they could be combined to perform both the processes in one go. This tool can handle most of the known geo data formats currently available which makes it a generic tool for time series generation of various remote sensing satellite data. This tool is developed as a common platform with good interface which provides lot of functionalities to enable further development of more remote sensing applications. A detailed description on the capabilities and the advantages of the frameworks are given in this paper.

  14. Novel CAD/CAM rapid prototyping of next-generation biomedical devices

    Science.gov (United States)

    Doraiswamy, Anand

    An aging population with growing healthcare needs demands multifaceted tools for diagnosis and treatment of health conditions. In the near-future, drug-administration devices, implantable devices/sensors, enhanced prosthesis, artificial and unique functional tissue constructs will become increasingly significant. Conventional technologies for mass-produced implants do not adequately take individual patient anatomy into consideration. Development of novel CAD/CAM rapid prototyping techniques may significantly accelerate progress of these devices for next-generation patient-care. In this dissertation, several novel rapid prototyping techniques have been introduced for next-generation biomedical applications. Two-photon polymerization was developed to microfabricate scaffolds for tissue engineering, microneedles for drug-delivery and ossicular replacement prostheses. Various photoplymers were evaluated for feasibility, mechanical properties, cytotoxicity, and surface properties. Laser direct write using MDW was utilized for developing microstructures of bioceramics such as hydroxyapatite, and viable mammalian osteosarcoma cells. CAD/CAM laser micromachining (CLM) was developed to engineer biointerfaces as surface recognition regions for differential adherence of cells and growth into tissue-like networks. CLM was also developed for engineering multi-cellular vascular networks. Cytotoxic evaluations and growth studies demonstrated VEGF-induced proliferation of HAAE-1 human aortic endothelial cells with inhibition of HA-VSMC human aortic smooth muscle cells. Finally, piiezoelectric inkjet printing was developed for controlled administration of natural and synthetic adhesives to overcome several problems associated with conventional tissue bonding materials, and greatly improve wound-repair in next generation eye repair, fracture fixation, organ fixation, wound closure, tissue engineering, and drug delivery devices.

  15. Rapid expansion and pseudo spectral implementation for reverse time migration in VTI media

    KAUST Repository

    Pestana, Reynam C

    2012-04-24

    In isotropic media, we use the scalar acoustic wave equation to perform reverse time migration (RTM) of the recorded pressure wavefield data. In anisotropic media, P- and SV-waves are coupled, and the elastic wave equation should be used for RTM. For computational efficiency, a pseudo-acoustic wave equation is often used. This may be solved using a coupled system of second-order partial differential equations. We solve these using a pseudo spectral method and the rapid expansion method (REM) for the explicit time marching. This method generates a degenerate SV-wave in addition to the P-wave arrivals of interest. To avoid this problem, the elastic wave equation for vertical transversely isotropic (VTI) media can be split into separate wave equations for P- and SV-waves. These separate wave equations are stable, and they can be effectively used to model and migrate seismic data in VTI media where |ε- δ| is small. The artifact for the SV-wave has also been removed. The independent pseudo-differential wave equations can be solved one for each mode using the pseudo spectral method for the spatial derivatives and the REM for the explicit time advance of the wavefield. We show numerically stable and high-resolution modeling and RTM results for the pure P-wave mode in VTI media. © 2012 Sinopec Geophysical Research Institute.

  16. ApplBuilder - an Object-Oriented Application Generator Supporting Rapid Prototyping

    DEFF Research Database (Denmark)

    Grønbæk, Kaj; Hviid, Anette; Trigg, Randall Hagner

    1991-01-01

    compilation time. Moreover, generated applications are modularized so that editing, for instance the script for a button, only requires re-compilation of the script itself. An advantage of APPLBUILDER compared to other user-interface design tools such as HyperCard is that APPLBUILDER's scripts are embedded...

  17. Rapid generation of microRNA sponges for microRNA inhibition.

    Directory of Open Access Journals (Sweden)

    Joost Kluiver

    Full Text Available MicroRNA (miRNA sponges are transcripts with repeated miRNA antisense sequences that can sequester miRNAs from endogenous targets. MiRNA sponges are valuable tools for miRNA loss-of-function studies both in vitro and in vivo. We developed a fast and flexible method to generate miRNA sponges and tested their efficiency in various assays. Using a single directional ligation reaction we generated sponges with 10 or more miRNA binding sites. Luciferase and AGO2-immuno precipitation (IP assays confirmed effective binding of the miRNAs to the sponges. Using a GFP competition assay we showed that miR-19 sponges with central mismatches in the miRNA binding sites are efficient miRNA inhibitors while sponges with perfect antisense binding sites are not. Quantification of miRNA sponge levels suggests that this is at least in part due to degradation of the perfect antisense sponge transcripts. Finally, we provide evidence that combined inhibition of miRNAs of the miR-17∼92 cluster results in a more effective growth inhibition as compared to inhibition of individual miRNAs. In conclusion, we describe and validate a method to rapidly generate miRNA sponges for miRNA loss-of-function studies.

  18. Model of a synthetic wind speed time series generator

    DEFF Research Database (Denmark)

    Negra, N.B.; Holmstrøm, O.; Bak-Jensen, B.

    2008-01-01

    Wind energy has assumed a great relevance in the operation and planning of today's power systems due to the exponential increase of installations in the last 10 years. For this reason, many performed studies have looked at suitable representations of wind generation for power system analysis. One...... of the main elements to consider for this purpose is the model of the wind speed that is usually required as input. Wind speed measurements may represent a solution for this problem, but, for techniques such as sequential Monte Carlo simulation, they have to be long enough in order to describe a wide range...... of possible wind conditions. If these information are not available, synthetic wind speed time series may be a useful tool as well, but their generator must preserve statistical and stochastic features of the phenomenon. This paper deals with this issue: a generator for synthetic wind speed time series...

  19. Time-Frequency Analysis of Signals Generated by Rotating Machines

    OpenAIRE

    Zetik, R.; D. Kocur

    1999-01-01

    This contribution is devoted to the higher order time-frequency analyses of signals. Firstly, time-frequency representations of higher order (TFRHO) are defined. Then L-Wigner distribution (LWD) is given as a special case of TFRHO. Basic properties of LWD are illustrated based on the analysis of mono-component and multi-component synthetic signals and acoustical signals generated by rotating machine. The obtained results confirm usefulness of LWD application for the purpose of rotating machin...

  20. Bridging the Generation Gap: A Rapid Early Career Hire Training Program

    Science.gov (United States)

    Rieber, Richard R.; Coffee, Thomas; Dong, Shuonan; Infield, Samantha I.; Kilbride, Kendra B.; Seibert, Michael A.; Solish, Benjamin S.

    2008-01-01

    This paper describes a training program to provide Early Career Hires (ECHs) in the aerospace industry with real, rapid, hands-on exposure to multiple phases and multiple disciplines of flight project development. Such a program has become necessary to close the Generation Gap and ensure that aerospace organizations maintain a highly skilled workforce as experienced personnel begin to retire. This paper discusses the specific motivations for and implementation of such a program at the Jet Propulsion Laboratory. However, the essential features are widely applicable to other NASA centers and organizations delivering large llight systems. This paper details the overall program concept, stages of participation by an ECH, oversight and mentoring, program assessment, training project selection, and facilities requirements.

  1. Rapid Phytotransformation of Benzotriazole Generates Synthetic Tryptophan and Auxin Analogs in Arabidopsis.

    Science.gov (United States)

    LeFevre, Gregory H; Müller, Claudia E; Li, Russell Jingxian; Luthy, Richard G; Sattely, Elizabeth S

    2015-09-15

    Benzotriazoles (BTs) are xenobiotic contaminants widely distributed in aquatic environments and of emerging concern due to their polarity, recalcitrance, and common use. During some water reclamation activities, such as stormwater bioretention or crop irrigation with recycled water, BTs come in contact with vegetation, presenting a potential exposure route to consumers. We discovered that BT in hydroponic systems was rapidly (approximately 1-log per day) assimilated by Arabidopsis plants and metabolized to novel BT metabolites structurally resembling tryptophan and auxin plant hormones; 60% of BT. Glycosylated BT was excreted by the plants into the hydroponic medium, a phenomenon not observed previously. The observed amino acid metabolites are likely formed when tryptophan biosynthetic enzymes substitute synthetic BT for native indolic molecules, generating potential phytohormone mimics. These results suggest that BT metabolism by plants could mask the presence of BT contamination in the environment. Furthermore, BT-derived metabolites are structurally related to plant auxin hormones and should be evaluated for undesirable biological effects.

  2. Sensor-Generated Time Series Events: A Definition Language

    Science.gov (United States)

    Anguera, Aurea; Lara, Juan A.; Lizcano, David; Martínez, Maria Aurora; Pazos, Juan

    2012-01-01

    There are now a great many domains where information is recorded by sensors over a limited time period or on a permanent basis. This data flow leads to sequences of data known as time series. In many domains, like seismography or medicine, time series analysis focuses on particular regions of interest, known as events, whereas the remainder of the time series contains hardly any useful information. In these domains, there is a need for mechanisms to identify and locate such events. In this paper, we propose an events definition language that is general enough to be used to easily and naturally define events in time series recorded by sensors in any domain. The proposed language has been applied to the definition of time series events generated within the branch of medicine dealing with balance-related functions in human beings. A device, called posturograph, is used to study balance-related functions. The platform has four sensors that record the pressure intensity being exerted on the platform, generating four interrelated time series. As opposed to the existing ad hoc proposals, the results confirm that the proposed language is valid, that is generally applicable and accurate, for identifying the events contained in the time series.

  3. Rapid identification of genetic modifications in Bacillus anthracis using whole genome draft sequences generated by 454 pyrosequencing.

    Directory of Open Access Journals (Sweden)

    Peter E Chen

    Full Text Available BACKGROUND: The anthrax letter attacks of 2001 highlighted the need for rapid identification of biothreat agents not only for epidemiological surveillance of the intentional outbreak but also for implementing appropriate countermeasures, such as antibiotic treatment, in a timely manner to prevent further casualties. It is clear from the 2001 cases that survival may be markedly improved by administration of antimicrobial therapy during the early symptomatic phase of the illness; i.e., within 3 days of appearance of symptoms. Microbiological detection methods are feasible only for organisms that can be cultured in vitro and cannot detect all genetic modifications with the exception of antibiotic resistance. Currently available immuno or nucleic acid-based rapid detection assays utilize known, organism-specific proteins or genomic DNA signatures respectively. Hence, these assays lack the ability to detect novel natural variations or intentional genetic modifications that circumvent the targets of the detection assays or in the case of a biological attack using an antibiotic resistant or virulence enhanced Bacillus anthracis, to advise on therapeutic treatments. METHODOLOGY/PRINCIPAL FINDINGS: We show here that the Roche 454-based pyrosequencing can generate whole genome draft sequences of deep and broad enough coverage of a bacterial genome in less than 24 hours. Furthermore, using the unfinished draft sequences, we demonstrate that unbiased identification of known as well as heretofore-unreported genetic modifications that include indels and single nucleotide polymorphisms conferring antibiotic and phage resistances is feasible within the next 12 hours. CONCLUSIONS/SIGNIFICANCE: Second generation sequencing technologies have paved the way for sequence-based rapid identification of both known and previously undocumented genetic modifications in cultured, conventional and newly emerging biothreat agents. Our findings have significant implications in

  4. Dead-Time Generation in Six-Phase Frequency Inverter

    Directory of Open Access Journals (Sweden)

    Aurelijus Pitrėnas

    2016-06-01

    Full Text Available In this paper control of multi-phase induction drives is discussed. Structure of six-phase frequency inverter is examined. The article deals with dead-time generation circuits in six-phase frequency inverter for transistor control signals. Computer models of dead-time circuits is created using LTspice software package. Simulation results are compared with experimental results of the tested dead-time circuits. Parameters obtained in simulation results are close to the parameters obtained in experimental results.

  5. Real Time Face Quality Assessment for Face Log Generation

    DEFF Research Database (Denmark)

    Kamal, Nasrollahi; Moeslund, Thomas B.

    2009-01-01

    Summarizing a long surveillance video to just a few best quality face images of each subject, a face-log, is of great importance in surveillance systems. Face quality assessment is the back-bone for face log generation and improving the quality assessment makes the face logs more reliable. Develo....... Developing a real time face quality assessment system using the most important facial features and employing it for face logs generation are the concerns of this paper. Extensive tests using four databases are carried out to validate the usability of the system....

  6. Absolute GPS Time Event Generation and Capture for Remote Locations

    Science.gov (United States)

    HIRES Collaboration

    The HiRes experiment operates fixed location and portable lasers at remote desert locations to generate calibration events. One physics goal of HiRes is to search for unusual showers. These may appear similar to upward or horizontally pointing laser tracks used for atmospheric calibration. It is therefore necessary to remove all of these calibration events from the HiRes detector data stream in a physics blind manner. A robust and convenient "tagging" method is to generate the calibration events at precisely known times. To facilitate this tagging method we have developed the GPSY (Global Positioning System YAG) module. It uses a GPS receiver, an embedded processor and additional timing logic to generate laser triggers at arbitrary programmed times and frequencies with better than 100nS accuracy. The GPSY module has two trigger outputs (one microsecond resolution) to trigger the laser flash-lamp and Q-switch and one event capture input (25nS resolution). The GPSY module can be programmed either by a front panel menu based interface or by a host computer via an RS232 serial interface. The latter also allows for computer logging of generated and captured event times. Details of the design and the implementation of these devices will be presented. 1 Motivation Air Showers represent a small fraction, much less than a percent, of the total High Resolution Fly's Eye data sample. The bulk of the sample is calibration data. Most of this calibration data is generated by two types of systems that use lasers. One type sends light directly to the detectors via optical fibers to monitor detector gains (Girard 2001). The other sends a beam of light into the sky and the scattered light that reaches the detectors is used to monitor atmospheric effects (Wiencke 1998). It is important that these calibration events be cleanly separated from the rest of the sample both to provide a complete set of monitoring information, and more

  7. Rapid generation of entry trajectory with multiple no-fly zone constraints

    Science.gov (United States)

    He, Rui-zhi; Liu, Lu-hua; Tang, Guo-jian; Bao, Wei-min

    2017-10-01

    An entry trajectory planning algorithm that generates flyable trajectories satisfying multiple no-fly zones and other path and terminal constraints is presented. The algorithm divides the entry trajectory into initial and glide phases. In the initial phase, the maximum value of heating rate is controlled accurately as the altitude of the quasi-equilibrium glide condition (QEGC) transition point is adjusted with a nominal angle of attack and a parameterized bank angle. In the glide phase, a geometry based planning algorithm that relies on the center positions and radius of the multiple no-fly zones, is proposed to calculate the waypoints of the virtual flight path. The magnitude and reversal point of the bank angle in each sub-phase are searched based on a reduced-order lateral system with the predictor-corrector method. The altitude is designed as an analytical function of energy, and the QEGC is employed to analytically solve the remaining state variables. Finally, a linear quadratic regulator is used to test the realization of the 3D trajectory. The algorithm is tested using the common aero vehicle-H model. The results demonstrate that the algorithm can rapidly generate the entry trajectory with multiple no-fly zone constraints and achieve complex flight missions satisfying all flight constraints.

  8. Rapid hydrogen gas generation using reactive thermal decomposition of uranium hydride.

    Energy Technology Data Exchange (ETDEWEB)

    Kanouff, Michael P.; Van Blarigan, Peter; Robinson, David B.; Shugard, Andrew D.; Gharagozloo, Patricia E.; Buffleben, George M.; James, Scott Carlton; Mills, Bernice E.

    2011-09-01

    Oxygen gas injection has been studied as one method for rapidly generating hydrogen gas from a uranium hydride storage system. Small scale reactors, 2.9 g UH{sub 3}, were used to study the process experimentally. Complimentary numerical simulations were used to better characterize and understand the strongly coupled chemical and thermal transport processes controlling hydrogen gas liberation. The results indicate that UH{sub 3} and O{sub 2} are sufficiently reactive to enable a well designed system to release gram quantities of hydrogen in {approx} 2 seconds over a broad temperature range. The major system-design challenge appears to be heat management. In addition to the oxidation tests, H/D isotope exchange experiments were performed. The rate limiting step in the overall gas-to-particle exchange process was found to be hydrogen diffusion in the {approx}0.5 {mu}m hydride particles. The experiments generated a set of high quality experimental data; from which effective intra-particle diffusion coefficients can be inferred.

  9. A Time-Domain Method to Generate Artificial Time History from a Given Reference Response Spectrum

    Directory of Open Access Journals (Sweden)

    Gangsig Shin

    2016-06-01

    Full Text Available Seismic qualification by test is widely used as a way to show the integrity and functionality of equipment that is related to the overall safety of nuclear power plants. Another means of seismic qualification is by direct integration analysis. Both approaches require a series of time histories as an input. However, in most cases, the possibility of using real earthquake data is limited. Thus, artificial time histories are widely used instead. In many cases, however, response spectra are given. Thus, most of the artificial time histories are generated from the given response spectra. Obtaining the response spectrum from a given time history is straightforward. However, the procedure for generating artificial time histories from a given response spectrum is difficult and complex to understand. Thus, this paper presents a simple time-domain method for generating a time history from a given response spectrum; the method was shown to satisfy conditions derived from nuclear regulatory guidance.

  10. Generation of spectrum-compatible acceleration time history for Nepal

    Science.gov (United States)

    Chaulagain, Hemchandra; Rodrigues, Hugo; Varum, Humberto; Silva, Vitor; Gautam, Dipendra

    2017-09-01

    The 25 April 2015 Gorkha earthquake in Nepal caused severe structural damage in central Nepal, including the capital city Kathmandu. Both seismic vulnerability analysis of affected buildings and nonlinear time history analysis need increasing time history. However, no adequate records are available in Nepal, thus structural engineering practices follow Indian guidelines. The Nepal building code allows time history analysis along with the seismic coefficient and response spectrum methods, so nonlinear time history analysis can be used to assure adequate seismic safety. To fulfill the gap of recorded accelerograms, we developed artificial acceleration time histories considering the seismic hazard model of Chaulagain et al. (2015). We compared the synthetic accelerograms developed in this study with the records of Gorkha earthquake; the recorded maximum peak ground acceleration during the Gorkha earthquake showed comparable acquaintance only to the peak amplitudes of synthetic accelerograms generated for 300- and 475-year return periods.

  11. Procedural Content Generation for Real-Time Strategy Games

    Directory of Open Access Journals (Sweden)

    Raúl Lara-Cabrera

    2015-03-01

    Full Text Available Videogames are one of the most important and profitable sectors in the industry of entertainment. Nowadays, the creation of a videogame is often a large-scale endeavor and bears many similarities with, e.g., movie production. On the central tasks in the development of a videogame is content generation, namely the definition of maps, terrains, non-player characters (NPCs and other graphical, musical and AI-related components of the game. Such generation is costly due to its complexity, the great amount of work required and the need of specialized manpower. Hence the relevance of optimizing the process and alleviating costs. In this sense, procedural content generation (PCG comes in handy as a means of reducing costs by using algorithmic techniques to automatically generate some game contents. PCG also provides advantages in terms of player experience since the contents generated are typically not fixed but can vary in different playing sessions, and can even adapt to the player herself. For this purpose, the underlying algorithmic technique used for PCG must be also flexible and adaptable. This is the case of computational intelligence in general and evolutionary algorithms in particular. In this work we shall provide an overview of the use of evolutionary intelligence for PCG, with special emphasis on its use within the context of real-time strategy games. We shall show how these techniques can address both playability and aesthetics, as well as improving the game AI.

  12. RAPID: real-time analytics platform for interactive data-mining in a decision support scenario

    Science.gov (United States)

    Vanni, Michelle; Kase, Sue E.; Karunasekara, Shanika; Falzon, Lucia; Harwood, Aaron

    2017-05-01

    Real-time Analytics Platform for Interactive Data-mining (RAPID), a collaboration of University of Melbourne and Australia's Defense Science and Technology Group (DSTG), consumes data streams, performs analytics computations, and produces high-quality knowledge for analysts. RAPID takes topic seed words and autonomously identifies emerging keywords in the data. Users direct the system, setting time-windowing parameters, thresholds, update intervals and sample rates. Apache Storm and Apache Kafka permit real-time streaming while logging options support off-line processing. Decision-support scenarios feature Commander Critical Information Requirements involving comparisons over time and time-sequencing of events, capabilities particularly well-served by RAPID technology, to be demonstrated in the presentation.

  13. Generation time and fitness tradeoffs during the evolution of multicellularity.

    Science.gov (United States)

    Leslie, Martin P; Shelton, Deborah E; Michod, Richard E

    2017-10-07

    The evolution of multicellular organisms from their unicellular ancestors is an example of an evolutionary transition in individuality (ETI), i.e. a change in the units of selection and adaptation. The theory of ETIs poses particular challenges because, by definition, key theoretical constructs such as fitness are shifting during an ETI. Past work emphasized the importance of life history tradeoffs during ETIs in which lower level units form groups and become individuals at a higher level. In particular, it has been hypothesized that the convexity of the lower-level tradeoff between viability and fecundity changes with group size and determines the optimality of lower-level specialization in the fitness components of the group. This is important because lower-level specialization is a key indicator of higher-level individuality. Here we show that increasing generation time can increase the convexity of the lower-level viability-fecundity tradeoff. This effect is a novel hypothesis for the positive association between cell-group size and cellular specialization in a major model system for ETIs, the volvocine algae. The pattern in this clade is thought to be an example of a more general size-complexity rule. Our hypothesis is that larger groups have longer generation times and longer generation times lead to more convex lower-level viability-fecundity tradeoffs, which could account for specialization being optimal only in larger cell groups (colonies). We discuss the robustness of this effect to various changes in the assumptions of our model. Our work is important for the study of ETIs in general because viability and fecundity are fundamental components of fitness in all systems and because generation time is expected to be changing during many ETIs. Copyright © 2017 Elsevier Ltd. All rights reserved.

  14. Next-Generation Sequencing-Aided Rapid Molecular Diagnosis of Occult Macular Dystrophy in a Chinese Family

    OpenAIRE

    Yu-He Qi; Feng-Juan Gao; Fang-Yuan Hu; Sheng-Hai Zhang; Jun-Yi Chen; Wan-Jing Huang; Guo-Hong Tian; Min Wang; De-Kang Gan; Ji-Hong Wu; Ge-Zhi Xu

    2017-01-01

    Purpose: To show early, rapid and accurate molecular diagnosis of occult macular dystrophy (OMD) in a four-generation Chinese family with inherited macular dystrophy.Methods: In the current study, we comprehensively screened 130 genes involved in common inherited non-syndromic eye diseases with next-generation sequencing-based target capture sequencing of the proband of a four-generation Chinese family that has suffered from maculopathy without a definitive diagnosis for over 10 years. Varian...

  15. Rapid generation of hydrogen peroxide contributes to the complex cell death induction by the angucycline antibiotic landomycin E.

    Science.gov (United States)

    Panchuk, Rostyslav R; Lehka, Lilya V; Terenzi, Alessio; Matselyukh, Bohdan P; Rohr, Jürgen; Jha, Amit K; Downey, Theresa; Kril, Iryna J; Herbacek, Irene; van Schoonhoven, Sushilla; Heffeter, Petra; Stoika, Rostyslav S; Berger, Walter

    2017-05-01

    Landomycin E (LE) is an angucycline antibiotic produced by Streptomyces globisporus. Previously, we have shown a broad anticancer activity of LE which is, in contrast to the structurally related and clinically used anthracycline doxorubicin (Dx), only mildly affected by multidrug resistance-mediated drug efflux. In the present study, cellular and molecular mechanisms underlying the anticancer activity of landomycin E towards Jurkat T-cell leukemia cells were dissected focusing on the involvement of radical oxygen species (ROS). LE-induced apoptosis distinctly differed in several aspects from the one induced by Dx. Rapid generation of both extracellular and cell-derived hydrogen peroxide already at one hour drug exposure was observed in case of LE but not found before 24h for Dx. In contrast, Dx but not LE induced production of superoxide radicals. Mitochondrial damage, as revealed by JC-1 staining, was weakly enhanced already at 3h LE treatment and increased significantly with time. Accordingly, activation of the intrinsic apoptosis pathway initiator caspase-9 was not detectable before 12h exposure. In contrast, cleavage of the down-stream caspase substrate PARP-1 was clearly induced already at the three hour time point. Out of all caspases tested, only activation of effector caspase-7 was induced at this early time points paralleling the LE-induced oxidative burst. Accordingly, this massive cleavage of caspase-7 at early time points was inhibitable by the radical scavenger N-acetylcysteine (NAC). Additionally, only simultaneous inhibition of multiple caspases reduced LE-induced apoptosis. Specific scavengers of both H2O2 and OH(•) effectively decreased LE-induced ROS production, but only partially inhibited LE-induced apoptosis. In contrast, NAC efficiently blocked both parameters. Summarizing, rapid H2O2 generation and a complex caspase activation pattern contribute to the antileukemic effects of LE. As superoxide generation is considered as the main

  16. Rapid Development of Microsatellite Markers for Plantago ovata Forsk.: Using Next Generation Sequencing and Their Cross-Species Transferability

    Directory of Open Access Journals (Sweden)

    Ranbir Singh Fougat

    2014-06-01

    Full Text Available Isabgol (Plantago ovata Forsk. is an important medicinal plant having high pharmacological activity in its seed husk, which is substantially used in the food, beverages and packaging industries. Nevertheless, isabgol lags behind in research, particularly for genomic resources, like molecular markers, genetic maps, etc. Presently, molecular markers can be easily developed through next generation sequencing technologies, more efficiently, cost effectively and in less time than ever before. This study was framed keeping in view the need to develop molecular markers for this economically important crop by employing a microsatellite enrichment protocol using a next generation sequencing platform (ion torrent PGM™ to obtain simple sequence repeats (SSRs for Plantago ovata for the very first time. A total of 3447 contigs were assembled, which contained 249 SSRs. Thirty seven loci were randomly selected for primer development; of which, 30 loci were successfully amplified. The developed microsatellite markers showed the amplification of the expected size and cross-amplification in another six species of Plantago. The SSR markers were unable to show polymorphism within P. ovata, suggesting that low variability exists within genotypes of P. ovata. This study suggests that PGM™ sequencing is a rapid and cost-effective tool for developing SSR markers for non-model species, and the markers so-observed could be useful in the molecular breeding of P. ovata.

  17. Mulstiscale Stochastic Generator of Multivariate Met-Ocean Time Series

    Science.gov (United States)

    Guanche, Yanira; Mínguez, Roberto; Méndez, Fernando J.

    2013-04-01

    The design of maritime structures requires information on sea state conditions that influence its behavior during its life cycle. In the last decades, there has been a increasing development of sea databases (buoys, reanalysis, satellite) that allow an accurate description of the marine climate and its interaction with a given structure in terms of functionality and stability. However, these databases have a limited timelength, and its appliance entails an associated uncertainty. To avoid this limitation, engineers try to sample synthetically generated time series, statistically consistent, which allow the simulation of longer time periods. The present work proposes a hybrid methodology to deal with this issue. It is based in the combination of clustering algorithms (k-means) and an autoregressive logistic regression model (logit). Since the marine climate is directly related to the atmospheric conditions at a synoptic scale, the proposed methodology takes both systems into account; generating simultaneously circulation patterns (weather types) time series and the sea state time series related. The generation of these time series can be summarized in three steps: (1) By applying the clustering technique k-means the atmospheric conditions are classified into a representative number of synoptical patterns (2) Taking into account different covariates involved (such as seasonality, interannual variability, trends or autoregressive term) the autoregressive logistic model is adjusted (3) Once the model is able to simulate weather types time series the last step is to generate multivariate hourly metocean parameters related to these weather types. This is done by an autoregressive model (ARMA) for each variable, including cross-correlation between them. To show the goodness of the proposed method the following data has been used: Sea Level Pressure (SLP) databases from NCEP-NCAR and Global Ocean Wave (GOW) reanalysis from IH Cantabria. The synthetical met-ocean hourly

  18. Analysis and generation of groundwater concentration time series

    Science.gov (United States)

    Crăciun, Maria; Vamoş, Călin; Suciu, Nicolae

    2018-01-01

    Concentration time series are provided by simulated concentrations of a nonreactive solute transported in groundwater, integrated over the transverse direction of a two-dimensional computational domain and recorded at the plume center of mass. The analysis of a statistical ensemble of time series reveals subtle features that are not captured by the first two moments which characterize the approximate Gaussian distribution of the two-dimensional concentration fields. The concentration time series exhibit a complex preasymptotic behavior driven by a nonstationary trend and correlated fluctuations with time-variable amplitude. Time series with almost the same statistics are generated by successively adding to a time-dependent trend a sum of linear regression terms, accounting for correlations between fluctuations around the trend and their increments in time, and terms of an amplitude modulated autoregressive noise of order one with time-varying parameter. The algorithm generalizes mixing models used in probability density function approaches. The well-known interaction by exchange with the mean mixing model is a special case consisting of a linear regression with constant coefficients.

  19. Timing and causality in the generation of learned eyelid responses

    Directory of Open Access Journals (Sweden)

    Raudel eSánchez-Campusano

    2011-08-01

    Full Text Available The cerebellum-red nucleus-facial motoneuron (Mn pathway has been reported as being involved in the proper timing of classically conditioned eyelid responses. This special type of associative learning serves as a model of event timing for studying the role of the cerebellum in dynamic motor control. Here, we have re-analyzed the firing activities of cerebellar posterior interpositus (IP neurons and orbicularis oculi (OO Mns in alert behaving cats during classical eyeblink conditioning, using a delay paradigm. The aim was to revisit the hypothesis that the IP neurons can be considered a neuronal phase-modulating device supporting OO Mns firing with an emergent timing mechanism and an explicit correlation code during learned eyelid movements. Optimized experimental and computational tools allowed us to determine the different causal relationships (temporal order and correlation code during and between trials. These intra- and inter-trial timing strategies expanding from sub-second range (millisecond timing to longer-lasting ranges (interval timing expanded the functional domain of cerebellar timing beyond motor control. Interestingly, the results supported the above-mentioned hypothesis. The causal inferences were influenced by the precise motor and premotor spike-timing in the cause-effect interval, and, in addition, the timing of the learned responses depended on cerebellar-Mn network causality. Furthermore, the timing of CRs depended upon the probability of simulated causal conditions in the cause-effect interval and not the mere duration of the inter-stimulus interval. In this work, the close relation between timing and causality was verified. It could thus be concluded that the firing activities of IP neurons may be related more to the proper performance of ongoing CRs (i.e., the proper timing as a consequence of the pertinent causality than to their generation and/or initiation.

  20. Methodologies for estimating one-time hazardous waste generation for capacity generation for capacity assurance planning

    Energy Technology Data Exchange (ETDEWEB)

    Tonn, B.; Hwang, Ho-Ling; Elliot, S. [Oak Ridge National Lab., TN (United States); Peretz, J.; Bohm, R.; Hendrucko, B. [Univ. of Tennessee, Knoxville, TN (United States)

    1994-04-01

    This report contains descriptions of methodologies to be used to estimate the one-time generation of hazardous waste associated with five different types of remediation programs: Superfund sites, RCRA Corrective Actions, Federal Facilities, Underground Storage Tanks, and State and Private Programs. Estimates of the amount of hazardous wastes generated from these sources to be shipped off-site to commercial hazardous waste treatment and disposal facilities will be made on a state by state basis for the years 1993, 1999, and 2013. In most cases, estimates will be made for the intervening years, also.

  1. A real time metabolomic profiling approach to detecting fish fraud using rapid evaporative ionisation mass spectrometry.

    Science.gov (United States)

    Black, Connor; Chevallier, Olivier P; Haughey, Simon A; Balog, Julia; Stead, Sara; Pringle, Steven D; Riina, Maria V; Martucci, Francesca; Acutis, Pier L; Morris, Mike; Nikolopoulos, Dimitrios S; Takats, Zoltan; Elliott, Christopher T

    2017-01-01

    Fish fraud detection is mainly carried out using a genomic profiling approach requiring long and complex sample preparations and assay running times. Rapid evaporative ionisation mass spectrometry (REIMS) can circumvent these issues without sacrificing a loss in the quality of results. To demonstrate that REIMS can be used as a fast profiling technique capable of achieving accurate species identification without the need for any sample preparation. Additionally, we wanted to demonstrate that other aspects of fish fraud other than speciation are detectable using REIMS. 478 samples of five different white fish species were subjected to REIMS analysis using an electrosurgical knife. Each sample was cut 8-12 times with each one lasting 3-5 s and chemometric models were generated based on the mass range m/z 600-950 of each sample. The identification of 99 validation samples provided a 98.99% correct classification in which species identification was obtained near-instantaneously (≈ 2 s) unlike any other form of food fraud analysis. Significant time comparisons between REIMS and polymerase chain reaction (PCR) were observed when analysing 6 mislabelled samples demonstrating how REIMS can be used as a complimentary technique to detect fish fraud. Additionally, we have demonstrated that the catch method of fish products is capable of detection using REIMS, a concept never previously reported. REIMS has been proven to be an innovative technique to help aid the detection of fish fraud and has the potential to be utilised by fisheries to conduct their own quality control (QC) checks for fast accurate results.

  2. Nanosecond Level UTC Timing Generation and Stamping in CERN's LHC

    CERN Document Server

    Alvarez, P; Lewis, J; Serrano, J

    2003-01-01

    The General Machine Timing (GMT) at CERN uses an RS-485 multi-drop network through which messages are broadcast by a Central Timing Generator (CTG) module at a rate of 500 kb/s and decoded by many receiver modules in different form factors. For long distance transmission, optical fibers are used. As a result of cabling and capacitive loading of the receivers' inputs, the timing message signal presents an average jitter of 14 ns at any receiver input. For the LHC era, the 500 kb/s rate will be maintained to ensure compatibility with old receivers. However, a special kind of Phase Locked Loop (PLL), involving digital control in a Field Programmable Gate Array (FPGA) and a DAC to control a Voltage Controlled Crystal Oscillator (VCXO), has been developed to generate a 40 MHz square wave at the receiving side which is locked on average to the timing message signal but presents a jitter of less than 1 ns. This 40 MHz signal is locked to UTC because the encoder in the CTG card uses a 40 MHz clock coming from a GPS r...

  3. Rapid antimicrobial susceptibility testing of clinical isolates by digital time-lapse microscopy

    DEFF Research Database (Denmark)

    Fredborg, M; Rosenvinge, F S; Spillum, E

    2015-01-01

    Rapid antimicrobial susceptibility testing (AST) is essential for early and appropriate therapy. Methods with short detection time enabling same-day treatment optimisation are highly favourable. In this study, we evaluated the potential of a digital time-lapse microscope system, the oCelloScope s...

  4. Reading Time Allocation Strategies and Working Memory Using Rapid Serial Visual Presentation

    Science.gov (United States)

    Busler, Jessica N.; Lazarte, Alejandro A.

    2017-01-01

    Rapid serial visual presentation (RSVP) is a useful method for controlling the timing of text presentations and studying how readers' characteristics, such as working memory (WM) and reading strategies for time allocation, influence text recall. In the current study, a modified version of RSVP (Moving Window RSVP [MW-RSVP]) was used to induce…

  5. Timing the generation of distinct retinal cells by homeobox proteins.

    Directory of Open Access Journals (Sweden)

    Sarah Decembrini

    2006-09-01

    Full Text Available The reason why different types of vertebrate nerve cells are generated in a particular sequence is still poorly understood. In the vertebrate retina, homeobox genes play a crucial role in establishing different cell identities. Here we provide evidence of a cellular clock that sequentially activates distinct homeobox genes in embryonic retinal cells, linking the identity of a retinal cell to its time of generation. By in situ expression analysis, we found that the three Xenopus homeobox genes Xotx5b, Xvsx1, and Xotx2 are initially transcribed but not translated in early retinal progenitors. Their translation requires cell cycle progression and is sequentially activated in photoreceptors (Xotx5b and bipolar cells (Xvsx1 and Xotx2. Furthermore, by in vivo lipofection of "sensors" in which green fluorescent protein translation is under control of the 3' untranslated region (UTR, we found that the 3' UTRs of Xotx5b, Xvsx1, and Xotx2 are sufficient to drive a spatiotemporal pattern of translation matching that of the corresponding proteins and consistent with the time of generation of photoreceptors (Xotx5b and bipolar cells (Xvsx1 and Xotx2. The block of cell cycle progression of single early retinal progenitors impairs their differentiation as photoreceptors and bipolar cells, but is rescued by the lipofection of Xotx5b and Xvsx1 coding sequences, respectively. This is the first evidence to our knowledge that vertebrate homeobox proteins can work as effectors of a cellular clock to establish distinct cell identities.

  6. Rapid Calculation Program of Certain Sizes used in design of Synchronous Generators

    Directory of Open Access Journals (Sweden)

    Elisabeta Spunei

    2011-10-01

    Full Text Available This paper presents a program of rapid determination of certain sizes required in the design of synchronous machines using Mathcad software. During the design of electrical machines are phases in which certain sizes are extracted from different tables depending on certain variables. This operation is difficult and sometimes hard to do. To eliminate this problem and greatly shorten the time of determination of sizes and to ensure accurate values we have designed a program allowing even interpolation between two known values. The program developed applied, in this paper, to quickly determine the value of the voltage form factor kB and the value of the ideal polar coverage coefficient αi of polar step τ.

  7. Timing reference generators and chopper controllers for neutron sources

    Energy Technology Data Exchange (ETDEWEB)

    Nelson, R.; Merl, R.; Rose, C. [Los Alamos National Laboratory, Los Alamos, NM (United States)

    2001-03-01

    Due to AC-power-grid frequency fluctuations, the designers for accelerator-based spallation-neutron facilities have worked to optimize the competing and contrasting demands of accelerator and neutron chopper performance. Powerful new simulation techniques have enabled the modeling of the timing systems that integrate chopper controllers and chopper hardware. For the first time, we are able to quantitatively access the tradeoffs between these two constraints and design or upgrade a facility to optimize total system performance. Thus, at LANSCE, we now operate multiple chopper systems and the accelerator as simple slaves to a single master-timing-reference generator. For the SNS we recommend a similar system that is somewhat less tightly coupled to the power grid. (author)

  8. Finite Time Analysis of a Tri-Generation Cycle

    Directory of Open Access Journals (Sweden)

    Brian Agnew

    2015-06-01

    Full Text Available A review of the literature indicates that current tri-generation cycles show low thermal performance, even when optimised for maximum useful output. This paper presents a Finite Time analysis of a tri-generation cycle that is based upon coupled power and refrigeration Carnot cycles. The analysis applies equally well to Stirling cycles or any cycle that exhibits isothermal heat transfer with the environment and is internally reversible. It is shown that it is possible to obtain a significantly higher energy utilisation factor with this type of cycle by considering the energy transferred during the isothermal compression and expansion processes as useful products thus making the energy utilisation larger than the enthalpy drop of the working fluid of the power cycle. The cycle is shown to have the highest energy utilisation factor when energy is supplied from a low temperature heat source and in this case the output is biased towards heating and cooling.

  9. Very High Speed Discrete Time Optical Signal Generation and Filtering

    Science.gov (United States)

    Narayan, Vishwa

    Optical lattice filters constitute a class of devices that generate and operate upon high bandwidth optical signals. This dissertation describes the design, analysis, construction and testing of such devices. We derive elegant z-transform based filter transfer functions and develop a convenient state variable based scattering matrix filter description. A variety of filters are designed and analyzed. We also design locally optimal optical lattice filters with mirror imperfections such as losses and finite reflectivity round-off error. We conduct a quantitative sensitivity analysis of the degrading effects of these imperfections on system performance, and study the distorting effects of phase error on pulse train shape. Experimentally, we use mirror based optical lattice filters to generate 667 GHz repetition rate pulse bursts with step and ramp envelopes, and coded pulse bursts. We also demonstrate the quadrupling and octupling of the 76 MHz repetition rate of a mode-locked laser. We demonstrate the low pass filtering property of optical lattice filters by realizing a high speed discrete time optical integrator. Step functions are integrated to ramps, and ramps to quadratics, at 667 GHz. We also constructed a mechanical variable repetition rate filter with a tuning range of 2.14 to 100 GHz. We design and analyze a gain based mirror filter with active gain elements. Small signal linear constant gain tends to improve filter performance by increasing the output, and reducing fluctuations in the frequency response. We study the behavior of these filters at the stability limit, characterized by large fluctuations in the frequency response. Optical lattice filters may be used as wavelength multiplexers/demultiplexers in lightwave systems, as variable repetition rate pulse train generators for tunable repetition rate optical spectroscopy, as optical clock generators, and as discrete time/analog optical signal filters.

  10. Interpersonal variability in timing strategy and temporal accuracy in rapid interception task with variable time-to-contact.

    Science.gov (United States)

    Ijiri, Tetsuya; Shinya, Masahiro; Nakazawa, Kimitaka

    2015-01-01

    In rapid interceptive actions such as hitting a baseball, cricket ball or tennis ball, ball speed varies between trials, and players have to compensate the time lag by controlling the moment of movement onset and movement duration. Previous studies have found that these two variables can flexibly co-vary and are robustly influenced by target speed (i.e. velocity-coupling effect: faster movement for faster target). However, some studies reported an interpersonal variability in the timing control strategy and the relationship between the strategy and temporal accuracy in rapid interception is unclear. We used a baseball-simulated rapid interceptive task to assess this issue. Under relatively easy time constraints, there was a large interpersonal variability, and participants were distinctively divided into two groups: those who mainly modulated their movement duration and those who mainly controlled their movement onset. When the time constraint became severe, the second strategy shifted to the first strategy in most of the second group participants. In the both cases, being able to mainly control movement onset resulted in higher temporal accuracy. These results suggest that minimising the velocity-coupling effect is an important factor to achieve high temporal accuracy in rapid interception.

  11. Simplified Model of Brushless Synchronous Generator for Real Time Simulation

    CERN Document Server

    Lopez, M D; Rebollo, E; Blanquez, F R

    2015-01-01

    This paper presents a simplified model of brushless synchronous machine for saving hardware resources in a real time simulation system. Firstly, a brushless excitation system model is described. Thereafter, the simplified transfer function of an AC exciter and rotating diodes of the brushless excitation system is estimated. Finally, the complete system is simulated, comparing the main generator's voltage with both detailed and simplified excitation systems in several scenarios. These results show the accuracy of the simplified model against the detailed simulation model, resulting on an important hardware resources savings.

  12. Development of rapid methods for relaxation time mapping and motion estimation using magnetic resonance imaging

    OpenAIRE

    Gilani, Syed Irtiza Ali

    2008-01-01

    Recent technological developments in the field of magnetic resonance imaging have resulted in advanced techniques that can reduce the total time to acquire images. For applications such as relaxation time mapping, which enables improved visualisation of in vivo structures, rapid imaging techniques are highly desirable. TAPIR is a Look- Locker-based sequence for high-resolution, multislice T1 relaxation time mapping. Despite the high accuracy and precision of TAPIR, an improveme...

  13. Real-time terrain storage generation from multiple sensors towards mobile robot operation interface.

    Science.gov (United States)

    Song, Wei; Cho, Seoungjae; Xi, Yulong; Cho, Kyungeun; Um, Kyhyun

    2014-01-01

    A mobile robot mounted with multiple sensors is used to rapidly collect 3D point clouds and video images so as to allow accurate terrain modeling. In this study, we develop a real-time terrain storage generation and representation system including a nonground point database (PDB), ground mesh database (MDB), and texture database (TDB). A voxel-based flag map is proposed for incrementally registering large-scale point clouds in a terrain model in real time. We quantize the 3D point clouds into 3D grids of the flag map as a comparative table in order to remove the redundant points. We integrate the large-scale 3D point clouds into a nonground PDB and a node-based terrain mesh using the CPU. Subsequently, we program a graphics processing unit (GPU) to generate the TDB by mapping the triangles in the terrain mesh onto the captured video images. Finally, we produce a nonground voxel map and a ground textured mesh as a terrain reconstruction result. Our proposed methods were tested in an outdoor environment. Our results show that the proposed system was able to rapidly generate terrain storage and provide high resolution terrain representation for mobile mapping services and a graphical user interface between remote operators and mobile robots.

  14. Real-Time Terrain Storage Generation from Multiple Sensors towards Mobile Robot Operation Interface

    Directory of Open Access Journals (Sweden)

    Wei Song

    2014-01-01

    Full Text Available A mobile robot mounted with multiple sensors is used to rapidly collect 3D point clouds and video images so as to allow accurate terrain modeling. In this study, we develop a real-time terrain storage generation and representation system including a nonground point database (PDB, ground mesh database (MDB, and texture database (TDB. A voxel-based flag map is proposed for incrementally registering large-scale point clouds in a terrain model in real time. We quantize the 3D point clouds into 3D grids of the flag map as a comparative table in order to remove the redundant points. We integrate the large-scale 3D point clouds into a nonground PDB and a node-based terrain mesh using the CPU. Subsequently, we program a graphics processing unit (GPU to generate the TDB by mapping the triangles in the terrain mesh onto the captured video images. Finally, we produce a nonground voxel map and a ground textured mesh as a terrain reconstruction result. Our proposed methods were tested in an outdoor environment. Our results show that the proposed system was able to rapidly generate terrain storage and provide high resolution terrain representation for mobile mapping services and a graphical user interface between remote operators and mobile robots.

  15. Nonlinear optical generation of time-delayed entanglement

    Energy Technology Data Exchange (ETDEWEB)

    McRae, Terry G; Bowen, Warwick P, E-mail: wbowen@physics.uq.edu.au [Centre for Engineered Quantum Systems, School of Mathematics and Physics, University of Queensland, St Lucia, Brisbane, QLD 4072 (Australia)

    2011-05-14

    A model is presented of nth order nonlinear processes in whispering gallery mode resonators, with scattering coherently coupling degenerate counter propagating modes. It is shown that such systems generate strong squeezing and time-delayed entanglement. The model can be generally applied to any pair of nonlinear coherently coupled cavities and is of particular relevance to whispering gallery mode resonators. A feature of the entanglement is that, by tuning the coherent coupling rate the peak entanglement can be tuned to occur away from the carrier frequency. This has technological significance allowing low frequency noise sources around the carrier frequency to be avoided. All-optical time-delayed entanglement has many applications, such as an all-optical quantum memory.

  16. MacroEvoLution: A New Method for the Rapid Generation of Novel Scaffold-Diverse Macrocyclic Libraries.

    Science.gov (United States)

    Saupe, Jörn; Kunz, Oliver; Haustedt, Lars Ole; Jakupovic, Sven; Mang, Christian

    2017-09-04

    Macrocycles are a structural class bearing great promise for future challenges in medicinal chemistry. Nevertheless, there are few flexible approaches for the rapid generation of structurally diverse macrocyclic compound collections. Here, an efficient method for the generation of novel macrocyclic peptide-based scaffolds is reported. The process, named here as "MacroEvoLution", is based on a cyclization screening approach that gives reliable access to novel macrocyclic architectures. Classification of building blocks into specific pools ensures that scaffolds with orthogonally addressable functionalities are generated, which can easily be used for the generation of structurally diverse compound libraries. The method grants rapid access to novel scaffolds with scalable synthesis (multi gram scale) and the introduction of further diversity at a late stage. Despite being developed for peptidic systems, the approach can easily be extended for the synthesis of systems with a decreased peptidic character. © 2017 The Authors. Published by Wiley-VCH Verlag GmbH & Co. KGaA.

  17. MacroEvoLution: A New Method for the Rapid Generation of Novel Scaffold‐Diverse Macrocyclic Libraries

    Science.gov (United States)

    Saupe, Jörn; Kunz, Oliver; Haustedt, Lars Ole; Jakupovic, Sven

    2017-01-01

    Abstract Macrocycles are a structural class bearing great promise for future challenges in medicinal chemistry. Nevertheless, there are few flexible approaches for the rapid generation of structurally diverse macrocyclic compound collections. Here, an efficient method for the generation of novel macrocyclic peptide‐based scaffolds is reported. The process, named here as “MacroEvoLution”, is based on a cyclization screening approach that gives reliable access to novel macrocyclic architectures. Classification of building blocks into specific pools ensures that scaffolds with orthogonally addressable functionalities are generated, which can easily be used for the generation of structurally diverse compound libraries. The method grants rapid access to novel scaffolds with scalable synthesis (multi gram scale) and the introduction of further diversity at a late stage. Despite being developed for peptidic systems, the approach can easily be extended for the synthesis of systems with a decreased peptidic character. PMID:28715083

  18. Rapid evaluation and quality control of next generation sequencing data with FaQCs.

    Science.gov (United States)

    Lo, Chien-Chi; Chain, Patrick S G

    2014-11-19

    Next generation sequencing (NGS) technologies that parallelize the sequencing process and produce thousands to millions, or even hundreds of millions of sequences in a single sequencing run, have revolutionized genomic and genetic research. Because of the vagaries of any platform's sequencing chemistry, the experimental processing, machine failure, and so on, the quality of sequencing reads is never perfect, and often declines as the read is extended. These errors invariably affect downstream analysis/application and should therefore be identified early on to mitigate any unforeseen effects. Here we present a novel FastQ Quality Control Software (FaQCs) that can rapidly process large volumes of data, and which improves upon previous solutions to monitor the quality and remove poor quality data from sequencing runs. Both the speed of processing and the memory footprint of storing all required information have been optimized via algorithmic and parallel processing solutions. The trimmed output compared side-by-side with the original data is part of the automated PDF output. We show how this tool can help data analysis by providing a few examples, including an increased percentage of reads recruited to references, improved single nucleotide polymorphism identification as well as de novo sequence assembly metrics. FaQCs combines several features of currently available applications into a single, user-friendly process, and includes additional unique capabilities such as filtering the PhiX control sequences, conversion of FASTQ formats, and multi-threading. The original data and trimmed summaries are reported within a variety of graphics and reports, providing a simple way to do data quality control and assurance.

  19. A unification framework for best-of-breed real-time scene generation

    Science.gov (United States)

    Morris, Joseph W.; Ballard, Gary H.; Trimble, Darian E.; Bunfield, Dennis H.; Mayhall, Anthony J.

    2010-04-01

    AMRDEC sought out an improved framework for real-time hardware-in-the-loop (HWIL) scene generation to provide the flexibility needed to adapt to rapidly changing hardware advancements and provide the ability to more seamlessly integrate external third party codes for Best-of-Breed real-time scene generation. As such, AMRDEC has developed Continuum, a new software architecture foundation to allow for the integration of these codes into a HWIL lab facility while enhancing existing AMRDEC HWIL scene generation codes such as the Joint Signature Image Generator (JSIG). This new real-time framework is a minimalistic modular approach based on the National Institute of Standards (NIST) Neutral Messaging Language (NML) that provides the basis for common HWIL scene generation. High speed interconnects and protocols were examined to support distributed scene generation whereby the scene graph, associated phenomenology, and resulting scene can be designed around the data rather than a framework, and the scene elements can be dynamically distributed across multiple high performance computing assets. Because of this open architecture approach, the framework facilitates scaling from a single GPU "traditional" PC scene generation system to a multi-node distributed system requiring load distribution and scene compositing across multiple high performance computing platforms. This takes advantage of the latest advancements in GPU hardware, such as NVIDIA's Tesla and Fermi architectures, providing an increased benefit in both fidelity and performance of the associated scene's phenomenology. Other features of the Continuum easily extend the use of this framework to include visualization, diagnostic, analysis, configuration, and other HWIL and all digital simulation tools.

  20. Rapid and real-time detection technologies for emerging viruses of ...

    Indian Academy of Sciences (India)

    2008-10-17

    Oct 17, 2008 ... The development of technologies with rapid and sensitive detection capabilities and increased throughput have become crucial for responding to greater number threats posed by emerging and re-emerging viruses in the recent past. The conventional identification methods require time-consuming culturing ...

  1. Rapid Anomaly Detection and Tracking via Compressive Time-Spectra Measurement

    Science.gov (United States)

    2016-02-12

    0002AM Title: Rapid anomaly detection and tracking via compressive time- spectra measurement Contract performance period: 05 Nov 2013 - 04... ground truth signal broadening technique...and tracking has direct applications in lower- cost, higher- performance sensors particularly in the shortwave infrared where focal plane array

  2. Rapid detection of Listeria monocytogenes in food using culture enrichment combined with real-time PCR.

    Science.gov (United States)

    O'Grady, Justin; Ruttledge, Margaret; Sedano-Balbás, Sara; Smith, Terry J; Barry, Thomas; Maher, Majella

    2009-02-01

    A rapid method for the detection of Listeria monocytogenes in foods combining culture enrichment and real-time PCR was compared to the ISO 11290-1 standard method. The culture enrichment component of the rapid method is based on the ISO standard and includes 24h incubation in half-Fraser broth, 4h incubation in Fraser broth followed by DNA extraction and real-time PCR detection of the ssrA gene of L. monocytogenes. An internal amplification control, which is co-amplified with the same primers as the L. monocytogenes DNA, was also included in the assay. The method has a limit of detection of 1-5CFU/25g food sample and can be performed in 2 working days compared to up to 7days for the ISO standard. A variety of food samples from retail outlets and food processing plants (n=175) and controls (n=31) were tested using rapid and conventional methods. The rapid method was 99.44% specific, 96.15% sensitive and 99.03% accurate when compared to the standard method. This method has the potential to be used as an alternative to the standard method for food quality assurance providing rapid detection of L. monocytogenes in food.

  3. Rapid and Easy Protocol for Quantification of Next-Generation Sequencing Libraries.

    Science.gov (United States)

    Hawkins, Steve F C; Guest, Paul C

    2018-01-01

    The emergence of next-generation sequencing (NGS) over the last 10 years has increased the efficiency of DNA sequencing in terms of speed, ease, and price. However, the exact quantification of a NGS library is crucial in order to obtain good data on sequencing platforms developed by the current market leader Illumina. Different approaches for DNA quantification are available currently and the most commonly used are based on analysis of the physical properties of the DNA through spectrophotometric or fluorometric methods. Although these methods are technically simple, they do not allow exact quantification as can be achieved using a real-time quantitative PCR (qPCR) approach. A qPCR protocol for DNA quantification with applications in NGS library preparation studies is presented here. This can be applied in various fields of study such as medical disorders resulting from nutritional programming disturbances.

  4. Monte-Carlo Generation of Time Evolving Fission Chains

    Energy Technology Data Exchange (ETDEWEB)

    Verbeke, Jerome M. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Kim, Kenneth S. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Prasad, Manoj K. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Snyderman, Neal J. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States)

    2013-08-01

    About a decade ago, a computer code was written to model neutrons from their “birth” to their final “death” in thermal neutron detectors (3He tubes): SrcSim had enough physics to track the neutrons in multiplying systems, appropriately increasing and decreasing the neutron population as they interacted by absorption, fission and leakage. The theory behind the algorithms assumed that all neutrons produced in a fission chain were all produced simultaneously, and then diffused to the neutron detectors. For cases where the diffusion times are long compared to the fission chains, SrcSim is very successful. Indeed, it works extraordinarily well for thermal neutron detectors and bare objects, because it takes tens of microseconds for fission neutrons to slow down to thermal energies, where they can be detected. Microseconds are a very long time compared to the lengths of the fission chains. However, this inherent assumption in the theory prevents its use to cases where either the fission chains are long compared to the neutron diffusion times (water-cooled nuclear reactors, or heavily moderated object, where the theory starts failing), or the fission neutrons can be detected shortly after they were produced (fast neutron detectors). For these cases, a new code needs to be written, where the underlying assumption is not made. The purpose of this report is to develop an algorithm to generate the arrival times of neutrons in fast neutron detectors, starting from a neutron source such as a spontaneous fission source (252Cf) or a multiplying source (Pu). This code will be an extension of SrcSim to cases where correlations between neutrons in the detectors are on the same or shorter time scales as the fission chains themselves.

  5. "Bubble-on-demand" generator with precise adsorption time control.

    Science.gov (United States)

    Zawala, J; Niecikowska, A

    2017-09-01

    The paper presents the principles of our new single bubble generator, which allows a precise control of bubble formation in pure liquids and surfactant solutions, i.e., their detachment frequency and the adsorption time at their motionless surface. We show that the bubbles with equilibrium size can be produced at the capillaries of various orifice diameters (0.022-0.128 mm) on demand and with outstanding reproducibility. Moreover, it is shown that a fully automatized and programmable bubble trap, synchronized with bubble detachment frequency, can be used to (i) control the radius of the released bubble and (ii) precisely adjust the initial adsorption coverage over the surface of detaching bubble, and hence to study the influence of adsorption coverage degree on kinetics of dynamic adsorption layer formation at the rising bubble surface.

  6. "Bubble-on-demand" generator with precise adsorption time control

    Science.gov (United States)

    Zawala, J.; Niecikowska, A.

    2017-09-01

    The paper presents the principles of our new single bubble generator, which allows a precise control of bubble formation in pure liquids and surfactant solutions, i.e., their detachment frequency and the adsorption time at their motionless surface. We show that the bubbles with equilibrium size can be produced at the capillaries of various orifice diameters (0.022-0.128 mm) on demand and with outstanding reproducibility. Moreover, it is shown that a fully automatized and programmable bubble trap, synchronized with bubble detachment frequency, can be used to (i) control the radius of the released bubble and (ii) precisely adjust the initial adsorption coverage over the surface of detaching bubble, and hence to study the influence of adsorption coverage degree on kinetics of dynamic adsorption layer formation at the rising bubble surface.

  7. Real Time Engineering Analysis Based on a Generative Component Implementation

    DEFF Research Database (Denmark)

    Kirkegaard, Poul Henning; Klitgaard, Jens

    2007-01-01

    The present paper outlines the idea of a conceptual design tool with real time engineering analysis which can be used in the early conceptual design phase. The tool is based on a parametric approach using Generative Components with embedded structural analysis. Each of these components uses...... the geometry, material properties and fixed point characteristics to calculate the dimensions and subsequent feasibility of any architectural design. The proposed conceptual design tool provides the possibility for the architect to work with both the aesthetic as well as the structural aspects of architecture...... with a static determinate roof structure modelled by beam components is given. The example outlines the idea of the tool for conceptual design in early phase of a multidisciplinary design process between architecture and structural engineering....

  8. Mapping land cover through time with the Rapid Land Cover Mapper—Documentation and user manual

    Science.gov (United States)

    Cotillon, Suzanne E.; Mathis, Melissa L.

    2017-02-15

    The Rapid Land Cover Mapper is an Esri ArcGIS® Desktop add-in, which was created as an alternative to automated or semiautomated mapping methods. Based on a manual photo interpretation technique, the tool facilitates mapping over large areas and through time, and produces time-series raster maps and associated statistics that characterize the changing landscapes. The Rapid Land Cover Mapper add-in can be used with any imagery source to map various themes (for instance, land cover, soils, or forest) at any chosen mapping resolution. The user manual contains all essential information for the user to make full use of the Rapid Land Cover Mapper add-in. This manual includes a description of the add-in functions and capabilities, and step-by-step procedures for using the add-in. The Rapid Land Cover Mapper add-in was successfully used by the U.S. Geological Survey West Africa Land Use Dynamics team to accurately map land use and land cover in 17 West African countries through time (1975, 2000, and 2013).

  9. Characterizing Urban Household Waste Generation and Metabolism Considering Community Stratification in a Rapid Urbanizing Area of China.

    Directory of Open Access Journals (Sweden)

    Lishan Xiao

    Full Text Available The relationship between social stratification and municipal solid waste generation remains uncertain under current rapid urbanization. Based on a multi-object spatial sampling technique, we selected 191 households in a rapidly urbanizing area of Xiamen, China. The selected communities were classified into three types: work-unit, transitional, and commercial communities in the context of housing policy reform in China. Field survey data were used to characterize household waste generation patterns considering community stratification. Our results revealed a disparity in waste generation profiles among different households. The three community types differed with respect to family income, living area, religious affiliation, and homeowner occupation. Income, family structure, and lifestyle caused significant differences in waste generation among work-unit, transitional, and commercial communities, respectively. Urban waste generation patterns are expected to evolve due to accelerating urbanization and associated community transition. A multi-scale integrated analysis of societal and ecosystem metabolism approach was applied to waste metabolism linking it to particular socioeconomic conditions that influence material flows and their evolution. Waste metabolism, both pace and density, was highest for family structure driven patterns, followed by lifestyle and income driven. The results will guide community-specific management policies in rapidly urbanizing areas.

  10. Characterizing Urban Household Waste Generation and Metabolism Considering Community Stratification in a Rapid Urbanizing Area of China.

    Science.gov (United States)

    Xiao, Lishan; Lin, Tao; Chen, Shaohua; Zhang, Guoqin; Ye, Zhilong; Yu, Zhaowu

    2015-01-01

    The relationship between social stratification and municipal solid waste generation remains uncertain under current rapid urbanization. Based on a multi-object spatial sampling technique, we selected 191 households in a rapidly urbanizing area of Xiamen, China. The selected communities were classified into three types: work-unit, transitional, and commercial communities in the context of housing policy reform in China. Field survey data were used to characterize household waste generation patterns considering community stratification. Our results revealed a disparity in waste generation profiles among different households. The three community types differed with respect to family income, living area, religious affiliation, and homeowner occupation. Income, family structure, and lifestyle caused significant differences in waste generation among work-unit, transitional, and commercial communities, respectively. Urban waste generation patterns are expected to evolve due to accelerating urbanization and associated community transition. A multi-scale integrated analysis of societal and ecosystem metabolism approach was applied to waste metabolism linking it to particular socioeconomic conditions that influence material flows and their evolution. Waste metabolism, both pace and density, was highest for family structure driven patterns, followed by lifestyle and income driven. The results will guide community-specific management policies in rapidly urbanizing areas.

  11. Time series power flow analysis for distribution connected PV generation.

    Energy Technology Data Exchange (ETDEWEB)

    Broderick, Robert Joseph; Quiroz, Jimmy Edward; Ellis, Abraham; Reno, Matthew J.; Smith, Jeff; Dugan, Roger

    2013-01-01

    Distributed photovoltaic (PV) projects must go through an interconnection study process before connecting to the distribution grid. These studies are intended to identify the likely impacts and mitigation alternatives. In the majority of the cases, system impacts can be ruled out or mitigation can be identified without an involved study, through a screening process or a simple supplemental review study. For some proposed projects, expensive and time-consuming interconnection studies are required. The challenges to performing the studies are twofold. First, every study scenario is potentially unique, as the studies are often highly specific to the amount of PV generation capacity that varies greatly from feeder to feeder and is often unevenly distributed along the same feeder. This can cause location-specific impacts and mitigations. The second challenge is the inherent variability in PV power output which can interact with feeder operation in complex ways, by affecting the operation of voltage regulation and protection devices. The typical simulation tools and methods in use today for distribution system planning are often not adequate to accurately assess these potential impacts. This report demonstrates how quasi-static time series (QSTS) simulation and high time-resolution data can be used to assess the potential impacts in a more comprehensive manner. The QSTS simulations are applied to a set of sample feeders with high PV deployment to illustrate the usefulness of the approach. The report describes methods that can help determine how PV affects distribution system operations. The simulation results are focused on enhancing the understanding of the underlying technical issues. The examples also highlight the steps needed to perform QSTS simulation and describe the data needed to drive the simulations. The goal of this report is to make the methodology of time series power flow analysis readily accessible to utilities and others responsible for evaluating

  12. A rapid and direct real time PCR-based method for identification of Salmonella spp

    DEFF Research Database (Denmark)

    Rodriguez-Lazaro, D.; Hernández, Marta; Esteve, T.

    2003-01-01

    The aim of this work was the validation of a rapid, real-time PCR assay based on TaqMan((R)) technology for the unequivocal identification of Salmonella spp. to be used directly on an agar-grown colony. A real-time PCR system targeting at the Salmonella spp. invA gene was optimized and validated...... to be especially convenient because the pre-mix containing all PCR reagents except for the bacterial cells could be kept at -20 degreesC for at least I month before its use. The optimized TaqMan((R)) real-time PCR assay is a useful, simple and rapid method for routine identification of Salmonella spp...

  13. Rapid shift in thermal resistance between generations through maternal heat exposure

    NARCIS (Netherlands)

    Zizzari, Z.V.; Ellers, J.

    2014-01-01

    Given the current rapid climate change, understanding the mechanisms underlying heat tolerance and its plasticity is an important goal of global change biology. Soil fauna communities are especially vulnerable because of their limited dispersal ability. It is generally recognized that

  14. Rapid Embedded Wire Heating via Resistive Guiding of Laser-Generated Fast Electrons as a Hydrodynamic Driver

    CERN Document Server

    Robinson, A P L; Pasley, J

    2014-01-01

    Resistively guiding laser-generated fast electron beams in targets consisting of a resistive wire embedded in lower $Z$ material should allow one to rapidly heat the wire to over 100eV over a substantial distance without strongly heating the surrounding material. On the multi-ps timescale this can drive hydrodynamic motion in the surrounding material. Thus ultra-intense laser solid interactions have the potential as a controlled driver of radiation hydrodynamics in solid density material. In this paper we assess the laser and target parameters needed to achieve such rapid and controlled heating of the embedded wire.

  15. Demonstrated rapid growth of a corpus callosum cavernous angioma within a short period of time.

    Science.gov (United States)

    Ozer, E; Yücesoy, K; Kalemci, O

    2005-12-01

    Cavernous angiomas are uncommon central nervous system vascular malformations. They occur in the corpus callosum very rarely. In this study we report a case of corpus callosum cavernous angioma which demonstrated rapid growth within a short period of time. Corpus callosum cavernous angiomas have distinct features regarding growth and should be treated more carefully by giving more importance to surgical removal rather than a conservative approach.

  16. Real-time geo-registered steerable video generation

    Science.gov (United States)

    Maenner, Paul; Dockstader, Shiloh L.; Shuler, Roddy; Brower, Bernard V.; Pellechia, Matthew F.

    2010-04-01

    In this paper we present a new approach to the real-time generation and dissemination of steerable video chips from large volume motion imagery streams. Traditional large frame motion imagery streaming and dissemination systems employ JPEG 2000 (J2K) compression and associated JPEG 2000 Interactive Protocol (JPIP) streaming to encode and deliver images over varying bandwidth communication channels. While J2K and JPIP technologies are suitable for many large frame motion imagery applications, they often struggle to satisfy the needs of certain low power, low bandwidth users. The J2K format does not currently support inter-frame compression and, therefore, cannot target the lowest bandwidth motion imagery users. Additionally, J2K decompression and JPIP processing both consume more computational resources than low-end client systems often have available. This is especially true for handheld and thin-client devices. We address these issues by integrating region-of-interest J2K compression and JPIP streaming with MPEG-2 and H.264 video compression technology, taking advantage of the ubiquitous hardware acceleration and client ingest support for these full motion video product formats. The proposed architecture maintains all the benefits of incorporating a J2K archival format, while also boasting the ability to disseminate J2K regions-of-interest and low resolution overviews to an even greater number of simultaneous clients. We illustrate a real-time integration and implementation of these technologies and show how they can be used to enable interactive and automated tracking and dissemination of multiple moving objects from wide area persistent surveillance motion imagery.

  17. Time-Elastic Generative Model for Acceleration Time Series in Human Activity Recognition

    Directory of Open Access Journals (Sweden)

    Mario Munoz-Organero

    2017-02-01

    Full Text Available Body-worn sensors in general and accelerometers in particular have been widely used in order to detect human movements and activities. The execution of each type of movement by each particular individual generates sequences of time series of sensed data from which specific movement related patterns can be assessed. Several machine learning algorithms have been used over windowed segments of sensed data in order to detect such patterns in activity recognition based on intermediate features (either hand-crafted or automatically learned from data. The underlying assumption is that the computed features will capture statistical differences that can properly classify different movements and activities after a training phase based on sensed data. In order to achieve high accuracy and recall rates (and guarantee the generalization of the system to new users, the training data have to contain enough information to characterize all possible ways of executing the activity or movement to be detected. This could imply large amounts of data and a complex and time-consuming training phase, which has been shown to be even more relevant when automatically learning the optimal features to be used. In this paper, we present a novel generative model that is able to generate sequences of time series for characterizing a particular movement based on the time elasticity properties of the sensed data. The model is used to train a stack of auto-encoders in order to learn the particular features able to detect human movements. The results of movement detection using a newly generated database with information on five users performing six different movements are presented. The generalization of results using an existing database is also presented in the paper. The results show that the proposed mechanism is able to obtain acceptable recognition rates (F = 0.77 even in the case of using different people executing a different sequence of movements and using different

  18. Verbal fluency: Effect of time on item generation

    Directory of Open Access Journals (Sweden)

    Mayra Jacuviske Venegas

    Full Text Available Abstract The distribution of item generation/time in the performance of elderly on verbal fluency (VF remains unknown. Objective: To analyze the number of items, their distribution and impact of the first quartile on the final test result. Methods: 31 individuals performed the tests (average age=74 years; schooling=8.16 years. Results: The number of items produced in the first quartile differed from the other quartiles for both semantic and phonologic VF where 40% of items were produced in the first quartile. No effect of age was found and schooling influenced performance on the first and second quartiles of semantic VF and on the 1st, 2nd and 3rd quartiles of phonemic VF. Discussion: This study contributes with the finding that asymptotic levels are attained prior to the 30 seconds observed in other studies, being reached at the 15-second mark. Furthermore, schooling was found to be associated to the number of items produced in both the first and 2nd quartiles for semantic VF, and in 1st, 2nd and 3rd quartiles for phonemic fluency. Conclusion: The schooling effect was noted both in semantic and executive aspects of VF. The brief form of the VF test may represent a promising tool for clinical evaluation.

  19. Second-generation stars in globular clusters from rapid radiative cooling of pre-supernova massive star winds

    Science.gov (United States)

    Lochhaas, Cassandra; Thompson, Todd A.

    2017-09-01

    Following work by Wünsch and collaborators, we investigate a self-enrichment scenario for second-generation star formation in globular clusters wherein wind material from the first-generation massive stars rapidly radiatively cools. Radiative energy loss allows retention of fast winds within the central regions of clusters, where it fuels star formation. Secondary star formation occurs in ˜3-5 Myr, before supernovae, producing uniform iron abundances in both populations. We derive the critical criteria for radiative cooling of massive star winds and the second-generation mass as a function of cluster mass, radius and metallicity. We derive a critical condition on M/R, above which second-generation star formation can occur. We speculate that above this threshold the strong decrease in the cluster wind energy and momentum allows ambient gas to remain from the cluster formation process. We reproduce large observed second-generation fractions of ˜30-80 per cent if wind material mixes with ambient gas. Importantly, the mass of ambient gas required is only of order the first generation's stellar mass. Second-generation helium enrichment ΔY is inversely proportional to mass fraction in the second generation; a large second generation can form with ΔY ˜ 0.001-0.02, while a small second generation can reach ΔY ˜ 0.16. Like other self-enrichment models for the second generation, we are not able to simultaneously account for both the full range of the Na-O anticorrelation and the second-generation fraction.

  20. Rapid diagnosis of sepsis with TaqMan-Based multiplex real-time PCR.

    Science.gov (United States)

    Liu, Chang-Feng; Shi, Xin-Ping; Chen, Yun; Jin, Ye; Zhang, Bing

    2018-02-01

    The survival rate of septic patients mainly depends on a rapid and reliable diagnosis. A rapid, broad range, specific and sensitive quantitative diagnostic test is the urgent need. Thus, we developed a TaqMan-Based Multiplex real-time PCR assays to identify bloodstream pathogens within a few hours. Primers and TaqMan probes were designed to be complementary to conserved regions in the 16S rDNA gene of different kinds of bacteria. To evaluate accurately, sensitively, and specifically, the known bacteria samples (Standard strains, whole blood samples) are determined by TaqMan-Based Multiplex real-time PCR. In addition, 30 blood samples taken from patients with clinical symptoms of sepsis were tested by TaqMan-Based Multiplex real-time PCR and blood culture. The mean frequency of positive for Multiplex real-time PCR was 96% at a concentration of 100 CFU/mL, and it was 100% at a concentration greater than 1000 CFU/mL. All the known blood samples and Standard strains were detected positively by TaqMan-Based Multiplex PCR, no PCR products were detected when DNAs from other bacterium were used in the multiplex assay. Among the 30 patients with clinical symptoms of sepsis, 18 patients were confirmed positive by Multiplex real-time PCR and seven patients were confirmed positive by blood culture. TaqMan-Based Multiplex real-time PCR assay with highly sensitivity, specificity and broad detection range, is a rapid and accurate method in the detection of bacterial pathogens of sepsis and should have a promising usage in the diagnosis of sepsis. © 2017 Wiley Periodicals, Inc.

  1. Rapid Ultrasound in Shock (RUSH) Velocity-Time Integral: A Proposal to Expand the RUSH Protocol.

    Science.gov (United States)

    Blanco, Pablo; Aguiar, Francisco Miralles; Blaivas, Michael

    2015-09-01

    Ultrasound assessment of patients in shock is becoming the standard of care in emergency and critical care settings worldwide. One of the most common protocols used for this assessment is the rapid ultrasound in shock (RUSH) examination. The RUSH protocol is a rapid evaluation of cardiac function, key vascular structures, and likely sources of hypotension. Stroke volume is an established important value to assess in the setting of shock, allowing the provider to predict the patient's response to treatment. However, the calculation of stroke volume or its surrogates is not part of any protocol, including RUSH. We propose the addition of ultrasound calculation of stroke volume or surrogates to the RUSH protocol and provide support for its utility and relative ease of calculation. The resulting product would be the RUSH velocity-time integral protocol. © 2015 by the American Institute of Ultrasound in Medicine.

  2. Rapid and stable measurement of respiratory rate from Doppler radar signals using time domain autocorrelation model.

    Science.gov (United States)

    Sun, Guanghao; Matsui, Takemi

    2015-01-01

    Noncontact measurement of respiratory rate using Doppler radar will play a vital role in future clinical practice. Doppler radar remotely monitors the tiny chest wall movements induced by respiration activity. The most competitive advantage of this technique is to allow users fully unconstrained with no biological electrode attachments. However, the Doppler radar, unlike other contact-type sensors, is easily affected by the random body movements. In this paper, we proposed a time domain autocorrelation model to process the radar signals for rapid and stable estimation of the respiratory rate. We tested the autocorrelation model on 8 subjects in laboratory, and compared the respiratory rates detected by noncontact radar with reference contact-type respiratory effort belt. Autocorrelation model showed the effects of reducing the random body movement noise added to Doppler radar's respiration signals. Moreover, the respiratory rate can be rapidly calculated from the first main peak in the autocorrelation waveform within 10 s.

  3. Rapid Protoyping Software for Developing Next-Generation Air Traffic Management Algorithms Project

    Data.gov (United States)

    National Aeronautics and Space Administration — Research on next-generation air traffic control systems are being conducted at several laboratories. Most of this work is being carried out using custom software. In...

  4. Rapid Protoyping Software for Developing Next-Generation Air Traffic Management Algorithms Project

    Data.gov (United States)

    National Aeronautics and Space Administration — Research on next-generation air traffic management systems is being conducted at several laboratories using custom software. In order to provide a more uniform...

  5. Rapid expansion method (REM) for time‐stepping in reverse time migration (RTM)

    KAUST Repository

    Pestana, Reynam C.

    2009-01-01

    We show that the wave equation solution using a conventional finite‐difference scheme, derived commonly by the Taylor series approach, can be derived directly from the rapid expansion method (REM). After some mathematical manipulation we consider an analytical approximation for the Bessel function where we assume that the time step is sufficiently small. From this derivation we find that if we consider only the first two Chebyshev polynomials terms in the rapid expansion method we can obtain the second order time finite‐difference scheme that is frequently used in more conventional finite‐difference implementations. We then show that if we use more terms from the REM we can obtain a more accurate time integration of the wave field. Consequently, we have demonstrated that the REM is more accurate than the usual finite‐difference schemes and it provides a wave equation solution which allows us to march in large time steps without numerical dispersion and is numerically stable. We illustrate the method with post and pre stack migration results.

  6. Real-time PCR TaqMan assay for rapid screening of bloodstream infection

    Science.gov (United States)

    2014-01-01

    Background Sepsis is one of the main causes of mortality and morbidity. The rapid detection of pathogens in blood of septic patients is essential for adequate antimicrobial therapy and better prognosis. This study aimed to accelerate the detection and discrimination of Gram-positive (GP) and Gram-negative (GN) bacteria and Candida species in blood culture samples by molecular methods. Methods The Real-GP®, -GN®, and -CAN® real-time PCR kit (M&D, Wonju, Republic of Korea) assays use the TaqMan probes for detecting pan-GP, pan-GN, and pan-Candida species, respectively. The diagnostic performances of the real-time PCR kits were evaluated with 115 clinical isolates, 256 positive and 200 negative blood culture bottle samples, and the data were compared to results obtained from conventional blood culture. Results Eighty-seven reference strains and 115 clinical isolates were correctly identified with specific probes corresponding to GP-bacteria, GN-bacteria and Candida, respectively. The overall sensitivity and specificity of the real-time PCR kit with blood culture samples were 99.6% and 89.5%, respectively. Conclusions The Real-GP®, -GN®, and -CAN® real-time PCR kits could be useful tools for the rapid and accurate screening of bloodstream infections (BSIs). PMID:24393579

  7. Real-time PCR assay for rapid qualitative and quantitative detection of Entamoeba histolytica.

    Science.gov (United States)

    Orosz, Erika; Perkátai, Katalin; Kapusinszky, Beatrix; Farkas, Agnes; Kucsera, István

    2012-12-01

    Simple real-time PCR assay with one set of primer and probe for rapid, sensitive qualitative and quantitative detection of Entamoeba histolytica has been used. Consensus sequences were used to amplify a species-specific region of the 16S rRNA gene, and fluorescence resonance energy transfer hybridization probes were used for detection in a LightCycler platform (Roche). The anchor probe sequence was designed to be a perfect match for the 16S rRNA gene of Entamoeba species, while the acceptor probe sequence was designed for Entamoeba histolytica, which allowed differentiation. The performed characteristics of the real-time PCR assay were compared with ELISA antigen and microscopical detection from 77 samples of individuals with suspected clinical diagnosis of imported E. histolytica infection. Stool and liver abscess pus samples were examined with analytical sensitivity of 5 parasites per PCR reaction. The melting curve means Tms (standard deviation) in clinical isolates were 54°C. The real-time assay was 100% sensitive and specific for differentiation of Entamoeba histolytica, compared with conventional ELISA or microscopy. This real-time PCR assay with melting curve analysis is rapid, and specific for the detection and differentiation of Entamoeba histolytica. The suitability for routine use of this assay in clinical diagnostic laboratories is discussed.

  8. Real-time histogram generation using active optical scanning

    Science.gov (United States)

    Pieper, R. J.; Richstein, J. K.; Poon, T.-C.; Moore, D. J.

    1996-04-01

    A prototype of an optical-electronic histogram generator has been designed and tested for one-dimensional objects. In this scheme, the object to be analysed is laser scanned. The resulting optical signal is detected by a photodetector, which generates an electrical signal output that is subsequently analysed with a combination of analogue and digital electronics. The system is shown to be fairly modular in design. Various aspects of the extension of the design to two dimensions are discussed.

  9. Perceptual learning of time-compressed speech: more than rapid adaptation.

    Science.gov (United States)

    Banai, Karen; Lavner, Yizhar

    2012-01-01

    Time-compressed speech, a form of rapidly presented speech, is harder to comprehend than natural speech, especially for non-native speakers. Although it is possible to adapt to time-compressed speech after a brief exposure, it is not known whether additional perceptual learning occurs with further practice. Here, we ask whether multiday training on time-compressed speech yields more learning than that observed during the initial adaptation phase and whether the pattern of generalization following successful learning is different than that observed with initial adaptation only. Two groups of non-native Hebrew speakers were tested on five different conditions of time-compressed speech identification in two assessments conducted 10-14 days apart. Between those assessments, one group of listeners received five practice sessions on one of the time-compressed conditions. Between the two assessments, trained listeners improved significantly more than untrained listeners on the trained condition. Furthermore, the trained group generalized its learning to two untrained conditions in which different talkers presented the trained speech materials. In addition, when the performance of the non-native speakers was compared to that of a group of naïve native Hebrew speakers, performance of the trained group was equivalent to that of the native speakers on all conditions on which learning occurred, whereas performance of the untrained non-native listeners was substantially poorer. Multiday training on time-compressed speech results in significantly more perceptual learning than brief adaptation. Compared to previous studies of adaptation, the training induced learning is more stimulus specific. Taken together, the perceptual learning of time-compressed speech appears to progress from an initial, rapid adaptation phase to a subsequent prolonged and more stimulus specific phase. These findings are consistent with the predictions of the Reverse Hierarchy Theory of perceptual

  10. Haploid technology allows for the efficient and rapid generation of homozygous antibody-accumulating transgenic tobacco plants.

    Science.gov (United States)

    Floss, Doreen M; Kumlehn, Jochen; Conrad, Udo; Saalbach, Isolde

    2009-09-01

    The large-scale production of plant-derived recombinant proteins requires the breeding of lines homozygous for the transgene(s). These can be selected by progeny testing over multiple sexual generations, but a more efficient means is to fix homozygosity in a single generation using doubled haploid technology. In this study, transgenic tobacco plants, hemizygous for both of the independently inherited genes encoding the light and heavy chains of the anti-human immunodeficiency virus monoclonal antibody 2F5, were used to establish embryogenic pollen cultures. The improved protocol employed in this study guaranteed a very high regeneration efficiency, with more than 50% of the regenerants being spontaneously doubled haploids. Hence, there was no requirement to chemically induce chromosome doubling to recover sufficient entirely homozygous recombinants. As expected, approximately 25% of the regenerants were homozygous for both transgenes. Thus, the employment of haploid technology allowed for the efficient and rapid generation of true-breeding tobacco lines accumulating functional immunoglobulins.

  11. A test generation framework for quiescent real-time systems

    NARCIS (Netherlands)

    Brandan Briones, L.; Brinksma, Hendrik; Grabowski, J.; Nielsen, B.

    A real-time system is a discrete system whose state changes occur in real-numbered time [AH97]. For testing real-time systems, specification languages must be extended with constructs for expressing real-time constraints, the implementation relation must be generalized to consider the temporal

  12. Rapid generation of a mouse model for Middle East respiratory syndrome

    Science.gov (United States)

    Zhao, Jincun; Li, Kun; Wohlford-Lenane, Christine; Agnihothram, Sudhakar S.; Fett, Craig; Zhao, Jingxian; Gale, Michael J.; Baric, Ralph S.; Enjuanes, Luis; Gallagher, Tom; McCray, Paul B.; Perlman, Stanley

    2014-01-01

    In this era of continued emergence of zoonotic virus infections, the rapid development of rodent models represents a critical barrier to public health preparedness, including the testing of antivirus therapy and vaccines. The Middle East respiratory syndrome coronavirus (MERS-CoV) was recently identified as the causative agent of a severe pneumonia. Given the ability of coronavirus to rapidly adapt to new hosts, a major public health concern is that MERS-CoV will further adapt to replication in humans, triggering a pandemic. No small-animal model for this infection is currently available, but studies suggest that virus entry factors can confer virus susceptibility. Here, we show that mice were sensitized to MERS-CoV infection by prior transduction with adenoviral vectors expressing the human host-cell receptor dipeptidyl peptidase 4. Mice developed a pneumonia characterized by extensive inflammatory-cell infiltration with virus clearance occurring 6–8 d after infection. Clinical disease and histopathological changes were more severe in the absence of type-I IFN signaling whereas the T-cell response was required for virus clearance. Using these mice, we demonstrated the efficacy of a therapeutic intervention (poly I:C) and a potential vaccine [Venezuelan equine encephalitis replicon particles expressing MERS-CoV spike protein]. We also found little protective cross-reactivity between MERS-CoV and the severe acute respiratory syndrome-CoV. Our results demonstrate that this system will be useful for MERS-CoV studies and for the rapid development of relevant animal models for emerging respiratory viral infections. PMID:24599590

  13. New modelling method for fast reactor neutronic behaviours analysis; Nouvelles methodes de modelisation neutronique des reacteurs rapides de quatrieme Generation

    Energy Technology Data Exchange (ETDEWEB)

    Jacquet, P.

    2011-05-23

    Due to safety rules running on fourth generation reactors' core development, neutronics simulation tools have to be as accurate as never before. First part of this report enumerates every step of fast reactor's neutronics simulation implemented in current reference code: ECCO. Considering the field of fast reactors that meet criteria of fourth generation, ability of models to describe self-shielding phenomenon, to simulate neutrons leakage in a lattice of fuel assemblies and to produce representative macroscopic sections is evaluated. The second part of this thesis is dedicated to the simulation of fast reactors' core with steel reflector. These require the development of advanced methods of condensation and homogenization. Several methods are proposed and compared on a typical case: the ZONA2B core of MASURCA reactor. (author) [French] Les criteres de surete qui regissent le developpement de coeurs de reacteurs de quatrieme generation implique l'usage d'outils de calcul neutronique performants. Une premiere partie de la these reprend toutes les etapes de modelisation neutronique des reacteurs rapides actuellement d'usage dans le code de reference ECCO. La capacite des modeles a decrire le phenomene d'autoprotection, a representer les fuites neutroniques au niveau d'un reseau d'assemblages combustibles et a generer des sections macroscopiques representatives est appreciee sur le domaine des reacteurs rapides innovants respectant les criteres de quatrieme generation. La deuxieme partie de ce memoire se consacre a la modelisation des coeurs rapides avec reflecteur acier. Ces derniers necessitent le developpement de methodes avancees de condensation et d'homogenisation. Plusieurs methodes sont proposees et confrontees sur un probleme de modelisation typique: le coeur ZONA2B du reacteur maquette MASURCA

  14. Rapid Annotation of Interictal Epileptiform Discharges via Template Matching under Dynamic Time Warping

    Science.gov (United States)

    Dauwels, J.; Rakthanmanon, T.; Keogh, E.; Cash, S.S.; Westover, M.B.

    2017-01-01

    Background EEG interpretation relies on experts who are in short supply. There is a great need for automated pattern recognition systems to assist with interpretation. However, attempts to develop such systems have been limited by insufficient expert-annotated data. To address these issues, we developed a system named NeuroBrowser for EEG review and rapid waveform annotation. New Methods At the core of NeuroBrowser lies on ultrafast template matching under Dynamic Time Warping, which substantially accelerates the task of annotation. Results Our results demonstrate that NeuroBrowser can reduce the time required for annotation of interictal epileptiform discharges by EEG experts by 20–90%, with an average of approximately 70%. Comparison with Existing Method(s) In comparison with conventional manual EEG annotation, NeuroBrowser is able to save EEG experts approximately 70% on average of the time spent in annotating interictal epileptiform discharges. We have already extracted 19,000+ interictal epileptiform discharges from 100 patient EEG recordings. To our knowledge this represents the largest annotated database of interictal epileptiform discharges in existence. Conclusion NeuroBrowser is an integrated system for rapid waveform annotation. While the algorithm is currently tailored to annotation of interictal epileptiform discharges in scalp EEG recordings, the concepts can be easily generalized to other waveforms and signal types. PMID:26944098

  15. Rapid Identification of Measles Virus Vaccine Genotype by Real-Time PCR.

    Science.gov (United States)

    Roy, Felicia; Mendoza, Lillian; Hiebert, Joanne; McNall, Rebecca J; Bankamp, Bettina; Connolly, Sarah; Lüdde, Amy; Friedrich, Nicole; Mankertz, Annette; Rota, Paul A; Severini, Alberto

    2017-03-01

    During measles outbreaks, it is important to be able to rapidly distinguish between measles cases and vaccine reactions to avoid unnecessary outbreak response measures such as case isolation and contact investigations. We have developed a real-time reverse transcription-PCR (RT-PCR) method specific for genotype A measles virus (MeV) (MeVA RT-quantitative PCR [RT-qPCR]) that can identify measles vaccine strains rapidly, with high throughput, and without the need for sequencing to determine the genotype. We have evaluated the method independently in three measles reference laboratories using two platforms, the Roche LightCycler 480 system and the Applied Biosystems (ABI) 7500 real-time PCR system. In comparison to the standard real-time RT-PCR method, the MeVA RT-qPCR showed 99.5% specificity for genotype A and 94% sensitivity for both platforms. The new assay was able to detect RNA from five currently used vaccine strains, AIK-C, CAM-70, Edmonston-Zagreb, Moraten, and Shanghai-191. The MeVA RT-qPCR assay has been used successfully for measles surveillance in reference laboratories, and it could be readily deployed to national and subnational laboratories on a wide scale. Copyright © 2017 American Society for Microbiology.

  16. Development of a Rapid Beam Emittance Measurement System using a Real-Time Beam Profile Monitor

    Science.gov (United States)

    Kamakura, Keita; Hatanaka, Kichiji; Fukuda, Mitsuhiro; Yorita, Tetsuhiko; Ueda, Hiroshi; Saito, Takane; Morinobu, Shunpei; Nagayama, Keiichi; Tamura, Hitoshi; Yasuda, Yuusuke

    2016-06-01

    We have developed a rapid beam emittance measurement system for the injection beam of the K140 azimuthally varying field (AVF) cyclotron at Research Center for Nuclear Physics (RCNP). So far, a conventional emittance monitor has been used in a section of a medium energy beam transport (MEBT) system to evaluate the quality of the injected beam to the K400 ring cyclotron. Two kinds of emittance monitors were supplemented in the low energy beam line for evaluation of ion beams from ion sources. One of them is a conventional type consisting of two sets of position-variable slits and a three-wire profile monitor (TPM), similar to the one installed in the MEBT system of the AVF cyclotron. It takes about 30 min to get emittances in both the horizontal and vertical planes. For quick emittance measurements, we have developed a new system equipped with a set of fast moving slits with a fixed gap and a real-time beam profile monitor (BPM83) with a rotating helical wire. With this system the measurement time was considerably reduced to 70 s for both the horizontal and vertical emittances. Moreover the data analysis and graphical processing were completely automated. The overall measurement and analysis time was successfully minimized within 75 s. This rapid emittance measurement system has contributed to improve the beam quality by optimizing parameters of ion sources and the beam transport system.

  17. Rapid detection of coronary artery stenoses with real-time perfusion echocardiography during regadenoson stress.

    Science.gov (United States)

    Porter, Thomas R; Adolphson, Mary; High, Robin R; Smith, Lynette M; Olson, Joan; Erdkamp, Michelle; Xie, Feng; O'Leary, Edward; Wong, Benjamin F; Eifert-Rain, Susan; Hagen, Mary E; Abdelmoneim, Sahar S; Mulvagh, Sharon L

    2011-11-01

    Real-time myocardial contrast echocardiography permits the detection of myocardial perfusion abnormalities during stress echocardiography, which may improve the accuracy of the test in detecting coronary artery stenoses. We hypothesized that this technique could be used after a bolus injection of the selective A2A receptor agonist regadenoson to rapidly and safely detect coronary artery stenoses. In 100 patients referred for quantitative coronary angiography, real-time myocardial contrast echocardiography was performed during a continuous intravenous infusion of 3% Definity at baseline and at 2-minute intervals for up to 6 minutes after a regadenoson bolus injection (400 μg). Myocardial perfusion was assessed by examination of myocardial contrast replenishment after brief high mechanical index impulses. A perfusion defect was defined as a delay (>2 seconds) in myocardial contrast replenishment in 2 contiguous segments. Wall motion was also analyzed. The overall sensitivity/specificity/accuracy for myocardial perfusion analysis in detecting a >50% diameter stenosis was 80%/74%/78%, whereas for wall motion analysis it was 60%/72%/66% (Pregadenoson bolus (Pregadenoson bolus injection. Regadenoson real-time myocardial contrast echocardiography appears to be a feasible, safe, and rapid noninvasive method for the detection of significant coronary artery stenoses.

  18. Rapid differentiation of mycobacteria by simplex real-time PCR with melting temperature calling analysis.

    Science.gov (United States)

    Lin, L; Yin, X; Wang, Q

    2015-09-01

    This study aimed to develop a rapid, simple and cost-effective method for the differentiation of Mycobacterium species. A total of 80 clinical mycobacterial isolates belonging to 12 different species and 16 reference strains of 16 different species were differentiated by the simplex real-time PCR coupled with melting temperature calling analysis. By comparing their melting profiles with those of the reference strains, all clinical mycobacterial isolates were differentiated as Mycobacterium tuberculosis complex or nontuberculous mycobacteria, and the latter were further divided into five groups. In comparison with 16S-23S internal transcribed spacer sequencing method as the gold standard method, both sensitivity and specificity of the assay were 100% when it was used for the differentiation between Myco. tuberculosis complex and nontuberculous mycobacteria. The simplex real-time PCR coupled with melting temperature calling analysis could be an alternative method for the differentiation between Myco. tuberculosis complex and nontuberculous mycobacteria. Rapid differentiation of mycobacteria could shorten the diagnostic time of mycobacterial diseases. It is also helpful for achieving optimal therapy and appropriate patient management. © 2015 The Society for Applied Microbiology.

  19. Early Flood Detection for Rapid Humanitarian Response: Harnessing Near Real-Time Satellite and Twitter Signals

    Directory of Open Access Journals (Sweden)

    Brenden Jongman

    2015-10-01

    Full Text Available Humanitarian organizations have a crucial role in response and relief efforts after floods. The effectiveness of disaster response is contingent on accurate and timely information regarding the location, timing and impacts of the event. Here we show how two near-real-time data sources, satellite observations of water coverage and flood-related social media activity from Twitter, can be used to support rapid disaster response, using case-studies in the Philippines and Pakistan. For these countries we analyze information from disaster response organizations, the Global Flood Detection System (GFDS satellite flood signal, and flood-related Twitter activity analysis. The results demonstrate that these sources of near-real-time information can be used to gain a quicker understanding of the location, the timing, as well as the causes and impacts of floods. In terms of location, we produce daily impact maps based on both satellite information and social media, which can dynamically and rapidly outline the affected area during a disaster. In terms of timing, the results show that GFDS and/or Twitter signals flagging ongoing or upcoming flooding are regularly available one to several days before the event was reported to humanitarian organizations. In terms of event understanding, we show that both GFDS and social media can be used to detect and understand unexpected or controversial flood events, for example due to the sudden opening of hydropower dams or the breaching of flood protection. The performance of the GFDS and Twitter data for early detection and location mapping is mixed, depending on specific hydrological circumstances (GFDS and social media penetration (Twitter. Further research is needed to improve the interpretation of the GFDS signal in different situations, and to improve the pre-processing of social media data for operational use.

  20. Rapid Generation of MicroRNA Sponges for MicroRNA Inhibition

    NARCIS (Netherlands)

    Kluiver, Joost; Gibcus, Johan H.; Hettinga, Chris; Adema, Annelies; Richter, Mareike K. S.; Halsema, Nancy; Slezak-Prochazka, Izabella; Ding, Ye; Kroesen, Bart-Jan; van den Berg, Anke

    2012-01-01

    MicroRNA (miRNA) sponges are transcripts with repeated miRNA antisense sequences that can sequester miRNAs from endogenous targets. MiRNA sponges are valuable tools for miRNA loss-of-function studies both in vitro and in vivo. We developed a fast and flexible method to generate miRNA sponges and

  1. Rapid Preliminary Design of Interplanetary Trajectories Using the Evolutionary Mission Trajectory Generator

    Science.gov (United States)

    Englander, Jacob

    2016-01-01

    This set of tutorial slides is an introduction to the Evolutionary Mission Trajectory Generator (EMTG), NASA Goddard Space Flight Center's autonomous tool for preliminary design of interplanetary missions. This slide set covers the basics of creating and post-processing simple interplanetary missions in EMTG using both high-thrust chemical and low-thrust electric propulsion along with a variety of operational constraints.

  2. COMDES-II: A Component-Based Framework for Generative Development of Distributed Real-Time Control Systems

    DEFF Research Database (Denmark)

    Ke, Xu; Sierszecki, Krzysztof; Angelov, Christo K.

    2007-01-01

    The paper presents a generative development methodology and component models of COMDES-II, a component-based software framework for distributed embedded control systems with real-time constraints. The adopted methodology allows for rapid modeling and validation of control software at a higher level...... methodology for COMDES-II from a general perspective, describes the component models in details and demonstrates their application through a DC-Motor control system case study....

  3. Ecological Pleiotropy Suppresses the Dynamic Feedback Generated by a Rapidly Changing Trait.

    Science.gov (United States)

    DeLong, John P

    2017-05-01

    Population dynamics may carry a signature of an ecology-evolution-ecology feedback, known as eco-evolutionary dynamics, when functionally important traits change. Given current theory, the absence of a feedback from a trait with strong links to species interactions should not occur. In a previous study with the Didinium-Paramecium predator-prey system, however, rapid and large-magnitude changes in predator cell volume occurred without any noticeable effect on the population dynamics. Here I resolve this theory-data conflict by showing that ecological pleiotropy-when a trait has more than one functional effect on an ecological process-suppresses shifts in dynamics that would arise, given the links between cell volume and the species interaction. Whether eco-evolutionary dynamics arise, therefore, depends not just on the ecology-evolution feedback but on the net effect that a trait has on different parts of the underlying interaction.

  4. Real-time PCR for rapidly detecting aniline-degrading bacteria in activated sludge.

    Science.gov (United States)

    Kayashima, Takakazu; Suzuki, Hisako; Maeda, Toshinari; Ogawa, Hiroaki I

    2013-05-01

    We developed a detection method that uses quantitative real-time PCR (qPCR) and the TaqMan system to easily and rapidly assess the population of aniline-degrading bacteria in activated sludge prior to conducting a biodegradability test on a chemical compound. A primer and probe set for qPCR was designed by a multiple alignment of conserved amino acid sequences encoding the large (α) subunit of aniline dioxygenase. PCR amplification tests showed that the designed primer and probe set targeted aniline-degrading strains such as Acidovorax sp., Gordonia sp., Rhodococcus sp., and Pseudomonas putida, thereby suggesting that the developed method can detect a wide variety of aniline-degrading bacteria. There was a strong correlation between the relative copy number of the α-aniline dioxygenase gene in activated sludge obtained with the developed qPCR method and the number of aniline-degrading bacteria measured by the Most Probable Number method, which is the conventional method, and a good correlation with the lag time of the BOD curve for aniline degradation produced by the biodegradability test in activated sludge samples collected from eight different wastewater treatment plants in Japan. The developed method will be valuable for the rapid and accurate evaluation of the activity of inocula prior to conducting a ready biodegradability test. Copyright © 2013 Elsevier Ltd. All rights reserved.

  5. Time-Resolved In Situ Measurements During Rapid Alloy Solidification: Experimental Insight for Additive Manufacturing

    Science.gov (United States)

    McKeown, Joseph T.; Zweiacker, Kai; Liu, Can; Coughlin, Daniel R.; Clarke, Amy J.; Baldwin, J. Kevin; Gibbs, John W.; Roehling, John D.; Imhoff, Seth D.; Gibbs, Paul J.; Tourret, Damien; Wiezorek, Jörg M. K.; Campbell, Geoffrey H.

    2016-03-01

    Additive manufacturing (AM) of metals and alloys is becoming a pervasive technology in both research and industrial environments, though significant challenges remain before widespread implementation of AM can be realized. In situ investigations of rapid alloy solidification with high spatial and temporal resolutions can provide unique experimental insight into microstructure evolution and kinetics that are relevant for AM processing. Hypoeutectic thin-film Al-Cu and Al-Si alloys were investigated using dynamic transmission electron microscopy to monitor pulsed-laser-induced rapid solidification across microsecond timescales. Solid-liquid interface velocities measured from time-resolved images revealed accelerating solidification fronts in both alloys. The observed microstructure evolution, solidification product, and presence of a morphological instability at the solid-liquid interface in the Al-4 at.%Cu alloy are related to the measured interface velocities and small differences in composition that affect the thermophysical properties of the alloys. These time-resolved in situ measurements can inform and validate predictive modeling efforts for AM.

  6. Research on rapid agile metrology for manufacturing based on real-time multitask operating system

    Science.gov (United States)

    Chen, Jihong; Song, Zhen; Yang, Daoshan; Zhou, Ji; Buckley, Shawn

    1996-10-01

    Rapid agile metrology for manufacturing (RAMM) using multiple non-contact sensors is likely to remain a growing trend in manufacturing. High speed inspecting systems for manufacturing is characterized by multitasks implemented in parallel and real-time events which occur simultaneously. In this paper, we introduce a real-time operating system into RAMM research. A general task model of a class-based object- oriented technology is proposed. A general multitask frame of a typical RAMM system using OPNet is discussed. Finally, an application example of a machine which inspects parts held on a carrier strip is described. With RTOS and OPNet, this machine can measure two dimensions of the contacts at 300 parts/second.

  7. Rapid and sensitive detection of salmonid alphavirus using TaqMan real-time PCR.

    Science.gov (United States)

    Shi, Wen; Song, Aochen; Gao, Shuai; Wang, Yuting; Tang, Lijie; Xu, Yigang; Ren, Tong; Li, Yijing; Liu, Min

    2017-08-01

    Salmonid alphavirus (SAV) infection has led to the spread of salmon pancreas disease (PD) and sleeping disease (SD) to salmonids in several countries in Europe, resulting in tremendous economic losses to the fish farming industry. Recently, with increases in the fish import trade, many countries in which SAV has been unreported, such as China, may be seriously threatened by these diseases. It is therefore necessary to develop efficient detection methods for the prevention and diagnosis of SAV infection. In this study, a rapid and sensitive TaqMan real-time PCR method was established and assessed for this purpose. A specificity assay showed no cross-reactions with other common RNA viruses. Regression analysis and standard curves calculated from the Ct values of 10-fold serial dilutions of the standard plasmid showed that the assay was highly reproducible over a wide range of RNA input concentrations. The real-time PCR assay was able to detect SAV at a concentration as low as 1.5 × 10 1 copies, indicating that it is 10 7 times more sensitive than the approved conventional RT-PCR method (detection limit, 1.5 × 10 7 copies) after use on the same samples. Assessment of infected fish samples showed that this assay has a higher sensitivity than the previously reported Q_nsP1 assay. Thus, this TaqMan real-time PCR assay provides a rapid, sensitive, and specific detection method for SAV, offering improved technical support for the clinical diagnosis and epidemiology of SAV. Copyright © 2017 Elsevier Ltd. All rights reserved.

  8. Interannual Change Detection of Mediterranean Seagrasses Using RapidEye Image Time Series

    Directory of Open Access Journals (Sweden)

    Dimosthenis Traganos

    2018-02-01

    Full Text Available Recent research studies have highlighted the decrease in the coverage of Mediterranean seagrasses due to mainly anthropogenic activities. The lack of data on the distribution of these significant aquatic plants complicates the quantification of their decreasing tendency. While Mediterranean seagrasses are declining, satellite remote sensing technology is growing at an unprecedented pace, resulting in a wealth of spaceborne image time series. Here, we exploit recent advances in high spatial resolution sensors and machine learning to study Mediterranean seagrasses. We process a multispectral RapidEye time series between 2011 and 2016 to detect interannual seagrass dynamics in 888 submerged hectares of the Thermaikos Gulf, NW Aegean Sea, Greece (eastern Mediterranean Sea. We assess the extent change of two Mediterranean seagrass species, the dominant Posidonia oceanica and Cymodocea nodosa, following atmospheric and analytical water column correction, as well as machine learning classification, using Random Forests, of the RapidEye time series. Prior corrections are necessary to untangle the initially weak signal of the submerged seagrass habitats from satellite imagery. The central results of this study show that P. oceanica seagrass area has declined by 4.1%, with a trend of −11.2 ha/yr, while C. nodosa seagrass area has increased by 17.7% with a trend of +18 ha/yr throughout the 5-year study period. Trends of change in spatial distribution of seagrasses in the Thermaikos Gulf site are in line with reported trends in the Mediterranean. Our presented methodology could be a time- and cost-effective method toward the quantitative ecological assessment of seagrass dynamics elsewhere in the future. From small meadows to whole coastlines, knowledge of aquatic plant dynamics could resolve decline or growth trends and accurately highlight key units for future restoration, management, and conservation.

  9. UMTS rapid response real-time seismic networks: implementation and strategies at INGV

    Science.gov (United States)

    Govoni, Aladino; Margheriti, Lucia; Moretti, Milena; Lauciani, Valentino; Sensale, Gianpaolo; Bucci, Augusto; Criscuoli, Fabio

    2015-04-01

    The benefits of portable real-time seismic networks are several and well known. During the management of a temporary experiment from the real-time data it is possible to detect and fix rapidly problems with power supply, time synchronization, disk failures and, most important, seismic signal quality degradation due to unexpected noise sources or sensor alignment/tampering. This usually minimizes field maintenance trips and maximizes both the quantity and the quality of the acquired data. When the area of the temporary experiment is not well monitored by the local permanent network, the real-time data from the temporary experiment can be fed to the permanent network monitoring system improving greatly both the real-time hypocentral locations and the final revised bulletin. All these benefits apply also in case of seismic crises when rapid deployment stations can significantly contribute to the aftershock analysis. Nowadays data transmission using meshed radio networks or satellite systems is not a big technological problem for a permanent seismic network where each site is optimized for the device power consumption and is usually installed by properly specialized technicians that can configure transmission devices and align antennas. This is not usually practical for temporary networks and especially for rapid response networks where the installation time is the main concern. These difficulties are substantially lowered using the now widespread UMTS technology for data transmission. A small (but sometimes power hungry) properly configured device with an omnidirectional antenna must be added to the station assembly. All setups are usually configured before deployment and this allows for an easy installation also by untrained personnel. We describe here the implementation of a UMTS based portable seismic network for both temporary experiments and rapid response applications developed at INGV. The first field experimentation of this approach dates back to the 2009 L

  10. Rapid, Time-Division Multiplexed, Direct Absorption- and Wavelength Modulation-Spectroscopy

    Directory of Open Access Journals (Sweden)

    Alexander Klein

    2014-11-01

    Full Text Available We present a tunable diode laser spectrometer with a novel, rapid time multiplexed direct absorption- and wavelength modulation-spectroscopy operation mode. The new technique allows enhancing the precision and dynamic range of a tunable diode laser absorption spectrometer without sacrificing accuracy. The spectroscopic technique combines the benefits of absolute concentration measurements using calibration-free direct tunable diode laser absorption spectroscopy (dTDLAS with the enhanced noise rejection of wavelength modulation spectroscopy (WMS. In this work we demonstrate for the first time a 125 Hz time division multiplexed (TDM-dTDLAS-WMS spectroscopic scheme by alternating the modulation of a DFB-laser between a triangle-ramp (dTDLAS and an additional 20 kHz sinusoidal modulation (WMS. The absolute concentration measurement via the dTDLAS-technique allows one to simultaneously calibrate the normalized 2f/1f-signal of the WMS-technique. A dTDLAS/WMS-spectrometer at 1.37 µm for H2O detection was built for experimental validation of the multiplexing scheme over a concentration range from 50 to 3000 ppmV (0.1 MPa, 293 K. A precision of 190 ppbV was achieved with an absorption length of 12.7 cm and an averaging time of two seconds. Our results show a five-fold improvement in precision over the entire concentration range and a significantly decreased averaging time of the spectrometer.

  11. An Optimized Shotgun Strategy for the Rapid Generation of Comprehensive Human Proteomes

    DEFF Research Database (Denmark)

    Bekker-Jensen, Dorte B; Kelstrup, Christian D; Batth, Tanveer S

    2017-01-01

    This study investigates the challenge of comprehensively cataloging the complete human proteome from a single-cell type using mass spectrometry (MS)-based shotgun proteomics. We modify a classical two-dimensional high-resolution reversed-phase peptide fractionation scheme and optimize a protocol......-coding genes). This depth is comparable with next-generation RNA sequencing and enables the identification of post-translational modifications, including ∼7,000 N-acetylation sites and ∼10,000 phosphorylation sites, without the need for enrichment. We further demonstrate the general applicability and clinical...

  12. Real time PCR for the rapid identification and drug susceptibility of Mycobacteria present in Bronchial washings

    Directory of Open Access Journals (Sweden)

    Thilini Piushani Keerthirathne

    2016-10-01

    Full Text Available Abstract Background Mycobacteria have a spectrum of virulence and different susceptibilities to antibiotics. Distinguishing mycobacterial species is vital as patients with non-tuberculous mycobacterial (NTM infections present clinical features that are similar to those of patients with tuberculosis. Thus, rapid differentiation of Mycobacterium tuberculosis complex from NTM is critical to administer appropriate treatment. Hence the aim of the study was to rapid identification of mycobacterial species present in bronchial washings using multiplex real time Polymerase Chain Reaction (PCR and to determine the drug susceptibility in identified mycobacterial species. Methods Sputum smear negative bronchoscopy specimens (n = 150 were collected for a period of one year, from patients attending the General Hospital Kandy, Sri Lanka. The specimens were processed with modified Petroff’s method and were cultured on Löwenstein– Jensen medium. DNA, extracted from the mycobacterial isolates were subjected to a SYBR green mediated real time multiplex, PCR assay with primers specific for the M. tuberculosis complex, M. avium complex, M. chelonae-M.abscessus group and M. fortuitum group. DNA sequencing was performed for the species confirmation, by targeting the 16S rRNA gene and the drug susceptibility testing was performed for the molecularly identified isolates of M. tuberculosis and NTM. Results The optimized SYBR Green mediated multiplex real-time PCR assay was able to identify the presence of genus Mycobacterium in 25 out of 26 AFB positive isolates, two M. tuberculosis complex, three M. avium complex and two isolates belonging to M. chelonae-M. abscessus group. DNA sequencing confirmed the presence of M. tuberculosis, M. chelonae-M. abscessus, M. intracellulare, M. avium, Rhodococcus sp. and M. celatum. Remaining isolates were identified as Mycobacterium sp. All the NTM isolates were sensitive to amikacin and seven were resistant to ciproflaxacin

  13. Rapid identification of ST131 Escherichia coli by a novel multiplex real-time allelic discrimination assay.

    Science.gov (United States)

    François, Patrice; Bonetti, Eve-Julie; Fankhauser, Carolina; Baud, Damien; Cherkaoui, Abdessalam; Schrenzel, Jacques; Harbarth, Stephan

    2017-09-01

    Escherichia coli sequence type 131 is increasingly described in severe hospital infections. We developed a rapid real-time allelic discrimination assay for the rapid identification of E. coli ST131 isolates. This rapid assay represents an affordable alternative to sequence-based strategies before completing characterization of potentially highly virulent isolates of E. coli. Copyright © 2017 Elsevier B.V. All rights reserved.

  14. Next Generation of Renewable Electricity Policy: How Rapid Change is Breaking Down Conventional Policy Categories

    Energy Technology Data Exchange (ETDEWEB)

    Couture, T. D. [E3 Analytics, Berlin (Germany); Jacobs, D. [International Energy Transition (IET), Boston, MA (United States); Rickerson, W. [Meister Consultants Group, Boston, MA (United States); Healey, V. [National Renewable Energy Lab. (NREL), Golden, CO (United States)

    2015-02-01

    A number of policies have been used historically in order to stimulate the growth of the renewable electricity sector. This paper examines four of these policy instruments: competitive tendering, sometimes called renewable electricity auctions, feed-in tariffs, net metering and net billing, and tradable renewable energy certificates. In recent years, however, a number of changes to both market circumstances and to policy priorities have resulted in numerous policy innovations, including the emergence of policy hybrids. With no common language for these evolving policy mechanisms, policymakers have generally continued to use the same traditional policy labels, occasionally generating confusion as many of these new policies no longer look, or act, like their traditional predecessors. In reviewing these changes, this paper makes two separate but related claims: first, policy labels themselves are breaking down and evolving. As a result, policy comparisons that rely on the conventional labels may no longer be appropriate, or advisable. Second, as policymakers continue to adapt, we are in effect witnessing the emergence of the next generation of renewable electricity policies, a change that could have significant impacts on investment, as well as on market growth in both developed and developing countries.

  15. Rapidly rotating second-generation progenitors for the 'blue hook' stars of ω Centauri.

    Science.gov (United States)

    Tailo, Marco; D'Antona, Francesca; Vesperini, Enrico; Di Criscienzo, Marcella; Ventura, Paolo; Milone, Antonino P; Bellini, Andrea; Dotter, Aaron; Decressin, Thibaut; D'Ercole, Annibale; Caloi, Vittoria; Capuzzo-Dolcetta, Roberto

    2015-07-16

    Horizontal branch stars belong to an advanced stage in the evolution of the oldest stellar galactic population, occurring either as field halo stars or grouped in globular clusters. The discovery of multiple populations in clusters that were previously believed to have single populations gave rise to the currently accepted theory that the hottest horizontal branch members (the 'blue hook' stars, which had late helium-core flash ignition, followed by deep mixing) are the progeny of a helium-rich 'second generation' of stars. It is not known why such a supposedly rare event (a late flash followed by mixing) is so common that the blue hook of ω Centauri contains approximately 30 per cent of the horizontal branch stars in the cluster, or why the blue hook luminosity range in this massive cluster cannot be reproduced by models. Here we report that the presence of helium core masses up to about 0.04 solar masses larger than the core mass resulting from evolution is required to solve the luminosity range problem. We model this by taking into account the dispersion in rotation rates achieved by the progenitors, whose pre-main-sequence accretion disk suffered an early disruption in the dense environment of the cluster's central regions, where second-generation stars form. Rotation may also account for frequent late-flash-mixing events in massive globular clusters.

  16. Miniaturized Antimicrobial Susceptibility Test by Combining Concentration Gradient Generation and Rapid Cell Culturing

    OpenAIRE

    Kim, Samuel C.; Stefano Cestellos-Blanco; Keisuke Inoue; Zare, Richard N.

    2015-01-01

    Effective treatment of bacterial infection relies on timely diagnosis and proper prescription of antibiotic drugs. The antimicrobial susceptibility test (AST) is one of the most crucial experimental procedures, providing the baseline information for choosing effective antibiotic agents and their dosages. Conventional methods, however, require long incubation times or significant instrumentation costs to obtain test results. We propose a lab-on-a-chip approach to perform AST in a simple, econo...

  17. Development of rapid methods for relaxation time mapping and motion estimation using magnetic resonance imaging

    Energy Technology Data Exchange (ETDEWEB)

    Gilani, Syed Irtiza Ali

    2008-09-15

    Recent technological developments in the field of magnetic resonance imaging have resulted in advanced techniques that can reduce the total time to acquire images. For applications such as relaxation time mapping, which enables improved visualisation of in vivo structures, rapid imaging techniques are highly desirable. TAPIR is a Look- Locker-based sequence for high-resolution, multislice T{sub 1} relaxation time mapping. Despite the high accuracy and precision of TAPIR, an improvement in the k-space sampling trajectory is desired to acquire data in clinically acceptable times. In this thesis, a new trajectory, termed line-sharing, is introduced for TAPIR that can potentially reduce the acquisition time by 40 %. Additionally, the line-sharing method was compared with the GRAPPA parallel imaging method. These methods were employed to reconstruct time-point images from the data acquired on a 4T high-field MR research scanner. Multislice, multipoint in vivo results obtained using these methods are presented. Despite improvement in acquisition speed, through line-sharing, for example, motion remains a problem and artefact-free data cannot always be obtained. Therefore, in this thesis, a rapid technique is introduced to estimate in-plane motion. The presented technique is based on calculating the in-plane motion parameters, i.e., translation and rotation, by registering the low-resolution MR images. The rotation estimation method is based on the pseudo-polar FFT, where the Fourier domain is composed of frequencies that reside in an oversampled set of non-angularly, equispaced points. The essence of the method is that unlike other Fourier-based registration schemes, the employed approach does not require any interpolation to calculate the pseudo-polar FFT grid coordinates. Translation parameters are estimated by the phase correlation method. However, instead of two-dimensional analysis of the phase correlation matrix, a low complexity subspace identification of the phase

  18. Rapid assessment of Cascadia tsunamis from real-time PANGA GPS crustal deformation measurements

    Science.gov (United States)

    Melbourne, T. I.; Santillan, M.; Miner, A.; Webb, F.

    2008-12-01

    Cascadia's natural hazards include earthquakes, tsunamis, volcanic eruptions, landslides, and tectonic subsidence along its coasts and inland waterways exacerbated by sea-level rise. The Pacific Northwest Geodetic Array, now comprised of nearly 200 continuous GPS receivers, has been deployed over the last two decades to focus exclusively on mitigating these hazards. In addition, over 150 receivers of the EarthScope Plate Boundary Observatory have also been installed in Cascadia, thus comprising a combined network of over 350 instruments. Of the 200 PANGA stations, nearly 140 are high-rate, real-time telemetered receivers mounted on CWU-built, tectonics-grade monuments. These stations straddle active crustal faults, volcanoes and landslides, they span the megathrust forearc and tsunamigenic regions along the Pacific coast, and they monitor ageing man-made structures such as dams, levees and elevated freeways. All data from this array, currently at over 140 stations, is streamed in real-time into CWU where it is archived and processed with JPL's GIPSY software. In 2005 PANGA received support from NASA, NSF and the USGS to implement real-time processing in support of mitigating Cascadia's natural hazards. We have implemented Trimble Navigation's proprietary RTK software and network monitoring software on all 140 stations, and specific parameter estimation routines on a subset of these stations. Pending available funding, we are also working to implement processing of this data with the RTGipsy software, which produces position time series within a global, not local, reference frame. We are currently writing applications that will facilitate rapid recovery during and after a large seismic event, tsunami, or volcanic eruption. These applications are focused on: - Inverting GPS deformation measurements for earthquake fault location, size, and slip distribution; - Using slip distributions to predict tsunami magnitude and run-up estimates; - Real-time monitoring of

  19. Time-resolved observations of shock waves and cavitation bubbles generated by femtosecond laser pulses in corneal tissue and water.

    Science.gov (United States)

    Juhasz, T; Kastis, G A; Suárez, C; Bor, Z; Bron, W E

    1996-01-01

    Photodisruption in ocular media with high power pulsed lasers working at non-absorbing frequencies have become a well established surgical tool since the late seventies. Shock waves and cavitation bubbles generated by the optical breakdown may strongly influence the surgical effect of photodisruptive lasers. We have investigated the shock wave and cavitation bubble effects of femtosecond laser pulses generated during photodisruption in corneal tissue and water. The results are compared to those obtained with longer laser pulses. Laser pulses with 150 fs duration at approximately 620 nm wavelength have been focused into corneal tissue and water to create optical breakdown. Time-resolved flash photography has been used to investigate the dynamics of the generated shock waves and cavitation bubbles. A rapid decay of the shock waves is observed in both materials with similar temporal characteristics and with a spatial range considerably smaller than that of shock waves induced by picosecond (or nanosecond) optical breakdown. Cavitation bubbles are observed to develop more rapidly and to reach smaller maximum diameter than those generated by longer pulses. In corneal tissue, single intrastromal cavitation bubbles generated by femtosecond pulses disappear within a few tens of seconds, notably faster than cavitation bubbles generated by picosecond pulses. The reduced shock wave and cavitation bubble effects of the femtosecond laser result in more localized tissue damage. Therefore, a more confined surgical effect should be expected from a femtosecond laser than that from picosecond (or nanosecond) lasers. This indicates a potential benefit from the applications of femtosecond laser technology to intraocular microsurgery.

  20. Generate stepper motor linear speed profile in real time

    Science.gov (United States)

    Stoychitch, M. Y.

    2018-01-01

    In this paper we consider the problem of realization of linear speed profile of stepper motors in real time. We considered the general case when changes of speed in the phases of acceleration and deceleration are different. The new and practical algorithm of the trajectory planning is given. The algorithms of the real time speed control which are suitable for realization to the microcontroller and FPGA circuits are proposed. The practical realization one of these algorithms, using Arduino platform, is given also.

  1. Rapid and Sensitive Lateral Flow Immunoassay Method for Procalcitonin (PCT Based on Time-Resolved Immunochromatography

    Directory of Open Access Journals (Sweden)

    Xiang-Yang Shao

    2017-02-01

    Full Text Available Procalcitonin (PCT is a current, frequently-used marker for severe bacterial infection. The aim of this study was to develop a cost-effective detection kit for rapid quantitative and on-site detection of PCT. To develop the new PCT quantitative detecting kit, a double-antibody sandwich immunofluorescent assay was employed based on time-resolved immunofluorescent assay (TRFIA combined with lateral flow immunoassay (LFIA. The performance of the new developed kit was evaluated in the aspects of linearity, precision, accuracy, and specificity. Two-hundred thirty-four serum samples were enrolled to carry out the comparison test. The new PCT quantitative detecting kit exhibited a higher sensitivity (0.08 ng/mL. The inter-assay coefficient of variation (CV and the intra-assay CV were 5.4%–7.7% and 5.7%–13.4%, respectively. The recovery rates ranged from 93% to 105%. Furthermore, a high correlation (n = 234, r = 0.977, p < 0.0001 and consistency (Kappa = 0.875 were obtained when compared with the PCT kit from Roche Elecsys BRAHMS. Thus, the new quantitative method for detecting PCT has been successfully established. The results indicated that the newly-developed system based on TRFIA combined with LFIA was suitable for rapid and on-site detection for PCT, which might be a useful platform for other biomarkers in point-of-care tests.

  2. Rapid and Sensitive Lateral Flow Immunoassay Method for Procalcitonin (PCT) Based on Time-Resolved Immunochromatography.

    Science.gov (United States)

    Shao, Xiang-Yang; Wang, Cong-Rong; Xie, Chun-Mei; Wang, Xian-Guo; Liang, Rong-Liang; Xu, Wei-Wen

    2017-02-28

    Procalcitonin (PCT) is a current, frequently-used marker for severe bacterial infection. The aim of this study was to develop a cost-effective detection kit for rapid quantitative and on-site detection of PCT. To develop the new PCT quantitative detecting kit, a double-antibody sandwich immunofluorescent assay was employed based on time-resolved immunofluorescent assay (TRFIA) combined with lateral flow immunoassay (LFIA). The performance of the new developed kit was evaluated in the aspects of linearity, precision, accuracy, and specificity. Two-hundred thirty-four serum samples were enrolled to carry out the comparison test. The new PCT quantitative detecting kit exhibited a higher sensitivity (0.08 ng/mL). The inter-assay coefficient of variation (CV) and the intra-assay CV were 5.4%-7.7% and 5.7%-13.4%, respectively. The recovery rates ranged from 93% to 105%. Furthermore, a high correlation ( n = 234, r = 0.977, p LFIA was suitable for rapid and on-site detection for PCT, which might be a useful platform for other biomarkers in point-of-care tests.

  3. Adjustment to Subtle Time Constraints and Power Law Learning in Rapid Serial Visual Presentation.

    Science.gov (United States)

    Shin, Jacqueline C; Chang, Seah; Cho, Yang Seok

    2015-01-01

    We investigated whether attention could be modulated through the implicit learning of temporal information in a rapid serial visual presentation (RSVP) task. Participants identified two target letters among numeral distractors. The stimulus-onset asynchrony immediately following the first target (SOA1) varied at three levels (70, 98, and 126 ms) randomly between trials or fixed within blocks of trials. Practice over 3 consecutive days resulted in a continuous improvement in the identification rate for both targets and attenuation of the attentional blink (AB), a decrement in target (T2) identification when presented 200-400 ms after another target (T1). Blocked SOA1s led to a faster rate of improvement in RSVP performance and more target order reversals relative to random SOA1s, suggesting that the implicit learning of SOA1 positively affected performance. The results also reveal "power law" learning curves for individual target identification as well as the reduction in the AB decrement. These learning curves reflect the spontaneous emergence of skill through subtle attentional modulations rather than general attentional distribution. Together, the results indicate that implicit temporal learning could improve high level and rapid cognitive processing and highlights the sensitivity and adaptability of the attentional system to subtle constraints in stimulus timing.

  4. Adjustment to subtle time constraints and power law learning in rapid serial visual presentation

    Directory of Open Access Journals (Sweden)

    Jacqueline Chakyung Shin

    2015-11-01

    Full Text Available We investigated whether attention could be modulated through the implicit learning of temporal information in a rapid serial visual presentation (RSVP task. Participants identified two target letters among numeral distractors. The stimulus-onset asynchrony immediately following the first target (SOA1 varied at three levels (70, 98, and 126 ms randomly between trials or fixed within blocks of trials. Practice over three consecutive days resulted in a continuous improvement in the identification rate for both targets and attenuation of the attentional blink (AB, a decrement in target (T2 identification when presented 200-400 ms after another target (T1. Blocked SOA1s led to a faster rate of improvement in RSVP performance and more target order reversals relative to random SOA1s, suggesting that the implicit learning of SOA1 positively affected performance. The results also reveal power law learning curves for individual target identification as well as the reduction in the AB decrement. These learning curves reflect the spontaneous emergence of skill through subtle attentional modulations rather than general attentional distribution. Together, the results indicate that implicit temporal learning could improve high level and rapid cognitive processing and highlights the sensitivity and adaptability of the attentional system to subtle constraints in stimulus timing.

  5. Functionally Active Fc Mutant Antibodies Recognizing Cancer Antigens Generated Rapidly at High Yields

    Directory of Open Access Journals (Sweden)

    Kristina M. Ilieva

    2017-09-01

    Full Text Available Monoclonal antibodies find broad application as therapy for various types of cancer by employing multiple mechanisms of action against tumors. Manipulating the Fc-mediated functions of antibodies that engage immune effector cells, such as NK cells, represents a strategy to influence effector cell activation and to enhance antibody potency and potentially efficacy. We developed a novel approach to generate and ascertain the functional attributes of Fc mutant monoclonal antibodies. This entailed coupling single expression vector (pVitro1 antibody cloning, using polymerase incomplete primer extension (PIPE polymerase chain reaction, together with simultaneous Fc region point mutagenesis and high yield transient expression in human mammalian cells. Employing this, we engineered wild type, low (N297Q, NQ, and high (S239D/I332E, DE FcR-binding Fc mutant monoclonal antibody panels recognizing two cancer antigens, HER2/neu and chondroitin sulfate proteoglycan 4. Antibodies were generated with universal mutagenic primers applicable to any IgG1 pVitro1 constructs, with high mutagenesis and transfection efficiency, in small culture volumes, at high yields and within 12 days from design to purified material. Antibody variants conserved their Fab-mediated recognition of target antigens and their direct anti-proliferative effects against cancer cells. Fc mutations had a significant impact on antibody interactions with Fc receptors (FcRs on human NK cells, and consequently on the potency of NK cell activation, quantified by immune complex-mediated calcium mobilization and by antibody-dependent cellular cytotoxicity (ADCC of tumor cells. This strategy for manipulation and testing of Fc region engagement with cognate FcRs can facilitate the design of antibodies with defined effector functions and potentially enhanced efficacy against tumor cells.

  6. RapidSplint: virtual splint generation for orthognathic surgery - results of a pilot series.

    Science.gov (United States)

    Adolphs, Nicolai; Liu, Weichen; Keeve, Erwin; Hoffmeister, Bodo

    2014-01-01

    Within the domain of craniomaxillofacial surgery, orthognathic surgery is a special field dedicated to the correction of dentofacial anomalies resulting from skeletal malocclusion. Generally, in such cases, an interdisciplinary orthodontic and surgical treatment approach is required. After initial orthodontic alignment of the dental arches, skeletal discrepancies of the jaws can be corrected by distinct surgical strategies and procedures in order to achieve correct occlusal relations, as well as facial balance and harmony within individualized treatment concepts. To transfer the preoperative surgical planning and reposition the mobilized dental arches with optimal occlusal relations, surgical splints are typically used. For this purpose, different strategies have been described which use one or more splints. Traditionally, these splints are manufactured by a dental technician based on patient-specific dental casts; however, computer-assisted technologies have gained increasing importance with respect to preoperative planning and its subsequent surgical transfer. In a pilot study of 10 patients undergoing orthognathic corrections by a one-splint strategy, two final occlusal splints were produced for each patient and compared with respect to their clinical usability. One splint was manufactured in the traditional way by a dental technician according to the preoperative surgical planning. After performing a CBCT scan of the patient's dental casts, a second splint was designed virtually by an engineer and surgeon working together, according to the desired final occlusion. For this purpose, RapidSplint, a custom-made software platform, was used. After post-processing and conversion of the datasets into .stl files, the splints were fabricated by the PolyJet procedure using photo polymerization. During surgery, both splints were inserted after mobilization of the dental arches then compared with respect to their clinical usability according to the occlusal fitting. Using

  7. RapidSplint: virtual splint generation for orthognathic surgery – results of a pilot series

    Science.gov (United States)

    Liu, Weichen; Keeve, Erwin; Hoffmeister, Bodo

    2014-01-01

    Background Within the domain of craniomaxillofacial surgery, orthognathic surgery is a special field dedicated to the correction of dentofacial anomalies resulting from skeletal malocclusion. Generally, in such cases, an interdisciplinary orthodontic and surgical treatment approach is required. After initial orthodontic alignment of the dental arches, skeletal discrepancies of the jaws can be corrected by distinct surgical strategies and procedures in order to achieve correct occlusal relations, as well as facial balance and harmony within individualized treatment concepts. To transfer the preoperative surgical planning and reposition the mobilized dental arches with optimal occlusal relations, surgical splints are typically used. For this purpose, different strategies have been described which use one or more splints. Traditionally, these splints are manufactured by a dental technician based on patient-specific dental casts; however, computer-assisted technologies have gained increasing importance with respect to preoperative planning and its subsequent surgical transfer. Methods : In a pilot study of 10 patients undergoing orthognathic corrections by a one-splint strategy, two final occlusal splints were produced for each patient and compared with respect to their clinical usability. One splint was manufactured in the traditional way by a dental technician according to the preoperative surgical planning. After performing a CBCT scan of the patient’s dental casts, a second splint was designed virtually by an engineer and surgeon working together, according to the desired final occlusion. For this purpose, RapidSplint®, a custom-made software platform, was used. After post-processing and conversion of the datasets into .stl files, the splints were fabricated by the PolyJet procedure using photo polymerization. During surgery, both splints were inserted after mobilization of the dental arches then compared with respect to their clinical usability according to the

  8. Short-time alkaline peroxide pretreatment for rapid pulping and efficient enzymatic hydrolysis of rice straw.

    Science.gov (United States)

    Hideno, Akihiro

    2017-04-01

    To improve utilization of agricultural residues in biorefineries, the effects of alkaline peroxide (AP) pretreatment on thermal degradation and enzymatic digestibility of rice straw were investigated. A high-cellulose (>70%) pulp with a width of a few micrometers was obtained by rapid (10min) treatment with AP, without prior heating or other treatment. Moreover, enzymatic hydrolysis of the pulp produced a high glucose yield (approximately 80%). Microfibril networks were exposed, and many nano-scale pores that are easily penetrated by cellulases were observed on the surface of the AP-treated sample. For enzymatic hydrolysis of the pulp, increasing the dosage of cellulases was more effective for improving the glucose yield than addition of a grinding treatment. This AP treatment has the potential for on-site application because it is simple, highly efficient, and can be performed in a short time. Copyright © 2017. Published by Elsevier Ltd.

  9. Research on Channel Estimation and OFDM Signals Detection in Rapidly Time-Variant Channels

    Directory of Open Access Journals (Sweden)

    M. Huang

    2014-09-01

    Full Text Available It is well known that iterative channel estimation and OFDM signals detection can significantly improve the performance of communication system. However, its performance is poor due to the modelling error of basis expansion model (BEM being large enough and can not being ignored in rapidly time-variant channels. In this paper, channel estimation and OFDM signals detection are integrated into a real non-linear least squares (NLS problem. Then the modified Broyden-Fletcher-Goldfarb-Shanno (MBFGS algorithm is adopted to search the optimal solution. In addition, Cramer-Rao Bound (CRB for our proposed approach is derived. Simulation results are presented to illustrate the superiority of the proposed approach.

  10. Recognition memory for briefly presented pictures: the time course of rapid forgetting.

    Science.gov (United States)

    Potter, Mary C; Staub, Adrian; Rado, Janina; O'Connor, Daniel H

    2002-10-01

    When viewing a rapid sequence of pictures, observers momentarily understand the gist of each scene but have poor recognition memory for most of them (M. C. Potter, 1976). Is forgetting immediate, or does some information persist briefly? Sequences of 5 scenes were presented for 173 ms/picture; when yes-no testing began immediately, recognition was initially high but declined markedly during the 10-item test. With testing delays of 2 or 6 s, the decline over testing was less steep. When 10 or 20 pictures were presented, there was again a marked initial decline during testing. A 2-alternative forced-choice recognition test produced similar results. Both the passage of time and test interference (but not presentation interference) led to forgetting. The brief persistence of information may assist in building a coherent representation over several fixations.

  11. Rapid quality assessment of Radix Aconiti Preparata using direct analysis in real time mass spectrometry

    Energy Technology Data Exchange (ETDEWEB)

    Zhu Hongbin; Wang Chunyan; Qi Yao [Changchun Center of Mass Spectrometry and Chemical Biology Laboratory, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022 (China); University of Chinese Academy of Sciences, Beijing 100039 (China); Song Fengrui, E-mail: songfr@ciac.jl.cn [Changchun Center of Mass Spectrometry and Chemical Biology Laboratory, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022 (China); Liu Zhiqiang; Liu Shuying [Changchun Center of Mass Spectrometry and Chemical Biology Laboratory, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022 (China)

    2012-11-08

    Highlights: Black-Right-Pointing-Pointer DART MS combined with PCA and HCA was used to rapidly identify markers of Radix Aconiti. Black-Right-Pointing-Pointer The DART MS behavior of six aconitine-type alkaloids was investigated. Black-Right-Pointing-Pointer Chemical markers were recognized between the qualified and unqualified samples. Black-Right-Pointing-Pointer DART MS was shown to be an effective tool for quality control of Radix Aconiti Preparata. - Abstract: This study presents a novel and rapid method to identify chemical markers for the quality control of Radix Aconiti Preparata, a world widely used traditional herbal medicine. In the method, the samples with a fast extraction procedure were analyzed using direct analysis in real time mass spectrometry (DART MS) combined with multivariate data analysis. At present, the quality assessment approach of Radix Aconiti Preparata was based on the two processing methods recorded in Chinese Pharmacopoeia for the purpose of reducing the toxicity of Radix Aconiti and ensuring its clinical therapeutic efficacy. In order to ensure the safety and effectivity in clinical use, the processing degree of Radix Aconiti should be well controlled and assessed. In the paper, hierarchical cluster analysis and principal component analysis were performed to evaluate the DART MS data of Radix Aconiti Preparata samples in different processing times. The results showed that the well processed Radix Aconiti Preparata, unqualified processed and the raw Radix Aconiti could be clustered reasonably corresponding to their constituents. The loading plot shows that the main chemical markers having the most influence on the discrimination amongst the qualified and unqualified samples were mainly some monoester diterpenoid aconitines and diester diterpenoid aconitines, i.e. benzoylmesaconine, hypaconitine, mesaconitine, neoline, benzoylhypaconine, benzoylaconine, fuziline, aconitine and 10-OH-mesaconitine. The established DART MS approach in

  12. Rapid detection of Ceratocystis platani inoculum by quantitative real-time PCR assay.

    Science.gov (United States)

    Luchi, Nicola; Ghelardini, Luisa; Belbahri, Lassaâd; Quartier, Marion; Santini, Alberto

    2013-09-01

    Ceratocystis platani is the causal agent of canker stain of plane trees, a lethal disease able to kill mature trees in one or two successive growing seasons. The pathogen is a quarantine organism and has a negative impact on anthropogenic and natural populations of plane trees. Contaminated sawdust produced during pruning and sanitation fellings can contribute to disease spread. The goal of this study was to design a rapid, real-time quantitative PCR assay to detect a C. platani airborne inoculum. Airborne inoculum traps (AITs) were placed in an urban setting in the city of Florence, Italy, where the disease was present. Primers and TaqMan minor groove binder (MGB) probes were designed to target cerato-platanin (CP) and internal transcribed spacer 2 (ITS2) genes. The detection limits of the assay were 0.05 pg/μl and 2 fg/μl of fungal DNA for CP and ITS, respectively. Pathogen detection directly from AITs demonstrated specificity and high sensitivity for C. platani, detecting DNA concentrations as low as 1.2 × 10(-2) to 1.4 × 10(-2) pg/μl, corresponding to ∼10 conidia per ml. Airborne inoculum traps were able to detect the C. platani inoculum within 200 m of the closest symptomatic infected plane tree. The combination of airborne trapping and real-time quantitative PCR assay provides a rapid and sensitive method for the specific detection of a C. platani inoculum. This technique may be used to identify the period of highest risk of pathogen spread in a site, thus helping disease management.

  13. An Automated Microwave-Assisted Synthesis Purification System for Rapid Generation of Compound Libraries.

    Science.gov (United States)

    Tu, Noah P; Searle, Philip A; Sarris, Kathy

    2016-06-01

    A novel methodology for the synthesis and purification of drug-like compound libraries has been developed through the use of a microwave reactor with an integrated high-performance liquid chromatography-mass spectrometry (HPLC-MS) system. The strategy uses a fully automated synthesizer with a microwave as energy source and robotic components for weighing and dispensing of solid reagents, handling liquid reagents, capper/crimper of microwave reaction tube assemblies, and transportation. Crude reaction products were filtered through solid-phase extraction cartridges and injected directly onto a reverse-phase chromatography column via an injection valve. For multistep synthesis, crude products were passed through scavenger resins and reintroduced for subsequent reactions. All synthetic and purification steps were conducted under full automation with no handling or isolation of intermediates, to afford the desired purified products. This approach opens the way to highly efficient generation of drug-like compounds as part of a lead discovery strategy or within a lead optimization program. © 2015 Society for Laboratory Automation and Screening.

  14. The onset and time course of semantic priming during rapid recognition of visual words.

    Science.gov (United States)

    Hoedemaker, Renske S; Gordon, Peter C

    2017-05-01

    In 2 experiments, we assessed the effects of response latency and task-induced goals on the onset and time course of semantic priming during rapid processing of visual words as revealed by ocular response tasks. In Experiment 1 (ocular lexical decision task), participants performed a lexical decision task using eye movement responses on a sequence of 4 words. In Experiment 2, the same words were encoded for an episodic recognition memory task that did not require a metalinguistic judgment. For both tasks, survival analyses showed that the earliest observable effect (divergence point [DP]) of semantic priming on target-word reading times occurred at approximately 260 ms, and ex-Gaussian distribution fits revealed that the magnitude of the priming effect increased as a function of response time. Together, these distributional effects of semantic priming suggest that the influence of the prime increases when target processing is more effortful. This effect does not require that the task include a metalinguistic judgment; manipulation of the task goals across experiments affected the overall response speed but not the location of the DP or the overall distributional pattern of the priming effect. These results are more readily explained as the result of a retrospective, rather than a prospective, priming mechanism and are consistent with compound-cue models of semantic priming. (PsycINFO Database Record (c) 2017 APA, all rights reserved).

  15. Early exposure to interleukin-21 limits rapidly generated anti-Epstein-Barr virus T-cell line differentiation.

    Science.gov (United States)

    Orio, Julie; Carli, Cédric; Janelle, Valérie; Giroux, Martin; Taillefer, Julie; Goupil, Mathieu; Richaud, Manon; Roy, Denis-Claude; Delisle, Jean-Sébastien

    2015-04-01

    The adoptive transfer of ex vivo-expanded Epstein-Barr virus (EBV)-specific T-cell lines is an attractive strategy to treat EBV-related neoplasms. Current evidence suggests that for adoptive immunotherapy in general, clinical responses are superior if the transferred cells have not reached a late or terminal effector differentiation phenotype before infusion. The cytokine interleukin (IL)-21 has shown great promise at limiting late T-cell differentiation in vitro, but this remains to be demonstrated in anti-viral T-cell lines. We adapted a clinically validated protocol to rapidly generate EBV-specific T-cell lines in 12 to 14 days and tested whether the addition of IL-21 at the initiation of the culture would affect T-cell expansion and differentiation. We generated clinical-scale EBV-restricted T-cell line expansion with balanced T-cell subset ratios. The addition of IL-21 at the beginning of the culture decreased both T-cell expansion and effector memory T-cell accumulation, with a relative increase in less-differentiated T cells. Within CD4 T-cell subsets, exogenous IL-21 was notably associated with the cell surface expression of CD27 and high KLF2 transcript levels, further arguing for a role of IL-21 in the control of late T-cell differentiation. Our results show that IL-21 has profound effects on T-cell differentiation in a rapid T-cell line generation protocol and as such should be further explored as a novel approach to program anti-viral T cells with features associated with early differentiation and optimal therapeutic efficacy. Copyright © 2015 International Society for Cellular Therapy. Published by Elsevier Inc. All rights reserved.

  16. Generation and characterization of neurogenin1-GFP transgenic medaka with potential for rapid developmental neurotoxicity screening

    Energy Technology Data Exchange (ETDEWEB)

    Fan Chunyang [Integrated Systems Toxicology and Toxicity Assessment Divisions, National Health and Environmental Effects Research Laboratory, US EPA, Research Triangle Park, NC 27711 (United States); Curriculum in Toxicology, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599 (United States); Simmons, Steven O. [Integrated Systems Toxicology and Toxicity Assessment Divisions, National Health and Environmental Effects Research Laboratory, US EPA, Research Triangle Park, NC 27711 (United States); Law, Sheran H.W. [Environmental Sciences and Policy Division, Nicholas School of the Environment and Earth Sciences, Duke University, Durham, NC 27708 (United States); Jensen, Karl; Cowden, John [Integrated Systems Toxicology and Toxicity Assessment Divisions, National Health and Environmental Effects Research Laboratory, US EPA, Research Triangle Park, NC 27711 (United States); Hinton, David [Environmental Sciences and Policy Division, Nicholas School of the Environment and Earth Sciences, Duke University, Durham, NC 27708 (United States); Padilla, Stephanie [Integrated Systems Toxicology and Toxicity Assessment Divisions, National Health and Environmental Effects Research Laboratory, US EPA, Research Triangle Park, NC 27711 (United States); Ramabhadran, Ram, E-mail: Ram.Ramabhadran@gmail.com [Integrated Systems Toxicology and Toxicity Assessment Divisions, National Health and Environmental Effects Research Laboratory, US EPA, Research Triangle Park, NC 27711 (United States)

    2011-09-15

    Fish models such as zebrafish and medaka are increasingly used as alternatives to rodents in developmental and toxicological studies. These developmental and toxicological studies can be facilitated by the use of transgenic reporters that permit the real-time, noninvasive observation of the fish. Here we report the construction and characterization of transgenic medaka lines expressing green fluorescent protein (GFP) under the control of the zebrafish neurogenin 1 (ngn1) gene promoter. Neurogenin (ngn1) is a helix-loop-helix transcription factor expressed in proliferating neuronal progenitor cells early in neuronal differentiation and plays a crucial role in directing neurogenesis. GFP expression was detected from 24 h post-fertilization until hatching, in a spatial pattern consistent with the previously reported zebrafish ngn1 expression. Temporal expression of the transgene parallels the expression profile of the endogenous medaka ngn1 transcript. Further, we demonstrate that embryos from the transgenic line permit the non-destructive, real-time screening of ngn1 promoter-directed GFP expression in a 96-well format, enabling higher throughput studies of developmental neurotoxicants. This strain has been deposited with and maintained by the National BioResource Project and is available on request ( (http://www.shigen.nig.ac.jp/medaka/strainDetailAction.do?quickSearch=true and strainId=5660)).

  17. Simulation of transcontinental wind and solar PV generation time series

    DEFF Research Database (Denmark)

    Nuño Martinez, Edgar; Maule, Petr; Hahmann, Andrea N.

    2018-01-01

    The deployment of Renewable Energy Sources (RES) is driving modern power systems towards a fundamental green transition. In this regard, there is a need to develop models to accurately capture the variability of wind and solar photovoltaic (PV) power, at different geographical and temporal scales....... This paper presents a general methodology based on meteorological reanalysis techniques allowing to simulate aggregated RES time series over large geographical areas. It also introduces a novel PV conversion approach based on aggregated power curves in order to capture the uncertainty associated...

  18. Recent Voyager Evidence for Rapid Transport of Flare-Generated Disturbances by Polar Coronal Hole Streams

    Science.gov (United States)

    Intriligator, D. S.; Miller, W. D.; Intriligator, J.; Webber, W.; Sun, W.; Detman, T.; Dryer, M.; Deehr, C.

    2017-09-01

    Disturbances observed by Voyagers 1 and 2 during the past five years or more may have been transported by plasma emitted from polar coronal holes, thereby having travelled much faster from the Sun to the termination shock than previously recognized. Estimating the average speed to the shock as 750 km/s has produced consistently good associations between solar flares, or groups of them, and dynamic pressure increases at Voyager 2 and plasma wave events at Voyager 1. Furthermore, magnetograph observations confirm that polar coronal holes were present around the times of the flares to which the events at the Voyagers have been attributed. These calculations also provide revised estimates of the transport of heliospheric current sheet fluctuations. We discuss the possibilities that extrapolations from past observations and simulations based on them may provide insight into currently challenging issues and possible future developments.

  19. Time-domain diffuse optics: towards next generation devices

    Science.gov (United States)

    Contini, Davide; Dalla Mora, Alberto; Arridge, Simon; Martelli, Fabrizio; Tosi, Alberto; Boso, Gianluca; Farina, Andrea; Durduran, Turgut; Martinenghi, Edoardo; Torricelli, Alessandro; Pifferi, Antonio

    2015-07-01

    Diffuse optics is a powerful tool for clinical applications ranging from oncology to neurology, but also for molecular imaging, and quality assessment of food, wood and pharmaceuticals. We show that ideally time-domain diffuse optics can give higher contrast and a higher penetration depth with respect to standard technology. In order to completely exploit the advantages of a time-domain system a distribution of sources and detectors with fast gating capabilities covering all the sample surface is needed. Here, we present the building block to build up such system. This basic component is made of a miniaturised source-detector pair embedded into the probe based on pulsed Vertical-Cavity Surface-Emitting Lasers (VCSEL) as sources and Single-Photon Avalanche Diodes (SPAD) or Silicon Photomultipliers (SiPM) as detectors. The possibility to miniaturized and dramatically increase the number of source detectors pairs open the way to an advancement of diffuse optics in terms of improvement of performances and exploration of new applications. Furthermore, availability of compact devices with reduction in size and cost can boost the application of this technique.

  20. The fourth generation AlereTM HIV Combo rapid test improves detection of acute infection in MTN-003 (VOICE) samples.

    Science.gov (United States)

    Livant, Edward; Heaps, Amy; Kelly, Cliff; Maharaj, Rashika; Samsunder, Natasha; Nhlangulela, Lindiwe; Karugaba, Patrick; Panchia, Ravindre; Marrazzo, Jeanne; Chirenje, Zvavahera Mike; Parikh, Urvi M

    2017-09-01

    Early and accurate detection of HIV is crucial when using pre-exposure prophylaxis (PrEP) for HIV prevention to avoid PrEP initiation in acutely infected individuals and to minimize the risk of drug resistance in individuals with breakthrough infection. To determine if fourth-generation antigen/antibody (Ag/Ab) rapid diagnostic tests (RDT) would have detected HIV infection earlier than the third-generation RDT used in MTN-003 (VOICE). 5029 VOICE participants were evaluated with third-generation Alere Determine™ HIV-1/2, OraQuick ADVANCE® Rapid HIV-1/2, Uni-Gold™ Recombigen® HIV-1/2 and Bio-Rad GS HIV-1/2+O EIA; and fourth-generation Alere Determine™ HIV-1/2 Ag/Ab Combo, Conformité Européene (CE)-Marked Alere™ HIV Combo and Bio-Rad HIV Combo Ag/Ab EIA. Multispot®, GS HIV-1 Western Blot (WB) and Geenius™ (Bio-Rad) were also evaluated. Of 57 antibody-negative pre-seroconversion plasma samples with HIV RNA >20 copies/mL identified, 16 (28%) were reactive by CE-Marked Alere™ HIV Combo (1 Ab; 9 Ag; 6 Ag/Ab reactive) and 4 (7%) by Alere Determine™ HIV-1/2 Ag/Ab Combo (2 Ab; 2 Ag; 0 Ag/Ab reactive) (p=0.0005). Multispot® confirmed only 1 of 16 acute infections while WB and Geenius™ confirmed none. GS HIV Combo Ag/Ab EIA identified 27 of 57 (47%) pre-seroconversion RNA-positive samples. In VOICE, 28% of infections missed by current third-generation RDT would have been identified with the use of CE-Marked Alere™ HIV Combo. Geenius™, Multispot® and WB were all insensitive (HIV RNA testing will be essential for efficiently identifying seroconverters on PrEP. Copyright © 2017 Elsevier B.V. All rights reserved.

  1. Does rapid HIV testing result in an early diagnosis and reduce the waiting time for patients to receive medical care?

    Science.gov (United States)

    Melo, Magaly Carvalho Vieira de; Ximenes, Ricardo Arraes de Alencar; Falcão, Ilka Veras; Miranda-Filho, Demócrito de Barros

    2018-01-01

    The implementation of rapid HIV testing in Brazil began in 2006 for specific groups, and from 2009 was extended to the Counseling and Testing Centers (CTC) in certain Brazilian capitals. The aim of this study was to compare two groups of individuals: those diagnosed with HIV infection by conventional testing and those diagnosed with rapid testing, with respect to: the waiting time before receiving medical care, the time of the first laboratory tests and the virological, immune and clinical status. This is a cross-sectional study to compare a group with individuals diagnosed by conventional testing (2006-2008) and another with those diagnosed by rapid testing (2010-2011).The median time between blood collection and diagnosis of HIV in the conventional test group was 76 days, while in the rapid test group 94.2% of the subjects received their results on the same day of blood collection (p test group, the median period of time before the first consultation with an infectious disease specialist was 99 days, and for the rapid test group the time was 14 days (p test group (p test group (472) was higher than in the conventional test group (397) (p = 0.01). The introduction of rapid HIV testing as a diagnostic strategy has reduced the waiting times for medical care and laboratory tests and also allowed earlier diagnosis of HIV infection than with the conventional test.

  2. Generation of Aptamers from A Primer-Free Randomized ssDNA Library Using Magnetic-Assisted Rapid Aptamer Selection

    Science.gov (United States)

    Tsao, Shih-Ming; Lai, Ji-Ching; Horng, Horng-Er; Liu, Tu-Chen; Hong, Chin-Yih

    2017-04-01

    Aptamers are oligonucleotides that can bind to specific target molecules. Most aptamers are generated using random libraries in the standard systematic evolution of ligands by exponential enrichment (SELEX). Each random library contains oligonucleotides with a randomized central region and two fixed primer regions at both ends. The fixed primer regions are necessary for amplifying target-bound sequences by PCR. However, these extra-sequences may cause non-specific bindings, which potentially interfere with good binding for random sequences. The Magnetic-Assisted Rapid Aptamer Selection (MARAS) is a newly developed protocol for generating single-strand DNA aptamers. No repeat selection cycle is required in the protocol. This study proposes and demonstrates a method to isolate aptamers for C-reactive proteins (CRP) from a randomized ssDNA library containing no fixed sequences at 5‧ and 3‧ termini using the MARAS platform. Furthermore, the isolated primer-free aptamer was sequenced and binding affinity for CRP was analyzed. The specificity of the obtained aptamer was validated using blind serum samples. The result was consistent with monoclonal antibody-based nephelometry analysis, which indicated that a primer-free aptamer has high specificity toward targets. MARAS is a feasible platform for efficiently generating primer-free aptamers for clinical diagnoses.

  3. A Rapid Deployment Seismological network (RaDeSeis) for real time aftershock studies

    Science.gov (United States)

    Hloupis, G.; Vallianatos, F.; Makris, J. P.

    2009-04-01

    The understanding of earthquake faulting process is one of the main factors that contribute to earthquake damage. One of the most valuable and essential tools for the understanding of faulting process in the analysis of aftershocks. The critical point for successful aftershock studies is the mobile seismological network that will deployed in order to provide the required data. The main problem that arise for these networks is how fast the recorded data are available to data centres in order to estimate the focal mechanisms, the source parameters estimation as well as to examine microseismic activity. The ideal situation is to have these data available in real time but this is limited by the different telemetry requirements for every individual installation. Based on the experience gained from several installations in Hellenic Seismological Network of Crete (HSNC) we propose a mobile network scheme (called RaDeSeis) capable of installed in a limited amount of time and provide real time seismological data. RaDeSeis is an hybrid network based on VSAT and WiFi communication links between seismological stations and data centre. The network is deployed in star topology where the central station is the communication hub at the same time. Dedicated point-to-point links between central station and border station established using WiFi links. Communication between central station and data centre is established by VSAT. With appropriate routing on central station the data centre is collecting, control and monitor all the stations from the area of interest in real time. In order to decrease the time needed for each installation a specific software (RaLiEs - Rapid Link Establishment) is originated for the quicker link establishment between border stations and central station (with an average distance of 40km LOS) as well as to data centre. By using this software each telecommunication installation needs less than half an hour to complete the necessary link adjustments

  4. Real-time PCR using mycobacteriophage DNA for rapid phenotypic drug susceptibility results for Mycobacterium tuberculosis.

    Science.gov (United States)

    Pholwat, Suporn; Ehdaie, Beeta; Foongladda, Suporn; Kelly, Kimberly; Houpt, Eric

    2012-03-01

    Managing drug-resistant Mycobacterium tuberculosis requires drug susceptibility testing, yet conventional drug susceptibility testing is slow, and molecular testing does not yield results for all antituberculous drugs. We addressed these challenges by utilizing real-time PCR of mycobacteriophage D29 DNA to evaluate the drug resistance of clinical M. tuberculosis isolates. Mycobacteriophages infect and replicate in viable bacterial cells faster than bacterial cells replicate and have been used for detection and drug resistance testing for M. tuberculosis either by using reporter cells or phages with engineered reporter constructs. Our primary protocol involved culturing M. tuberculosis isolates for 48 h with and without drugs at critical concentrations, followed by incubation with 10(3) PFU/ml of D29 mycobacteriophage for 24 h and then real-time PCR. Many drugs could be incubated instantly with M. tuberculosis and phage for 24 h alone. The change in phage DNA real-time PCR cycle threshold (C(T)) between control M. tuberculosis and M. tuberculosis treated with drugs was calculated and correlated with conventional agar proportion drug susceptibility results. Specifically, 9 susceptible clinical isolates, 22 multidrug-resistant (MDR), and 1 extensively drug-resistant (XDR) M. tuberculosis strains were used and C(T) control-C(T) drug cutoffs of between +0.3 and -6.0 yielded 422/429 (98%) accurate results for isoniazid, rifampin, streptomycin, ethambutol, amikacin, kanamycin, capreomycin, ofloxacin, moxifloxacin, ethionamide, para-aminosalicylic acid, cycloserine, and linezolid. Moreover, the ΔC(T) values correlated with isolate MIC for most agents. This D29 quantitative PCR assay offers a rapid, accurate, 1- to 3-day phenotypic drug susceptibility test for first- and second-line drugs and may suggest an approximate MIC.

  5. Phenomapping of rangelands in South Africa using time series of RapidEye data

    Science.gov (United States)

    Parplies, André; Dubovyk, Olena; Tewes, Andreas; Mund, Jan-Peter; Schellberg, Jürgen

    2016-12-01

    Phenomapping is an approach which allows the derivation of spatial patterns of vegetation phenology and rangeland productivity based on time series of vegetation indices. In our study, we propose a new spatial mapping approach which combines phenometrics derived from high resolution (HR) satellite time series with spatial logistic regression modeling to discriminate land management systems in rangelands. From the RapidEye time series for selected rangelands in South Africa, we calculated bi-weekly noise reduced Normalized Difference Vegetation Index (NDVI) images. For the growing season of 2011⿿2012, we further derived principal phenology metrics such as start, end and length of growing season and related phenological variables such as amplitude, left derivative and small integral of the NDVI curve. We then mapped these phenometrics across two different tenure systems, communal and commercial, at the very detailed spatial resolution of 5 m. The result of a binary logistic regression (BLR) has shown that the amplitude and the left derivative of the NDVI curve were statistically significant. These indicators are useful to discriminate commercial from communal rangeland systems. We conclude that phenomapping combined with spatial modeling is a powerful tool that allows efficient aggregation of phenology and productivity metrics for spatially explicit analysis of the relationships of crop phenology with site conditions and management. This approach has particular potential for disaggregated and patchy environments such as in farming systems in semi-arid South Africa, where phenology varies considerably among and within years. Further, we see a strong perspective for phenomapping to support spatially explicit modelling of vegetation.

  6. Space-time trajectories of wind power generation: Parameterized precision matrices under a Gaussian copula approach

    DEFF Research Database (Denmark)

    Tastu, Julija; Pinson, Pierre; Madsen, Henrik

    2015-01-01

    Emphasis is placed on generating space-time trajectories of wind power generation, consisting of paths sampled from high-dimensional joint predictive densities, describing wind power generation at a number of contiguous locations and successive lead times. A modelling approach taking advantage......-correlations. Estimation is performed in a maximum likelihood framework. Based on a test case application in Denmark, with spatial dependencies over 15 areas and temporal ones for 43 hourly lead times (hence, for a dimension of n = 645), it is shown that accounting for space-time effects is crucial for generating skilful...

  7. Bidirectional Control of Generalized Epilepsy Networks via Rapid Real-Time Switching of Firing Mode.

    Science.gov (United States)

    Sorokin, Jordan M; Davidson, Thomas J; Frechette, Eric; Abramian, Armen M; Deisseroth, Karl; Huguenard, John R; Paz, Jeanne T

    2017-01-04

    Thalamic relay neurons have well-characterized dual firing modes: bursting and tonic spiking. Studies in brain slices have led to a model in which rhythmic synchronized spiking (phasic firing) in a population of relay neurons leads to hyper-synchronous oscillatory cortico-thalamo-cortical rhythms that result in absence seizures. This model suggests that blocking thalamocortical phasic firing would treat absence seizures. However, recent in vivo studies in anesthetized animals have questioned this simple model. Here we resolve this issue by developing a real-time, mode-switching approach to drive thalamocortical neurons into or out of a phasic firing mode in two freely behaving genetic rodent models of absence epilepsy. Toggling between phasic and tonic firing in thalamocortical neurons launched and aborted absence seizures, respectively. Thus, a synchronous thalamocortical phasic firing state is required for absence seizures, and switching to tonic firing rapidly halts absences. This approach should be useful for modulating other networks that have mode-dependent behaviors. Copyright © 2017 Elsevier Inc. All rights reserved.

  8. Rapid quantitation of lipid in microalgae by time-domain nuclear magnetic resonance.

    Science.gov (United States)

    Gao, Chunfang; Xiong, Wei; Zhang, Yiliang; Yuan, Wenqiao; Wu, Qingyu

    2008-12-01

    A specific strain of Chlorella protothecoides has been studied in heterotrophic fermentation for increasing cell growth rate and lipid content for biodiesel production. For optimizing the process of fermentation to reduce costs of alga-based biodiesel production, rapid determination of lipid content in microalgal cells is critical. Nile Red (NR) staining and time-domain nuclear magnetic resonance (TD-NMR) have been investigated to quantitate the lipid content in C. protothecoides. Both methods were found feasible and simpler than gravimetric methods that are commonly employed. The TD-NMR method showed better agreement (R(2)=0.9973) with the measured values from lipid extraction experiments than the NR staining method (R(2)=0.9067). Additionally, the smaller standard deviations of the samples (< or =0.36) analyzed by TD-NMR revealed that the method is accurate and reproducible. The application of TD-NMR for lipid quantitation in C. protothecoides opens up the possibility of determining lipid content in algal fermentation precisely and quickly.

  9. Rapid identification and enumeration of Saccharomyces cerevisiae cells in wine by real-time PCR.

    Science.gov (United States)

    Martorell, P; Querol, A; Fernández-Espinar, M T

    2005-11-01

    Despite the beneficial role of Saccharomyces cerevisiae in the food industry for food and beverage production, it is able to cause spoilage in wines. We have developed a real-time PCR method to directly detect and quantify this yeast species in wine samples to provide winemakers with a rapid and sensitive method to detect and prevent wine spoilage. Specific primers were designed for S. cerevisiae using the sequence information obtained from a cloned random amplified polymorphic DNA band that differentiated S. cerevisiae from its sibling species Saccharomyces bayanus, Saccharomyces pastorianus, and Saccharomyces paradoxus. The specificity of the primers was demonstrated for typical wine spoilage yeast species. The method was useful for estimating the level of S. cerevisiae directly in sweet wines and red wines without preenrichment when yeast is present in concentrations as low as 3.8 and 5 CFU per ml. This detection limit is in the same order as that obtained from glucose-peptone-yeast growth medium (GPY). Moreover, it was possible to quantify S. cerevisiae in artificially contaminated samples accurately. Limits for accurate quantification in wine were established, from 3.8 x 10(5) to 3.8 CFU/ml in sweet wine and from 5 x 10(6) to 50 CFU/ml in red wine.

  10. Real-time Java API Specifications for High Coverage Test Generation

    NARCIS (Netherlands)

    Ahrendt, W.; Mostowski, Wojciech; Paganelli, G.

    2012-01-01

    We present the test case generation method and tool KeY-TestGen in the context of real-time Java applications and libraries. The generated tests feature strong coverage criteria, like the Modified Condition/Decision Criterion, by construction. This is achieved by basing the test generation on formal

  11. Development a rapid and accurate multiplex real time PCR method for the detection Chlamydia trachomatis and Mycoplasma hominis.

    Science.gov (United States)

    Safarkar, Roya; Mehrabadi, Jalil Fallah; Noormohammadi, Zahra; Mirnejad, Reza

    2017-11-01

    Sexually transmitted diseases easily spread among sexually active people and often have no symptoms. Rapid and accurate method for detecting these infections are necessary in early stages. The traditional detection methods of them are difficult and time-consuming. In this study, multiplex real time PCR was optimized for rapid identification of Chlamydia trachomatis and Mycoplasma hominis in a single tube and was performed with our designed primers. The sensitivity test was carried out to designed primers with diluted genomic DNA. To defined the specificity, non STD bacteria were used as DNA template. This study indicated that the developed multiplex real time PCR can be an effective alternative procedure to the conventional methods for rapid and accurate identification of C Chlamydia trachomatis and Mycoplasma hominis. Multiplex real-time PCR Results of them were checked with melting curves. The sensitivity of our designed primer by multiplex real time PCR for Chlamydia trachomatis and Mycoplasma hominis were 4.78×1010 and 8.35×1010 , respectively, Which the primers did not amplify any product from a non-STD species. Multiplex real time PCR by our new primers and analysis of melting curves were successfully usable for rapid and accurate detection of Chlamydia trachomatis and Mycoplasma hominis. This assay instead of traditional culture method, has considerable potential to be rapid, accurate and highly sensitive molecular diagnostic tool for simultaneous and direct detection. © 2017 Wiley Periodicals, Inc.

  12. SSR-patchwork: An optimized protocol to obtain a rapid and inexpensive SSR library using first-generation sequencing technology.

    Science.gov (United States)

    Di Maio, Antonietta; De Castro, Olga

    2013-01-01

    We have optimized a version of a microsatellite loci isolation protocol for first-generation sequencing (FGS) technologies. The protocol is optimized to reduce the cost and number of steps, and it combines some procedures from previous simple sequence repeat (SSR) protocols with several key improvements that significantly affect the final yield of the SSR library. This protocol may be accessible for laboratories with a moderate budget or for which next-generation sequencing (NGS) is not readily available. • We drew from classic protocols for library enrichment by digestion, ligation, amplification, hybridization, cloning, and sequencing. Three different systems were chosen: two with very different genome sizes (Galdieria sulphuraria, 10 Mbp; Pancratium maritimum, 30 000 Mbp), and a third with an undetermined genome size (Kochia saxicola). Moreover, we also report the optimization of the sequencing reagents. A good frequency of the obtained microsatellite loci was achieved. • The method presented here is very detailed; comparative tests with other SSR protocols are also reported. This optimized protocol is a promising tool for low-cost genetic studies and the rapid, simple construction of homemade SSR libraries for small and large genomes.

  13. Visual working memory modulates low-level saccade target selection: evidence from rapidly generated saccades in the global effect paradigm.

    Science.gov (United States)

    Hollingworth, Andrew; Matsukura, Michi; Luck, Steven J

    2013-11-04

    In three experiments, we examined the influence of visual working memory (VWM) on the metrics of saccade landing position in a global effect paradigm. Participants executed a saccade to the more eccentric object in an object pair appearing on the horizontal midline, to the left or right of central fixation. While completing the saccade task, participants maintained a color in VWM for an unrelated memory task. Either the color of the saccade target matched the memory color (target match), the color of the distractor matched the memory color (distractor match), or the colors of neither object matched the memory color (no match). In the no-match condition, saccades tended to land at the midpoint between the two objects: the global, or averaging, effect. However, when one of the two objects matched VWM, the distribution of landing position shifted toward the matching object, both for target match and for distractor match. VWM modulation of landing position was observed even for the fastest quartile of saccades, with a mean latency as low as 112 ms. Effects of VWM on such rapidly generated saccades, with latencies in the express-saccade range, indicate that VWM interacts with the initial sweep of visual sensory processing, modulating perceptual input to oculomotor systems and thereby biasing oculomotor selection. As a result, differences in memory match produce effects on landing position similar to the effects generated by differences in physical salience.

  14. UMTS rapid response real-time seismic networks: implementation and strategies at INGV

    Science.gov (United States)

    Govoni, A.; Margheriti, L.; Moretti, M.; Lauciani, V.; Sensale, G.; Bucci, A.; Criscuoli, F.

    2015-12-01

    Universal Mobile Telecommunications System (UMTS) and its evolutions are nowadays the most affordable and widespread data communication infrastructure available almost world wide. Moreover the always growing cellular phone market is pushing the development of new devices with higher performances and lower power consumption. All these characteristics make UMTS really useful for the implementation of an "easy to deploy" temporary real-time seismic station. Despite these remarkable features, there are many drawbacks that must be properly taken in account to effectively transmit the seismic data: Internet security, signal and service availability, power consumption. - Internet security: exposing seismological data services and seismic stations to the Internet is dangerous, attack prone and can lead to downtimes in the services, so we setup a dedicated Virtual Private Network (VPN) service to protect all the connected devices. - Signal and service availability: while for temporary experiment a carefull planning and an accurate site selection can minimize the problem, this is not always the case with rapid response networks. Moreover, as with any other leased line, the availability of the UMTS service during a seismic crisis is basically unpredictable. Nowadays in Italy during a major national emergency a Committee of the Italian Civil Defense ensures unified management and coordination of emergency activities. Inside it the telecom companies are committed to give support to the crisis management improving the standards in their communication networks. - Power consumption: it is at least of the order of that of the seismic station and, being related to data flow and signal quality is largely unpredictable. While the most secure option consists in adding a second independent solar power supply to the seismic station, this is not always a very convenient solution since it doubles the cost and doubles the equipment on site. We found that an acceptable trade-off is to add an

  15. Rapid Adjustment of Circadian Clocks to Simulated Travel to Time Zones across the Globe.

    Science.gov (United States)

    Harrison, Elizabeth M; Gorman, Michael R

    2015-12-01

    Daily rhythms in mammalian physiology and behavior are generated by a central pacemaker located in the hypothalamic suprachiasmatic nuclei (SCN), the timing of which is set by light from the environment. When the ambient light-dark cycle is shifted, as occurs with travel across time zones, the SCN and its output rhythms must reset or re-entrain their phases to match the new schedule-a sluggish process requiring about 1 day per hour shift. Using a global assay of circadian resetting to 6 equidistant time-zone meridians, we document this characteristically slow and distance-dependent resetting of Syrian hamsters under typical laboratory lighting conditions, which mimic summer day lengths. The circadian pacemaker, however, is additionally entrainable with respect to its waveform (i.e., the shape of the 24-h oscillation) allowing for tracking of seasonally varying day lengths. We here demonstrate an unprecedented, light exposure-based acceleration in phase resetting following 2 manipulations of circadian waveform. Adaptation of circadian waveforms to long winter nights (8 h light, 16 h dark) doubled the shift response in the first 3 days after the shift. Moreover, a bifurcated waveform induced by exposure to a novel 24-h light-dark-light-dark cycle permitted nearly instant resetting to phase shifts from 4 to 12 h in magnitude, representing a 71% reduction in the mismatch between the activity rhythm and the new photocycle. Thus, a marked enhancement of phase shifting can be induced via nonpharmacological, noninvasive manipulation of the circadian pacemaker waveform in a model species for mammalian circadian rhythmicity. Given the evidence of conserved flexibility in the human pacemaker waveform, these findings raise the promise of flexible resetting applicable to circadian disruption in shift workers, frequent time-zone travelers, and any individual forced to adjust to challenging schedules. © 2015 The Author(s).

  16. Flood Foresight: A near-real time flood monitoring and forecasting tool for rapid and predictive flood impact assessment

    Science.gov (United States)

    Revilla-Romero, Beatriz; Shelton, Kay; Wood, Elizabeth; Berry, Robert; Bevington, John; Hankin, Barry; Lewis, Gavin; Gubbin, Andrew; Griffiths, Samuel; Barnard, Paul; Pinnell, Marc; Huyck, Charles

    2017-04-01

    The hours and days immediately after a major flood event are often chaotic and confusing, with first responders rushing to mobilise emergency responders, provide alleviation assistance and assess loss to assets of interest (e.g., population, buildings or utilities). Preparations in advance of a forthcoming event are becoming increasingly important; early warning systems have been demonstrated to be useful tools for decision markers. The extent of damage, human casualties and economic loss estimates can vary greatly during an event, and the timely availability of an accurate flood extent allows emergency response and resources to be optimised, reduces impacts, and helps prioritise recovery. In the insurance sector, for example, insurers are under pressure to respond in a proactive manner to claims rather than waiting for policyholders to report losses. Even though there is a great demand for flood inundation extents and severity information in different sectors, generating flood footprints for large areas from hydraulic models in real time remains a challenge. While such footprints can be produced in real time using remote sensing, weather conditions and sensor availability limit their ability to capture every single flood event across the globe. In this session, we will present Flood Foresight (www.floodforesight.com), an operational tool developed to meet the universal requirement for rapid geographic information, before, during and after major riverine flood events. The tool provides spatial data with which users can measure their current or predicted impact from an event - at building, basin, national or continental scales. Within Flood Foresight, the Screening component uses global rainfall predictions to provide a regional- to continental-scale view of heavy rainfall events up to a week in advance, alerting the user to potentially hazardous situations relevant to them. The Forecasting component enhances the predictive suite of tools by providing a local

  17. Towards provably correct code generation for a hard real-time programming language

    DEFF Research Database (Denmark)

    Fränzle, Martin; Müller-Olm, Markus

    1994-01-01

    This paper sketches a hard real-time programming language featuring operators for expressing timeliness requirements in an abstract, implementation-independent way and presents parts of the design and verification of a provably correct code generator for that language. The notion of implementatio...... correctness used as an implicit specification of the code generator pays attention to timeliness requirements. Hence, formal verification of the code generator design is a guarantee of meeting all deadlines when executing generated code....

  18. Next-Generation Sequencing-Aided Rapid Molecular Diagnosis of Occult Macular Dystrophy in a Chinese Family

    Directory of Open Access Journals (Sweden)

    Yu-He Qi

    2017-08-01

    Full Text Available Purpose: To show early, rapid and accurate molecular diagnosis of occult macular dystrophy (OMD in a four-generation Chinese family with inherited macular dystrophy.Methods: In the current study, we comprehensively screened 130 genes involved in common inherited non-syndromic eye diseases with next-generation sequencing-based target capture sequencing of the proband of a four-generation Chinese family that has suffered from maculopathy without a definitive diagnosis for over 10 years. Variants were filtered and analyzed to identify possible disease-causing variants before validation by Sanger sequencing.Results: Two heterozygous mutations—RP1L1 c.133 C > T (p.Arg45Trp, which is a hot spot for OMD, and ABCA4 c.6119 G > A (p.Arg2040Gln, which was identified in Stargardt’s disease were found in three patients, but neither of the mutations was found in the unaffected individuals in the same family, who are phenotypically normal or in the normal control volunteers.Conclusion: These results cannot only confirm the diagnosis of OMD in the proband, but also provide presymptomatic diagnosis of the proband’s children before the onset of visual acuity impairment and guidance regarding the prognosis and management of these patients. Heterozygous mutations of RP1L1 c.133 C > T (p.Arg45Trp and ABCA4 c.6119 G > A (p.Arg2040Gln are likely responsible for OMD. Our results further extend our current understanding of the genetic basis of OMD, and emphasize the importance of molecular diagnosis and genetic counseling for OMD.

  19. Next-Generation Sequencing-Aided Rapid Molecular Diagnosis of Occult Macular Dystrophy in a Chinese Family.

    Science.gov (United States)

    Qi, Yu-He; Gao, Feng-Juan; Hu, Fang-Yuan; Zhang, Sheng-Hai; Chen, Jun-Yi; Huang, Wan-Jing; Tian, Guo-Hong; Wang, Min; Gan, De-Kang; Wu, Ji-Hong; Xu, Ge-Zhi

    2017-01-01

    Purpose: To show early, rapid and accurate molecular diagnosis of occult macular dystrophy (OMD) in a four-generation Chinese family with inherited macular dystrophy. Methods: In the current study, we comprehensively screened 130 genes involved in common inherited non-syndromic eye diseases with next-generation sequencing-based target capture sequencing of the proband of a four-generation Chinese family that has suffered from maculopathy without a definitive diagnosis for over 10 years. Variants were filtered and analyzed to identify possible disease-causing variants before validation by Sanger sequencing. Results: Two heterozygous mutations-RP1L1 c.133 C > T (p.Arg45Trp), which is a hot spot for OMD, and ABCA4 c.6119 G > A (p.Arg2040Gln), which was identified in Stargardt's disease were found in three patients, but neither of the mutations was found in the unaffected individuals in the same family, who are phenotypically normal or in the normal control volunteers. Conclusion: These results cannot only confirm the diagnosis of OMD in the proband, but also provide presymptomatic diagnosis of the proband's children before the onset of visual acuity impairment and guidance regarding the prognosis and management of these patients. Heterozygous mutations of RP1L1 c.133 C > T (p.Arg45Trp) and ABCA4 c.6119 G > A (p.Arg2040Gln) are likely responsible for OMD. Our results further extend our current understanding of the genetic basis of OMD, and emphasize the importance of molecular diagnosis and genetic counseling for OMD.

  20. A test generation framework for quiescent real-time systems - extended version

    OpenAIRE

    Brandan Briones, L.; Brinksma, Hendrik

    2004-01-01

    We present an extension of Tretmans¿ theory and algorithm for test generation for input-output transition systems to real-time systems. Our treatment is based on an operational interpretation of the notion of quiescence in the context of real-time behaviour. This gives rise to a family of implementation relations parameterized by observation durations for quiescence. We define a nondeterministic (parameterized) test generation algorithm that generates test cases that are sound with respect to...

  1. Scaling laws of diffusion and time intermittency generated by coherent structures in atmospheric turbulence

    Directory of Open Access Journals (Sweden)

    P. Paradisi

    2012-02-01

    Full Text Available We investigate the time intermittency of turbulent transport associated with the birth-death of self-organized coherent structures in the atmospheric boundary layer. We apply a threshold analysis on the increments of turbulent fluctuations to extract sequences of rapid acceleration events, which is a marker of the transition between self-organized structures.

    The inter-event time distributions show a power-law decay ψ(τ ~ 1/τμ, with a strong dependence of the power-law index μ on the threshold.

    A recently developed method based on the application of event-driven walking rules to generate different diffusion processes is applied to the experimental event sequences. At variance with the power-law index μ estimated from the inter-event time distributions, the diffusion scaling H, defined by ⟨ X2⟩ ~ t2H, is independent from the threshold.

    From the analysis of the diffusion scaling it can also be inferred the presence of different kind of events, i.e. genuinely transition events and spurious events, which all contribute to the diffusion process but over different time scales. The great advantage of event-driven diffusion lies in the ability of separating different regimes of the scaling H. In fact, the greatest H, corresponding to the most anomalous diffusion process, emerges in the long time range, whereas the smallest H can be seen in the short time range if the time resolution of the data is sufficiently accurate.

    The estimated diffusion scaling is also robust under the change of the definition of turbulent fluctuations and, under the assumption of statistically independent events, it corresponds to a self-similar point process with a well-defined power-law index μD ~ 2.1, where D denotes that μD is derived from the diffusion scaling. We argue that

  2. Scaling laws of diffusion and time intermittency generated by coherent structures in atmospheric turbulence

    Science.gov (United States)

    Paradisi, P.; Cesari, R.; Donateo, A.; Contini, D.; Allegrini, P.

    2012-02-01

    We investigate the time intermittency of turbulent transport associated with the birth-death of self-organized coherent structures in the atmospheric boundary layer. We apply a threshold analysis on the increments of turbulent fluctuations to extract sequences of rapid acceleration events, which is a marker of the transition between self-organized structures. The inter-event time distributions show a power-law decay ψ(τ) ~ 1/τμ, with a strong dependence of the power-law index μ on the threshold. A recently developed method based on the application of event-driven walking rules to generate different diffusion processes is applied to the experimental event sequences. At variance with the power-law index μ estimated from the inter-event time distributions, the diffusion scaling H, defined by ⟨ X2⟩ ~ t2H, is independent from the threshold. From the analysis of the diffusion scaling it can also be inferred the presence of different kind of events, i.e. genuinely transition events and spurious events, which all contribute to the diffusion process but over different time scales. The great advantage of event-driven diffusion lies in the ability of separating different regimes of the scaling H. In fact, the greatest H, corresponding to the most anomalous diffusion process, emerges in the long time range, whereas the smallest H can be seen in the short time range if the time resolution of the data is sufficiently accurate. The estimated diffusion scaling is also robust under the change of the definition of turbulent fluctuations and, under the assumption of statistically independent events, it corresponds to a self-similar point process with a well-defined power-law index μD ~ 2.1, where D denotes that μD is derived from the diffusion scaling. We argue that this renewal point process can be associated to birth and death of coherent structures and to turbulent transport near the ground, where the contribution of turbulent coherent structures becomes dominant.

  3. ORIO (Online Resource for Integrative Omics): a web-based platform for rapid integration of next generation sequencing data.

    Science.gov (United States)

    Lavender, Christopher A; Shapiro, Andrew J; Burkholder, Adam B; Bennett, Brian D; Adelman, Karen; Fargo, David C

    2017-06-02

    Established and emerging next generation sequencing (NGS)-based technologies allow for genome-wide interrogation of diverse biological processes. However, accessibility of NGS data remains a problem, and few user-friendly resources exist for integrative analysis of NGS data from different sources and experimental techniques. Here, we present Online Resource for Integrative Omics (ORIO; https://orio.niehs.nih.gov/), a web-based resource with an intuitive user interface for rapid analysis and integration of NGS data. To use ORIO, the user specifies NGS data of interest along with a list of genomic coordinates. Genomic coordinates may be biologically relevant features from a variety of sources, such as ChIP-seq peaks for a given protein or transcription start sites from known gene models. ORIO first iteratively finds read coverage values at each genomic feature for each NGS dataset. Data are then integrated using clustering-based approaches, giving hierarchical relationships across NGS datasets and separating individual genomic features into groups. In focusing its analysis on read coverage, ORIO makes limited assumptions about the analyzed data; this allows the tool to be applied across data from a variety of experiments and techniques. Results from analysis are presented in dynamic displays alongside user-controlled statistical tests, supporting rapid statistical validation of observed results. We emphasize the versatility of ORIO through diverse examples, ranging from NGS data quality control to characterization of enhancer regions and integration of gene expression information. Easily accessible on a public web server, we anticipate wide use of ORIO in genome-wide investigations by life scientists. Published by Oxford University Press on behalf of Nucleic Acids Research 2017.

  4. Effects of rapid chilling of carcasses and time of deboning on weight loss and technological quality of pork semimembranosus muscle.

    Science.gov (United States)

    Tomović, Vladimir M; Petrović, Ljiljana S; Džinić, Natalija R

    2008-12-01

    The effect of rapid air chilling of carcasses in the first 3 h of chilling at -31°C (then at 2-4°C, till 24 h post-mortem) and the possibility of earlier deboning (8 h post-mortem) after rapid air chilling, compared to conventional air chilling (at 2-4°C, till 24 h post-mortem) on weight loss and technological quality (pH value, tenderness, drip loss, cooking loss and colour - L(∗)a(∗)b(∗) values) of pork M. semimembranosus was investigated. Under the rapid chilling conditions, weight loss was 0.8% at 8 h post-mortem and increased to 1.4% at 24 h post-mortem when weight loss was 2.0% under conventional chilling. Carcasses that were rapid chilled had significantly lower (Pchill treatment (32.7, 24.2, 19.1 and 5.1°C, respectively). Rapid chilling reduced significantly (Pchill treatment (5.88). Compared to conventional chilling, in M. semimembranosus deboned in different time post-mortem, rapid chilling had a positive significant effect on drip loss (Pchilling i.e. rapid chilling and earlier deboning had neither positive nor negative significant effects (P>0.05) on other investigated technological quality parameters of M. semimembranosus (tenderness, a(∗) value and b(∗) value) compared to conventional chilling.

  5. Development of a high-speed real-time PCR system for rapid and precise nucleotide recognition

    Science.gov (United States)

    Terazono, Hideyuki; Takei, Hiroyuki; Hattori, Akihiro; Yasuda, Kenji

    2010-04-01

    Polymerase chain reaction (PCR) is a common method used to create copies of a specific target region of a DNA sequence and to produce large quantities of DNA. A few DNA molecules, which act as templates, are rapidly amplified by PCR into many billions of copies. PCR is a key technology in genome-based biological analysis, revolutionizing many life science fields such as medical diagnostics, food safety monitoring, and countermeasures against bioterrorism. Thus, many applications have been developed with the thermal cycling. For these PCR applications, one of the most important key factors is reduction in the data acquisition time. To reduce the acquisition time, it is necessary to decrease the temperature transition time between the high and low ends as much as possible. We have developed a novel rapid real-time PCR system based on rapid exchange of media maintained at different temperatures. This system consists of two thermal reservoirs and a reaction chamber for PCR observation. The temperature transition was achieved within 0.3 sec, and good thermal stability was achieved during thermal cycling with rapid exchange of circulating media. This system allows rigorous optimization of the temperatures required for each stage of the PCR processes. Resulting amplicons were confirmed by electrophoresis. Using the system, rapid DNA amplification was accomplished within 3.5 min, including initial heating and complete 50 PCR cycles. It clearly shows that the device could allow us faster temperature switching than the conventional conduction-based heating systems based on Peltier heating/cooling.

  6. Rapid S-nitrosylation of actin by NO-generating donors and in inflammatory pain model mice

    Directory of Open Access Journals (Sweden)

    Lu Jingshan

    2011-12-01

    Full Text Available Abstract Background S-Nitrosylation, the reversible post-translational modification of reactive cysteine residues in proteins, has emerged as an important mechanism by which NO acts as a signaling molecule. We recently demonstrated that actin is a major S-nitrosylated protein in the spinal cord and suggested that NO directly attenuates dopamine release from PC12 cells by causing the breakdown of F-actin. However, the occurrence of S-nitrosylation of actin remained unclarified in animal pain model. Kinetic analysis of S-nitrosylation of actin in the present study was made by using NO-generating donors. The biotin-switch assay and purification on streptavidin-agarose were employed for identification of S-nitrosylated actin. Results Dopamine release from PC12 cells was markedly attenuated by NOR1 (t1/2 = 1.8 min and much less by NOR3 (t1/2 = 30 min, but not by S-nitroso-glutathione, an endogenous NO donor. A membrane-permeable cGMP analogue could not substitute for NOR1 as a suppressor nor could inhibitors of soluble guanylate cyclase and cGMP-dependent protein kinase attenuate the suppression. S-Nitrosylated actin was detected by the biotin-switch assay at 5 min after the addition of NOR1. Consistent with the kinetic analysis, actin in the spinal cord was rapidly and maximally S-nitrosylated in an inflammatory pain model at 5 min after the injection of 2% formalin into the hind paws. In vivo patch-clamp recordings of the spinal dorsal horn, NOR3 showed an inhibitory action on inhibitory synaptic transmission in interneurons of the substantia gelatinosa. Conclusions The present study demonstrates that rapid S-nitrosylation of actin occurred in vitro in the presence of exogenous NO-generating donors and in vivo in inflammatory pain model mice. Our data suggest that, in addition to the well-known cGMP-dependent protein kinase pathway, S-nitrosylation is involved in pain transmission via disinhibition of inhibitory neurons.

  7. A generation-time effect on the rate of molecular evolution in bacteria.

    Science.gov (United States)

    Weller, Cory; Wu, Martin

    2015-03-01

    Molecular evolutionary rate varies significantly among species and a strict global molecular clock has been rejected across the tree of life. Generation time is one primary life-history trait that influences the molecular evolutionary rate. Theory predicts that organisms with shorter generation times evolve faster because of the accumulation of more DNA replication errors per unit time. Although the generation-time effect has been demonstrated consistently in plants and animals, the evidence of its existence in bacteria is lacking. The bacterial phylum Firmicutes offers an excellent system for testing generation-time effect because some of its members can enter a dormant, nonreproductive endospore state in response to harsh environmental conditions. It follows that spore-forming bacteria would--with their longer generation times--evolve more slowly than their nonspore-forming relatives. It is therefore surprising that a previous study found no generation-time effect in Firmicutes. Using a phylogenetic comparative approach and leveraging on a large number of Firmicutes genomes, we found sporulation significantly reduces the genome-wide spontaneous DNA mutation rate and protein evolutionary rate. Contrary to the previous study, our results provide strong evidence that the evolutionary rates of bacteria, like those of plants and animals, are influenced by generation time. © 2015 The Author(s).

  8. THE FORMATION OF SECONDARY STELLAR GENERATIONS IN MASSIVE YOUNG STAR CLUSTERS FROM RAPIDLY COOLING SHOCKED STELLAR WINDS

    Energy Technology Data Exchange (ETDEWEB)

    Wünsch, R.; Palouš, J.; Ehlerová, S. [Astronomical Institute, Academy of Sciences of the Czech Republic, Boční II 1401, 141 31 Prague (Czech Republic); Tenorio-Tagle, G. [Instituto Nacional de Astrofísica Optica y Electrónica, AP 51, 72000 Puebla, México (Mexico)

    2017-01-20

    We study a model of rapidly cooling shocked stellar winds in young massive clusters and estimate the circumstances under which secondary star formation, out of the reinserted winds from a first stellar generation (1G), is possible. We have used two implementations of the model: a highly idealized, computationally inexpensive, spherically symmetric semi-analytic model, and a complex, three-dimensional radiation-hydrodynamic, simulation; they are in a good mutual agreement. The results confirm our previous findings that, in a cluster with 1G mass 10{sup 7} M {sub ⊙} and half-mass–radius 2.38 pc, the shocked stellar winds become thermally unstable, collapse into dense gaseous structures that partially accumulate inside the cluster, self-shield against ionizing stellar radiation, and form the second generation (2G) of stars. We have used the semi-analytic model to explore a subset of the parameter space covering a wide range of the observationally poorly constrained parameters: the heating efficiency, η {sub he}, and the mass loading, η {sub ml}. The results show that the fraction of the 1G stellar winds accumulating inside the cluster can be larger than 50% if η {sub he} ≲ 10%, which is suggested by the observations. Furthermore, for low η {sub he}, the model provides a self-consistent mechanism predicting 2G stars forming only in the central zones of the cluster. Finally, we have calculated the accumulated warm gas emission in the H30 α recombination line, analyzed its velocity profile, and estimated its intensity for super star clusters in interacting galaxies NGC4038/9 (Antennae) showing that the warm gas should be detectable with ALMA.

  9. Rapid Microsatellite Marker Development Using Next Generation Pyrosequencing to Inform Invasive Burmese Python—Python molurus bivittatus—Management

    Directory of Open Access Journals (Sweden)

    Kristen M. Hart

    2013-02-01

    Full Text Available Invasive species represent an increasing threat to native ecosystems, harming indigenous taxa through predation, habitat modification, cross-species hybridization and alteration of ecosystem processes. Additionally, high economic costs are associated with environmental damage, restoration and control measures. The Burmese python, Python molurus bivittatus, is one of the most notable invasive species in the US, due to the threat it poses to imperiled species and the Greater Everglades ecosystem. To address population structure and relatedness, next generation sequencing was used to rapidly produce species-specific microsatellite loci. The Roche 454 GS-FLX Titanium platform provided 6616 di-, tri- and tetra-nucleotide repeats in 117,516 sequences. Using stringent criteria, 24 of 26 selected tri- and tetra-nucleotide loci were polymerase chain reaction (PCR amplified and 18 were polymorphic. An additional six cross-species loci were amplified, and the resulting 24 loci were incorporated into eight PCR multiplexes. Multi-locus genotypes yielded an average of 61% (39%–77% heterozygosity and 3.7 (2–6 alleles per locus. Population-level studies using the developed microsatellites will track the invasion front and monitor population-suppression dynamics. Additionally, cross-species amplification was detected in the invasive Ball, P. regius, and Northern African python, P. sebae. These markers can be used to address the hybridization potential of Burmese pythons and the larger, more aggressive P. sebae.

  10. Rapid microsatellite marker development using next generation pyrosequencing to inform invasive Burmese python -- Python molurus bivittatus -- management

    Science.gov (United States)

    Hunter, Margaret E.; Hart, Kristen M.

    2013-01-01

    Invasive species represent an increasing threat to native ecosystems, harming indigenous taxa through predation, habitat modification, cross-species hybridization and alteration of ecosystem processes. Additionally, high economic costs are associated with environmental damage, restoration and control measures. The Burmese python, Python molurus bivittatus, is one of the most notable invasive species in the US, due to the threat it poses to imperiled species and the Greater Everglades ecosystem. To address population structure and relatedness, next generation sequencing was used to rapidly produce species-specific microsatellite loci. The Roche 454 GS-FLX Titanium platform provided 6616 di-, tri- and tetra-nucleotide repeats in 117,516 sequences. Using stringent criteria, 24 of 26 selected tri- and tetra-nucleotide loci were polymerase chain reaction (PCR) amplified and 18 were polymorphic. An additional six cross-species loci were amplified, and the resulting 24 loci were incorporated into eight PCR multiplexes. Multi-locus genotypes yielded an average of 61% (39%–77%) heterozygosity and 3.7 (2–6) alleles per locus. Population-level studies using the developed microsatellites will track the invasion front and monitor population-suppression dynamics. Additionally, cross-species amplification was detected in the invasive Ball, P. regius, and Northern African python, P. sebae. These markers can be used to address the hybridization potential of Burmese pythons and the larger, more aggressive P. sebae.

  11. Rapid degradation of an active formylglycine generating enzyme variant leads to a late infantile severe form of multiple sulfatase deficiency.

    Science.gov (United States)

    Schlotawa, Lars; Radhakrishnan, Karthikeyan; Baumgartner, Matthias; Schmid, Regula; Schmidt, Bernhard; Dierks, Thomas; Gärtner, Jutta

    2013-09-01

    Multiple sulfatase deficiency (MSD) is a rare inborn error of metabolism affecting posttranslational activation of sulfatases by the formylglycine generating enzyme (FGE). Due to mutations in the encoding SUMF1 gene, FGE's catalytic capacity is impaired resulting in reduced cellular sulfatase activities. Both, FGE protein stability and residual activity determine disease severity and have previously been correlated with the clinical MSD phenotype. Here, we report a patient with a late infantile severe course of disease. The patient is compound heterozygous for two so far undescribed SUMF1 mutations, c.156delC (p.C52fsX57) and c.390A>T (p.E130D). In patient fibroblasts, mRNA of the frameshift allele is undetectable. In contrast, the allele encoding FGE-E130D is expressed. FGE-E130D correctly localizes to the endoplasmic reticulum and has a very high residual molecular activity in vitro (55% of wildtype FGE); however, it is rapidly degraded. Thus, despite substantial residual enzyme activity, protein instability determines disease severity, which highlights that potential MSD treatment approaches should target protein folding and stabilization mechanisms.

  12. Possibility for rapid generation of high-pressure phases in single-crystal silicon by fast nanoindentation

    Science.gov (United States)

    Huang, Hu; Yan, Jiwang

    2015-11-01

    High-pressure phases of silicon such as Si-XII/Si-III exhibit attractive optical, electrical and chemical properties, but until now, it has been technologically impossible to produce a significant quantity of Si-XII or Si-III. In this study, to explore the possibility of generating high-pressure silicon phases efficiently, comparative nanoindentation experiments were conducted. Effects of the loading rate, unloading rate and maximum indentation load were investigated, and key factors affecting the high-pressure phase formation were identified. A new nanoindentation protocol is proposed that introduces an intermediate holding stage into the unloading process. The resulting end phases under the indent were detected by a laser micro-Raman spectrometer and compared with those formed in conventional nanoindentation. The results indicate that high-pressure phases Si-XII and Si-III were successfully formed during the intermediate holding stage even with a very high loading/unloading rate. This finding demonstrates the possibility of rapid production of high-pressure phases of silicon through fast mechanical loading and unloading.

  13. Rapid Screening of Multiclass Syrup Adulterants in Honey by Ultrahigh-Performance Liquid Chromatography/Quadrupole Time of Flight Mass Spectrometry.

    Science.gov (United States)

    Du, Bing; Wu, Liming; Xue, Xiaofeng; Chen, Lanzhen; Li, Yi; Zhao, Jing; Cao, Wei

    2015-07-29

    Honey adulteration with sugar syrups is a widespread problem. Several types of syrups have been used in honey adulteration, and there is no available method that can simultaneously detect all of these adulterants. In this study, we generated a small-scale database containing the specific chromatographic and mass spectrometry information on sugar syrup markers and developed a simple, rapid, and effective ultrahigh-performance liquid chromatography/quadrupole time-of-flight mass spectrometry (UHPLC/Q-TOF-MS) method for the detection of adulterated honey. Corn syrup, high-fructose corn syrup, inverted syrup, and rice syrup were used as honey adulterants; polysaccharides, difructose anhydrides, and 2-acetylfuran-3-glucopyranoside were used as detection markers. The presence of 10% sugar syrup in honey could be easily detected in <30 min using the developed method. The results revealed that UHPLC/Q-TOF-MS was simple and rapid.

  14. Direct Quantification of Campylobacter jejuni in Chicken Fecal Samples Using Real-Time PCR: Evaluation of Six Rapid DNA Extraction Methods

    DEFF Research Database (Denmark)

    Garcia Clavero, Ana Belén; Kamara, Judy N.; Vigre, Håkan

    2013-01-01

    for their effectiveness for the direct quantification (without enrichment) of Campylobacter jejuni in chicken fecal samples using real-time PCR. The presence of inhibitory substances in chicken fecal samples may reduce or even completely impede the PCR amplification process making quantification very difficult. Six rapid......Direct and accurate quantification of Campylobacter in poultry is crucial for the assessment of public health risks and the evaluation of the effectiveness of control measures against Campylobacter in poultry. The aim of this study was to assess several rapid DNA extraction methods...... of this study, the Easy-DNA (Invitrogen) method generated lower Ct values, the best amplification efficiency (AE = 93.2 %) and good precision (R squared = 0.996). The method NucleoSpin® Tissue was able to detect samples spiked with the lowest Campylobacter concentration level (10 CFU/ml) but the amplification...

  15. Activation of phasic pontine-wave generator prevents rapid eye movement sleep deprivation-induced learning impairment in the rat: a mechanism for sleep-dependent plasticity.

    Science.gov (United States)

    Datta, Subimal; Mavanji, Vijayakumar; Ulloor, Jagadish; Patterson, Elissa H

    2004-02-11

    Animal and human studies of sleep and learning have demonstrated that training on various tasks increases subsequent rapid eye movement (REM) sleep and phasic pontine-wave (P-wave) activity, followed by improvement in performance on the learned task. It is well documented that REM sleep deprivation after learning trials blocks the expected improvement in performance on subsequent retesting. Our aim was to test whether experimentally induced P-wave generator activation could eliminate the learning impairment produced by post-training REM sleep deprivation. Rats were trained on a two-way active avoidance-learning task. Immediately thereafter, two groups of those rats received a control vehicle (100 nl saline) microinjection and one group received a carbachol (50 ng in 100 nl saline) microinjection into the P-wave generator. The carbachol-injected group and one of the two control saline microinjected groups were selectively deprived of REM sleep during a 6 hr polygraphic recording session. All rats were then tested on the avoidance-learning task. The rats that received both the control saline injection and REM sleep deprivation showed learning deficits compared with the control saline-injected rats that were allowed to sleep normally. In contrast, the rats that received the carbachol microinjection and REM sleep deprivation demonstrated normal learning. These results demonstrate, for the first time, that carbachol-induced activation of the P-wave generator prevents the memory-impairing effects of post-training REM sleep deprivation. This evidence supports our hypothesis that the activation of the P-wave generator during REM sleep deprivation enhances a physiological process of memory, which occurs naturally during post-training REM sleep.

  16. Use of erroneous wolf generation time in assessments of domestic dog and human evolution

    Science.gov (United States)

    Mech, L. David; Barber-meyer, Shannon

    2017-01-01

    Scientific interest in dog domestication and parallel evolution of dogs and humans (Wang et al. 2013) has increased recently (Freedman et al. 2014, Larson and Bradley 2014, Franz et al. 2016,), and various important conclusions have been drawn based on how long ago the calculations show dogs were domesticated from ancestral wolves (Canis lupus). Calculation of this duration is based on “the most commonly assumed mutation rate of 1 x 10-8 per generation and a 3-year gray wolf generation time . . .” (Skoglund et al. 2015:3). It is unclear on what information the assumed generation time is based, but Ersmark et al. (2016) seemed to have based their assumption on a single wolf (Mech and Seal 1987). The importance of assuring that such assumptions are valid is obvious. Recently, two independent studies employing three large data sets and three methods from two widely separated areas have found that wolf generation time is 4.2-4.7 years. The first study, based on 200 wolves in Yellowstone National Park used age-specific birth and death rates to calculate a generation time of 4.16 years (vonHoldt et al. 2008). The second, using estimated first-breeding times of 86 female wolves in northeastern Minnesota found a generation time of 4.3 years and using uterine examination of 159 female wolves from throughout Minnesota yielded a generation time of 4.7 years (Mech et al. 2016). We suggest that previous studies using a 3-year generation time recalculate their figures and adjust their conclusions based on these generation times and publish revised results.

  17. Effects of Rapid Vaccine Injection Without Aspiration and Applying Manual Pressure Before Vaccination on Pain and Crying Time in Infants.

    Science.gov (United States)

    Göl, İlknur; Altuğ Özsoy, Süheyla

    2017-04-01

    To compare effects of rapid injection without aspiration and 10-second manual pressure before injection on pain severity and crying time in 4- to 6-month-old infants given the vaccine DTaP/IPV/Hib. This is a randomized double-blind controlled study. The study population included all the infants presenting for DTaP/IPV/Hib to two family health centers between April and August in 2015. The study sample included 128 infants based on confidence interval of 95% and statistical power of 80%. The sample was divided into four groups: manual pressure, rapid injection without aspiration, manual pressure combined with rapid injection without aspiration, and control groups. There were 32 infants in each group. Gender was adjusted in all groups. Stratified and block randomizations were used. Pain severity scores and crying time during and after the injections were significantly lower in the three intervention groups than in the control group (p = .001). The lowest increase in the mean heart rate during and after the injections occurred in the rapid injection without aspiration group (p injections was significantly lower in this group than in the other groups (p injection without aspiration group had low oxygen saturation levels starting before the injections. In fact, mean oxygen saturations did not change across time. This suggests that lower oxygen saturation in the rapid injection without aspiration group cannot be due to vaccines or the techniques used. Manual pressure and rapid injection without aspiration are effective and useful in relief of pain and reduction of crying time due to vaccine injections in 4- to 6-month-old infants. © 2017 Sigma Theta Tau International.

  18. Rapid Forgetting Results from Competition over Time between Items in Visual Working Memory

    Science.gov (United States)

    Pertzov, Yoni; Manohar, Sanjay; Husain, Masud

    2017-01-01

    Working memory is now established as a fundamental cognitive process across a range of species. Loss of information held in working memory has the potential to disrupt many aspects of cognitive function. However, despite its significance, the mechanisms underlying rapid forgetting remain unclear, with intense recent debate as to whether it is…

  19. Timing is essential for rapid effects of corticosterone on synaptic potentiation in the mouse hippocampus.

    NARCIS (Netherlands)

    Wiegert, O.; Joëls, M.; Krugers, H.

    2006-01-01

    Stress facilitates memory formation, but only when the stressor is closely linked to the learning context. These effects are, at least in part, mediated by corticosteroid hormones. Here we demonstrate that corticosterone rapidly facilitates synaptic potentiation in the mouse hippocampal CA1 area

  20. Rapid detection of human parechoviruses in clinical samples by real-time PCR

    NARCIS (Netherlands)

    Benschop, Kimberley; Molenkamp, Richard; van der Ham, Alwin; Wolthers, Katja; Beld, Marcel

    2008-01-01

    BACKGROUND: Human parechoviruses (HPeVs) have been associated with severe conditions such as neonatal sepsis and meningitis in young children. Rapid identification of an infectious agent in such serious conditions in these patients is essential for adequate decision making regarding treatment and

  1. A novel photoinduced electron transfer (PET) primer technique for rapid real-time PCR detection of Cryptosporidium spp

    Energy Technology Data Exchange (ETDEWEB)

    Jothikumar, N., E-mail: jin2@cdc.gov; Hill, Vincent R.

    2013-06-28

    Highlights: •Uses a single-labeled fluorescent primer for real-time PCR. •The detection sensitivity of PET PCR was comparable to TaqMan PCR. •Melt curve analysis can be performed to confirm target amplicon production. •Conventional PCR primers can be converted to PET PCR primers. -- Abstract: We report the development of a fluorescently labeled oligonucleotide primer that can be used to monitor real-time PCR. The primer has two parts, the 3′-end of the primer is complimentary to the target and a universal 17-mer stem loop at the 5′-end forms a hairpin structure. A fluorescent dye is attached to 5′-end of either the forward or reverse primer. The presence of guanosine residues at the first and second position of the 3′ dangling end effectively quenches the fluorescence due to the photo electron transfer (PET) mechanism. During the synthesis of nucleic acid, the hairpin structure is linearized and the fluorescence of the incorporated primer increases several-fold due to release of the fluorescently labeled tail and the absence of guanosine quenching. As amplicons are synthesized during nucleic acid amplification, the fluorescence increase in the reaction mixture can be measured with commercially available real-time PCR instruments. In addition, a melting procedure can be performed to denature the double-stranded amplicons, thereby generating fluorescence peaks that can differentiate primer dimers and other non-specific amplicons if formed during the reaction. We demonstrated the application of PET-PCR for the rapid detection and quantification of Cryptosporidium parvum DNA. Comparison with a previously published TaqMan® assay demonstrated that the two real-time PCR assays exhibited similar sensitivity for a dynamic range of detection of 6000–0.6 oocysts per reaction. PET PCR primers are simple to design and less-expensive than dual-labeled probe PCR methods, and should be of interest for use by laboratories operating in resource

  2. Rapid detection of Panton-Valentine leukocidin from clinical isolates of Staphylococcus aureus strains by real-time PCR

    NARCIS (Netherlands)

    Deurenberg, Ruud H; Vink, Cornelis; Driessen, Christel; Bes, Michèle; London, Nancy; Etienne, Jerome; Stobberingh, Ellen E

    2004-01-01

    To allow rapid identification of Panton-Valentine leukocidin (PVL)-producing Staphylococcus aureus strains, a real-time PCR assay for detection of PVL was developed. This assay is convenient, since it can be applied directly on bacterial suspensions and does not require previous DNA purification.

  3. Rapid 16S rRNA next-generation sequencing of polymicrobial clinical samples for diagnosis of complex bacterial infections.

    Directory of Open Access Journals (Sweden)

    Stephen J Salipante

    Full Text Available Classifying individual bacterial species comprising complex, polymicrobial patient specimens remains a challenge for culture-based and molecular microbiology techniques in common clinical use. We therefore adapted practices from metagenomics research to rapidly catalog the bacterial composition of clinical specimens directly from patients, without need for prior culture. We have combined a semiconductor deep sequencing protocol that produces reads spanning 16S ribosomal RNA gene variable regions 1 and 2 (∼360 bp with a de-noising pipeline that significantly improves the fraction of error-free sequences. The resulting sequences can be used to perform accurate genus- or species-level taxonomic assignment. We explore the microbial composition of challenging, heterogeneous clinical specimens by deep sequencing, culture-based strain typing, and Sanger sequencing of bulk PCR product. We report that deep sequencing can catalog bacterial species in mixed specimens from which usable data cannot be obtained by conventional clinical methods. Deep sequencing a collection of sputum samples from cystic fibrosis (CF patients reveals well-described CF pathogens in specimens where they were not detected by standard clinical culture methods, especially for low-prevalence or fastidious bacteria. We also found that sputa submitted for CF diagnostic workup can be divided into a limited number of groups based on the phylogenetic composition of the airway microbiota, suggesting that metagenomic profiling may prove useful as a clinical diagnostic strategy in the future. The described method is sufficiently rapid (theoretically compatible with same-day turnaround times and inexpensive for routine clinical use.

  4. Using Data Known at the Time of Admission to Predict First-Generation College Student Success

    Science.gov (United States)

    D'Amico, Mark M.; Dika, Sandra L.

    2013-01-01

    The authors use data known at the time of initial enrollment to explore the first-year GPAs and second-year retention of first-generation (FGCS) and non-first-generation (non-FGCS) college students. The setting was a diverse, public, urban doctoral institution (approximately 50% FGCS and 30% minority). Multiple linear and logistic regressions run…

  5. System and Component Software Specification, Run-time Verification and Automatic Test Generation Project

    Data.gov (United States)

    National Aeronautics and Space Administration — The following background technology is described in Part 5: Run-time Verification (RV), White Box Automatic Test Generation (WBATG). Part 5 also describes how WBATG...

  6. Rapid Preclinical Detection of Sheeppox Virus by a Real-Time PCR Assay▿

    Science.gov (United States)

    Balinsky, C. A.; Delhon, G.; Smoliga, G.; Prarat, M.; French, R. A.; Geary, S. J.; Rock, D. L.; Rodriguez, L. L.

    2008-01-01

    Sheeppox virus (SPPV) is a member of the Capripoxvirus (CaPV) genus of the Poxviridae family. Members of this genus, which also include goatpox and lumpy skin disease viruses, cause economically significant disease in sheep, goats, and cattle. A rapid diagnostic assay for CaPV would be useful for disease surveillance as well as for detection of CaPV in clinical samples and for outbreak management. Here we describe a fluorogenic probe hydrolysis (TaqMan) PCR assay designed for rapid detection of CaPV and tested on sheep experimentally infected with a virulent strain of SPPV. This assay can detect SPPV in buffy coats, nasal swabs, oral swabs, scabs, and skin lesions as well as in lung and lymph nodes collected at necropsy. This single-tube diagnostic assay can be performed in 2 h or less and can detect viral DNA in preclinical, clinical, and postmortem samples. PMID:18032617

  7. Rapid preclinical detection of sheeppox virus by a real-time PCR assay.

    Science.gov (United States)

    Balinsky, C A; Delhon, G; Smoliga, G; Prarat, M; French, R A; Geary, S J; Rock, D L; Rodriguez, L L

    2008-02-01

    Sheeppox virus (SPPV) is a member of the Capripoxvirus (CaPV) genus of the Poxviridae family. Members of this genus, which also include goatpox and lumpy skin disease viruses, cause economically significant disease in sheep, goats, and cattle. A rapid diagnostic assay for CaPV would be useful for disease surveillance as well as for detection of CaPV in clinical samples and for outbreak management. Here we describe a fluorogenic probe hydrolysis (TaqMan) PCR assay designed for rapid detection of CaPV and tested on sheep experimentally infected with a virulent strain of SPPV. This assay can detect SPPV in buffy coats, nasal swabs, oral swabs, scabs, and skin lesions as well as in lung and lymph nodes collected at necropsy. This single-tube diagnostic assay can be performed in 2 h or less and can detect viral DNA in preclinical, clinical, and postmortem samples.

  8. Effects of oncoming target velocities on rapid force production and accuracy of force production intensity and timing.

    Science.gov (United States)

    Ohta, Yoichi

    2017-12-01

    The present study aimed to clarify the effects of oncoming target velocities on the ability of rapid force production and accuracy and variability of simultaneous control of both force production intensity and timing. Twenty male participants (age: 21.0 ± 1.4 years) performed rapid gripping with a handgrip dynamometer to coincide with the arrival of an oncoming target by using a horizontal electronic trackway. The oncoming target velocities were 4, 8, and 12 m · s -1 , which were randomly produced. The grip force required was 30% of the maximal voluntary contraction. Although the peak force (Pf) and rate of force development (RFD) increased with increasing target velocity, the value of the RFD to Pf ratio was constant across the 3 target velocities. The accuracy of both force production intensity and timing decreased at higher target velocities. Moreover, the intrapersonal variability in temporal parameters was lower in the fast target velocity condition, but constant variability in 3 target velocities was observed in force intensity parameters. These results suggest that oncoming target velocity does not intrinsically affect the ability for rapid force production. However, the oncoming target velocity affects accuracy and variability of force production intensity and timing during rapid force production.

  9. Mobile charge generation dynamics in P3HT: PCBM observed by time-resolved terahertz spectroscopy

    DEFF Research Database (Denmark)

    Cooke, D. G.; Krebs, Frederik C; Jepsen, Peter Uhd

    2012-01-01

    Ultra-broadband time-resolved terahertz spectroscopy is used to examine the sub-ps conductivity dynamics of a conjugated polymer bulk heterojunction film P3HT:PCBM. We directly observe mobile charge generation dynamics on a sub-100 fs time scale.......Ultra-broadband time-resolved terahertz spectroscopy is used to examine the sub-ps conductivity dynamics of a conjugated polymer bulk heterojunction film P3HT:PCBM. We directly observe mobile charge generation dynamics on a sub-100 fs time scale....

  10. Rapid sympatric ecological differentiation of crater lake cichlid fishes within historic times

    Directory of Open Access Journals (Sweden)

    Harrod Chris

    2010-05-01

    Full Text Available Abstract Background After a volcano erupts, a lake may form in the cooled crater and become an isolated aquatic ecosystem. This makes fishes in crater lakes informative for understanding sympatric evolution and ecological diversification in barren environments. From a geological and limnological perspective, such research offers insight about the process of crater lake ecosystem establishment and speciation. In the present study we use genetic and coalescence approaches to infer the colonization history of Midas cichlid fishes (Amphilophus cf. citrinellus that inhabit a very young crater lake in Nicaragua-the ca. 1800 year-old Lake Apoyeque. This lake holds two sympatric, endemic morphs of Midas cichlid: one with large, hypertrophied lips (~20% of the total population and another with thin lips. Here we test the associated ecological, morphological and genetic diversification of these two morphs and their potential to represent incipient speciation. Results Gene coalescence analyses [11 microsatellite loci and mitochondrial DNA (mtDNA sequences] suggest that crater lake Apoyeque was colonized in a single event from the large neighbouring great lake Managua only about 100 years ago. This founding in historic times is also reflected in the extremely low nuclear and mitochondrial genetic diversity in Apoyeque. We found that sympatric adult thin- and thick-lipped fishes occupy distinct ecological trophic niches. Diet, body shape, head width, pharyngeal jaw size and shape and stable isotope values all differ significantly between the two lip-morphs. The eco-morphological features pharyngeal jaw shape, body shape, stomach contents and stable isotopes (δ15N all show a bimodal distribution of traits, which is compatible with the expectations of an initial stage of ecological speciation under disruptive selection. Genetic differentiation between the thin- and thick-lipped population is weak at mtDNA sequence (FST = 0.018 and absent at nuclear

  11. Rapid detection of undesired cosmetic ingredients by matrix-assisted laser desorption ionization time-of-flight mass spectrometry.

    Science.gov (United States)

    Ouyang, Jie; An, Dongli; Chen, Tengteng; Lin, Zhiwei

    2017-10-01

    In recent years, cosmetic industry profits soared due to the widespread use of cosmetics, which resulted in illicit manufacturers and products of poor quality. Therefore, the rapid and accurate detection of the composition of cosmetics has become crucial. At present, numerous methods, such as gas chromatography and liquid chromatography-mass spectrometry, were available for the analysis of cosmetic ingredients. However, these methods present several limitations, such as failure to perform comprehensive and rapid analysis of the samples. Compared with other techniques, matrix-assisted laser desorption ionization time-of-flight mass spectrometry offered the advantages of wide detection range, fast speed and high accuracy. In this article, we briefly summarized how to select a suitable matrix and adjust the appropriate laser energy. We also discussed the rapid identification of undesired ingredients, focusing on antibiotics and hormones in cosmetics.

  12. Next-Generation Real-Time Geodetic Station Sensor Web for Natural Hazards Research and Applications

    Science.gov (United States)

    Bock, Y.; Clayton, R. W.; Fang, P.; Geng, J.; Gutman, S. I.; Kedar, S.; Laber, J. L.; Moore, A. W.; Owen, S. E.; Small, I.; Squibb, M. B.; Webb, F.; Yu, E.

    2012-12-01

    We report on a NASA AIST project focused on better forecasting, assessing, and mitigating natural hazards, including earthquakes, tsunamis, and extreme storms and flooding through development and implementation of a modular technology for the next-generation in-situ geodetic station, and a Geodetic Sensor Web to support the flow of information from multiple stations to scientists, mission planners, decision makers, and first responders. Meaningful warnings save lives when issued within 1-2 minutes for destructive earthquakes, several tens of minutes for tsunamis, and up to several hours for extreme storms and flooding, and can be provided by on-site fusion of multiple data types and generation of higher-order data products: GPS and accelerometer measurements to estimate point displacements, and GPS and meteorological measurements to estimate moisture variability in the free atmosphere. By operating semi-autonomously, each station can provide low-latency, high-fidelity and compact data products within the constraints of narrow communications bandwidth that often accompanies natural disasters. The project encompasses the following tasks, including hardware and software components: (1) Development of a power-efficient, low-cost, plug-in Geodetic Module for fusion of data from in situ sensors including GPS, a MEMS accelerometer package, and a MEMS meteorological sensor package, for deployment at 26 existing continuous GPS stations in southern California. The low-cost modular design is scalable to the many existing continuous GPS stations worldwide. (2) Estimation of new on-the-fly data products with 1 mm precision and accuracy, including three-dimensional broadband displacements and precipitable water, by new software embedded in the Geodetic Module's processor, rather than at a central processing facility. (3) Development of a Geodetic Sensor Web to allow the semi-autonomous sensors to transmit and receive information in real time by means of redundant sensor proxy

  13. High-speed quantum-random number generation by continuous measurement of arrival time of photons.

    Science.gov (United States)

    Yan, Qiurong; Zhao, Baosheng; Hua, Zhang; Liao, Qinghong; Yang, Hao

    2015-07-01

    We demonstrate a novel high speed and multi-bit optical quantum random number generator by continuously measuring arrival time of photons with a common starting point. To obtain the unbiased and post-processing free random bits, the measured photon arrival time is converted into the sum of integral multiple of a fixed period and a phase time. Theoretical and experimental results show that the phase time is an independent and uniform random variable. A random bit extraction method by encoding the phase time is proposed. An experimental setup has been built and the unbiased random bit generation rate could reach 128 Mb/s, with random bit generation efficiency of 8 bits per detected photon. The random numbers passed all tests in the statistical test suite.

  14. Note: Fully integrated 3.2 Gbps quantum random number generator with real-time extraction

    Energy Technology Data Exchange (ETDEWEB)

    Zhang, Xiao-Guang; Nie, You-Qi; Liang, Hao; Zhang, Jun, E-mail: zhangjun@ustc.edu.cn; Pan, Jian-Wei [Hefei National Laboratory for Physical Sciences at the Microscale and Department of Modern Physics, University of Science and Technology of China, Hefei, Anhui 230026 (China); CAS Center for Excellence and Synergetic Innovation Center in Quantum Information and Quantum Physics, University of Science and Technology of China, Hefei, Anhui 230026 (China); Zhou, Hongyi; Ma, Xiongfeng [Center for Quantum Information, Institute for Interdisciplinary Information Sciences, Tsinghua University, Beijing 100084 (China)

    2016-07-15

    We present a real-time and fully integrated quantum random number generator (QRNG) by measuring laser phase fluctuations. The QRNG scheme based on laser phase fluctuations is featured for its capability of generating ultra-high-speed random numbers. However, the speed bottleneck of a practical QRNG lies on the limited speed of randomness extraction. To close the gap between the fast randomness generation and the slow post-processing, we propose a pipeline extraction algorithm based on Toeplitz matrix hashing and implement it in a high-speed field-programmable gate array. Further, all the QRNG components are integrated into a module, including a compact and actively stabilized interferometer, high-speed data acquisition, and real-time data post-processing and transmission. The final generation rate of the QRNG module with real-time extraction can reach 3.2 Gbps.

  15. Influence of the pressure holding time on strain generation in fuel injection lines

    Energy Technology Data Exchange (ETDEWEB)

    Basara, Adis, E-mail: adis.basara@evonik.com [Process Technology and Engineering, Evonik Degussa GmbH, Rodenbacher Chaussee 4, 63457 Hanau-Wolfgang (Germany); Alt, Nicolas; Schluecker, Eberhard [Institute for Process Technology and Machinery, Friedrich-Alexander University Erlangen-Nuremberg, Cauerstrasse 4, 91058 Erlangen (Germany)

    2011-04-15

    An influence of the pressure holding time on residual strain generation during the autofrettage process was studied experimentally for the first time in the present work. It is the state of the art that fuel injection lines are held at the autofrettage pressure for only a few seconds in an industrial production. In doing so, it is assumed that a desirable residual stress-strain pattern is generated. However, the results of the experimental investigations outlined in this work indicated that completion of the plastic deformation caused by the autofrettage process and generation of the desirable stress-strain pattern require a much longer period. As shown, a third-order polynomial equation best described the interdependence between the time required for the completion of the process, the corresponding autofrettage pressure and the generated strain state. The method presented can be used as a tool for the determination of the optimal autofrettage process parameters in industrial production of fuel injection lines.

  16. Diversification of Angraecum (Orchidaceae, Vandeae in Madagascar: Revised Phylogeny Reveals Species Accumulation through Time Rather than Rapid Radiation.

    Directory of Open Access Journals (Sweden)

    Herinandrianina N Andriananjamanantsoa

    Full Text Available Angraecum is the largest genus of subtribe Angraecinae (Orchidaceae with about 221 species. Madagascar is the center of the diversity for the genus with ca. 142 species, of which 90% are endemic. The great morphological diversity associated with species diversification in the genus on the island of Madagascar offers valuable insights for macroevolutionary studies. Phylogenies of the Angraecinae have been published but a lack of taxon and character sampling and their limited taxonomic resolution limit their uses for macroevolutionary studies. We present a new phylogeny of Angraecum based on chloroplast sequence data (matk, rps16, trnL, nuclear ribosomal (ITS2 and 39 morphological characters from 194 Angraecinae species of which 69 were newly sampled. Using this phylogeny, we evaluated the monophyly of the sections of Angraecum as defined by Garay and investigated the patterns of species diversification within the genus. We used maximum parsimony and bayesian analyses to generate phylogenetic trees and dated divergence times of the phylogeny. We analyzed diversification patterns within Angraecinae and Angraecum with an emphasis on four floral characters (flower color, flower size, labellum position, spur length using macroevolutionary models to evaluate which characters or character states are associated with speciation rates, and inferred ancestral states of these characters. The phylogenetic analysis showed the polyphyly of Angraecum sensu lato and of all Angraecum sections except sect. Hadrangis, and that morphology can be consistent with the phylogeny. It appeared that the characters (flower color, flower size, spur length formerly used by many authors to delineate Angraecum groups were insufficient to do so. However, the newly described character, position of the labellum (uppermost and lowermost, was the main character delimiting clades within a monophyletic Angraecum sensu stricto. This character also appeared to be associated with

  17. Modelling the variability of lag times and the first generation times of single cells of E. coli.

    Science.gov (United States)

    Métris, A; Le Marc, Y; Elfwing, A; Ballagi, A; Baranyi, J

    2005-04-15

    A mathematical model combining deterministic and stochastic elements describes the growth and division of single cells. Its deterministic part is based on the model of Baranyi and Roberts [International Journal of Food Microbiology 23 (1994) 277] modelling the gradual adjustment of the cells to a new environment. The stochastic part assumes a random threshold size for the division of a single cell, which accounts for the variability of the individual generation times. Experimental results of the first division times of thousands of single cells using a microscopic flow system could be reproduced with this model, and it has the potential to be used to study the effects of different stress and environmental factors on the distribution of the lag and generation times of individual cells.

  18. Rapid detection method for Bacillus anthracis using a combination of multiplexed real-time PCR and pyrosequencing and its application for food biodefense.

    Science.gov (United States)

    Janzen, Timothy W; Thomas, Matthew C; Goji, Noriko; Shields, Michael J; Hahn, Kristen R; Amoako, Kingsley K

    2015-02-01

    Bacillus anthracis, the causative agent of anthrax, has the capacity to form highly resilient spores as part of its life cycle. The potential for the dissemination of these spores using food as a vehicle is a huge public health concern and, hence, requires the development of a foodborne bioterrorism response approach. In this work, we address a critical gap in food biodefense by presenting a novel, combined, sequential method involving the use of real-time PCR and pyrosequencing for the rapid, specific detection of B. anthracis spores in three food matrices: milk, apple juice, and bottled water. The food samples were experimentally inoculated with 40 CFU ml(-1), and DNA was extracted from the spores and analyzed after immunomagnetic separation. Applying the combination of multiplex real-time PCR and pyrosequencing, we successfully detected the presence of targets on both of the virulence plasmids and the chromosome. The results showed that DNA amplicons generated from a five-target multiplexed real-time PCR detection using biotin-labeled primers can be used for single-plex pyrosequencing detection. The combined use of multiplexed real-time PCR and pyrosequencing is a novel, rapid detection method for B. anthracis from food and provides a tool for accurate, quantitative identification with potential biodefense applications.

  19. A hybrid procedure for MSW generation forecasting at multiple time scales in Xiamen City, China

    Energy Technology Data Exchange (ETDEWEB)

    Xu, Lilai, E-mail: llxu@iue.ac.cn [Key Lab of Urban Environment and Health, Institute of Urban Environment, Chinese Academy of Sciences, 1799 Jimei Road, Xiamen 361021 (China); Xiamen Key Lab of Urban Metabolism, Xiamen 361021 (China); Gao, Peiqing, E-mail: peiqing15@yahoo.com.cn [Xiamen City Appearance and Environmental Sanitation Management Office, 51 Hexiangxi Road, Xiamen 361004 (China); Cui, Shenghui, E-mail: shcui@iue.ac.cn [Key Lab of Urban Environment and Health, Institute of Urban Environment, Chinese Academy of Sciences, 1799 Jimei Road, Xiamen 361021 (China); Xiamen Key Lab of Urban Metabolism, Xiamen 361021 (China); Liu, Chun, E-mail: xmhwlc@yahoo.com.cn [Xiamen City Appearance and Environmental Sanitation Management Office, 51 Hexiangxi Road, Xiamen 361004 (China)

    2013-06-15

    Highlights: ► We propose a hybrid model that combines seasonal SARIMA model and grey system theory. ► The model is robust at multiple time scales with the anticipated accuracy. ► At month-scale, the SARIMA model shows good representation for monthly MSW generation. ► At medium-term time scale, grey relational analysis could yield the MSW generation. ► At long-term time scale, GM (1, 1) provides a basic scenario of MSW generation. - Abstract: Accurate forecasting of municipal solid waste (MSW) generation is crucial and fundamental for the planning, operation and optimization of any MSW management system. Comprehensive information on waste generation for month-scale, medium-term and long-term time scales is especially needed, considering the necessity of MSW management upgrade facing many developing countries. Several existing models are available but of little use in forecasting MSW generation at multiple time scales. The goal of this study is to propose a hybrid model that combines the seasonal autoregressive integrated moving average (SARIMA) model and grey system theory to forecast MSW generation at multiple time scales without needing to consider other variables such as demographics and socioeconomic factors. To demonstrate its applicability, a case study of Xiamen City, China was performed. Results show that the model is robust enough to fit and forecast seasonal and annual dynamics of MSW generation at month-scale, medium- and long-term time scales with the desired accuracy. In the month-scale, MSW generation in Xiamen City will peak at 132.2 thousand tonnes in July 2015 – 1.5 times the volume in July 2010. In the medium term, annual MSW generation will increase to 1518.1 thousand tonnes by 2015 at an average growth rate of 10%. In the long term, a large volume of MSW will be output annually and will increase to 2486.3 thousand tonnes by 2020 – 2.5 times the value for 2010. The hybrid model proposed in this paper can enable decision makers to

  20. A real-time loop-mediated isothermal amplification assay for rapid detection of Shigella species.

    Science.gov (United States)

    Liew, P S; Teh, C S J; Lau, Y L; Thong, K L

    2014-12-01

    Shigellosis is a foodborne illness caused by the genus Shigella and is an important global health issue. The development of effective techniques for rapid detection of this pathogen is essential for breaking the chain of transmission. Therefore, we have developed a novel loop-mediated isothermal amplification (LAMP) assay targeting the invasion plasmid antigen H (ipaH) gene to rapidly detect Shigella species. This assay could be performed in 90 min at an optimal temperature of 64ºC, with endpoint results visualized directly. Notably, the method was found to be more sensitive than conventional PCR. Indeed, the detection limit for the LAMP assay on pure bacterial cultures was 5.9 x 10(5) CFU/ml, while PCR displayed a limit of 5.9 x 10(7) CFU/ml. In spiked lettuce samples, the sensitivity of the LAMP assay was 3.6 x 10(4) CFU/g, whereas PCR was 3.6 x 10(5) CFU/g. Overall, the assay accurately identified 32 Shigella spp. with one enteroinvasive Escherichia coli displaying positive reaction while the remaining 32 non-Shigella strains tested were negative.

  1. Rapid screening of β-Globin gene mutations by Real-Time PCR in ...

    African Journals Online (AJOL)

    Introduction of the real time PCR has made a revolution in the time taken for the PCR reactions. We present a method for the diagnosis of the common mutations of the B-thalassemia in Egyptian children & families. The procedure depends on the real-time PCR using specific fluorescently labeled hybridization probes.

  2. Early Flood Detection for Rapid Humanitarian Response: Harnessing Near Real-Time Satellite and Twitter Signals

    NARCIS (Netherlands)

    Jongman, B.; Wagemaker, J.; Revilla Romero, B.; Coughlan de Perez, E.

    2015-01-01

    Humanitarian organizations have a crucial role in response and relief efforts after floods. The effectiveness of disaster response is contingent on accurate and timely information regarding the location, timing and impacts of the event. Here we show how two near-real-time data sources, satellite

  3. Impacts of Earth rotation parameters on GNSS ultra-rapid orbit prediction: Derivation and real-time correction

    Science.gov (United States)

    Wang, Qianxin; Hu, Chao; Xu, Tianhe; Chang, Guobin; Hernández Moraleda, Alberto

    2017-12-01

    Analysis centers (ACs) for global navigation satellite systems (GNSSs) cannot accurately obtain real-time Earth rotation parameters (ERPs). Thus, the prediction of ultra-rapid orbits in the international terrestrial reference system (ITRS) has to utilize the predicted ERPs issued by the International Earth Rotation and Reference Systems Service (IERS) or the International GNSS Service (IGS). In this study, the accuracy of ERPs predicted by IERS and IGS is analyzed. The error of the ERPs predicted for one day can reach 0.15 mas and 0.053 ms in polar motion and UT1-UTC direction, respectively. Then, the impact of ERP errors on ultra-rapid orbit prediction by GNSS is studied. The methods for orbit integration and frame transformation in orbit prediction with introduced ERP errors dominate the accuracy of the predicted orbit. Experimental results show that the transformation from the geocentric celestial references system (GCRS) to ITRS exerts the strongest effect on the accuracy of the predicted ultra-rapid orbit. To obtain the most accurate predicted ultra-rapid orbit, a corresponding real-time orbit correction method is developed. First, orbits without ERP-related errors are predicted on the basis of ITRS observed part of ultra-rapid orbit for use as reference. Then, the corresponding predicted orbit is transformed from GCRS to ITRS to adjust for the predicted ERPs. Finally, the corrected ERPs with error slopes are re-introduced to correct the predicted orbit in ITRS. To validate the proposed method, three experimental schemes are designed: function extrapolation, simulation experiments, and experiments with predicted ultra-rapid orbits and international GNSS Monitoring and Assessment System (iGMAS) products. Experimental results show that using the proposed correction method with IERS products considerably improved the accuracy of ultra-rapid orbit prediction (except the geosynchronous BeiDou orbits). The accuracy of orbit prediction is enhanced by at least 50

  4. Automatic Generation of Cycle-Approximate TLMs with Timed RTOS Model Support

    Science.gov (United States)

    Hwang, Yonghyun; Schirner, Gunar; Abdi, Samar

    This paper presents a technique for automatically generating cycle-approximate transaction level models (TLMs) for multi-process applications mapped to embedded platforms. It incorporates three key features: (a) basic block level timing annotation, (b) RTOS model integration, and (c) RTOS overhead delay modeling. The inputs to TLM generation are application C processes and their mapping to processors in the platform. A processor data model, including pipelined datapath, memory hierarchy and branch delay model is used to estimate basic block execution delays. The delays are annotated to the C code, which is then integrated with a generated SystemC RTOS model. Our abstract RTOS provides dynamic scheduling and inter-process communication (IPC) with processor- and RTOS-specific pre-characterized timing. Our experiments using a MP3 decoder and a JPEG encoder show that timed TLMs, with integrated RTOS models, can be automatically generated in less than a minute. Our generated TLMs simulated three times faster than real-time and showed less than 10% timing error compared to board measurements.

  5. Use of a Principal Components Analysis for the Generation of Daily Time Series.

    Science.gov (United States)

    Dreveton, Christine; Guillou, Yann

    2004-07-01

    A new approach for generating daily time series is considered in response to the weather-derivatives market. This approach consists of performing a principal components analysis to create independent variables, the values of which are then generated separately with a random process. Weather derivatives are financial or insurance products that give companies the opportunity to cover themselves against adverse climate conditions. The aim of a generator is to provide a wider range of feasible situations to be used in an assessment of risk. Generation of a temperature time series is required by insurers or bankers for pricing weather options. The provision of conditional probabilities and a good representation of the interannual variance are the main challenges of a generator when used for weather derivatives. The generator was developed according to this new approach using a principal components analysis and was applied to the daily average temperature time series of the Paris-Montsouris station in France. The observed dataset was homogenized and the trend was removed to represent correctly the present climate. The results obtained with the generator show that it represents correctly the interannual variance of the observed climate; this is the main result of the work, because one of the main discrepancies of other generators is their inability to represent accurately the observed interannual climate variance—this discrepancy is not acceptable for an application to weather derivatives. The generator was also tested to calculate conditional probabilities: for example, the knowledge of the aggregated value of heating degree-days in the middle of the heating season allows one to estimate the probability if reaching a threshold at the end of the heating season. This represents the main application of a climate generator for use with weather derivatives.

  6. Time-Resolved Fluorescent Immunochromatography of Aflatoxin B1 in Soybean Sauce: A Rapid and Sensitive Quantitative Analysis.

    Science.gov (United States)

    Wang, Du; Zhang, Zhaowei; Li, Peiwu; Zhang, Qi; Zhang, Wen

    2016-07-14

    Rapid and quantitative sensing of aflatoxin B1 with high sensitivity and specificity has drawn increased attention of studies investigating soybean sauce. A sensitive and rapid quantitative immunochromatographic sensing method was developed for the detection of aflatoxin B1 based on time-resolved fluorescence. It combines the advantages of time-resolved fluorescent sensing and immunochromatography. The dynamic range of a competitive and portable immunoassay was 0.3-10.0 µg·kg(-1), with a limit of detection (LOD) of 0.1 µg·kg(-1) and recoveries of 87.2%-114.3%, within 10 min. The results showed good correlation (R² > 0.99) between time-resolved fluorescent immunochromatographic strip test and high performance liquid chromatography (HPLC). Soybean sauce samples analyzed using time-resolved fluorescent immunochromatographic strip test revealed that 64.2% of samples contained aflatoxin B1 at levels ranging from 0.31 to 12.5 µg·kg(-1). The strip test is a rapid, sensitive, quantitative, and cost-effective on-site screening technique in food safety analysis.

  7. Students' Feedback Preferences: How Do Students React to Timely and Automatically Generated Assessment Feedback?

    Science.gov (United States)

    Bayerlein, Leopold

    2014-01-01

    This study assesses whether or not undergraduate and postgraduate accounting students at an Australian university differentiate between timely feedback and extremely timely feedback, and whether or not the replacement of manually written formal assessment feedback with automatically generated feedback influences students' perception of feedback…

  8. Comparative study of two linearization methods for time intervals generation of SVPWM technique

    Directory of Open Access Journals (Sweden)

    Khaled N. Faris

    2016-12-01

    In this paper a comparative study for two linearization methods are carried out for generating the time intervals of SVPWM technique. The proposed linearization methods achieve a minimum computational time rather than the trigonometric sine function which is considered the base for the time interval calculations of the SVPWM technique. The first linearization method is based on the first order equation, and the second method is the (Takagi–Sugeno fuzzy modeling system. The comparative study includes the accuracy of the two models, also a simulation model is carried out for current THD estimation using the two proposed methods compared with the current THD generated by SVPWM based on the trigonometric sine function.

  9. Vehicular traffic flow through a series of signals with cycle time generated by a logistic map

    Science.gov (United States)

    Nagatani, Takashi; Sugiyama, Naoki

    2013-02-01

    We study the dynamical behavior of vehicular traffic through a series of traffic signals. The vehicular traffic is controlled with the use of the cycle time generated by a logistic map. Each signal changes periodically with a cycle time, and the cycle time varies from signal to signal. The nonlinear dynamic model of the vehicular motion is presented by a nonlinear map including the logistic map. The vehicular traffic exhibits very complex behavior on varying both the cycle time and the logistic-map parameter a. For a>3, the arrival time shows a linear dependence on the cycle time. Also, the dependence of vehicular motion on parameter a is clarified.

  10. Development and Validation of a Real-Time PCR Assay for Rapid Detection of Candida auris from Surveillance Samples.

    Science.gov (United States)

    Leach, L; Zhu, Y; Chaturvedi, S

    2018-02-01

    Candida auris is an emerging multidrug-resistant yeast causing invasive health care-associated infection with high mortality worldwide. Rapid identification of C. auris is of primary importance for the implementation of public health measures to control the spread of infection. To achieve these goals, we developed and validated a TaqMan-based real-time PCR assay targeting the internal transcribed spacer 2 ( ITS 2) region of the ribosomal gene. The assay was highly specific, reproducible, and sensitive, with the detection limit of 1 C. auris CFU/PCR. The performance of the C. auris real-time PCR assay was evaluated by using 623 surveillance samples, including 365 patient swabs and 258 environmental sponges. Real-time PCR yielded positive results from 49 swab and 58 sponge samples, with 89% and 100% clinical sensitivity with regard to their respective culture-positive results. The real-time PCR also detected C. auris DNA from 1% and 12% of swab and sponge samples with culture-negative results, indicating the presence of dead or culture-impaired C. auris The real-time PCR yielded results within 4 h of sample processing, compared to 4 to 14 days for culture, reducing turnaround time significantly. The new real-time PCR assay allows for accurate and rapid screening of C. auris and can increase effective control and prevention of this emerging multidrug-resistant fungal pathogen in health care facilities. Copyright © 2018 Leach et al.

  11. A coupled weather generator - rainfall-runoff approach on hourly time steps for flood risk analysis

    Science.gov (United States)

    Winter, Benjamin; Schneeberger, Klaus; Dung Nguyen, Viet; Vorogushyn, Sergiy; Huttenlau, Matthias; Merz, Bruno; Stötter, Johann

    2017-04-01

    The evaluation of potential monetary damage of flooding is an essential part of flood risk management. One possibility to estimate the monetary risk is to analyze long time series of observed flood events and their corresponding damages. In reality, however, only few flood events are documented. This limitation can be overcome by the generation of a set of synthetic, physically and spatial plausible flood events and subsequently the estimation of the resulting monetary damages. In the present work, a set of synthetic flood events is generated by a continuous rainfall-runoff simulation in combination with a coupled weather generator and temporal disaggregation procedure for the study area of Vorarlberg (Austria). Most flood risk studies focus on daily time steps, however, the mesoscale alpine study area is characterized by short concentration times, leading to large differences between daily mean and daily maximum discharge. Accordingly, an hourly time step is needed for the simulations. The hourly metrological input for the rainfall-runoff model is generated in a two-step approach. A synthetic daily dataset is generated by a multivariate and multisite weather generator and subsequently disaggregated to hourly time steps with a k-Nearest-Neighbor model. Following the event generation procedure, the negative consequences of flooding are analyzed. The corresponding flood damage for each synthetic event is estimated by combining the synthetic discharge at representative points of the river network with a loss probability relation for each community in the study area. The loss probability relation is based on exposure and susceptibility analyses on a single object basis (residential buildings) for certain return periods. For these impact analyses official inundation maps of the study area are used. Finally, by analyzing the total event time series of damages, the expected annual damage or losses associated with a certain probability of occurrence can be estimated for

  12. Comprehensive and Rapid Real-Time PCR Analysis of 21 Foodborne Outbreaks

    Directory of Open Access Journals (Sweden)

    Hiroshi Fukushima

    2009-01-01

    Full Text Available A set of four duplex SYBR Green I PCR (SG-PCR assay combined with DNA extraction using QIAamp DNA Stool Mini kit was evaluated for the detection of foodborne bacteria from 21 foodborne outbreaks. The causative pathogens were detected in almost all cases in 2 hours or less. The first run was for the detection of 8 main foodborne pathogens in 5 stool specimens within 2 hours and the second run was for the detection of other unusual suspect pathogens within a further 45 minutes. After 2 to 4 days, the causative agents were isolated and identified. The results proved that for comprehensive and rapid molecular diagnosis in foodborne outbreaks, Duplex SG-PCR assay is not only very useful, but is also economically viable for one-step differentiation of causative pathogens in fecal specimens obtained from symptomatic patients. This then allows for effective diagnosis and management of foodborne outbreaks.

  13. Rapid Purification of Salmonella DNA in Minced Meat and Detection by Real-time PCR

    DEFF Research Database (Denmark)

    Jenikova, G.; Jensen, Annette Nygaard; Demnerova, K.

    2001-01-01

    of DNeasy was found to be 6-8 CFU in just 19 end-point fluorescence (C-t) values, while this was 22 C-t for a combination of DNeasy and BactXtractor. Extraction by DNeasy resulted in C-t cells per 25 g, when the samples were inoculated with Salmonella......Four rapid and simple DNA purification and sample treatment protocols were evaluated for detection of Salmonella enterica in spiked minced meat, using a fluorogenic 5' nuclease (TaqMan) PCR assay in an ABI-Prism 7700 Sequence Detector. The detection limit with the single separation treatment...... before the overnight preenrichment. The method is currently being adapted to a BioRobot 3000 platform. However, the use of paramagnetic beads (DNA Direct) resulted in poor and variable detection limit....

  14. Rapid Detection of OXA-48-Producing Enterobacteriaceae by Matrix-Assisted Laser Desorption Ionization−Time of Flight Mass Spectrometry

    Science.gov (United States)

    Oviaño, Marina; Barba, Maria José; Fernández, Begoña; Ortega, Adriana; Aracil, Belén; Oteo, Jesús; Campos, José

    2015-01-01

    A rapid and sensitive (100%) matrix-assisted laser desorption ionization−time of flight mass spectrometry (MALDI-TOF MS) assay was developed to detect OXA-48-type producers, using 161 previously characterized clinical isolates. Ertapenem was monitored to detect carbapenem resistance, and temocillin was included in the assay as a marker for OXA-48-producers. Structural analysis of temocillin is described. Data are obtained within 60 min. PMID:26677247

  15. Rapid Detection/pathotyping of Newcastle disease virus isolates in clinical samples using real time polymerase chain reaction assay

    OpenAIRE

    sprotocols

    2014-01-01

    Authors: Abdul Wajid, Muhammad Wasim, Tahir Yaqub, Shafqat F Rehmani, Tasra Bibi, Nadia Mukhtar, Javed Muhammad, Umar Bacha, Suliman Qadir Afridi, Muhammad Nauman Zahid, Zia u ddin, Muhammad Zubair Shabbir, Kamran Abbas & Muneer Ahmad ### Abstract In the present protocol we describe the real time reverse transcription polymerase chain reaction (rRT-PCR) assay for the rapid detection/pathotyping of Newcastle disease virus (NDV) isoaltes in clinical samples. Fusion gene and matrix gene...

  16. Rapid Detection of Enterotoxigenic Clostridium perfringens by Real-Time Fluorescence Resonance Energy Transfer PCR

    National Research Council Canada - National Science Library

    dela Cruz, Wilfred P; Gozum, Mary M.A; Lineberry, Sarah F; Stassen, Sarah D; Daughtry, Marianne; Stassen, Nicholas A; Jones, Morris S; Johnson, Oswald L

    2006-01-01

    ...) produced by some strains during sporulation. We developed a quantitative real-time PCR assay based on fluorescence resonance energy transfer hybridization chemistry that targets the C. perfringens...

  17. Liquefaction of coals using ultra-fine particle, unsupported catalysts: In situ particle generation by rapid expansion of supercritical fluid solutions. Final technical report

    Energy Technology Data Exchange (ETDEWEB)

    1994-05-01

    The research conducted by Textron Defense Systems (TDS) represents a potential new and innovative concept for dispersed coal liquefaction. The technical approach is generation of ultra-fine catalyst particles from supercritical solutions by rapid expansion of either catalyst only, or mixtures of catalyst and coal material in supersaturated solvents. The process of rapid expansion of supercritical fluid solutions was developed at Battelle`s Pacific Northwest Laboratories for the intended purpose of providing a new analytical technique for characterizing supercritical fluids. The concept forming the basis of this research is that ultra-fine particles can be generated from supercritical solutions by rapid expansion of either catalyst or catalyst/coal-material mixtures in supersaturated solvents, such as carbon dioxide or water. The focal point of this technique is the rapid transfer of low vapor pressure solute (i.e., catalyst), dissolved in the supercritical fluid solvent, to the gas phase as the solution is expanded through an orifice. The expansion process is characterized by highly nonequilibrium conditions which cause the solute to undergo extremely rapid supersaturation with respect to the solvent, leading to nucleation and particle growth resulting in nanometer size catalyst particles. A supercritical expansion system was designed and built by TDS at their Haverhill facility.

  18. Time-gated FRET nanoassemblies for rapid and sensitive intra- and extracellular fluorescence imaging

    NARCIS (Netherlands)

    Afsari, Hamid Samareh; Cardoso Dos Santos, Marcelina; Lindén, Stina; Chen, Ting; Qiu, Xue; van Bergen En Henegouwen, Paul M P|info:eu-repo/dai/nl/071919481; Jennings, Travis L; Susumu, Kimihiro; Medintz, Igor L; Hildebrandt, Niko; Miller, Lawrence W

    Time-gated Förster resonance energy transfer (FRET) using the unique material combination of long-lifetime terbium complexes (Tb) and semiconductor quantum dots (QDs) provides many advantages for highly sensitive and multiplexed biosensing. Although time-gated detection can efficiently suppress

  19. A new model for describing remission times: the generalized beta-generated Lindley distribution

    Directory of Open Access Journals (Sweden)

    MARIA DO CARMO S. LIMA

    Full Text Available New generators are required to define wider distributions for modeling real data in survival analysis. To that end we introduce the four-parameter generalized beta-generated Lindley distribution. It has explicit expressions for the ordinary and incomplete moments, mean deviations, generating and quantile functions. We propose a maximum likelihood procedure to estimate the model parameters, which is assessed through a Monte Carlo simulation study. We also derive an additional estimation scheme by means of least square between percentiles. The usefulness of the proposed distribution to describe remission times of cancer patients is illustrated by means of an application to real data.

  20. One-Time Password Generation and Two-Factor Authentication Using Molecules and Light.

    Science.gov (United States)

    Naren, Gaowa; Li, Shiming; Andréasson, Joakim

    2017-07-05

    Herein, we report the first example of one-time password (OTP) generation and two-factor authentication (2FA) using a molecular approach. OTPs are passwords that are valid for one entry only. For the next login session, a new, different password is generated. This brings the advantage that any undesired recording of a password will not risk the security of the authentication process. Our molecular realization of the OTP generator is based on a photochromic molecular triad where the optical input required to set the triad to the fluorescent form differs depending on the initial isomeric state. © 2017 Wiley-VCH Verlag GmbH & Co. KGaA, Weinheim.

  1. A new tool for rapid and automatic estimation of earthquake source parameters and generation of seismic bulletins

    Science.gov (United States)

    Zollo, Aldo

    2016-04-01

    RISS S.r.l. is a Spin-off company recently born from the initiative of the research group constituting the Seismology Laboratory of the Department of Physics of the University of Naples Federico II. RISS is an innovative start-up, based on the decade-long experience in earthquake monitoring systems and seismic data analysis of its members and has the major goal to transform the most recent innovations of the scientific research into technological products and prototypes. With this aim, RISS has recently started the development of a new software, which is an elegant solution to manage and analyse seismic data and to create automatic earthquake bulletins. The software has been initially developed to manage data recorded at the ISNet network (Irpinia Seismic Network), which is a network of seismic stations deployed in Southern Apennines along the active fault system responsible for the 1980, November 23, MS 6.9 Irpinia earthquake. The software, however, is fully exportable and can be used to manage data from different networks, with any kind of station geometry or network configuration and is able to provide reliable estimates of earthquake source parameters, whichever is the background seismicity level of the area of interest. Here we present the real-time automated procedures and the analyses performed by the software package, which is essentially a chain of different modules, each of them aimed at the automatic computation of a specific source parameter. The P-wave arrival times are first detected on the real-time streaming of data and then the software performs the phase association and earthquake binding. As soon as an event is automatically detected by the binder, the earthquake location coordinates and the origin time are rapidly estimated, using a probabilistic, non-linear, exploration algorithm. Then, the software is able to automatically provide three different magnitude estimates. First, the local magnitude (Ml) is computed, using the peak-to-peak amplitude

  2. The development of a rapid SYBR one step real-time RT-PCR for detection of porcine reproductive and respiratory syndrome virus

    Science.gov (United States)

    2010-01-01

    Background Prompt detection of PRRSV in the field samples is important for effective PRRS control, thereby reducing the potentially serious economic damage which can result from an outbreak. In this study, a rapid SYBR-based, one step real-time RT-PCR quantitative reverse transcription PCR (qRT-PCR) has been developed for the detection of porcine reproductive and respiratory syndrome virus (PRRSV). Primers were designed based on the sequence of highly conservative region of PRRSV N gene. Results The sensitivity of the real-time qRT-PCR assay was achieved through PRRSV ch-1a RNA for the generation of a standard curve. The detection limit of the assay was found to be 9.6 RNA copies per reaction mixture. This assay had excellent intra- and inter-assay reproducibility as in total 65 field samples were screened for the presence of PRRSV by conventional RT-PCR in parallel with qRT-PCR, and the detection rate increased from 60.0% to 76.9%. Moreover, the specificity result indicated that this assay could reliably differentiate PRRSV from the other swine viral diseases, such as classical swine fever virus (CSFV), swine vesicular disease virus (SVDV) and vesicular exanthema of swine virus (VESV). Conclusion The real-time qRT-PCR assay described in this report allows the rapid, specific and sensitive laboratory detection of PRRSV in field samples. PMID:20459705

  3. The development of a rapid SYBR one step real-time RT-PCR for detection of porcine reproductive and respiratory syndrome virus

    Directory of Open Access Journals (Sweden)

    Liu XiangTao

    2010-05-01

    Full Text Available Abstract Background Prompt detection of PRRSV in the field samples is important for effective PRRS control, thereby reducing the potentially serious economic damage which can result from an outbreak. In this study, a rapid SYBR-based, one step real-time RT-PCR quantitative reverse transcription PCR (qRT-PCR has been developed for the detection of porcine reproductive and respiratory syndrome virus (PRRSV. Primers were designed based on the sequence of highly conservative region of PRRSV N gene. Results The sensitivity of the real-time qRT-PCR assay was achieved through PRRSV ch-1a RNA for the generation of a standard curve. The detection limit of the assay was found to be 9.6 RNA copies per reaction mixture. This assay had excellent intra- and inter-assay reproducibility as in total 65 field samples were screened for the presence of PRRSV by conventional RT-PCR in parallel with qRT-PCR, and the detection rate increased from 60.0% to 76.9%. Moreover, the specificity result indicated that this assay could reliably differentiate PRRSV from the other swine viral diseases, such as classical swine fever virus (CSFV, swine vesicular disease virus (SVDV and vesicular exanthema of swine virus (VESV. Conclusion The real-time qRT-PCR assay described in this report allows the rapid, specific and sensitive laboratory detection of PRRSV in field samples.

  4. Evaluation of a quantitative real-time PCR for rapid detection of Riemerella Anatipestifer infection in birds.

    Science.gov (United States)

    Zhang, Qingshan; Wan, Chunhe; Li, Chenxi; Bai, Xiaofei; Liu, Ming; Liu, Siguo; Zhang, Yun

    2017-08-05

    To establish an accurate, rapid, and a quantifiable method for the detection of Riemerella anatipestifer infection, a widespread infectious disease in birds, we developed a TaqMan-based real-time PCR assay by using DtxR gene-specific primers and a TaqMan probe. The standard curve established with a linear correlation (R2) of 0.998 and efficiency of 99% between the Ct value and the logarithm of the plasmid copy number. The reproducibility and specificity of the real-time PCR assay were confirmed by using plasmids containing DtxR genes or DNAs extracted from well-known bacteria or viruses causing duck diseases. The real-time PCR assay was 100 times more sensitive than the conventional PCR. The results reveal that the established real-time PCR assay might be a useful method for diagnosis and quantitative detection of Riemerella anatipestifer in birds.

  5. Linear Impulsive Periodic System with Time-Varying Generating Operators on Banach Space

    Directory of Open Access Journals (Sweden)

    Wei W

    2007-01-01

    Full Text Available A class of the linear impulsive periodic system with time-varying generating operators on Banach space is considered. By constructing the impulsive evolution operator, the existence of -periodic -mild solution for homogeneous linear impulsive periodic system with time-varying generating operators is reduced to the existence of fixed point for a suitable operator. Further the alternative results on -periodic -mild solution for nonhomogeneous linear impulsive periodic system with time-varying generating operators are established and the relationship between the boundness of solution and the existence of -periodic -mild solution is shown. The impulsive periodic motion controllers that are robust to parameter drift are designed for a given periodic motion. An example given for demonstration.

  6. Quantification of Gas-Wall Partitioning in Teflon Environmental Chambers Using Rapid Bursts of Low-Volatility Oxidized Species Generated in Situ.

    Science.gov (United States)

    Krechmer, Jordan E; Pagonis, Demetrios; Ziemann, Paul J; Jimenez, Jose L

    2016-06-07

    Partitioning of gas-phase organic compounds to the walls of Teflon environmental chambers is a recently reported phenomenon than can affect the yields of reaction products and secondary organic aerosol (SOA) measured in laboratory experiments. Reported time scales for reaching gas-wall partitioning (GWP) equilibrium (τGWE) differ by up to 3 orders of magnitude, however, leading to predicted effects that vary from substantial to negligible. A new technique is demonstrated here in which semi- and low-volatility oxidized organic compounds (saturation concentration c* < 100 μg m(-3)) were photochemically generated in rapid bursts in situ in an 8 m(3) environmental chamber, and then their decay in the absence of aerosol was measured using a high-resolution chemical ionization mass spectrometer (CIMS) equipped with an "inlet-less" NO3(-) ion source. Measured τGWE were 7-13 min (rel. std. dev. 33%) for all compounds. The fraction of each compound that partitioned to the walls at equilibrium follows absorptive partitioning theory with an equivalent wall mass concentration in the range 0.3-10 mg m(-3). Measurements using a CIMS equipped with a standard ion-molecule reaction region showed large biases due to the contact of compounds with walls. On the basis of these results, a set of parameters is proposed for modeling GWP in chamber experiments.

  7. Tunable time-reversal cavity for high-pressure ultrasonic pulses generation: A tradeoff between transmission and time compression

    Science.gov (United States)

    Arnal, Bastien; Pernot, Mathieu; Fink, Mathias; Tanter, Mickael

    2012-08-01

    This Letter presents a time reversal cavity that has both a high reverberation time and a good transmission factor. A multiple scattering medium has been embedded inside a fluid-filled reverberating cavity. This allows creating smart ultrasonic sources able to generate very high pressure pulses at the focus outside the cavity with large steering capabilities. Experiments demonstrate a 25 dB gain in pressure at the focus. This concept will enable us to convert conventional ultrasonic imaging probes driven by low power electronics into high power probes for therapeutic applications requiring high pressure focused pulses, such as histotripsy or lithotripsy.

  8. Reproducibility of rapid short echo time CSI at 3 tesla for clinical applications

    National Research Council Canada - National Science Library

    Van Cauter, Sofie; Sima, Diana M; Luts, Jan; ter Beek, Leon; Ribbens, Annemie; Peeters, Ronald R; Osorio Garcia, Maria I; Li, Yuquan; Sunaert, Stefan; Van Gool, Stefaan W; Van Huffel, Sabine; Himmelreich, Uwe

    2013-01-01

    .... Ten volunteers were imaged three times on two different 3 Tesla (T) MRI scanners, receiving anatomical imaging and two identical CSI measurements, using automated repositioning software for consistent repositioning of the CSI grid...

  9. Rapid telomere motions in live human cells analyzed by highly time-resolved microscopy

    Directory of Open Access Journals (Sweden)

    Wang Xueying

    2008-10-01

    Full Text Available Abstract Background Telomeres cap chromosome ends and protect the genome. We studied individual telomeres in live human cancer cells. In capturing telomere motions using quantitative imaging to acquire complete high-resolution three-dimensional datasets every second for 200 seconds, telomere dynamics were systematically analyzed. Results The motility of individual telomeres within the same cancer cell nucleus was widely heterogeneous. One class of internal heterochromatic regions of chromosomes analyzed moved more uniformly and showed less motion and heterogeneity than telomeres. The single telomere analyses in cancer cells revealed that shorter telomeres showed more motion, and the more rapid telomere motions were energy dependent. Experimentally increasing bulk telomere length dampened telomere motion. In contrast, telomere uncapping, but not a DNA damaging agent, methyl methanesulfonate, significantly increased telomere motion. Conclusion New methods for seconds-scale, four-dimensional, live cell microscopic imaging and data analysis, allowing systematic tracking of individual telomeres in live cells, have defined a previously undescribed form of telomere behavior in human cells, in which the degree of telomere motion was dependent upon telomere length and functionality.

  10. The rapid use of gender information: evidence of the time course of pronoun resolution from eyetracking.

    Science.gov (United States)

    Arnold, J E; Eisenband, J G; Brown-Schmidt, S; Trueswell, J C

    2000-07-14

    Eye movements of listeners were monitored to investigate how gender information and accessibility influence the initial processes of pronoun interpretation. Previous studies on this issue have produced mixed results, and several studies have concluded that gender cues are not automatically used during the early processes of pronoun interpretation (e.g. Garnham, A., Oakhill, J. & Cruttenden, H. (1992). The role of implicit causality and gender cue in the interpretation of pronouns. Language and Cognitive Processes, 73 (4), 231-255; Greene, S. B., McKoon, G. & Ratcliff, R. (1992). Pronoun resolution and discourse models. Journal of Experimental Psychology: Learning, Memory, and Cognition, 182, 266-283). In the two experiments presented here, participants viewed a picture with two familiar cartoon characters of either same or different gender. They listened to a text describing the picture, in which a pronoun referred to either the first, more accessible, character, or the second. (For example, Donald is bringing some mail to ¿Mickey/Minnie¿ while a violent storm is beginning. He's carrying an umbrellaellipsis.) The results of both experiments show rapid use of both gender and accessibility at approximately 200 ms after the pronoun offset.

  11. Inspection times, the change task, and the rapid-response selection task.

    Science.gov (United States)

    Roberts, M J; Newton, E J

    2001-11-01

    Three experiments are reported, which are based upon the Wason four-card selection task inspection time paradigm, in which subjects solve computer-presented trials while using a mouse to indicate the card currently under consideration. Evans (1996) had shown that selected cards were inspected for longer than non-selected cards, and this was taken as support for the existence of pre-conscious heuristic processes that direct attention towards relevant aspects of a problem. However, Roberts (1998b) suggested that this inspection time effect is artefactual, due to task format induced biases. Experiment 1 utilized a "change" task: Cards were presented either as selected or not selected, and subjects changed these where necessary. This demonstrated an association between card selection and inspection time independently of one between the act of response and inspection time. Experiment 2 utilized a standard selection task, but subjects either responded within 2 s of each card presentation, or made selections with no time pressure. The curtailment of thinking time increased matching behaviour--more cards matching the terms in the rules were selected--and was replicated in Experiment 3 using a within-subjects design. Overall, the data support Evans' heuristic-analytic framework albeit with some caveats.

  12. Direct observation of f-pair magnetic field effects and time-dependence of radical pair composition using rapidly switched magnetic fields and time-resolved infrared methods.

    Science.gov (United States)

    Woodward, Jonathan R; Foster, Timothy J; Salaoru, Adrian T; Vink, Claire B

    2008-07-21

    A rapidly switched (magnetic field was employed to directly observe magnetic fields from f-pair reactions of radical pairs in homogeneous solution. Geminate radical pairs from the photoabstraction reaction of benzophenone from cyclohexanol were observed directly using a pump-probe pulsed magnetic field method to determine their existence time. No magnetic field effects from geminate pairs were observed at times greater than 100 ns after initial photoexcitation. By measuring magnetic field effects for fields applied continuously only after this initial geminate period, f-pair effects could be directly observed. Measurement of the time-dependence of the field effect for the photolysis of 2-hydroxy-4-(2-hydroxyethoxy)-2-methylpropiophenone in cyclohexanol using time-resolved infrared spectroscopy revealed not only the presence of f-pair magnetic field effects but also the ability of the time dependence of the MARY spectra to observe the changing composition of the randomly encountering pairs throughout the second order reaction period.

  13. What and how should we teach so as to prepare the next generation of hydrologists for a rapidly changing world?

    Science.gov (United States)

    Savenije, Hubert

    2010-05-01

    In principle, we can learn from history and from historical data how a hydrological system behaved in the past. But what can we learn about new situations? Can we predict with confidence how our natural systems will function under changing boundary conditions? If the answer to this question is negative, then how can we prepare future generation to deal with these issues? I think that we have to focus on understanding physical processes at scales where they demonstrate organised behaviour, or - to put it in other words - at scales were patterns emerge. In recent years we have seen how the reductionist approach is incapable of predicting uncertain situations. Instead, we will have to focus on recognising dominant behaviour and on modelling this behaviour in the simplest terms possible. This brings us to the question how we can identify and conceptualise dominant and secondary behaviour in connection to a changing environment and subject to changed forcing. What does this mean for education? I think we have to teach basic physics and basic physical principles and processes at plot scale, but also at the scale of hill slopes, watersheds and river basins. This has to be strongly intertwined with field work. Only in the field can students recognise the processes and the thresholds that need to be passed for certain processes to become active. Next, students should learn how to conceptualise the hydrological world within a rejectionist framework of hypothesis testing; how to develop and use diagnostics to test hypothesis; and, more importantly, how to develop and use creativity to generate new hypotheses, in dialogue with the experimentalist and field hydrologist. Finally there are issues related to process. Learning should consist largely of learning by doing: literature studies, field work, experiments, colloquia, exercises, presentations, paper writing, discussion groups. Lecturing should not be more than 50% of the contact time and should be interactive and meant to

  14. Application of real time polymerase chain reaction targeting kex 1 gene & its comparison with the conventional methods for rapid detection of Pneumocystis jirovecii in clinical specimens

    Directory of Open Access Journals (Sweden)

    Mani Revathy

    2014-01-01

    Full Text Available Background & objectives: As there are no standard laboratory techniques for the rapid detection of Pneumocystis jirovecii in India, this study was undertaken to evaluate and establish an optimal and rapid technique for the detection of P. jirovecii by comparing three different techniques - staining technique, application of a real time polymerase chain reaction (RT-PCR targeting kex 1 gene and application of nested PCR targeting mitochondrial large subunit (mtLSU gene for rapid detection of P. jirovecii in HIV positive patients. Methods: One hundred and fifty sputum specimens from HIV positive (n = 75 and HIV negative (n = 75 patients were subjected to three different techniques -KOH/Calcoflour and Grocott methanamine silver staining (GMS, RT-PCR targeting kex1 gene, PCR targeting mtLSU region followed by DNA sequencing and BLAST analysis. Results: Among the 75 HIV positive patients, P. jirovecii was detected in 19 (25.33% patients by the staining techniques, and in 23 (30.65% patients each by PCR targeting mtLSU region and by RT- PCR targeting kex1 gene of P. jirovecii. PCR based DNA sequencing targeting mtLSU region revealed 97-100 per cent sequence homology with P. jirovecii sequences in GenBank. Interpretation & conclusions: Of the three techniques for detection of P. jirovecii evaluated in this study, false negativity was found to be more in staining technique and it also required high technical expertise to interpret the result. Both nested PCR and RT-PCR were reliable and equally sensitive, in rapid detection of P. jirovecii, but RT-PCR technique also generated the copy numbers for knowing the severity of infection.

  15. Strong normalization by type-directed partial evaluation and run-time code generation

    DEFF Research Database (Denmark)

    Balat, Vincent; Danvy, Olivier

    1998-01-01

    We investigate the synergy between type-directed partial evaluation and run-time code generation for the Caml dialect of ML. Type-directed partial evaluation maps simply typed, closed Caml values to a representation of their long βη-normal form. Caml uses a virtual machine and has the capability...... to load byte code at run time. Representing the long βη-normal forms as byte code gives us the ability to strongly normalize higher-order values (i.e., weak head normal forms in ML), to compile the resulting strong normal forms into byte code, and to load this byte code all in one go, at run time. We...... conclude this note with a preview of our current work on scaling up strong normalization by run-time code generation to the Caml module language....

  16. Strong Normalization by Type-Directed Partial Evaluation and Run-Time Code Generation

    DEFF Research Database (Denmark)

    Balat, Vincent; Danvy, Olivier

    1997-01-01

    We investigate the synergy between type-directed partial evaluation and run-time code generation for the Caml dialect of ML. Type-directed partial evaluation maps simply typed, closed Caml values to a representation of their long βη-normal form. Caml uses a virtual machine and has the capability...... to load byte code at run time. Representing the long βη-normal forms as byte code gives us the ability to strongly normalize higher-order values (i.e., weak head normal forms in ML), to compile the resulting strong normal forms into byte code, and to load this byte code all in one go, at run time. We...... conclude this note with a preview of our current work on scaling up strong normalization by run-time code generation to the Caml module language....

  17. Generation and evaluation of space-Time trajectories of photovoltaic power

    DEFF Research Database (Denmark)

    Golestaneh, Faranak; Gooi, Hoay Beng; Pinson, Pierre

    2016-01-01

    on performance assessment of space-time trajectories of PV generation is also studied. Finally, the advantage of taking into account space-time correlations over probabilistic and point forecasts is investigated. The empirical investigation is based on the solar PV dataset of the Global Energy Forecasting......In the probabilistic energy forecasting literature, emphasis is mainly placed on deriving marginal predictive densities for which each random variable is dealt with individually. Such marginals description is sufficient for power systems related operational problems if and only if optimal decisions...... are to be made for each lead-time and each location independently of each other. However, many of these operational processes are temporally and spatially coupled, while uncertainty in photovoltaic (PV) generation is strongly dependent in time and in space. This issue is addressed here by analysing and capturing...

  18. Cognitive vulnerabilities amplify the effect of early pubertal timing on interpersonal stress generation during adolescence.

    Science.gov (United States)

    Hamilton, Jessica L; Stange, Jonathan P; Kleiman, Evan M; Hamlat, Elissa J; Abramson, Lyn Y; Alloy, Lauren B

    2014-05-01

    Early pubertal timing has been found to confer risk for the occurrence of interpersonal stressful events during adolescence. However, pre-existing vulnerabilities may exacerbate the effects of early pubertal timing on the occurrence of stressors. Thus, the current study prospectively examined whether cognitive vulnerabilities amplified the effects of early pubertal timing on interpersonal stress generation. In a diverse sample of 310 adolescents (M age = 12.83 years, 55 % female; 53 % African American), early pubertal timing predicted higher levels of interpersonal dependent events among adolescents with more negative cognitive style and rumination, but not among adolescents with lower levels of these cognitive vulnerabilities. These findings suggest that cognitive vulnerabilities may heighten the risk of generating interpersonal stress for adolescents who undergo early pubertal maturation, which may subsequently place adolescents at greater risk for the development of psychopathology.

  19. Rapid on-site sensing aflatoxin B1 in food and feed via a chromatographic time-resolved fluoroimmunoassay.

    Directory of Open Access Journals (Sweden)

    Zhaowei Zhang

    Full Text Available Aflatoxin B1 poses grave threats to food and feed safety due to its strong carcinogenesis and toxicity, thus requiring ultrasensitive rapid on-site determination. Herein, a portable immunosensor based on chromatographic time-resolved fluoroimmunoassay was developed for sensitive and on-site determination of aflatoxin B1 in food and feed samples. Chromatographic time-resolved fluoroimmunoassay offered a magnified positive signal and low signal-to-noise ratio in time-resolved mode due to the absence of noise interference caused by excitation light sources. Compared with the immunosensing performance in previous studies, this platform demonstrated a wider dynamic range of 0.2-60 μg/kg, lower limit of detection from 0.06 to 0.12 µg/kg, and considerable recovery from 80.5% to 116.7% for different food and feed sample matrices. It was found to be little cross-reactivity with other aflatoxins (B2, G1, G2, and M1. In the case of determination of aflatoxin B1 in peanuts, corn, soy sauce, vegetable oil, and mouse feed, excellent agreement was found when compared with aflatoxin B1 determination via the conversational high-performance liquid chromatography method. The chromatographic time-resolved fluoroimmunoassay affords a powerful alternative for rapid on-site determination of aflatoxin B1 and holds a promise for food safety in consideration of practical food safety and environmental monitoring.

  20. 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.

  1. Determination of Permissible Short-Time Emergency Overloading of Turbo-Generators and Synchronous Compensators

    Directory of Open Access Journals (Sweden)

    V. A. Anischenko

    2011-01-01

    Full Text Available The paper shows that failure to take into account variable ratio of short-time emergency overloading of turbo-generators (synchronous compensators that can lead to underestimation of overloading capacity or impermissible insulation over-heating.A method has been developed for determination of permissible duration of short-time emergency over-loading that takes into account changes of over-loading ratio in case of a failure.

  2. Rapid detection and identification of Wuchereria bancrofti, Brugia malayi, B. pahangi, and Dirofilaria immitis in mosquito vectors and blood samples by high resolution melting real-time PCR.

    Science.gov (United States)

    Thanchomnang, Tongjit; Intapan, Pewpan M; Tantrawatpan, Chairat; Lulitanond, Viraphong; Chungpivat, Sudchit; Taweethavonsawat, Piyanan; Kaewkong, Worasak; Sanpool, Oranuch; Janwan, Penchom; Choochote, Wej; Maleewong, Wanchai

    2013-12-01

    A simple, rapid, and high-throughput method for detection and identification of Wuchereria bancrofti, Brugia malayi, Brugia pahangi, and Dirofilaria immitis in mosquito vectors and blood samples was developed using a real-time PCR combined with high-resolution melting (HRM) analysis. Amplicons of the 4 filarial species were generated from 5S rRNA and spliced leader sequences by the real-time PCR and their melting temperatures were determined by the HRM method. Melting of amplicons from W. bancrofti, B. malayi, D. immitis, and B. pahangi peaked at 81.5±0.2℃, 79.0±0.3℃, 76.8±0.1℃, and 79.9±0.1℃, respectively. This assay is relatively cheap since it does not require synthesis of hybridization probes. Its sensitivity and specificity were 100%. It is a rapid and technically simple approach, and an important tool for population surveys as well as molecular xenomonitoring of parasites in vectors.

  3. Time Domain Technique for Rapid, Broadband Measurement of Human Absorption Cross Section in a Reverberation Chamber

    OpenAIRE

    Robinson, Martin P; Zhang, Xiaotian; Flintoft, Ian D.

    2017-01-01

    Absorption cross section (ACS) of an object is used in stochastic power balance models, while human ACS is closely related to microwave dosimetry parameters such as specific absorption rate (SAR) and thus characterises exposure as well as effect of human bodies on multipath propagation. ACS, averaged over all directions of incidence, can be obtained in the frequency domain from the S-parameters of two antennas in a stirred-mode reverberation chamber; however, our new time domain method is fas...

  4. Real-time cytotoxicity assay for rapid and sensitive detection of ricin from complex matrices.

    Directory of Open Access Journals (Sweden)

    Diana Pauly

    Full Text Available BACKGROUND: In the context of a potential bioterrorist attack sensitive and fast detection of functionally active toxins such as ricin from complex matrices is necessary to be able to start timely countermeasures. One of the functional detection methods currently available for ricin is the endpoint cytotoxicity assay, which suffers from a number of technical deficits. METHODOLOGY/FINDINGS: This work describes a novel online cytotoxicity assay for the detection of active ricin and Ricinus communis agglutinin, that is based on a real-time cell electronic sensing system and impedance measurement. Characteristic growth parameters of Vero cells were monitored online and used as standardized viability control. Upon incubation with toxin the cell status and the cytotoxic effect were visualized using a characteristic cell index-time profile. For ricin, tested in concentrations of 0.06 ng/mL or above, a concentration-dependent decrease of cell index correlating with cytotoxicity was recorded between 3.5 h and 60 h. For ricin, sensitive detection was determined after 24 h, with an IC50 of 0.4 ng/mL (for agglutinin, an IC50 of 30 ng/mL was observed. Using functionally blocking antibodies, the specificity for ricin and agglutinin was shown. For detection from complex matrices, ricin was spiked into several food matrices, and an IC50 ranging from 5.6 to 200 ng/mL was observed. Additionally, the assay proved to be useful in detecting active ricin in environmental sample materials, as shown for organic fertilizer containing R. communis material. CONCLUSIONS/SIGNIFICANCE: The cell-electrode impedance measurement provides a sensitive online detection method for biologically active cytotoxins such as ricin. As the cell status is monitored online, the assay can be standardized more efficiently than previous approaches based on endpoint measurement. More importantly, the real-time cytotoxicity assay provides a fast and easy tool to detect active ricin in complex

  5. Real-time cytotoxicity assay for rapid and sensitive detection of ricin from complex matrices.

    Science.gov (United States)

    Pauly, Diana; Worbs, Sylvia; Kirchner, Sebastian; Shatohina, Olena; Dorner, Martin B; Dorner, Brigitte G

    2012-01-01

    In the context of a potential bioterrorist attack sensitive and fast detection of functionally active toxins such as ricin from complex matrices is necessary to be able to start timely countermeasures. One of the functional detection methods currently available for ricin is the endpoint cytotoxicity assay, which suffers from a number of technical deficits. This work describes a novel online cytotoxicity assay for the detection of active ricin and Ricinus communis agglutinin, that is based on a real-time cell electronic sensing system and impedance measurement. Characteristic growth parameters of Vero cells were monitored online and used as standardized viability control. Upon incubation with toxin the cell status and the cytotoxic effect were visualized using a characteristic cell index-time profile. For ricin, tested in concentrations of 0.06 ng/mL or above, a concentration-dependent decrease of cell index correlating with cytotoxicity was recorded between 3.5 h and 60 h. For ricin, sensitive detection was determined after 24 h, with an IC50 of 0.4 ng/mL (for agglutinin, an IC50 of 30 ng/mL was observed). Using functionally blocking antibodies, the specificity for ricin and agglutinin was shown. For detection from complex matrices, ricin was spiked into several food matrices, and an IC50 ranging from 5.6 to 200 ng/mL was observed. Additionally, the assay proved to be useful in detecting active ricin in environmental sample materials, as shown for organic fertilizer containing R. communis material. The cell-electrode impedance measurement provides a sensitive online detection method for biologically active cytotoxins such as ricin. As the cell status is monitored online, the assay can be standardized more efficiently than previous approaches based on endpoint measurement. More importantly, the real-time cytotoxicity assay provides a fast and easy tool to detect active ricin in complex sample matrices.

  6. Rapid phosphatidic acid accumulation in response to low temperature stress in Arabidopsis is generated through diacylglycerol kinase.

    NARCIS (Netherlands)

    Arisz, S.A.; van Wijk, R.; Roels, W.; Zhu, J.K.; Haring, M.A.; Munnik, T.

    2013-01-01

    Phosphatidic acid (PtdOH) is emerging as an important signaling lipid in abiotic stress responses in plants. The effect of cold stress was monitored using (32)P-labeled seedlings and leaf discs of Arabidopsis thaliana. Low, non-freezing temperatures were found to trigger a very rapid (32)P-PtdOH

  7. Time-gated FRET nanoassemblies for rapid and sensitive intra- and extracellular fluorescence imaging.

    Science.gov (United States)

    Afsari, Hamid Samareh; Cardoso Dos Santos, Marcelina; Lindén, Stina; Chen, Ting; Qiu, Xue; van Bergen En Henegouwen, Paul M P; Jennings, Travis L; Susumu, Kimihiro; Medintz, Igor L; Hildebrandt, Niko; Miller, Lawrence W

    2016-06-01

    Time-gated Förster resonance energy transfer (FRET) using the unique material combination of long-lifetime terbium complexes (Tb) and semiconductor quantum dots (QDs) provides many advantages for highly sensitive and multiplexed biosensing. Although time-gated detection can efficiently suppress sample autofluorescence and background fluorescence from directly excited FRET acceptors, Tb-to-QD FRET has rarely been exploited for biomolecular imaging. We demonstrate Tb-to-QD time-gated FRET nanoassemblies that can be applied for intra- and extracellular imaging. Immunostaining of different epitopes of the epidermal growth factor receptor (EGFR) with Tb- and QD-conjugated antibodies and nanobodies allowed for efficient Tb-to-QD FRET on A431 cell membranes. The broad usability of Tb-to-QD FRET was further demonstrated by intracellular Tb-to-QD FRET and Tb-to-QD-to-dye FRET using microinjection as well as cell-penetrating peptide-mediated endocytosis with HeLa cells. Effective brightness enhancement by FRET from several Tb to the same QD, the use of low nanomolar concentrations, and the quick and sensitive detection void of FRET acceptor background fluorescence are important advantages for advanced intra- and extracellular imaging of biomolecular interactions.

  8. Computer-generated versus nurse-determined strategy for incubator humidity and time to regain birthweight

    NARCIS (Netherlands)

    Helder, Onno K.; Mulder, Paul G. H.; van Goudoever, Johannes B.

    2008-01-01

    To compare effects on premature infants' weight gain of a computer-generated and a nurse-determined incubator humidity strategy. An optimal humidity protocol is thought to reduce time to regain birthweight. Prospective randomized controlled design. Level IIIC neonatal intensive care unit in the

  9. Evaluating the temporal stability of synthetically generated time-series for crop types in central Germany

    Science.gov (United States)

    Synthetically generated Landsat time-series based on the STARFM algorithm are increasingly used for applications in forestry or agriculture. Although successes in classification and derivation of phenological orbiomass parameters are evident, a thorough evaluation of the limits of the method is stil...

  10. Time and Space Issues in the Generation of Graph Transition Systems

    NARCIS (Netherlands)

    Rensink, Arend; Mens, T.; Schürr, A.; Taentzer, G.

    GROOVE is a tool for the automatic generation of graph transition systems from graph grammars. In this type of tool, both memory and time performance are of prime importance. In this paper we discuss the implementation techniques used for optimising the tool in this regard, and we list possible

  11. Early-time photodynamics of ruthenium-based photocatalysts for light-induced hydrogen generation

    NARCIS (Netherlands)

    Pan, Qing

    2016-01-01

    This thesis aims to provide a fundamental understanding of the early-time photodynamics of a series of Ru/M (M = Pd or Pt) bimetallic photocatalysts for light-induced hydrogen generation. This class of complexes adopts a general structure involving a Ru(II) center coordinated to two peripheral

  12. Generation of time delays: simplified models of intracellular signaling in cerebellar Purkinje cells

    NARCIS (Netherlands)

    Steuber, V.; Willshaw, D.; van Ooyen, A.

    2006-01-01

    In many neuronal systems, information is encoded in temporal spike patterns. The recognition and storage of temporal patterns requires the generation and modulation of time delays between inputs and outputs. In cerebellar Purkinje cells, stimulation of metabotropic glutamate receptors (mGluRs)

  13. A One-Step, Real-Time PCR Assay for Rapid Detection of Rhinovirus

    Science.gov (United States)

    Do, Duc H.; Laus, Stella; Leber, Amy; Marcon, Mario J.; Jordan, Jeanne A.; Martin, Judith M.; Wadowsky, Robert M.

    2010-01-01

    One-step, real-time PCR assays for rhinovirus have been developed for a limited number of PCR amplification platforms and chemistries, and some exhibit cross-reactivity with genetically similar enteroviruses. We developed a one-step, real-time PCR assay for rhinovirus by using a sequence detection system (Applied Biosystems; Foster City, CA). The primers were designed to amplify a 120-base target in the noncoding region of picornavirus RNA, and a TaqMan (Applied Biosystems) degenerate probe was designed for the specific detection of rhinovirus amplicons. The PCR assay had no cross-reactivity with a panel of 76 nontarget nucleic acids, which included RNAs from 43 enterovirus strains. Excellent lower limits of detection relative to viral culture were observed for the PCR assay by using 38 of 40 rhinovirus reference strains representing different serotypes, which could reproducibly detect rhinovirus serotype 2 in viral transport medium containing 10 to 10,000 TCID50 (50% tissue culture infectious dose endpoint) units/ml of the virus. However, for rhinovirus serotypes 59 and 69, the PCR assay was less sensitive than culture. Testing of 48 clinical specimens from children with cold-like illnesses for rhinovirus by the PCR and culture assays yielded detection rates of 16.7% and 6.3%, respectively. For a batch of 10 specimens, the entire assay was completed in 4.5 hours. This real-time PCR assay enables detection of many rhinovirus serotypes with the Applied Biosystems reagent-instrument platform. PMID:19948820

  14. Rapid detection of Van genes in rectal swabs by real time PCR in Southern Brazil

    Directory of Open Access Journals (Sweden)

    Vlademir Cantarelli

    2011-10-01

    Full Text Available INTRODUCTION: Laboratory-based surveillance is an important component in the control of vancomycin resistant enterococci (VRE. METHODS: The study aimed to evaluate real-time polymerase chain reaction (RT-PCR (genes vanA-vanB for VRE detection on 115 swabs from patients included in a surveillance program. RESULTS: Sensitivity of RT-PCR was similar to primary culture (75% and 79.5%, respectively when compared to broth enriched culture, whereas specificity was 83.1%. CONCLUSIONS: RT-PCR provides same day results, however it showed low sensitivity for VRE detection.

  15. Use of TaqMan® real-time PCR for rapid detection of Salmonella enterica serovar Typhi.

    Science.gov (United States)

    Ranjbar, Reza; Naghoni, Ali; Farshad, Shohreh; Lashini, Hadi; Najafi, Ali; Sadeghifard, Nourkhoda; Mammina, Caterina

    2014-06-01

    We evaluated the performances of a newly designed real-time polymerase chain reaction (PCR) assay using TaqMan® probes to detect Salmonella Typhi. TaqMan® real-time PCR assays were performed by designed primers and probe based on the staG gene for detecting S. Typhi. The specificity of the assay was evaluated on 15 Salmonella serovars. The analytical specificity was evaluated on 20 non-Salmonella microorganisms. The analytical sensitivity was assessed using decreasing DNA quantities of S. Typhi ATCC 19430. Finally the detection capability of the TaqMan® real-time PCR assay on isolates recovered from patients with Salmonella infections was compared to the conventional PCR assay. Only S. Typhi strain had positive results when subjected to the assay using Typhi-specific real-time PCR. No amplification products were observed in real-time PCR with any of the non-Salmonella microorganisms tested. The TaqMan® real-time PCR was more sensitive than the conventional PCR. In conclusion, we found that the easy-to-use real-time PCR assays were faster than conventional PCR systems. The staG-based TaqMan® real-time PCR assay showed to be specific and sensitive method for the safe and rapid detection of the S. Typhi.

  16. Local inertial oscillations in the surface ocean generated by time-varying winds

    Science.gov (United States)

    Chen, Shengli; Polton, Jeff A.; Hu, Jianyu; Xing, Jiuxing

    2015-12-01

    A new relationship is presented to give a review study on the evolution of inertial oscillations in the surface ocean locally generated by time-varying wind stress. The inertial oscillation is expressed as the superposition of a previous oscillation and a newly generated oscillation, which depends upon the time-varying wind stress. This relationship is employed to investigate some idealized wind change events. For a wind series varying temporally with different rates, the induced inertial oscillation is dominated by the wind with the greatest variation. The resonant wind, which rotates anti-cyclonically at the local inertial frequency with time, produces maximal amplitude of inertial oscillations, which grows monotonically. For the wind rotating at non-inertial frequencies, the responses vary periodically, with wind injecting inertial energy when it is in phase with the currents, but removing inertial energy when it is out of phase. The wind rotating anti-cyclonically with time is much more favorable to generate inertial oscillations than the cyclonic rotating wind. The wind with a frequency closer to the inertial frequency generates stronger inertial oscillations. For a diurnal wind, the induced inertial oscillation is dependent on latitude and is most significant at 30 °. This relationship is also applied to examine idealized moving cyclones. The inertial oscillation is much stronger on the right-hand side of the cyclone path than on the left-hand side (in the northern hemisphere). This is due to the wind being anti-cyclonic with time on the right-hand side, but cyclonic on the other side. The inertial oscillation varies with the cyclone translation speed. The optimal translation speed generating the greatest inertial oscillations is 2 m/s at the latitude of 10 ° and gradually increases to 6 m/s at the latitude of 30 °.

  17. Generator. Generator

    Energy Technology Data Exchange (ETDEWEB)

    Knoedler, R.; Bossmann, H.P.

    1992-03-12

    The invention refers to a thermo-electric generator, whose main part is a sodium concentration cell. In conventional thermo-electric generators of this kind, the sodium moving from a hot space to a colder space must be transported back to the hot space via a circulation pipe and a pump. The purpose of the invention is to avoid the disadvantages of this return transport. According to the invention, the thermo-electric generator is supported so that it can rotate, so that the position of each space relative to its propinquity to the heat source can be changed at any time.

  18. Light, time, and the physiology of biotic response to rapid climate change in animals.

    Science.gov (United States)

    Bradshaw, William E; Holzapfel, Christina M

    2010-01-01

    Examination of temperate and polar regions of Earth shows that the nonbiological world is exquisitely sensitive to the direct effects of temperature, whereas the biological world is largely organized by light. Herein, we discuss the use of day length by animals at physiological and genetic levels, beginning with a comparative experimental study that shows the preeminent role of light in determining fitness in seasonal environments. Typically, at seasonally appropriate times, light initiates a cascade of physiological events mediating the input and interpretation of day length to the output of specific hormones that ultimately determine whether animals prepare to develop, reproduce, hibernate, enter dormancy, or migrate. The mechanisms that form the basis of seasonal time keeping and their adjustment during climate change are reviewed at the physiological and genetic levels. Future avenues for research are proposed that span basic questions from how animals transition from dependency on tropical cues to temperate cues during range expansions, to more applied questions of species survival and conservation biology during periods of climatic stress.

  19. A new real-time PCR method for rapid and specific detection of ling (Molva molva).

    Science.gov (United States)

    Taboada, Ledicia; Sánchez, Ana; Sotelo, Carmen G

    2017-08-01

    Seafood fraud - often involving substitution of one species by another - has attracted much attention as it is prevalent worldwide. Whilst DNA analysis has helped to combat this type of fraud some of the methods currently in use are time-consuming and require sophisticated equipment or highly-trained personnel. This work describes the development of a new, real-time PCR TaqMan assay for the detection of ling (Molva molva) in seafood products. For this purpose, specific primers and a minor groove binding (MGB) TaqMan probe were designed to amplify the 81bp region on the cyt b gene. Efficiency, specificity and cross-reactivity assays showed statistically significant differences between the average Ct value obtained for Molva molva DNA (19.45±0.65) and the average Ct for non-target species DNA (38.3±2.8), even with closely related species such as Molva dypterygia (34.9±0.09). The proposed methodology has been validated with 31 commercial samples. Copyright © 2017 Elsevier Ltd. All rights reserved.

  20. A Rapid Prototyping Tool for Embedded, Real-Time Hierarchical Control Systems

    Directory of Open Access Journals (Sweden)

    Hugo Andrade

    2008-12-01

    Full Text Available Laboratory Virtual Instrumentation and Engineering Workbench (LabVIEW is a graphical programming tool based on the dataflow language G. Recently, runtime support for a hard real-time environment has become available for LabVIEW, which makes it an option for embedded systems prototyping. Due to its characteristics, the environment presents itself as an ideal tool for both the design and implementation of embedded software. In this paper, we study the design and implementation of embedded software by using G as the specification language and the LabVIEW RT real-time platform. One of the main advantages of this approach is that the environment leads itself to a very smooth transition from design to implementation, allowing for powerful cosimulation strategies (e.g., hardware in the loop, runtime modeling. We characterize the semantics and formal model of computation of G. We compare it to other models of computation and develop design rules and algorithms to propose sound embedded design in the language. We investigate the specification and mapping of hierarchical control systems in LabVIEW and G. Finally, we describe the development of a state-of-the-art embedded motion control system using LabVIEW as the specification, simulation and implementation tool, using the proposed design principles. The solution is state-of-the-art in terms of flexibility and control performance.

  1. A Rapid Prototyping Tool for Embedded, Real-Time Hierarchical Control Systems

    Directory of Open Access Journals (Sweden)

    Ramamoorthy Subramanian

    2008-01-01

    Full Text Available Abstract Laboratory Virtual Instrumentation and Engineering Workbench (LabVIEW is a graphical programming tool based on the dataflow language G. Recently, runtime support for a hard real-time environment has become available for LabVIEW, which makes it an option for embedded systems prototyping. Due to its characteristics, the environment presents itself as an ideal tool for both the design and implementation of embedded software. In this paper, we study the design and implementation of embedded software by using G as the specification language and the LabVIEW RT real-time platform. One of the main advantages of this approach is that the environment leads itself to a very smooth transition from design to implementation, allowing for powerful cosimulation strategies (e.g., hardware in the loop, runtime modeling. We characterize the semantics and formal model of computation of G. We compare it to other models of computation and develop design rules and algorithms to propose sound embedded design in the language. We investigate the specification and mapping of hierarchical control systems in LabVIEW and G. Finally, we describe the development of a state-of-the-art embedded motion control system using LabVIEW as the specification, simulation and implementation tool, using the proposed design principles. The solution is state-of-the-art in terms of flexibility and control performance.

  2. Reproducibility of rapid short echo time CSI at 3 tesla for clinical applications.

    Science.gov (United States)

    Van Cauter, Sofie; Sima, Diana M; Luts, Jan; ter Beek, Leon; Ribbens, Annemie; Peeters, Ronald R; Osorio Garcia, Maria I; Li, Yuquan; Sunaert, Stefan; Van Gool, Stefaan W; Van Huffel, Sabine; Himmelreich, Uwe

    2013-02-01

    To validate the reproducibility of a chemical shift imaging (CSI) acquisition protocol with parallel imaging, using automated repositioning software. Ten volunteers were imaged three times on two different 3 Tesla (T) MRI scanners, receiving anatomical imaging and two identical CSI measurements, using automated repositioning software for consistent repositioning of the CSI grid. Offcenter parameters of the CSI plane were analyzed. Coefficients of variation (CoV), Cramér-Rao lower bounds (CRLB), intraclass correlation coefficients (ICC), and coefficients of repeatability (CoR) for immediate repetition and between scanners were calculated for N-acetylaspartate, total choline, creatine, myo-inositol (Myo) and glutamine+glutamate (Glx). Proportions of variance reflecting the effect of voxel location, volunteer, repetition, time instance and scanner were calculated from an analysis of variance analysis. The offcenter vector and angulations of the CSI grid differed less than 1 mm and 2° between all measurements. The mean CoV and CRLB were less than 30% for all metabolites, except for Myo. The variance due to voxel location in the volume of interest and the error represent the largest contributions in variability. The ICC is the lowest for Myo and Glx. CoR for immediate repetition and between scanners display values between 22 and 83%. We propose a CSI protocol with acceptable reproducibility, applicable in clinical routine. Copyright © 2012 Wiley Periodicals, Inc.

  3. Microchip-based one step DNA extraction and real-time PCR in one chamber for rapid pathogen identification.

    Science.gov (United States)

    Lee, Jeong-Gun; Cheong, Kwang Ho; Huh, Nam; Kim, Suhyeon; Choi, Jeong-Woo; Ko, Christopher

    2006-07-01

    Optimal detection of a pathogen present in biological samples depends on the ability to extract DNA molecules rapidly and efficiently. In this paper, we report a novel method for efficient DNA extraction and subsequent real-time detection in a single microchip by combining laser irradiation and magnetic beads. By using a 808 nm laser and carboxyl-terminated magnetic beads, we demonstrate that a single pulse of 40 seconds lysed pathogens including E. coli and Gram-positive bacterial cells as well as the hepatitis B virus mixed with human serum. We further demonstrate that the real-time pathogen detection was performed with pre-mixed PCR reagents in a real-time PCR machine using the same microchip, after laser irradiation in a hand-held device equipped with a small laser diode. These results suggest that the new sample preparation method is well suited to be integrated into lab-on-a-chip application of the pathogen detection system.

  4. Rapid quantification of viable Campylobacter on chicken carcasses by real-time PCR and propidium monoazide as a tool for quantitative risk assessment

    DEFF Research Database (Denmark)

    Josefsen, Mathilde Hartmann; Löfström, Charlotta; Hansen, Tina Beck

    2010-01-01

    of foodborne Campylobacter, combining real-time PCR (Q-PCR) with a simple propidium monoazide (PMA) sample treatment. In less than 3 hours, this method generates a signal from only viable and viable but non-culturable (VBNC) Campylobacter with an intact membrane. The method performance was evaluated......-values (R2 = 0.993), with a quantification range from 1×1021×107 CFU/ml. The correlation between the Campylobacter counts obtained by PMA-PCR and culture on naturally contaminated chickens was high (R2 = 0.844). The amplification efficiency of the Q-PCR method was not affected by chicken rinse matrix...... or by species of Campylobacter. No Q-PCR signals were obtained from artificially inoculated chicken rinse when PMA sample treatment was applied. In conclusion, this study presents a rapid tool for producing reliable quantitative data on viable Campylobacter in chicken carcass rinse. The proposed method does...

  5. Rapid Quantification of Viable Campylobacter Bacteria on Chicken Carcasses, Using Real-Time PCR and Propidium Monoazide Treatment, as a Tool for Quantitative Risk Assessment

    DEFF Research Database (Denmark)

    Josefsen, Mathilde Hartmann; Löfström, Charlotta; Hansen, Tina Beck

    2010-01-01

    of foodborne Campylobacter, combining real-time PCR (Q-PCR) with a simple propidium monoazide (PMA) sample treatment. In less than 3 hours, this method generates a signal from only viable and viable but non-culturable (VBNC) Campylobacter with an intact membrane. The method performance was evaluated......-values (R(2) = 0.993), with a quantification range from 1x10(2)-1x10(7) CFU/ml. The correlation between the Campylobacter counts obtained by PMA-PCR and culture on naturally contaminated chickens was high (R(2) = 0.844). The amplification efficiency of the Q-PCR method was not affected by chicken rinse...... matrix or by species of Campylobacter. No Q-PCR signals were obtained from artificially inoculated chicken rinse when PMA sample treatment was applied. In conclusion, this study presents a rapid tool for producing reliable quantitative data on viable Campylobacter in chicken carcass rinse. The proposed...

  6. Isothermal calorimeter for measurements of time-dependent heat generation rate in individual supercapacitor electrodes

    Science.gov (United States)

    Munteshari, Obaidallah; Lau, Jonathan; Krishnan, Atindra; Dunn, Bruce; Pilon, Laurent

    2018-01-01

    Heat generation in electric double layer capacitors (EDLCs) may lead to temperature rise and reduce their lifetime and performance. This study aims to measure the time-dependent heat generation rate in individual carbon electrode of EDLCs under various charging conditions. First, the design, fabrication, and validation of an isothermal calorimeter are presented. The calorimeter consisted of two thermoelectric heat flux sensors connected to a data acquisition system, two identical and cold plates fed with a circulating coolant, and an electrochemical test section connected to a potentiostat/galvanostat system. The EDLC cells consisted of two identical activated carbon electrodes and a separator immersed in an electrolyte. Measurements were performed on three cells with different electrolytes under galvanostatic cycling for different current density and polarity. The measured time-averaged irreversible heat generation rate was in excellent agreement with predictions for Joule heating. The reversible heat generation rate in the positive electrode was exothermic during charging and endothermic during discharging. By contrast, the negative electrode featured both exothermic and endothermic heat generation during both charging and discharging. The results of this study can be used to validate existing thermal models, to develop thermal management strategies, and to gain insight into physicochemical phenomena taking place during operation.

  7. Childhood environment influences adrenarcheal timing among first-generation Bangladeshi migrant girls to the UK.

    Directory of Open Access Journals (Sweden)

    Lauren C Houghton

    Full Text Available Adrenarche is a key early life event that marks middle childhood at approximately 7 years of age. Earlier work with British-Bangladeshi migrant women suggested that environmental conditions experienced before adrenarche influence adult reproductive function. We therefore investigated whether Bangladeshi children who migrate to the United Kingdom (UK reach adrenarche earlier than non-migrants in Bangladesh or the United Kingdom.Healthy girls, aged 5-16 years, were recruited from schools in Sylhet, Bangladesh and London, England comprising four groups: Sylhetis (n = 165, first-generation migrants to the United Kingdom (n = 42, second-generation girls (n = 162, and British girls of European origin (n = 50. Anthropometric measurements were collected together with questionnaire data for migration and socioeconomic characteristics. Saliva samples were assayed for dehydroepiandrosterone (DHEAS using enzyme-linked immunosorbent assays. Multiple linear regressions tested for group differences in anthropometric and socioeconomic variables and DHEAS levels. Median ages at adrenarche (DHEAS>400 pg/ml were estimated using Weibull regression models for parametric survival analysis. Hazard ratios for reaching adrenarche earlier and 95% confidence intervals (CI, both unadjusted and adjusted for anthropometric variables, were estimated from the survival analyses. First-generation migrants had a median age at adrenarche (5.3 years that was significantly earlier than Sylheti (7.2, second-generation (7.4, and European (7.1 girls. In univariate analyses, first-generation girls reached adrenarche significantly earlier than Sylhetis [HR (CI: 2.8 (1.4-5.5]. In multivariate models, first generation girls still reached adrenarche earlier than Sylhetis after adjusting for height [HR(CI: 1.9 (0.9-4.1] and weight [HR(CI:1.7 (0.8-3.8], but these results were attenuated.We suggest that rapid catch-up growth experienced by first generation girls during early

  8. Time-resolved temperature measurements in a rapid compression machine using quantum cascade laser absorption in the intrapulse mode

    KAUST Repository

    Nasir, Ehson Fawad

    2016-07-16

    A temperature sensor based on the intrapulse absorption spectroscopy technique has been developed to measure in situ temperature time-histories in a rapid compression machine (RCM). Two quantum-cascade lasers (QCLs) emitting near 4.55μm and 4.89μm were operated in pulsed mode, causing a frequency "down-chirp" across two ro-vibrational transitions of carbon monoxide. The down-chirp phenomenon resulted in large spectral tuning (δν ∼2.8cm-1) within a single pulse of each laser at a high pulse repetition frequency (100kHz). The wide tuning range allowed the application of the two-line thermometry technique, thus making the sensor quantitative and calibration-free. The sensor was first tested in non-reactive CO-N2 gas mixtures in the RCM and then applied to cases of n-pentane oxidation. Experiments were carried out for end of compression (EOC) pressures and temperatures ranging 9.21-15.32bar and 745-827K, respectively. Measured EOC temperatures agreed with isentropic calculations within 5%. Temperature rise measured during the first-stage ignition of n-pentane is over-predicted by zero-dimensional kinetic simulations. This work presents, for the first time, highly time-resolved temperature measurements in reactive and non-reactive rapid compression machine experiments. © 2016 Elsevier Ltd.

  9. Rapid detection and typing of pathogenic nonpneumophila Legionella spp. isolates using a multiplex real-time PCR assay.

    Science.gov (United States)

    Benitez, Alvaro J; Winchell, Jonas M

    2016-04-01

    We developed a single tube multiplex real-time PCR assay that allows for the rapid detection and typing of 9 nonpneumophila Legionella spp. isolates that are clinically relevant. The multiplex assay is capable of simultaneously detecting and discriminating L. micdadei, L. bozemanii, L. dumoffii, L. longbeachae, L. feeleii, L. anisa, L. parisiensis, L. tucsonensis serogroup (sg) 1 and 3, and L. sainthelensis sg 1 and 2 isolates. Evaluation of the assay with nucleic acid from each of these species derived from both clinical and environmental isolates and typing strains demonstrated 100% sensitivity and 100% specificity when tested against 43 other Legionella spp. Typing of L. anisa, L. parisiensis, and L. tucsonensis sg 1 and 3 isolates was accomplished by developing a real-time PCR assay followed by high-resolution melt (HRM) analysis targeting the ssrA gene. Further typing of L. bozemanii, L. longbeachae, and L. feeleii isolates to the serogroup level was accomplished by developing a real-time PCR assay followed by HRM analysis targeting the mip gene. When used in conjunction with other currently available diagnostic tests, these assays may aid in rapidly identifying specific etiologies associated with Legionella outbreaks, clusters, sporadic cases, and potential environmental sources. Published by Elsevier Inc.

  10. Development of a real-time SYBR Green PCR assay for the rapid detection of Dermatophilus congolensis.

    Science.gov (United States)

    García, Alfredo; Martínez, Remigio; Benitez-Medina, José Manuel; Risco, David; Garcia, Waldo Luis; Rey, Joaquín; Alonso, Juan Manuel; Hermoso de Mendoza, Javier

    2013-01-01

    Methods such as real time (RT)-PCR have not been developed for the rapid detection and diagnosis of Dermatophilus (D.) congolensis infection. In the present study, a D. congolensis-specific SYBR Green RT-PCR assay was evaluated. The detection limit of the RT-PCR assay was 1 pg of DNA per PCR reaction. No cross-reaction with nucleic acids extracted from Pseudomonas aeruginosa, Mycobacterium tuberculosis, Staphylococcus aureus, or Austwickia chelonae was observed. Finally, the RT-PCR assay was used to evaluate clinical samples collected from naturally infected animals with D. congolensis. The results showed that this assay is a fast and reliable method for diagnosing dermatophilosis.

  11. Development of a real-time SYBR Green PCR assay for the rapid detection of Dermatophilus congolensis

    OpenAIRE

    García, Alfredo; Martínez, Remigio; Benitez-Medina, José Manuel; Risco, David; García, Waldo Luis; Rey, Joaquín; Alonso, Juan Manuel; de Mendoza, Javier Hermoso

    2013-01-01

    Methods such as real time (RT)-PCR have not been developed for the rapid detection and diagnosis of Dermatophilus (D.) congolensis infection. In the present study, a D. congolensis-specific SYBR Green RT-PCR assay was evaluated. The detection limit of the RT-PCR assay was 1 pg of DNA per PCR reaction. No cross-reaction with nucleic acids extracted from Pseudomonas aeruginosa, Mycobacterium tuberculosis, Staphylococcus aureus, or Austwickia chelonae was observed. Finally, the RT-PCR assay was ...

  12. Rapid analysis of time series data to identify changes in electricity consumption patterns in UK secondary schools

    Energy Technology Data Exchange (ETDEWEB)

    Stuart, Graeme; Fleming, Paul; Ferreira, Vasco [Institute of Energy and Sustainable Development, De Montfort University, The Gateway, Leicester, LE1 9BH (United Kingdom); Harris, Peter [Cheriton Technology Management Ltd., Cambridge (United Kingdom)

    2007-04-15

    This paper presents a methodology for energy professionals to identify potential electricity saving opportunities in buildings from the analysis of half-hourly electricity consumption data. The technique recommended in UK government good practice guidance for use with monthly gas data has been applied to half-hourly electricity data from 37 secondary schools. The technique monitors consumption over time, identifying any changes in patterns and quantifying their effects. It has the advantage of being both high resolution and quick to employ. The analysis produces results that allow energy professionals to rapidly detect changes in electricity consumption. (author)

  13. Rapid analysis of tetracycline hydrochloride solution by attenuated total reflection terahertz time-domain spectroscopy.

    Science.gov (United States)

    Qin, Jianyuan; Xie, Lijuan; Ying, Yibin

    2017-06-01

    Despite numerous methods for the detection of antibiotic residues, they are usually destructive and require tedious pre-treatment. Terahertz time-domain spectroscopy (THz-TDS) is an emerging technology that has advantages for analyzing chemical and biological compounds since THz waves are very sensitive to the molecular vibrational modes. Here we incorporated attenuated total reflection technique into the THz-TDS and demonstrated that this technology (ATR THz-TDS) allowed to determine the complex refractive indices of tetracycline hydrochloride (TCH) solutions with high accuracy and could be used to predict their concentrations. Our results from the simple linear regression models indicated that the complex refractive index exhibited a monotonic decrease with an increase in the TCH concentration. This study will provide new knowledge about the concentration determination of a liquid sample that couldn't be elucidated with the conventional THz-TDS technologies. Copyright © 2016 Elsevier Ltd. All rights reserved.

  14. Rapid detection of carbapenemase genes by multiplex real-time PCR.

    Science.gov (United States)

    Monteiro, Jussimara; Widen, Raymond H; Pignatari, Antonio C C; Kubasek, Carly; Silbert, Suzane

    2012-04-01

    To develop a single multiplex real-time PCR assay to detect six different genetic types of carbapenemases already identified in Enterobacteriaceae (KPC, GES, NDM, IMP, VIM and OXA-48). A total of 58 bacterial isolates were tested. Thirty were previously characterized as resistant to carbapenems and documented by PCR and sequencing analysis to carry the following genes: bla(KPC) type, bla(GES) type, bla(IMP) type, bla(VIM) type, bla(OXA-48) and bla(NDM-1). These positive strains included 21 Enterobacteriaceae, 1 Acinetobacter baumannii and 8 Pseudomonas aeruginosa isolates. The remaining 28 isolates previously tested susceptible to carbapenems and were negative for these genes. Bacterial DNA was extracted using the easyMag extractor (bioMérieux, France). The real-time PCR was performed using the Rotor-Gene 6000 instrument (Corbett Life Science, Australia) and specific primers for each carbapenemase target were designed using the DNAStar software (Madison, WI, USA). Each one of the six carbapenemase genes tested presented a different melting curve after PCR amplification. The melting temperature (T(m)) analysis of the amplicons identified was as follows: bla(IMP) type (T(m) 80.1°C), bla(OXA-48) (T(m) 81.6°C), bla(NDM-1) (T(m) 84°C), bla(GES) type (T(m) 88.6°C), bla(VIM) type (T(m) 90.3°C) and bla(KPC) type (T(m) 91.6°C). No amplification was detected among the negative samples. The results showed 100% concordance with the genotypes previously identified. The new assay was able to detect the presence of six different carbapenemase gene types in a single 3 h PCR.

  15. Sequential time-step generation companies decisions in oligopolistic electricity market

    Energy Technology Data Exchange (ETDEWEB)

    Gutierrez-Alcaraz, Guillermo [Programa de Graduados e Investigacion en Ingenieria Electrica, Departamento de Ingenieria Electrica y Electronica del Instituto Tecnologico de Morelia, Morelia, Michoacan (Mexico)

    2008-05-15

    This paper studies the production decisions of generation companies (GENCOs) which are fully engaged in oligopolistic electricity markets. The model presented is based upon the static equilibrium model solved sequentially in time. By decomposing the problem in time, each time-step is solved independently using a Cournot-like market model. The time dimension is divided into discrete, 1-h time-steps. The model also incorporates the effects of technical and temporal constraints such as time on/off and ramp up/down. Since GENCOs tend toward repetitive decision-making, they can more easily learn from the market. The concept of forward expectations and the lessons derived from the market are introduced, and several numerical examples are provided. (author)

  16. Universal Probe Library based real-time PCR for rapid detection of bacterial pathogens from positive blood culture bottles.

    Science.gov (United States)

    Zhu, Lingxiang; Shen, Ding-Xia; Zhou, Qiming; Liu, Chao-Jun; Li, Zexia; Fang, Xiangdong; Li, Quan-Zhen

    2014-03-01

    A set of real-time PCR based assays using the locked nucleic acid probes from Roche Universal ProbeLibrary were developed for rapid detection of eight bacterial species from positive blood culture bottles. Four duplex real-time PCR reactions targeting to one Gram-positive bacterium and one Gram-negative bacterium were optimized for species identification according to Gram stain results. We also included mecA-specific primers and probes in the assays to indicate the presence of methicillin resistance in the bacterial species. The analytical sensitivity was in the range of 1-10 CFU per PCR reaction mixture. The specificity and cross reactivity of the assay was validated by 28 ATCC reference strains and 77 negative blood culture specimens. No cross-reactivity was observed in these samples thus demonstrating 100 % specificity. 72 previously characterized clinical isolates were tested by the real-time PCR assay and validated the accuracy and feasibility of the real-time PCR assay. Furthermore, 55 positive blood culture samples were tested using real-time PCR and 50 (90.9 %) of them were identified as the same species as judged by biochemical analysis. In total, real-time PCR showed 98.2 % consistent to that of traditional methods. Real-time PCR can be used as a supplement for early detection of the frequently-occurred pathogens from the positive blood cultures.

  17. Preliminary feasibility studies in times of rapid cost escalation. [Oil shale and tar sand industries

    Energy Technology Data Exchange (ETDEWEB)

    Oliver, E.D.; Moll, A.J.

    1976-01-01

    Not the least of the problems delaying the development and commercialization of synthetic fuel processes has been the extraordinary escalation of cost estimates by factors of up to ten in the past eight years. This study identifies and analyzes some of the most important contributing factors that have converged in the last few years. These factors include overoptimism and ill-defined project scope in the early stages, tightening environmental controls, difficulties in obtaining raw materials and fuels, general inflationary trends, ''hyperinflation'' of the costs of critical equipment, local labor shortages, and increased times required for procurement and construction. Cost increases have been particularly dramatic for ''offsites,'' liberally defined as nonprocess related parts of projects. Case histories of oil shale and tar sand developments are analyzed. Learning curves of costs during development and commercial use are studied. The analysis suggests that the worst of the extraordinary increases (above general inflationary trends) are probably over. Criteria to judge the state of development of processes are given, and some procedures to avoid future pitfalls are suggested.

  18. Rapid increases and time-lagged declines in amphibian occupancy after wildfire.

    Science.gov (United States)

    Hossack, Blake R; Lowe, Winsor H; Corn, Paul Stephen

    2013-02-01

    Climate change is expected to increase the frequency and severity of drought and wildfire. Aquatic and moisture-sensitive species, such as amphibians, may be particularly vulnerable to these modified disturbance regimes because large wildfires often occur during extended droughts and thus may compound environmental threats. However, understanding of the effects of wildfires on amphibians in forests with long fire-return intervals is limited. Numerous stand-replacing wildfires have occurred since 1988 in Glacier National Park (Montana, U.S.A.), where we have conducted long-term monitoring of amphibians. We measured responses of 3 amphibian species to fires of different sizes, severity, and age in a small geographic area with uniform management. We used data from wetlands associated with 6 wildfires that burned between 1988 and 2003 to evaluate whether burn extent and severity and interactions between wildfire and wetland isolation affected the distribution of breeding populations. We measured responses with models that accounted for imperfect detection to estimate occupancy during prefire (0-4 years) and different postfire recovery periods. For the long-toed salamander (Ambystoma macrodactylum) and Columbia spotted frog (Rana luteiventris), occupancy was not affected for 6 years after wildfire. But 7-21 years after wildfire, occupancy for both species decreased ≥ 25% in areas where >50% of the forest within 500 m of wetlands burned. In contrast, occupancy of the boreal toad (Anaxyrus boreas) tripled in the 3 years after low-elevation forests burned. This increase in occupancy was followed by a gradual decline. Our results show that accounting for magnitude of change and time lags is critical to understanding population dynamics of amphibians after large disturbances. Our results also inform understanding of the potential threat of increases in wildfire frequency or severity to amphibians in the region. ©2012 Society for Conservation Biology.

  19. Rapid increases and time-lagged declines in amphibian occupancy after wildfire

    Science.gov (United States)

    Hossack, Blake R.; Lowe, Winsor H.; Corn, Paul Stephen

    2013-01-01

    Climate change is expected to increase the frequency and severity of drought and wildfire. Aquatic and moisture-sensitive species, such as amphibians, may be particularly vulnerable to these modified disturbance regimes because large wildfires often occur during extended droughts and thus may compound environmental threats. However, understanding of the effects of wildfires on amphibians in forests with long fire-return intervals is limited. Numerous stand-replacing wildfires have occurred since 1988 in Glacier National Park (Montana, U.S.A.), where we have conducted long-term monitoring of amphibians. We measured responses of 3 amphibian species to fires of different sizes, severity, and age in a small geographic area with uniform management. We used data from wetlands associated with 6 wildfires that burned between 1988 and 2003 to evaluate whether burn extent and severity and interactions between wildfire and wetland isolation affected the distribution of breeding populations. We measured responses with models that accounted for imperfect detection to estimate occupancy during prefire (0-4 years) and different postfire recovery periods. For the long-toed salamander (Ambystoma macrodactylum) and Columbia spotted frog (Rana luteiventris), occupancy was not affected for 6 years after wildfire. But 7-21 years after wildfire, occupancy for both species decreased ≥ 25% in areas where >50% of the forest within 500 m of wetlands burned. In contrast, occupancy of the boreal toad (Anaxyrus boreas) tripled in the 3 years after low-elevation forests burned. This increase in occupancy was followed by a gradual decline. Our results show that accounting for magnitude of change and time lags is critical to understanding population dynamics of amphibians after large disturbances. Our results also inform understanding of the potential threat of increases in wildfire frequency or severity to amphibians in the region.

  20. Rapid acquisition of HPV around the time of sexual debut in adolescent girls in Tanzania.

    Science.gov (United States)

    Houlihan, Catherine F; Baisley, Kathy; Bravo, Ignacio G; Kapiga, Saidi; de Sanjosé, Silvia; Changalucha, John; Ross, David A; Hayes, Richard J; Watson-Jones, Deborah

    2016-06-01

    No reports exist on genotype-specific human papillomavirus (HPV) acquisition in girls after first sex in sub-Saharan Africa, despite high HPV prevalence and cervical cancer incidence. We followed 503 HP-unvaccinated girls aged 15-16 years in Mwanza, Tanzania, 3-monthly for 18 months with interviews and self-administered vaginal swabs. Swabs were tested for 13 higHRisk and 24 low-risk HPV genotypes. Incidence, clearance and duration of overall HPV and genotype-specific infections were calculated and associated factors evaluated. A total of 106 participants reported first sex prior to enrolment (N = 29) or during follow-up (N = 77). One was HIV-positive at the final visit. The remaining 105 girls contributed 323 adequate specimens. Incidence of any new HPV genotype was 225/100 person-years (pys), and incidence of vaccine types HPV-6, -11, -16 and -18 were 12, 2, 2 and 7/100 pys, respectively. Reporting sex in the past 3 months and knowing the most recent sexual partner for a longer period before sex were associated with HPV acquisition. Median time from reported sexual debut to first HPVinfection was 5 months, and infection duration was 6 months. This is the first description of HPV acquisition after first sex in sub-Saharan Africa where the incidence of cervical cancer is amongst the highest in the world. HPV incidence was very high after first sex, including some vaccine genotypes, and infection duration was short. This very high HPV incidence may help explain high cervical cancer rates, and supports recommendations that the HPV vaccine should be given to girls before first sex. © The Author 2016; Published by Oxford University Press on behalf of the International Epidemiological Association.

  1. Rapid and sensitive detection of Yersinia pestis using amplification of plague diagnostic bacteriophages monitored by real-time PCR.

    Directory of Open Access Journals (Sweden)

    Kirill V Sergueev

    Full Text Available BACKGROUND: Yersinia pestis, the agent of plague, has caused many millions of human deaths and still poses a serious threat to global public health. Timely and reliable detection of such a dangerous pathogen is of critical importance. Lysis by specific bacteriophages remains an essential method of Y. pestis detection and plague diagnostics. METHODOLOGY/PRINCIPAL FINDINGS: The objective of this work was to develop an alternative to conventional phage lysis tests--a rapid and highly sensitive method of indirect detection of live Y. pestis cells based on quantitative real-time PCR (qPCR monitoring of amplification of reporter Y. pestis-specific bacteriophages. Plague diagnostic phages phiA1122 and L-413C were shown to be highly effective diagnostic tools for the detection and identification of Y. pestis by using qPCR with primers specific for phage DNA. The template DNA extraction step that usually precedes qPCR was omitted. phiA1122-specific qPCR enabled the detection of an initial bacterial concentration of 10(3 CFU/ml (equivalent to as few as one Y. pestis cell per 1-microl sample in four hours. L-413C-mediated detection of Y. pestis was less sensitive (up to 100 bacteria per sample but more specific, and thus we propose parallel qPCR for the two phages as a rapid and reliable method of Y. pestis identification. Importantly, phiA1122 propagated in simulated clinical blood specimens containing EDTA and its titer rise was detected by both a standard plating test and qPCR. CONCLUSIONS/SIGNIFICANCE: Thus, we developed a novel assay for detection and identification of Y. pestis using amplification of specific phages monitored by qPCR. The method is simple, rapid, highly sensitive, and specific and allows the detection of only live bacteria.

  2. Rapid concentration and sensitive detection of hookworm ova from wastewater matrices using a real-time PCR method.

    Science.gov (United States)

    Gyawali, P; Sidhu, J P S; Ahmed, W; Jagals, P; Toze, S

    2015-12-01

    The risk of human hookworm infections from land application of wastewater matrices could be high in regions with high hookworm prevalence. A rapid, sensitive and specific hookworm detection method from wastewater matrices is required in order to assess human health risks. Currently available methods used to identify hookworm ova to the species level are time consuming and lack accuracy. In this study, a real-time PCR method was developed for the rapid, sensitive and specific detection of canine hookworm (Ancylostoma caninum) ova from wastewater matrices. A. caninum was chosen because of its morphological similarity to the human hookworm (Ancylostoma duodenale and Necator americanus). The newly developed PCR method has high detection sensitivity with the ability to detect less than one A. caninum ova from 1 L of secondary treated wastewater at the mean threshold cycle (CT) values ranging from 30.1 to 34.3. The method is also able to detect four A. caninum ova from 1 L of raw wastewater and from ∼4 g of treated sludge with mean CT values ranging from 35.6 to 39.8 and 39.8 to 39.9, respectively. The better detection sensitivity obtained for secondary treated wastewater compared to raw wastewater and sludge samples could be attributed to sample turbidity. The proposed method appears to be rapid, sensitive and specific compared to traditional methods and has potential to aid in the public health risk assessment associated with land application of wastewater matrices. Furthermore, the method can be adapted to detect other helminth ova of interest from wastewater matrices. Crown Copyright © 2015. Published by Elsevier Inc. All rights reserved.

  3. Novel Multitarget Real-Time PCR Assay for Rapid Detection of Bordetella Species in Clinical Specimens ▿

    Science.gov (United States)

    Tatti, Kathleen M.; Sparks, Kansas N.; Boney, Kathryn O.; Tondella, Maria Lucia

    2011-01-01

    A novel multitarget real-time PCR (RT-PCR) assay for the rapid identification of Bordetella pertussis, B. parapertussis, and B. holmesii was developed using multicopy insertion sequences (ISs) in combination with the pertussis toxin subunit S1 (ptxS1) singleplex assay. The RT-PCR targets for the multiplex assay include IS481, commonly found in B. pertussis and B. holmesii; IS1001 of B. parapertussis; and the IS1001-like sequence of B. holmesii. Overall, 402 Bordetella species and 66 non-Bordetella species isolates were tested in the multitarget assay. Cross-reactivity was found only with 5 B. bronchiseptica isolates, which were positive with IS1001 of B. parapertussis. The lower limit of detection (LLOD) of the multiplex assay was similar to the LLOD of each target in an individual assay format, which was approximately 1 genomic equivalent per reaction for all targets. A total of 197 human clinical specimens obtained during cough-illness outbreak investigations were used to evaluate the multitarget RT-PCR assay. The multiplex assay results from 87 clinical specimens were compared to the individual RT-PCR assay and culture results. The multitarget assay is useful as a diagnostic tool to confirm B. pertussis infections and to rapidly identify other Bordetella species. In conclusion, the use of this multitarget RT-PCR approach increases specificity, while it decreases the amount of time, reagents, and specimen necessary for RT-PCRs used for accurate diagnosis of pertussis-like illness. PMID:21940464

  4. Direct analysis in real time mass spectrometry for the rapid identification of four highly hazardous pesticides in agrochemicals.

    Science.gov (United States)

    Wang, Lei; Zhao, Pengyue; Zhang, Fengzu; Li, Yanjie; Pan, Canping

    2012-08-30

    Direct analysis in real time (DART) is a new ion source technique, which is conducted in the open air under ambient conditions, applied to the rapid and direct analysis of any material (gases, liquids, and solids) with minimal or no sample preparation. In order to take advantage of the capacity of DART mass spectrometry for the real-time analysis of hazardous ingredients in commercial agrochemicals, a pilot study of rapid qualitative determination of hazardous pesticides was performed. Highly hazardous pesticides were identified by DART ionization coupled to a single-quadrupole mass spectrometer (DART-MS). Acetonitrile was chosen for dissolving samples prior to the analysis. Samples were analyzed by this technique in as little as 5 s. Phorate, carbofuran, ethoprophos and fipronil were be detected directly from commercial agrochemicals. The ionization-related parameters (DART temperature, grid voltage and MS fragment) of these compounds were optimized to obtain highly response. Isotope patterns were taken into consideration for qualitative identification. Relative standard deviations (RSDs, n = 5) of 2.3-15.0% were obtained by measuring the relative abundance of selected isotopes. This study showed that DART-MS technology was able to qualitatively determine the existence of highly hazardous pesticides in commercial pesticide formulations. It is suggested that this technology should be applied for routine monitoring in the market. Copyright © 2012 John Wiley & Sons, Ltd.

  5. Rapid determination of ginkgolic acids in Ginkgo biloba kernels and leaves by direct analysis in real time-mass spectrometry.

    Science.gov (United States)

    Huang, Zhongping; Xu, Yueting; Huang, Yilei; Liu, Charles; Jiang, Kezhi; Wang, Lili

    2017-11-14

    A novel method based on direct analysis in real time integrated with mass spectrometry was established and applied into rapid determination of ginkgolic acids in Ginkgo biloba kernels and leaves. Instrument parameter settings were optimized to obtain the sensitive and accurate determination of ginkgolic acids. At the sample introduction speed of 0.2 mm/s, high intensity of [M-H]- ions for ginkgolic acids were observed in the negative ion mode by utilization of high-purity helium gas at 450°C. Two microliters of methanol extract of G. biloba kernels or leaves dropped on the surface of Quick-Strip module was analyzed after solvent evaporated to dryness. A series of standard solutions of ginkgolic acid 13:0 in the range of 2-50 mg/L were analyzed with a correlation coefficient r = 0.9981 and relative standard deviation (n = 5) from 12.5 to 13.7%. The limit of detection was 0.5 mg/L. The results of direct analysis in real time-mass spectrometry were in agreement with those observed by thermochemolysis gas chromatography. The proposed method demonstrated significant potential in the application of the high-throughput screening and rapid analysis for ginkgolic acids in dietary supplements. © 2017 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

  6. Accurate and rapid identification of the Burkholderia pseudomallei near-neighbour, Burkholderia ubonensis, using real-time PCR.

    Science.gov (United States)

    Price, Erin P; Sarovich, Derek S; Webb, Jessica R; Ginther, Jennifer L; Mayo, Mark; Cook, James M; Seymour, Meagan L; Kaestli, Mirjam; Theobald, Vanessa; Hall, Carina M; Busch, Joseph D; Foster, Jeffrey T; Keim, Paul; Wagner, David M; Tuanyok, Apichai; Pearson, Talima; Currie, Bart J

    2013-01-01

    Burkholderia ubonensis is an environmental bacterium belonging to the Burkholderia cepacia complex (Bcc), a group of genetically related organisms that are associated with opportunistic but generally nonfatal infections in healthy individuals. In contrast, the near-neighbour species Burkholderia pseudomallei causes melioidosis, a disease that can be fatal in up to 95% of cases if left untreated. B. ubonensis is frequently misidentified as B. pseudomallei from soil samples using selective culturing on Ashdown's medium, reflecting both the shared environmental niche and morphological similarities of these species. Additionally, B. ubonensis shows potential as an important biocontrol agent in B. pseudomallei-endemic regions as certain strains possess antagonistic properties towards B. pseudomallei. Current methods for characterising B. ubonensis are laborious, time-consuming and costly, and as such this bacterium remains poorly studied. The aim of our study was to develop a rapid and inexpensive real-time PCR-based assay specific for B. ubonensis. We demonstrate that a novel B. ubonensis-specific assay, Bu550, accurately differentiates B. ubonensis from B. pseudomallei and other species that grow on selective Ashdown's agar. We anticipate that Bu550 will catalyse research on B. ubonensis by enabling rapid identification of this organism from Ashdown's-positive colonies that are not B. pseudomallei.

  7. Accurate and rapid identification of the Burkholderia pseudomallei near-neighbour, Burkholderia ubonensis, using real-time PCR.

    Directory of Open Access Journals (Sweden)

    Erin P Price

    Full Text Available Burkholderia ubonensis is an environmental bacterium belonging to the Burkholderia cepacia complex (Bcc, a group of genetically related organisms that are associated with opportunistic but generally nonfatal infections in healthy individuals. In contrast, the near-neighbour species Burkholderia pseudomallei causes melioidosis, a disease that can be fatal in up to 95% of cases if left untreated. B. ubonensis is frequently misidentified as B. pseudomallei from soil samples using selective culturing on Ashdown's medium, reflecting both the shared environmental niche and morphological similarities of these species. Additionally, B. ubonensis shows potential as an important biocontrol agent in B. pseudomallei-endemic regions as certain strains possess antagonistic properties towards B. pseudomallei. Current methods for characterising B. ubonensis are laborious, time-consuming and costly, and as such this bacterium remains poorly studied. The aim of our study was to develop a rapid and inexpensive real-time PCR-based assay specific for B. ubonensis. We demonstrate that a novel B. ubonensis-specific assay, Bu550, accurately differentiates B. ubonensis from B. pseudomallei and other species that grow on selective Ashdown's agar. We anticipate that Bu550 will catalyse research on B. ubonensis by enabling rapid identification of this organism from Ashdown's-positive colonies that are not B. pseudomallei.

  8. Next-Generation Library Catalogs and the Problem of Slow Response Time

    Directory of Open Access Journals (Sweden)

    Margaret Brown-Sica

    2010-12-01

    Full Text Available Response time as defined for this study is the time that it takes for all files that constitute a single webpage to travel across the Internet from a Web server to the end user’s browser. In this study, the authors tested response times on queries for identical items in five different library catalogs, one of them a next-generation (NextGen catalog. The authors also discuss acceptable response time and how it may affect the discovery process. They suggest that librarians and vendors should develop standards for acceptable response time and use it in the product selection and development processes.

  9. Comparative evaluation of TRI-DOT Rapid HIV test with fourth-generation ELISA for the detection of human immunodeficiency virus.

    Science.gov (United States)

    Sudha, T; Teja, V D; Gopal, M; Rajesh, M; Lakshmi, V

    2005-10-01

    This study evaluated the TRI-DOT Rapid HIV test for the early detection of human immunodeficiency virus (HIV) infection in comparison with a fourth-generation ELISA (Vironostika HIV Uniform II). Of 23,609 sera, seven (0.03%) gave discordant results. Six of these were reactive only by the fourth-generation assay and were p24 antigen-positive by VIDAS DUO, Western blot and qualitative RT-PCR tests. The remaining discordant serum was considered to be false-positive by the TRI-DOT assay, as it was negative by repeat ELISA and Western blot tests. The sensitivity and specificity of the TRI-DOT test were 99.48% and 99.99%, respectively, compared with the fourth-generation ELISA.

  10. Generation of future high-resolution rainfall time series with a disaggregation model

    Science.gov (United States)

    Müller, Hannes; Haberlandt, Uwe

    2017-04-01

    High-resolution rainfall data are needed in many fields of hydrology and water resources management. For analyzes of future rainfall condition climate scenarios exist with hourly values of rainfall. However, the direct usage of these data is associated with uncertainties which can be indicated by comparisons of observations and C20 control runs. An alternative is the derivation of changes of rainfall behavior over the time from climate simulations. Conclusions about future rainfall conditions can be drawn by adding these changes to observed time series. A multiplicative cascade model is used in this investigation for the disaggregation of daily rainfall amounts to hourly values. Model parameters can be estimated by REMO rainfall time series (UBA-, BfG- and ENS-realization), based on ECHAM5. Parameter estimation is carried out for C20 period as well as near term and long term future (2021-2050 and 2071-2100). Change factors for both future periods are derived by parameter comparisons and added to the parameters estimated from observed time series. This enables the generation of hourly rainfall time series from observed daily values with respect to future changes. The investigation is carried out for rain gauges in Lower Saxony. Generated Time series are analyzed regarding statistical characteristics, e.g. extreme values, event-based (wet spell duration and amounts, dry spell duration, …) and continuum characteristics (average intensity, fraction of dry intervals,…). The generation of the time series is validated by comparing the changes in the statistical characteristics from the REMO data and from the disaggregated data.

  11. Space-time scenarios of wind power generation produced using a Gaussian copula with parametrized precision matrix

    DEFF Research Database (Denmark)

    Tastu, Julija; Pinson, Pierre; Madsen, Henrik

    The emphasis in this work is placed on generating space-time trajectories (also referred to as scenarios) of wind power generation. This calls for prediction of multivariate densities describing wind power generation at a number of distributed locations and for a number of successive lead times. ...

  12. Gas dwell time control for rapid and long lifetime growth of single-walled carbon nanotube forests.

    Science.gov (United States)

    Yasuda, Satoshi; Futaba, Don N; Yamada, Takeo; Yumura, Motoo; Hata, Kenji

    2011-09-14

    The heat history (i.e., "dwell time") of the carbon source gas was demonstrated as a vital parameter for very rapid single-walled carbon nanotube (SWNT) forest growth with long lifetime. When the dwell time was raised to 7 s from the 4 s used for standard growth, the growth rate increased to 620 μm/min: a benchmark for SWNT forest growth on substrates. Importantly, the increase in growth rate was achieved without decreasing either the growth lifetime or the quality of the SWNTs. We interpret that the conversion rate of the carbon feedstock into CNTs was selectively increased (versus catalyst deactivation) by delivering a thermally decomposed carbon source with the optimum thermal history to the catalyst site.

  13. Real-time observation of interfering crystal electrons in high-harmonic generation.

    Science.gov (United States)

    Hohenleutner, M; Langer, F; Schubert, O; Knorr, M; Huttner, U; Koch, S W; Kira, M; Huber, R

    2015-07-30

    Acceleration and collision of particles has been a key strategy for exploring the texture of matter. Strong light waves can control and recollide electronic wavepackets, generating high-harmonic radiation that encodes the structure and dynamics of atoms and molecules and lays the foundations of attosecond science. The recent discovery of high-harmonic generation in bulk solids combines the idea of ultrafast acceleration with complex condensed matter systems, and provides hope for compact solid-state attosecond sources and electronics at optical frequencies. Yet the underlying quantum motion has not so far been observable in real time. Here we study high-harmonic generation in a bulk solid directly in the time domain, and reveal a new kind of strong-field excitation in the crystal. Unlike established atomic sources, our solid emits high-harmonic radiation as a sequence of subcycle bursts that coincide temporally with the field crests of one polarity of the driving terahertz waveform. We show that these features are characteristic of a non-perturbative quantum interference process that involves electrons from multiple valence bands. These results identify key mechanisms for future solid-state attosecond sources and next-generation light-wave electronics. The new quantum interference process justifies the hope for all-optical band-structure reconstruction and lays the foundation for possible quantum logic operations at optical clock rates.

  14. Rapid changes in magma storage beneath the Klyuchevskoy group of volcanoes inferred from time-dependent seismic tomography

    Science.gov (United States)

    Koulakov, Ivan; Gordeev, Evgeniy I.; Dobretsov, Nikolay L.; Vernikovsky, Valery A.; Senyukov, Sergey; Jakovlev, Andrey; Jaxybulatov, Kayrly

    2013-08-01

    We present the results of time-dependent local earthquake tomography for the Kluchevskoy group of volcanoes in Kamchatka, Russia. We consider the time period from 1999 to 2009, which covers several stages of activity of Kluchevskoy and Bezymianny volcanoes. The results are supported by synthetic tests that recover a common 3D model based on data corresponding to different time windows. Throughout the period, we observe a robust feature below 25 km depth with anomalously high Vp/Vs values (up to 2.2). We interpret this feature as a channel bringing deep mantle materials with high fluid and melt content to the bottom of the crust. This mantle channel directly or indirectly determines the activity of all volcanoes of the Kluchevskoy group. In the crust, we model complex structure that varies over time. During the pre-eruptive period, we detected two levels of potential magma storage: one in the middle crust at 10-12 km depth and one close to the surface just below Kluchevskoy volcano. In 2005, a year of powerful eruptions of Kluchevskoy and Besymiyanny volcanoes, we observe a general increase in Vp/Vs throughout the crust. In the relaxation period following the eruption, the Vp/Vs values are generally low, and no strong anomalous zones in the crust are observed. We propose that very rapid variations in Vp/Vs are most likely due to abrupt changes in the stress and deformation states, which cause fracturing and the active transport of fluids. These fluids drive more fracturing in a positive feedback system that ultimately leads to eruption. We envision the magma reservoirs beneath the Kluchevskoy group as sponge-structured volumes that may quickly change the content of the molten phases as fluids pulse rapidly through the system.

  15. Rapid and minimum invasive functional brain mapping by real-time visualization of high gamma activity during awake craniotomy.

    Science.gov (United States)

    Ogawa, Hiroshi; Kamada, Kyousuke; Kapeller, Christoph; Hiroshima, Satoru; Prueckl, Robert; Guger, Christoph

    2014-11-01

    Electrocortical stimulation (ECS) is the gold standard for functional brain mapping during an awake craniotomy. The critical issue is to set aside enough time to identify eloquent cortices by ECS. High gamma activity (HGA) ranging between 80 and 120 Hz on electrocorticogram is assumed to reflect localized cortical processing. In this report, we used real-time HGA mapping and functional neuronavigation integrated with functional magnetic resonance imaging (fMRI) for rapid and reliable identification of motor and language functions. Four patients with intra-axial tumors in their dominant hemisphere underwent preoperative fMRI and lesion resection with an awake craniotomy. All patients showed significant fMRI activation evoked by motor and language tasks. During the craniotomy, we recorded electrocorticogram activity by placing subdural grids directly on the exposed brain surface. Each patient performed motor and language tasks and demonstrated real-time HGA dynamics in hand motor areas and parts of the inferior frontal gyrus. Sensitivity and specificity of HGA mapping were 100% compared with ECS mapping in the frontal lobe, which suggested HGA mapping precisely indicated eloquent cortices. We found different HGA dynamics of language tasks in frontal and temporal regions. Specificities of the motor and language-fMRI did not reach 85%. The results of HGA mapping was mostly consistent with those of ECS mapping, although fMRI tended to overestimate functional areas. This novel technique enables rapid and accurate identification of motor and frontal language areas. Furthermore, real-time HGA mapping sheds light on underlying physiological mechanisms related to human brain functions. Copyright © 2014 Elsevier Inc. All rights reserved.

  16. A Chemical Reaction Network to Generate Random, Power-Law-Distributed Time Intervals.

    Science.gov (United States)

    Krauss, Patrick; Schulze, Holger; Metzner, Claus

    2017-10-06

    In Lévy walks (LWs), particles move with a fixed speed along straight line segments and turn in new directions after random time intervals that are distributed according to a power law. Such LWs are thought to be an advantageous foraging and search strategy for organisms. While complex nervous systems are certainly capable of producing such behavior, it is not clear at present how single-cell organisms can generate the long-term correlated control signals required for a LW. Here, we construct a biochemical reaction system that generates long-time correlated concentration fluctuations of a signaling substance, with a tunable fractional exponent of the autocorrelation function. The network is based on well-known modules, and its basic function is highly robust with respect to the parameter settings.

  17. Development of a Synchronous-Generator Experimental Bench for Standstill Time-Domain Tests

    Directory of Open Access Journals (Sweden)

    M.A. Arjona

    2011-08-01

    Full Text Available This paper presents the development of an experimental bench for performing time-domain tests on synchronousmachines at standstill. The test bench allows the collection of experimental data which can then be used in theparameter estimation of mathematical models of synchronous motors and generators. The system development isbased on the LabVIEW programming language. It effortlessly allows the calibration of voltage and current sensors, thed-q magnetic axis positioning of the synchronous generator, and the spectral analysis from the collected data. Inaddition, the testing environment includes non-sophisticated instrumentation elements and a power amplifier. Thisexperimental bench has a friendly user interface which guides the user throughout a defined methodology to allow theachievement of the different time domain tests on synchronous machines. A 7kVA, 220V, 60Hz synchronousgenerator was used to show the functionality and usefulness of the test bench in research and teaching electricalmachine theory.

  18. Mucosal C-terminal maltase-glucoamylase hydrolyzes large size starch digestion products that may contribute to rapid postprandial glucose generation.

    Science.gov (United States)

    Lee, Byung-Hoo; Lin, Amy Hui-Mei; Nichols, Buford L; Jones, Kyra; Rose, David R; Quezada-Calvillo, Roberto; Hamaker, Bruce R

    2014-05-01

    The four mucosal α-glucosidases, which differ in their digestive roles, generate glucose from glycemic carbohydrates and accordingly can be viewed as a control point for rate of glucose delivery to the body. In this study, individual recombinant enzymes were used to understand how α-glucan oligomers are digested by each enzyme, and how intermediate α-amylolyzed starches are hydrolyzed, to elucidate a strategy for moderating the glycemic spike of rapidly digestible starchy foods. The C-terminal maltase-glucoamylase (ctMGAM, commonly termed "glucoamylase") was able to rapidly hydrolyze longer maltooligosaccharides, such as maltotetraose and maltopentaose, to glucose. Moreover, it was found to convert larger size maltodextrins, as would be produced early in α-amylase digestion of starch, efficiently to glucose. It is postulated that ctMGAM has the additional capacity to hydrolyze large α-amylase products that are produced immediately on starch digestion in the duodenum and contribute to the rapid generation of glucose from starch-based meals. The findings suggest that partial inhibition of ctMGAM, such as by natural inhibitors found in foods, might be used to moderate the early stage of high glycemic response, as well as to extend digestion distally; thereby having relevance in regulating glucose delivery to the body. © 2014 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

  19. Generation of Bianchi Type V Bulk Viscous Cosmological Models with Time Dependent $\\Lambda$-Term

    OpenAIRE

    Pradhan,Anirudh; Jotania, Kanti; Rai, Anju

    2006-01-01

    Bianchi type V bulk viscous fluid cosmological models are investigated with dynamic cosmological term $\\Lambda(t)$. Using a generation technique (Camci {\\it et al.}, 2001), it is shown that the Einstein's field equations are solvable for any arbitrary cosmic scale function. Solutions for particular forms of cosmic scale functions are also obtained. The cosmological constant is found to be decreasing function of time, which is supported by results from recent type Ia supernovae observations. S...

  20. Dynamic mechanical analysis for rapid assessment of the time-dependent recovery behavior of shape memory polymers

    Science.gov (United States)

    Azra, Charly; Plummer, Christopher J. G.; Månson, Jan-Anders E.

    2013-07-01

    Thermally activated shape memory polymers (SMPs) recover from a secondary shape induced by mechanical deformation to a primary equilibrium shape when they are heated to their actuation temperature. In certain applications, for example in the biomedical field, it may be necessary to control the rate of shape recovery under isothermal conditions, which requires knowledge of the time-dependent response of the SMP. In the present work, the time dependence of isothermal shape recovery has been investigated for polyurethane-based SMPs with two different molecular architectures. The results are discussed in terms of a linear thermo-viscoelastic model for the time and temperature dependence of the shape memory response at small strains, using data from single constant frequency dynamic mechanical analysis (DMA) temperature sweeps. This approach is based on the establishment of an approximate relationship between the storage modulus, the loss modulus and the shift factor, aT(t), usually derived from time-temperature superposition of isothermal data obtained at different temperatures. The DMA data are thus shown to provide an approximate measure of the relaxation and retardation time spectra, which may in turn be used to predict the shape memory response to a simple programming-isothermal shape recovery sequence. This procedure is argued to permit rapid quantitative comparison of the shape memory performance of different materials, with minimal experimental characterization, and is hence potentially a useful tool for designing materials for specific applications.

  1. Rapid and specific detection of porcine parvovirus using real-time PCR and high resolution melting (HRM) analysis.

    Science.gov (United States)

    Yu, Hai-Qiong; Cai, Xian-Quan; Lin, Zhi-Xiong; Li, Xiang-Li; Yue, Qiao-Yun; Li, Rong; Zhu, Xing-Quan

    2015-02-28

    Porcine parvovirus (PPV) is the important causative agent for infectious infertility, which is a fairly tough virus that multiplies normally in the intestine of pigs without causing clinical signs in the world. We developed an assay integrating real-time PCR and high resolution melting (HRM) analysis for the detection of PPV. Primers targeting the VP gene were highly specific, as evidenced by the negative amplification of closely related viruses, such as porcine circovirus 2 (PCV2), porcine reproductive and respiratory syndrome virus (PRRSV), pseudorabies virus (PRV), classical swine fever virus (CSFV), or Japanese encephalitis virus (JEV). The performance of unlabeled real time PCR was compared to TaqMan real time PCR, and the detection limits of the two methods were nearly equal. Moreover, there was good correlation between Cp and diluted genomic DNA when tested with the two methods. The assay has the accuracy of 100% in reference to labeled real time PCR, when it was tested on 45 clinical samples. The present study demonstrated that the established assay integrating real-time PCR and HRM is relatively cost-effective and more stable, which provides an alternative tool for rapid, simple, specific and sensitive detection of PPV.

  2. Intercellular communication in plants: evidence for two rapidly transmitted systemic signals generated in response to electromagnetic field stimulation in tomato.

    Science.gov (United States)

    Beaubois, Elisabeth; Girard, Sebastien; Lallechere, Sebastien; Davies, Eric; Paladian, Françoise; Bonnet, Pierre; Ledoigt, Gerard; Vian, Alain

    2007-07-01

    Exposing all of a wild-type tomato plant to electromagnetic radiation evoked rapid and substantial accumulation of basic leucine-zipper transcription factor (bZIP) mRNA in the terminal leaf (#4) with kinetics very similar to that seen in response to wounding, while in the abscisic acid (ABA) mutant (Sitiens), the response was more rapid, but transient. Submitting just the oldest leaf (#1) of a wild-type plant to irradiation evoked bZIP mRNA accumulation both locally in the exposed leaf and systemically in the unexposed (distant) leaf #4, although systemic accumulation was delayed somewhat. Accumulation of Pin2 mRNA was less than bZIP in both the exposed and distant leaves in wild type, but there was no delay in the systemic response. In Sitiens, bZIP mRNA accumulation was far less than in wild type in both local and distant leaves, while Pin2 mRNA accumulation was stronger in the exposed leaf, but totally prevented in the systemic leaf. In the jasmonic acid (JA) mutant (JL-5) and in wild-type plants treated with the ABA biosynthesis inhibitor, naproxen, responses were similar to those in the ABA mutant, while treatment of the exposed leaf with calcium antagonists totally abolished both local and systemic increases in bZIP transcript accumulation.

  3. Rapid quantification of viable Campylobacter bacteria on chicken carcasses, using real-time PCR and propidium monoazide treatment, as a tool for quantitative risk assessment.

    Science.gov (United States)

    Josefsen, M H; Löfström, C; Hansen, T B; Christensen, L S; Olsen, J E; Hoorfar, J

    2010-08-01

    A number of intervention strategies against Campylobacter-contaminated poultry focus on postslaughter reduction of the number of cells, emphasizing the need for rapid and reliable quantitative detection of only viable Campylobacter bacteria. We present a new and rapid quantitative approach to the enumeration of food-borne Campylobacter bacteria that combines real-time quantitative PCR (Q-PCR) with simple propidium monoazide (PMA) sample treatment. In less than 3 h, this method generates a signal from only viable and viable but nonculturable (VBNC) Campylobacter bacteria with an intact membrane. The method's performance was evaluated by assessing the contributions to variability by individual chicken carcass rinse matrices, species of Campylobacter, and differences in efficiency of DNA extraction with differing cell inputs. The method was compared with culture-based enumeration on 50 naturally infected chickens. The cell contents correlated with cycle threshold (C(T)) values (R(2) = 0.993), with a quantification range of 1 x 10(2) to 1 x 10(7) CFU/ml. The correlation between the Campylobacter counts obtained by PMA-PCR and culture on naturally contaminated chickens was high (R(2) = 0.844). The amplification efficiency of the Q-PCR method was not affected by the chicken rinse matrix or by the species of Campylobacter. No Q-PCR signals were obtained from artificially inoculated chicken rinse when PMA sample treatment was applied. In conclusion, this study presents a rapid tool for producing reliable quantitative data on viable Campylobacter bacteria in chicken carcass rinse. The proposed method does not detect DNA from dead Campylobacter bacteria but recognizes the infectious potential of the VBNC state and is thereby able to assess the effect of control strategies and provide trustworthy data for risk assessment.

  4. Frequency-time diagram of partial discharge pulses recorded on large generators

    Directory of Open Access Journals (Sweden)

    Kartalović Nenad

    2015-01-01

    Full Text Available This paper analyses the use of equivalent frequency-equivalent time diagram (FT diagram of partial discharge (PD pulses, regarding voltage and charge pulses. The described approach is widely used for large generators insulation testing purposes. For sake of clarity the certain types of partial discharge phenomena in insulation of electric machines are described and explained. The contemporary FT analysis of PD pulses is based on equivalent frequency and equivalent pulse time width derived by signal processing techniques and calculations. The numerical simulation derived and experimentally derived results are compared and evaluated for each kind of PD pulses (voltage or charge pulses. Next, the high voltage (HV device with distributed parameters connected to HV voltage source is simulated. The parameters used in the simulation correspond to one real large synchronous generator. The obtained results lead us to the conclusion that the processing of the strain of PD charge pulses gives much more accurate results than the processing of the strain of PD voltage pulses. The experiment conducted on a large hydro generator confirmed the previous conclusions. At a same time, the sources of recorded results dispersion are shown and explained.

  5. Standardization of retention time data for AMT tag proteomics database generation.

    Science.gov (United States)

    Tarasova, I A; Guryca, V; Pridatchenko, M L; Gorshkov, A V; Kieffer-Jaquinod, S; Evreinov, V V; Masselon, C D; Gorshkov, M V

    2009-02-01

    The combination of liquid chromatography (LC) with mass spectrometry (MS) has become a mainstream proteome analysis strategy. In LC-MS, measured masses possess their "universal" scale derived from atomic mass tables. In contrast, the observed LC retention times (RT) are not tied to a conventional time scale, and depend on experimental conditions. However, RT data, being explicitly orthogonal to MS, offer relevant information for proteome characterization. We present here a strategy for peptides RT data standardization, based on the generation of a standard scale using retention prediction models, which enables sharing of identification databases in the context of multi-laboratory research.

  6. Advances in high-order harmonic generation sources for time-resolved investigations

    Energy Technology Data Exchange (ETDEWEB)

    Reduzzi, Maurizio [Dipartimento di Fisica, Politecnico di Milano, Piazza Leonardo da Vinci 32, 20133 Milano (Italy); Institute of Photonics and Nanotechnologies, CNR-IFN, Piazza Leonardo da Vinci 32, 20133 Milano (Italy); Carpeggiani, Paolo [Dipartimento di Fisica, Politecnico di Milano, Piazza Leonardo da Vinci 32, 20133 Milano (Italy); Kühn, Sergei [ELI-ALPS, ELI-Hu Kft., Dugonics ter 13, H-6720 Szeged (Hungary); Calegari, Francesca [Institute of Photonics and Nanotechnologies, CNR-IFN, Piazza Leonardo da Vinci 32, 20133 Milano (Italy); Nisoli, Mauro; Stagira, Salvatore [Dipartimento di Fisica, Politecnico di Milano, Piazza Leonardo da Vinci 32, 20133 Milano (Italy); Institute of Photonics and Nanotechnologies, CNR-IFN, Piazza Leonardo da Vinci 32, 20133 Milano (Italy); Vozzi, Caterina [Institute of Photonics and Nanotechnologies, CNR-IFN, Piazza Leonardo da Vinci 32, 20133 Milano (Italy); Dombi, Peter [ELI-ALPS, ELI-Hu Kft., Dugonics ter 13, H-6720 Szeged (Hungary); Wigner Research Center for Physics, 1121 Budapest (Hungary); Kahaly, Subhendu [ELI-ALPS, ELI-Hu Kft., Dugonics ter 13, H-6720 Szeged (Hungary); Tzallas, Paris; Charalambidis, Dimitris [ELI-ALPS, ELI-Hu Kft., Dugonics ter 13, H-6720 Szeged (Hungary); Foundation for Research and Technology – Hellas, Institute of Electronic Structure and Lasers, P.O. Box 1527, GR-711 10 Heraklion, Crete (Greece); Varju, Katalin [ELI-ALPS, ELI-Hu Kft., Dugonics ter 13, H-6720 Szeged (Hungary); Department of Optics and Quantum Electronics, University of Szeged, Dóm tér 9, 6720 Szeged (Hungary); Osvay, Karoly [ELI-ALPS, ELI-Hu Kft., Dugonics ter 13, H-6720 Szeged (Hungary); and others

    2015-10-15

    We review the main research directions ongoing in the development of extreme ultraviolet sources based on high-harmonic generation for the synthesization and application of trains and isolated attosecond pulses to time-resolved spectroscopy. A few experimental and theoretical works will be discussed in connection to well-established attosecond techniques. In this context, we present the unique possibilities offered for time-resolved investigations on the attosecond timescale by the new Extreme Light Infrastructure Attosecond Light Pulse Source, which is currently under construction.

  7. Multiplex real-time PCR assay for rapid detection of methicillin-resistant staphylococci directly from positive blood cultures.

    Science.gov (United States)

    Wang, Hye-Young; Kim, Sunghyun; Kim, Jungho; Park, Soon-Deok; Uh, Young; Lee, Hyeyoung

    2014-06-01

    Methicillin-resistant Staphylococcus aureus (MRSA) is the most prevalent cause of bloodstream infections (BSIs) and is recognized as a major nosocomial pathogen. This study aimed to evaluate a newly designed multiplex real-time PCR assay capable of the simultaneous detection of mecA, S. aureus, and coagulase-negative staphylococci (CoNS) in blood culture specimens. The Real-MRSA and Real-MRCoNS multiplex real-time PCR assays (M&D, Republic of Korea) use the TaqMan probes 16S rRNA for Staphylococcus spp., the nuc gene for S. aureus, and the mecA gene for methicillin resistance. The detection limit of the multiplex real-time PCR assay was 10(3) CFU/ml per PCR for each gene target. The multiplex real-time PCR assay was evaluated using 118 clinical isolates from various specimen types and a total of 350 positive blood cultures from a continuous monitoring blood culture system. The results obtained with the multiplex real-time PCR assay for the three targets were in agreement with those of conventional identification and susceptibility testing methods except for one organism. Of 350 positive bottle cultures, the sensitivities of the multiplex real-time PCR kit were 100% (166/166 cultures), 97.2% (35/36 cultures), and 99.2% (117/118 cultures) for the 16S rRNA, nuc, and mecA genes, respectively, and the specificities for all three targets were 100%. The Real-MRSA and Real-MRCoNS multiplex real-time PCR assays are very useful for the rapid accurate diagnosis of staphylococcal BSIs. In addition, the Real-MRSA and Real-MRCoNS multiplex real-time PCR assays could have an important impact on the choice of appropriate antimicrobial therapy, based on detection of the mecA gene. Copyright © 2014, American Society for Microbiology. All Rights Reserved.

  8. Multiplex Real-Time PCR Assay for Rapid Detection of Methicillin-Resistant Staphylococci Directly from Positive Blood Cultures

    Science.gov (United States)

    Wang, Hye-young; Kim, Sunghyun; Kim, Jungho; Park, Soon-Deok

    2014-01-01

    Methicillin-resistant Staphylococcus aureus (MRSA) is the most prevalent cause of bloodstream infections (BSIs) and is recognized as a major nosocomial pathogen. This study aimed to evaluate a newly designed multiplex real-time PCR assay capable of the simultaneous detection of mecA, S. aureus, and coagulase-negative staphylococci (CoNS) in blood culture specimens. The Real-MRSA and Real-MRCoNS multiplex real-time PCR assays (M&D, Republic of Korea) use the TaqMan probes 16S rRNA for Staphylococcus spp., the nuc gene for S. aureus, and the mecA gene for methicillin resistance. The detection limit of the multiplex real-time PCR assay was 103 CFU/ml per PCR for each gene target. The multiplex real-time PCR assay was evaluated using 118 clinical isolates from various specimen types and a total of 350 positive blood cultures from a continuous monitoring blood culture system. The results obtained with the multiplex real-time PCR assay for the three targets were in agreement with those of conventional identification and susceptibility testing methods except for one organism. Of 350 positive bottle cultures, the sensitivities of the multiplex real-time PCR kit were 100% (166/166 cultures), 97.2% (35/36 cultures), and 99.2% (117/118 cultures) for the 16S rRNA, nuc, and mecA genes, respectively, and the specificities for all three targets were 100%. The Real-MRSA and Real-MRCoNS multiplex real-time PCR assays are very useful for the rapid accurate diagnosis of staphylococcal BSIs. In addition, the Real-MRSA and Real-MRCoNS multiplex real-time PCR assays could have an important impact on the choice of appropriate antimicrobial therapy, based on detection of the mecA gene. PMID:24648566

  9. The influence of vibrations on time reference signals generated using quartz crystals

    Science.gov (United States)

    Drumea, Andrei; Marcu, Alina; Plotog, Ioan

    2016-12-01

    32.768 kHz low frequency crystals are found in a large part of today's embedded systems that use microcontrollers especially in battery supplied applications which need low power consumption1]. Their main role is to offer a stable time reference. There are situations in which time measurement is needed when the system works in a mechanically unstable environment (cars, industrial equipment). The paper presents the studies done on the behavior of 32.768 kHz quartz crystals that are part of embedded systems which operate in a vibrating environment, in terms of period and long-time jitter of the generated time reference signal. The investigations of this effect were done using a test bench especially designed for this purpose which can measure the presented parameters determined by controlled mechanical stimulus (waveform, amplitude and frequency of the vibrations).

  10. Insulation recovery time after fault arc interruption for rapid auto-reclosing on UHV (1000kV class) transmission lines

    Energy Technology Data Exchange (ETDEWEB)

    Goda, Yutaka; Matsuda, Shoji; Inaba, Tsuginori; Ozaki, Yuzo [Central Research Institute of Electric Power Industry, Yokosuka (Japan)

    1995-04-01

    The insulation recovery time after arc interruption must be known in order to select an adequate reclosing dead time of rapid auto-reclosing on transmission lines. The flashover probability of the insulation recovery voltage obtained from the insulation recovery tests using full size insulator assemblies was calculated. The insulation recovery time at the fault point for rapid auto-reclosing on UHV(1000kV class) transmission lines was estimated.

  11. Copyright and Computer Generated Materials – Is it Time to Reboot the Discussion About Authorship?

    Directory of Open Access Journals (Sweden)

    Anne Fitzgerald

    2013-12-01

    Full Text Available Computer generated materials are ubiquitous and we encounter them on a daily basis, even though most people are unaware that this is the case. Blockbuster movies, television weather reports and telephone directories all include material that is produced by utilising computer technologies. Copyright protection for materials generated by a programmed computer was considered by the Federal Court and Full Court of the Federal Court in Telstra Corporation Limited v Phone Directories Company Pty Ltd.  The court held that the White and Yellow pages telephone directories produced by Telstra and its subsidiary, Sensis, were not protected by copyright because they were computer-generated works which lacked the requisite human authorship.The Copyright Act 1968 (Cth does not contain specific provisions on the subsistence of copyright in computer-generated materials. Although the issue of copyright protection for computer-generated materials has been examined in Australia on two separate occasions by independently-constituted Copyright Law Review Committees over a period of 10 years (1988 to 1998, the Committees’ recommendations for legislative clarification by the enactment of specific amendments to the Copyright Act have not yet been implemented and the legal position remains unclear. In the light of the decision of the Full Federal Court in Telstra v Phone Directories it is timely to consider whether specific provisions should be enacted to clarify the position of computer-generated works under copyright law and, in particular, whether the requirement of human authorship for original works protected under Part III of the Copyright Act should now be reconceptualised to align with the realities of how copyright materials are created in the digital era.

  12. Substitute CT generation from a single ultra short time echo MRI sequence: preliminary study

    Science.gov (United States)

    Ghose, Soumya; Dowling, Jason A.; Rai, Robba; Liney, Gary P.

    2017-04-01

    In MR guided radiation therapy planning both MR and CT images for a patient are acquired and co-registered to obtain a tissue specific HU map. Generation of the HU map directly from the MRI would eliminate the CT acquisition and may improve radiation therapy planning. In this preliminary study of substitute CT (sCT) generation, two porcine leg phantoms were scanned using a 3D ultrashort echo time (PETRA) sequence and co-registered to corresponding CT images to build tissue specific regression models. The model was created from one co-registered CT-PETRA pair to generate the sCT for the other PETRA image. An expectation maximization based clustering was performed on the co-registered PETRA image to identify the soft tissues, dense bone and air class membership probabilities. A tissue specific non linear regression model was built from one registered CT-PETRA pair dataset to predict the sCT of the second PETRA image in a two-fold cross validation schema. A complete substitute CT is generated in 3 min. The mean absolute HU error for air was 0.3 HU, bone was 95 HU, fat was 30 HU and for muscle it was 10 HU. The mean surface reconstruction error for the bone was 1.3 mm. The PETRA sequence enabled a low mean absolute surface distance for the bone and a low HU error for other classes. The sCT generated from a single PETRA sequence shows promise for the generation of fast sCT for MRI based radiation therapy planning.

  13. Rapid generation of long tandem DNA repeat arrays by homologous recombination in yeast to study their function in mammalian genomes

    Directory of Open Access Journals (Sweden)

    Kouprina Natalay

    2011-10-01

    Full Text Available Abstract We describe here a method to rapidly convert any desirable DNA fragment, as small as 100 bp, into long tandem DNA arrays up to 140 kb in size that are inserted into a microbe vector. This method includes rolling-circle phi29 amplification (RCA of the sequence in vitro and assembly of the RCA products in vivo by homologous recombination in the yeast Saccharomyces cerevisiae. The method was successfully used for a functional analysis of centromeric and pericentromeric repeats and construction of new vehicles for gene delivery to mammalian cells. The method may have general application in elucidating the role of tandem repeats in chromosome organization and dynamics. Each cycle of the protocol takes ~ two weeks to complete.

  14. Simple and Rapid In Vivo Generation of Chromosomal Rearrangements using CRISPR/Cas9 Technology

    Directory of Open Access Journals (Sweden)

    Rafael B. Blasco

    2014-11-01

    Full Text Available Generation of genetically engineered mouse models (GEMMs for chromosomal translocations in the endogenous loci by a knockin strategy is lengthy and costly. The CRISPR/Cas9 system provides an innovative and flexible approach for genome engineering of genomic loci in vitro and in vivo. Here, we report the use of the CRISPR/Cas9 system for engineering a specific chromosomal translocation in adult mice in vivo. We designed CRISPR/Cas9 lentiviral vectors to induce cleavage of the murine endogenous Eml4 and Alk loci in order to generate the Eml4-Alk gene rearrangement recurrently found in non-small-cell lung cancers (NSCLCs. Intratracheal or intrapulmonary inoculation of lentiviruses induced Eml4-Alk gene rearrangement in lung cells in vivo. Genomic and mRNA sequencing confirmed the genome editing and the production of the Eml4-Alk fusion transcript. All mice developed Eml4-Alk-rearranged lung tumors 2 months after the inoculation, demonstrating that the CRISPR/Cas9 system is a feasible and simple method for the generation of chromosomal rearrangements in vivo.

  15. CRISPR/Cas9-Mediated Rapid Generation of Multiple Mouse Lines Identified Ccdc63 as Essential for Spermiogenesis

    Directory of Open Access Journals (Sweden)

    Samantha A. M. Young

    2015-10-01

    Full Text Available Spermatozoa are flagellated cells whose role in fertilization is dependent on their ability to move towards an oocyte. The structure of the sperm flagella is highly conserved across species, and much of what is known about this structure is derived from studies utilizing animal models. One group of proteins essential for the movement of the flagella are the dyneins. Using the advanced technology of CRISPR/Cas9 we have targeted three dynein group members; Dnaic1, Wdr63 and Ccdc63 in mice. All three of these genes are expressed strongly in the testis. We generated mice with amino acid substitutions in Dnaic1 to analyze two specific phosphorylation events at S124 and S127, and generated simple knockouts of Wdr63 and Ccdc63. We found that the targeted phosphorylation sites in Dnaic1 were not essential for male fertility. Similarly, Wdr63 was not essential for male fertility; however, Ccdc63 removal resulted in sterile male mice due to shortened flagella. This study demonstrates the versatility of the CRISPR/Cas9 system to generate animal models of a highly complex system by introducing point mutations and simple knockouts in a fast and efficient manner.

  16. Rapid detection of sugar alcohol precursors and corresponding nitrate ester explosives using direct analysis in real time mass spectrometry.

    Science.gov (United States)

    Sisco, Edward; Forbes, Thomas P

    2015-04-21

    This work highlights the rapid detection of nitrate ester explosives and their sugar alcohol precursors by direct analysis in real time mass spectrometry (DART-MS) using an off-axis geometry. Demonstration of the effect of various parameters, such as ion polarity and in-source collision induced dissociation (CID) on the detection of these compounds is presented. Sensitivity of sugar alcohols and nitrate ester explosives was found to be greatest in negative ion mode with sensitivities ranging from hundreds of picograms to hundreds of nanograms, depending on the characteristics of the particular molecule. Altering the in-source CID potential allowed for acquisition of characteristic molecular ion spectra as well as fragmentation spectra. Additional studies were completed to identify the role of different experimental parameters on the sensitivity for these compounds. Variables that were examined included the DART gas stream temperature, the presence of a related compound (i.e., the effect of a precursor on the detection of a nitrate ester explosive), incorporation of dopant species and the role of the analysis surface. It was determined that each variable affected the response and detection of both sugar alcohols and the corresponding nitrate ester explosives. From this work, a rapid and sensitive method for the detection of individual sugar alcohols and corresponding nitrate ester explosives, or mixtures of the two, has been developed, providing a useful tool in the real-world identification of homemade explosives.

  17. 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.

  18. Development of a time-resolved fluoroimmunoassay of CFP-10 for rapid diagnosis of tuberculous pleural effusion.

    Science.gov (United States)

    Lu, Jianyi; Zou, Lilin; Liu, Bin; Li, Xiaoqing; Tan, Jinrong; Zhao, Ai; Xiong, Chunhui; Li, Xiang; Lu, Jianxin; Gao, Jimin

    2015-07-01

    Tuberculous pleural effusion is the second most common form of extrapulmonary tuberculosis, which is very difficult to rapidly distinguish from malignant pleural effusion in the clinical setting. A time-resolved fluoroimmunoassay (TRF) of CFP-10, a low molecular weight protein secreted by pathogenic Mycobacterium tuberculosis, was developed to differentiate tuberculous pleural effusion from malignant one. The measuring range was 0.3-187.5 ng/ml with the dose-response coefficient of 0.9998 and detection limit of 0.036 ng/ml. The intra-assay and inter-assay coefficients of variation were 3.6-9.2% and 10.0-12.4%, respectively. The concentration of CFP-10 in malignant pleural effusion was less than 0.8 ng/ml. The negative predictive value was 93.1% in malignant pleural effusion (n = 247) while the positive predictive value was 83.0% in tuberculous pleural effusion (n = 235). Moreover, there was a statistically significant difference in the CFP-10 concentration of pleural effusion between the groups before and after clinical therapy of tuberculosis (P CFP-10 may be used for the rapid diagnosis of tuberculous pleural effusion and further monitoring the clinical therapeutic efficacy of tuberculosis. Copyright © 2015 Elsevier Ltd. All rights reserved.

  19. Physicochemical and toxicological characteristics of welding fume derived particles generated from real time welding processes.

    Science.gov (United States)

    Chang, Cali; Demokritou, Philip; Shafer, Martin; Christiani, David

    2013-01-01

    Welding fume particles have been well studied in the past; however, most studies have examined welding fumes generated from machine models rather than actual exposures. Furthermore, the link between physicochemical and toxicological properties of welding fume particles has not been well understood. This study aims to investigate the physicochemical properties of particles derived during real time welding processes generated during actual welding processes and to assess the particle size specific toxicological properties. A compact cascade impactor (Harvard CCI) was stationed within the welding booth to sample particles by size. Size fractionated particles were extracted and used for both off-line physicochemical analysis and in vitro cellular toxicological characterization. Each size fraction was analyzed for ions, elemental compositions, and mass concentration. Furthermore, real time optical particle monitors (DustTrak™, TSI Inc., Shoreview, Minn.) were used in the same welding booth to collect real time PM2.5 particle number concentration data. The sampled particles were extracted from the polyurethane foam (PUF) impaction substrates using a previously developed and validated protocol, and used in a cellular assay to assess oxidative stress. By mass, welding aerosols were found to be in coarse (PM 2.5–10), and fine (PM 0.1–2.5) size ranges. Most of the water soluble (WS) metals presented higher concentrations in the coarse size range with some exceptions such as sodium, which presented elevated concentration in the PM 0.1 size range. In vitro data showed size specific dependency, with the fine and ultrafine size ranges having the highest reactive oxygen species (ROS) activity. Additionally, this study suggests a possible correlation between welders' experience, the welding procedure and equipment used and particles generated from welding fumes. Mass concentrations and total metal and water soluble metal concentrations of welding fume particles may be

  20. Coherence time limit of the biphotons generated in a dense cold atom cloud.

    Science.gov (United States)

    Han, Zhiguang; Qian, Peng; Zhou, L; Chen, J F; Zhang, Weiping

    2015-03-17

    Biphotons with narrow bandwidth and long coherence time can enhance light-atom interaction, which leads to strong coupling between photonic and atomic qubits. Such strong coupling is desirable in quantum information processing, quantum storage and communication. In particular, paired photons with a long coherence time over submicroseconds facilitate the direct manipulation of biphoton wavefunction. In this paper, we report the narrow-band biphotons with a coherence time of 2.34 μs generated from spontaneous four-wave mixing (SFWM) in a dense cold atom cloud, in which the anti-Stokes photons go through a narrow electromagnetically-induced transparency (EIT) window. In our knowledge, this is the best record of coherence time for paired photons achieved so far. A number of factors limiting the coherence time are analyzed in detail. We find the EIT coherence plays an essential role in determining the coherence time for paired photons. The EIT dephasing rate is the ultimate limit to the coherence time, and an ultra-long coherence time above ten microseconds is possible by further improvement of the dephasing rate below 100 kHz.

  1. Real-time high speed generator system emulation with hardware-in-the-loop application

    Science.gov (United States)

    Stroupe, Nicholas

    The emerging emphasis and benefits of distributed generation on smaller scale networks has prompted much attention and focus to research in this field. Much of the research that has grown in distributed generation has also stimulated the development of simulation software and techniques. Testing and verification of these distributed power networks is a complex task and real hardware testing is often desired. This is where simulation methods such as hardware-in-the-loop become important in which an actual hardware unit can be interfaced with a software simulated environment to verify proper functionality. In this thesis, a simulation technique is taken one step further by utilizing a hardware-in-the-loop technique to emulate the output voltage of a generator system interfaced to a scaled hardware distributed power system for testing. The purpose of this thesis is to demonstrate a new method of testing a virtually simulated generation system supplying a scaled distributed power system in hardware. This task is performed by using the Non-Linear Loads Test Bed developed by the Energy Conversion and Integration Thrust at the Center for Advanced Power Systems. This test bed consists of a series of real hardware developed converters consistent with the Navy's All-Electric-Ship proposed power system to perform various tests on controls and stability under the expected non-linear load environment of the Navy weaponry. This test bed can also explore other distributed power system research topics and serves as a flexible hardware unit for a variety of tests. In this thesis, the test bed will be utilized to perform and validate this newly developed method of generator system emulation. In this thesis, the dynamics of a high speed permanent magnet generator directly coupled with a micro turbine are virtually simulated on an FPGA in real-time. The calculated output stator voltage will then serve as a reference for a controllable three phase inverter at the input of the test bed

  2. Irregular oscillatory patterns in the early-time region of coherent phonon generation in silicon

    Science.gov (United States)

    Watanabe, Yohei; Hino, Ken-ichi; Hase, Muneaki; Maeshima, Nobuya

    2017-09-01

    Coherent phonon (CP) generation in an undoped Si crystal is theoretically investigated to shed light on unexplored quantum-mechanical effects in the early-time region immediately after the irradiation of ultrashort laser pulses. We examine time signals attributed to an induced charge density of an ionic core, placing the focus on the effects of the Rabi frequency Ω0 c v on the signals; this frequency corresponds to the peak electric-field of the pulse. It is found that at specific Ω0 c v's, where the energy of plasmon caused by photoexcited carriers coincides with the longitudinal-optical phonon energy, the energetically resonant interaction between these two modes leads to striking anticrossings, revealing irregular oscillations with anomalously enhanced amplitudes in the observed time signals. Also, the oscillatory pattern is subject to the Rabi flopping of the excited carrier density that is controlled by Ω0 c v. These findings show that the early-time region is enriched with quantum-mechanical effects inherent in the CP generation, though experimental signals are more or less masked by the so-called coherent artifact due to nonlinear optical effects.

  3. Image encryption scheme based on computer generated holography and time-averaged moiré

    Science.gov (United States)

    Palevicius, Paulius; Ragulskis, Minvydas; Janusas, Giedrius; Palevicius, Arvydas

    2017-08-01

    A technique of computational image encryption and optical decryption based on computer generated holography and time-averaged moiŕe is investigated in this paper. Dynamic visual cryptography (a visual cryptography scheme based on time-averaging geometric moiŕe), Gerchberg-Saxton algorithm and 3D microstructure manufacturing techniques are used to construct the optical scheme. The secret is embedded into a cover image by using a stochastic moiŕe grating and can be visually decoded by a naked eye. The secret is revealed if the amplitude of harmonic oscillations in the Fourier plane corresponds to an accurately preselected value. The process of the production of 3D microstructure is described in details. Computer generated holography is used in the design step and electron beam lithography is exploited for physical 3D patterning. The phase data of a complex 3D microstructure is obtained by Gerchberg-Saxton algorithm and is used to produce a computer generated hologram. Physical implementation of microstructure is performed by using a single layer polymethyl methacrylate as a basis for 3D microstructure. Numerical simulations demonstrate efficient applicability of this technique.

  4. Reference manual for generation and analysis of Habitat Time Series: version II

    Science.gov (United States)

    Milhous, Robert T.; Bartholow, John M.; Updike, Marlys A.; Moos, Alan R.

    1990-01-01

    The selection of an instream flow requirement for water resource management often requires the review of how the physical habitat changes through time. This review is referred to as 'Time Series Analysis." The Tune Series Library (fSLIB) is a group of programs to enter, transform, analyze, and display time series data for use in stream habitat assessment. A time series may be defined as a sequence of data recorded or calculated over time. Examples might be historical monthly flow, predicted monthly weighted usable area, daily electrical power generation, annual irrigation diversion, and so forth. The time series can be analyzed, both descriptively and analytically, to understand the importance of the variation in the events over time. This is especially useful in the development of instream flow needs based on habitat availability. The TSLIB group of programs assumes that you have an adequate study plan to guide you in your analysis. You need to already have knowledge about such things as time period and time step, species and life stages to consider, and appropriate comparisons or statistics to be produced and displayed or tabulated. Knowing your destination, you must first evaluate whether TSLIB can get you there. Remember, data are not answers. This publication is a reference manual to TSLIB and is intended to be a guide to the process of using the various programs in TSLIB. This manual is essentially limited to the hands-on use of the various programs. a TSLIB use interface program (called RTSM) has been developed to provide an integrated working environment where the use has a brief on-line description of each TSLIB program with the capability to run the TSLIB program while in the user interface. For information on the RTSM program, refer to Appendix F. Before applying the computer models described herein, it is recommended that the user enroll in the short course "Problem Solving with the Instream Flow Incremental Methodology (IFIM)." This course is offered

  5. Rapid identification of Campylobacter jejuni from poultry carcasses and slaughtering environment samples by real-time PCR.

    Science.gov (United States)

    Ivanova, Mirena; Singh, Randhir; Dharmasena, Muthu; Gong, Chao; Krastanov, Albert; Jiang, Xiuping

    2014-06-01

    The objective of this study was to develop a real-time PCR assay for rapid identification of Campylobacter jejuni and to apply the method in analyzing samples from poultry processing. A C. jejuni-specific primer set targeting a portion of the C. jejuni hippuricase gene was developed. The specificity of the newly designed primer pair was verified using 5 C. jejuni strains and 20 other bacterial strains. Sensitivity was determined to be as low as 1 genome copy per reaction. A total of 73 samples were collected at different sites along the processing line during 2 visits to a poultry slaughterhouse and were examined by direct plating onto modified charcoal cefoperazone deoxycholate agar or after enrichment in Bolton broth followed by plating on modified charcoal cefoperazone deoxycholate agar. The newly developed real-time PCR assay was used to identify the presumptive colonies as belonging to C. jejuni. A real-time PCR assay targeting 16S ribosomal RNA was also applied to determine Campylobacter spp. prevalence. Results from the real-time PCR analysis indicated considerable variability in Campylobacter contamination, with incidence rates of 72.7 and 27.6% for sampling days A and B, respectively. Campylobacter was isolated from 100% of prescalded and preeviscerated carcasses on sampling day A. In contrast, on sampling day B, the highest number of Campylobacter-positive carcasses was recovered after evisceration (60%). The chilling process significantly reduced (P Campylobacter population, but the percentage of positive samples on sampling day A increased to 80%. All samples collected from the processing environment, except scalding tank 3 and the prechiller and chiller tanks, were 100% positive on day A, whereas no campylobacters were isolated from machinery on sampling day B. Our results revealed the widespread of C. jejuni in poultry processing and proved that the newly developed real-time PCR assay is a simple, specific, and inexpensive method for rapid C. jejuni

  6. Control of force during rapid visuomotor force-matching tasks can be described by discrete time PID control algorithms.

    Science.gov (United States)

    Dideriksen, Jakob Lund; Feeney, Daniel F; Almuklass, Awad M; Enoka, Roger M

    2017-08-01

    Force trajectories during isometric force-matching tasks involving isometric contractions vary substantially across individuals. In this study, we investigated if this variability can be explained by discrete time proportional, integral, derivative (PID) control algorithms with varying model parameters. To this end, we analyzed the pinch force trajectories of 24 subjects performing two rapid force-matching tasks with visual feedback. Both tasks involved isometric contractions to a target force of 10% maximal voluntary contraction. One task involved a single action (pinch) and the other required a double action (concurrent pinch and wrist extension). 50,000 force trajectories were simulated with a computational neuromuscular model whose input was determined by a PID controller with different PID gains and frequencies at which the controller adjusted muscle commands. The goal was to find the best match between each experimental force trajectory and all simulated trajectories. It was possible to identify one realization of the PID controller that matched the experimental force produced during each task for most subjects (average index of similarity: 0.87 ± 0.12; 1 = perfect similarity). The similarities for both tasks were significantly greater than that would be expected by chance (single action: p = 0.01; double action: p = 0.04). Furthermore, the identified control frequencies in the simulated PID controller with the greatest similarities decreased as task difficulty increased (single action: 4.0 ± 1.8 Hz; double action: 3.1 ± 1.3 Hz). Overall, the results indicate that discrete time PID controllers are realistic models for the neural control of force in rapid force-matching tasks involving isometric contractions.

  7. Two-dimensional time-resolved x-ray diffraction study of dual phase rapid solidification in steels

    Science.gov (United States)

    Yonemura, Mitsuharu; Osuki, Takahiro; Terasaki, Hidenori; Komizo, Yuichi; Sato, Masugu; Toyokawa, Hidenori; Nozaki, Akiko

    2010-01-01

    The high intensity heat source used for fusion welding creates steep thermal gradients of 100 °C/s from 1800 °C. Further, the influence of preferred orientation is important for the observation of a directional solidification that follows the dendrite growth along the ⟨100⟩ direction toward the moving heat source. In the present study, we observed the rapid solidification of weld metal at a time resolution of 0.01-0.1 s by a two-dimensional time-resolved x-ray diffraction (2DTRXRD) system for real welding. The diffraction rings were dynamically observed by 2DTRXRD with synchrotron energy of 18 keV while the arc passes over the irradiation area of the x-rays. The arc power output was 10 V-150 A, and the scan speed of the arc was 1.0 mm/s. The temperature rise in instruments was suppressed by a water-cooled copper plate under the specimen. Further, the temperature distribution of the weld metal was measured by a thermocouple and correlated with the diffraction patterns. Consequently, solidification and solid phase transformation of low carbon steels and stainless steels were observed during rapid cooling by 2DTRXRD. In the low carbon steel, the microstructure is formed in a two step process, (i) formation of crystallites and (ii) increase of crystallinity. In stainless steel, the irregular interface layer of δ/γ in the quenched metal after solidification is expected to show the easy movement of dendrites at a lower temperature. In carbide precipitation stainless steel, it is easy for NbC to grow on δ phase with a little undercooling. Further, a mistlike pattern, which differs from the halo pattern, in the fusion zone gave some indication of the possibilities to observe the nucleation and the early solidification by 2DTRXRD.

  8. Timing of palliative care team referrals for inpatients receiving rapid response services: A retrospective pilot study in a US hospital.

    Science.gov (United States)

    Williams, M; Cardona-Morrell, M; Stevens, P; Bey, J; Smith Glasgow, M E

    2017-10-01

    Research indicates up to one-third of rapid response team calls relate to end-of-life symptoms. The CriSTAL criteria were developed as a screening tool to identify high risk of death within three months. The primary purpose of this pilot study was to investigate the timing of palliative care referrals in patients receiving rapid response team services, and patients' CriSTAL criteria score on admission. The potential feasibility of using the CriSTAL tool to stimulate earlier Palliative Care Team (PCT) referral served as an underlying goal, and investigation of a relationship between specific CriSTAL criteria and the prediction of in-hospital death was a secondary objective. A retrospective chart review of rapid response calls made in 2015 was used to identify patient risk of death on admission based on the CriSTAL criteria. The presence and timing of PCT referral as well as patient survival status to hospital discharge were documented for comparison. A sample of 183 charts from 584 inpatients involved in over 600 RRT events recorded in 2015. The study was undertaken in a 676-bed teaching hospital in the Midwestern U.S. Ninety-one patients died during the hospital stay while 92 patients from the 493 individuals who survived were randomly selected for full analysis. Applying CriSTAL criteria to the 141 individuals aged 50 years or older indicated that frailty (OR=1.43, 95%CI 1.08-1.89, p=0.012), being a male (OR=3.14; 95%CI 1.40-7.05, p=0.006), and the presence of two or more comorbidities (OR=3.71, 95%CI 1.67-8.24, p=0.001) were the most significant predictors of in-hospital death after adjusting for age. A CriSTAL score of 6 was the optimal cut-off for high-risk of in-hospital death. Palliative care consultations within the high-risk population occurred for 45.2% of the deceased and 40.4% of the survivors. Consultation often occurred within two days of the RRT event and many patients (46.8%) died within one day of the consultation. A positive relationship was found

  9. Processing Binary and Fuzzy Logic by Chaotic Time Series Generated by a Hydrodynamic Photochemical Oscillator.

    Science.gov (United States)

    Gentili, Pier Luigi; Giubila, Maria Sole; Heron, B Mark

    2017-07-05

    This work demonstrates the computational power of a hydrodynamic photochemical oscillator based on a photochromic naphthopyran generating aperiodic time series. The chaotic character of the time series is tested by calculating its largest Lyapunov exponent and the correlation dimension of its attractor after building its phase space through the Takens' theorem. Then, the chaotic dynamic is shown to be suitable to implement all the fundamental Boolean two-inputs-one-output logic gates. Finally, the strategy to implement fuzzy logic systems (FLSs) based on the time series is described. Such FLSs promise to be useful in the field of computational linguistics, which is concerned with the development of artificial intelligent systems able to transform collections of numerical data into natural language texts. © 2017 Wiley-VCH Verlag GmbH & Co. KGaA, Weinheim.

  10. A SPIRAL-BASED DOWNSCALING METHOD FOR GENERATING 30 M TIME SERIES IMAGE DATA

    Directory of Open Access Journals (Sweden)

    B. Liu

    2017-09-01

    Full Text Available The spatial detail and updating frequency of land cover data are important factors influencing land surface dynamic monitoring applications in high spatial resolution scale. However, the fragmentized patches and seasonal variable of some land cover types (e. g. small crop field, wetland make it labor-intensive and difficult in the generation of land cover data. Utilizing the high spatial resolution multi-temporal image data is a possible solution. Unfortunately, the spatial and temporal resolution of available remote sensing data like Landsat or MODIS datasets can hardly satisfy the minimum mapping unit and frequency of current land cover mapping / updating at the same time. The generation of high resolution time series may be a compromise to cover the shortage in land cover updating process. One of popular way is to downscale multi-temporal MODIS data with other high spatial resolution auxiliary data like Landsat. But the usual manner of downscaling pixel based on a window may lead to the underdetermined problem in heterogeneous area, result in the uncertainty of some high spatial resolution pixels. Therefore, the downscaled multi-temporal data can hardly reach high spatial resolution as Landsat data. A spiral based method was introduced to downscale low spatial and high temporal resolution image data to high spatial and high temporal resolution image data. By the way of searching the similar pixels around the adjacent region based on the spiral, the pixel set was made up in the adjacent region pixel by pixel. The underdetermined problem is prevented to a large extent from solving the linear system when adopting the pixel set constructed. With the help of ordinary least squares, the method inverted the endmember values of linear system. The high spatial resolution image was reconstructed on the basis of high spatial resolution class map and the endmember values band by band. Then, the high spatial resolution time series was formed with these

  11. a Spiral-Based Downscaling Method for Generating 30 M Time Series Image Data

    Science.gov (United States)

    Liu, B.; Chen, J.; Xing, H.; Wu, H.; Zhang, J.

    2017-09-01

    The spatial detail and updating frequency of land cover data are important factors influencing land surface dynamic monitoring applications in high spatial resolution scale. However, the fragmentized patches and seasonal variable of some land cover types (e. g. small crop field, wetland) make it labor-intensive and difficult in the generation of land cover data. Utilizing the high spatial resolution multi-temporal image data is a possible solution. Unfortunately, the spatial and temporal resolution of available remote sensing data like Landsat or MODIS datasets can hardly satisfy the minimum mapping unit and frequency of current land cover mapping / updating at the same time. The generation of high resolution time series may be a compromise to cover the shortage in land cover updating process. One of popular way is to downscale multi-temporal MODIS data with other high spatial resolution auxiliary data like Landsat. But the usual manner of downscaling pixel based on a window may lead to the underdetermined problem in heterogeneous area, result in the uncertainty of some high spatial resolution pixels. Therefore, the downscaled multi-temporal data can hardly reach high spatial resolution as Landsat data. A spiral based method was introduced to downscale low spatial and high temporal resolution image data to high spatial and high temporal resolution image data. By the way of searching the similar pixels around the adjacent region based on the spiral, the pixel set was made up in the adjacent region pixel by pixel. The underdetermined problem is prevented to a large extent from solving the linear system when adopting the pixel set constructed. With the help of ordinary least squares, the method inverted the endmember values of linear system. The high spatial resolution image was reconstructed on the basis of high spatial resolution class map and the endmember values band by band. Then, the high spatial resolution time series was formed with these high spatial

  12. Highly Efficient CRISPR/Cas9-Mediated Homologous Recombination Promotes the Rapid Generation of Bacterial Artificial Chromosomes of Pseudorabies Virus.

    Science.gov (United States)

    Guo, Jin-Chao; Tang, Yan-Dong; Zhao, Kuan; Wang, Tong-Yun; Liu, Ji-Ting; Gao, Jia-Cong; Chang, Xiao-Bo; Cui, Hong-Yu; Tian, Zhi-Jun; Cai, Xue-Hui; An, Tong-Qing

    2016-01-01

    Bacterial artificial chromosomes (BACs) are powerful tools for the manipulation of the large genomes of DNA viruses, such as herpesviruses. However, the methods currently used to construct the recombinant viruses, an important intermediate link in the generation of BACs, involve the laborious process of multiple plaque purifications. Moreover, some fastidious viruses may be lost or damaged during these processes, making it impossible to generate BACs from these large-genome DNA viruses. Here, we introduce the CRISPR/Cas9 as a site-specific gene knock-in instrument that promotes the homologs recombination of a linearized transfer vector and the Pseudorabies virus genome through double incisions. The efficiency of recombination is as high as 86%. To our knowledge, this is the highest efficiency ever reported for Pseudorabies virus recombination. We also demonstrate that the positions and distances of the CRISPR/Cas9 single guide RNAs from the homology arms correlate with the efficiency of homologous recombination. Our work show a simple and fast cloning method of BACs with large genome inserted by greatly enhancing the HR efficiencies through CRISPR/Cas9-mediated homology-directed repair mechanism, and this method could be of helpful for manipulating large DNA viruses, and will provide a successful model for insertion of large DNA fragments into other viruses.

  13. It's about time: The development and validation of a rapid optimized single antigen bead (ROB) assay protocol for LABScreen.

    Science.gov (United States)

    Liwski, Robert S; Greenshields, Anna L; Murphey, Cathi; Bray, Robert A; Gebel, Howard M

    The LABScreen single antigen bead assay (SAB) is a method widely used for the identification and monitoring of human leukocyte antigen (HLA) antibodies in patients pre-and post-transplant. While accurate testing of patient samples is key for optimal patient care, time can also be important, especially during deceased donor workups or post-transplant assessments. Here we describe the development and validation of the Rapid Optimized SAB (ROB) protocol, a modified version of the One Lambda LABScreen SAB (OLSAB) procedure, which reduces assay time from 85 to 25min (>70% reduction) without impacting assay quality or sensitivity. Optimization steps included shortened centrifugation cycles and reduced serum and secondary antibody incubation times in combination with increased secondary antibody concentration. Linear regression analysis of baseline median fluorescence intensity (MFI) values showed excellent correlation between the ROB and OLSAB protocols (r(2)>0.98) for both class I and class II antibodies in 58 sera tested in two HLA laboratories. Importantly, the ROB protocol demonstrated a trend towards improved inter-laboratory MFI concordance when compared to the OLSAB procedure (r(2)=0.9816 vs 0.9451), especially for HLA antibody specificities in the 500-2000 MFI range (r(2)=0.7824 vs 0.6313). Implementation of the ROB protocol will expedite HLA antibody testing and may improve reproducibility of the SAB assay. Copyright © 2017 American Society for Histocompatibility and Immunogenetics. Published by Elsevier Inc. All rights reserved.

  14. Rapid detection of Salmonella in pet food: design and evaluation of integrated methods based on real-time PCR detection.

    Science.gov (United States)

    Balachandran, Priya; Friberg, Maria; Vanlandingham, V; Kozak, K; Manolis, Amanda; Brevnov, Maxim; Crowley, Erin; Bird, Patrick; Goins, David; Furtado, Manohar R; Petrauskene, Olga V; Tebbs, Robert S; Charbonneau, Duane

    2012-02-01

    Reducing the risk of Salmonella contamination in pet food is critical for both companion animals and humans, and its importance is reflected by the substantial increase in the demand for pathogen testing. Accurate and rapid detection of foodborne pathogens improves food safety, protects the public health, and benefits food producers by assuring product quality while facilitating product release in a timely manner. Traditional culture-based methods for Salmonella screening are laborious and can take 5 to 7 days to obtain definitive results. In this study, we developed two methods for the detection of low levels of Salmonella in pet food using real-time PCR: (i) detection of Salmonella in 25 g of dried pet food in less than 14 h with an automated magnetic bead-based nucleic acid extraction method and (ii) detection of Salmonella in 375 g of composite dry pet food matrix in less than 24 h with a manual centrifugation-based nucleic acid preparation method. Both methods included a preclarification step using a novel protocol that removes food matrix-associated debris and PCR inhibitors and improves the sensitivity of detection. Validation studies revealed no significant differences between the two real-time PCR methods and the standard U.S. Food and Drug Administration Bacteriological Analytical Manual (chapter 5) culture confirmation method.

  15. Matching time and spatial scales of rapid solidification: dynamic TEM experiments coupled to CALPHAD-informed phase-field simulations

    Science.gov (United States)

    Perron, Aurelien; Roehling, John D.; Turchi, Patrice E. A.; Fattebert, Jean-Luc; McKeown, Joseph T.

    2018-01-01

    A combination of dynamic transmission electron microscopy (DTEM) experiments and CALPHAD-informed phase-field simulations was used to study rapid solidification in Cu–Ni thin-film alloys. Experiments—conducted in the DTEM—consisted of in situ laser melting and determination of the solidification kinetics by monitoring the solid–liquid interface and the overall microstructure evolution (time-resolved measurements) during the solidification process. Modelling of the Cu–Ni alloy microstructure evolution was based on a phase-field model that included realistic Gibbs energies and diffusion coefficients from the CALPHAD framework (thermodynamic and mobility databases). DTEM and post mortem experiments highlighted the formation of microsegregation-free columnar grains with interface velocities varying from ∼0.1 to ∼0.6 m s‑1. After an ‘incubation’ time, the velocity of the planar solid–liquid interface accelerated until solidification was complete. In addition, a decrease of the temperature gradient induced a decrease in the interface velocity. The modelling strategy permitted the simulation (in 1D and 2D) of the solidification process from the initially diffusion-controlled to the nearly partitionless regimes. Finally, results of DTEM experiments and phase-field simulations (grain morphology, solute distribution, and solid–liquid interface velocity) were consistent at similar time (μs) and spatial scales (μm).

  16. Duplex real-time PCR assay for rapid identification of Staphylococcus aureus isolates from dairy cow milk.

    Science.gov (United States)

    Pilla, Rachel; Snel, Gustavo G M; Malvisi, Michela; Piccinini, Renata

    2013-05-01

    Staphylococcus aureus isolates from dairy cow mastitis are not always consistent with the characteristic morphology described, and molecular investigation is often needed. The aim of the study was to develop a duplex real-time PCR assay for rapid identification of Staph. aureus isolates, targeting both nuc and Sa442. Overall, 140 isolates collected from dairy cow mastitis in 90 different herds, were tested. All strains had been identified using morphological and biochemical characteristics. DNA from each strain was amplified in real-time PCR assay, to detect nuc or Sa442. Thereafter, a duplex real-time PCR assay was performed, and specificity of the amplified products was assessed by high resolution melting curve analysis. Out of 124 Staph. aureus isolates, 33 did not show the typical morphology or enzymic activity; in 118 strains, the two melt-curve peaks consistent with nuc and Sa442 were revealed, while 2 isolates showed only the peak consistent with Sa442. Four isolates bacteriologically identified as Staph. aureus, were PCR-negative and were further identified as Staph. pseudintermedius by sequencing. Staph. pseudintermedius and coagulase-negative staphylococci did not carry nuc or Sa442. The results showed the correct identification of all isolates, comprehending also coagulase-or nuc-negative Staph. aureus, while other coagulase-positive Staphylococci were correctly identified as non-Staph. aureus. Both sensitivity and specificity were 100%. High resolution melting analysis allowed easy detection of unspecific products. Finally, the duplex real-time PCR was applied directly to 40 milk samples, to detect infected mammary quarters. The assay confirmed the results of bacteriological analysis, on Staph. aureus-positive or-negative samples. Therefore, the proposed duplex real-time PCR could be used in laboratory routine as a cost-effective and powerful tool for high-throughput identification of atypical Staph. aureus isolates causing dairy cow mastitis. Also, it

  17. A space-time rainfall generator for highly convective Mediterranean rainstorms

    Directory of Open Access Journals (Sweden)

    S. Salsón

    2003-01-01

    Full Text Available Distributed hydrological models require fine resolution rainfall inputs, enhancing the practical interest of space-time rainfall models, capable of generating through numerical simulation realistic space-time rainfall intensity fields. Among different mathematical approaches, those based on point processes and built upon a convenient analytical description of the raincell as the fundamental unit, have shown to be particularly suitable and well adapted when extreme rainfall events of convective nature are considered. Starting from previous formulations, some analytical refinements have been considered, allowing practical generation of space-time rainfall intensity fields for that type of rainstorm events. Special attention is placed on the analytical description of the spatial and temporal evolution of the rainfall intensities produced by the raincells. After deriving the necessary analytical results, the seven parameters of the model have been estimated by the method of moments, for each of the 30 selected rainfall events in the Jucar River Basin (ValenciaSpain – period 1991 to 2000, using 5-min aggregated rainfall data series from an automatic raingauge network.

  18. Generation of high-dimensional energy-time-entangled photon pairs

    Science.gov (United States)

    Zhang, Da; Zhang, Yiqi; Li, Xinghua; Zhang, Dan; Cheng, Lin; Li, Changbiao; Zhang, Yanpeng

    2017-11-01

    High-dimensional entangled photon pairs have many excellent properties compared to two-dimensional entangled two-photon states, such as greater information capacity, stronger nonlocality, and higher security. Traditionally, the degree of freedom that can produce high-dimensional entanglement mainly consists of angular momentum and energy time. In this paper, we propose a type of high-dimensional energy-time-entangled qudit, which is different from the traditional model with an extended propagation path. In addition, our method mainly focuses on the generation with multiple frequency modes, while two- and three-dimensional frequency-entangled qudits are examined as examples in detail through the linear or nonlinear optical response of the medium. The generation of high-dimensional energy-time-entangled states can be verified by coincidence counts in the damped Rabi oscillation regime, where the paired Stokes-anti-Stokes wave packet is determined by the structure of resonances in the third-order nonlinearity. Finally, we extend the dimension to N in the sequential-cascade mode. Our results have potential applications in quantum communication and quantum computation.

  19. Neutron generator burst timing measured using a pulse shape discrimination plastic scintillator with silicon photomultiplier readout

    Science.gov (United States)

    Preston, R. M.; Eberhardt, J. E.; Tickner, J. R.

    2013-12-01

    An EJ-299-34 plastic scintillator with silicon photomultiplier (SiPM) readout was used to measure the fast neutron output of a pulsed Thermo-Fisher A-325 Deuterium-Tritium sealed tube neutron generator (STNG). The SiPM signals were handled by a prototype digital pulse processing system, based on a free-running analogue to digital converter feeding a digital signal processor (DSP). Pulse shape discrimination was used to distinguish between detected fast-neutrons and gammas. Pulse detection, timing, energy and shape were all processed by the DSP in real-time. The time-dependency of the neutron output of the STNG was measured for various pulsing schemes. The switch-on characteristics of the tube strongly depended on the operating settings, with the delay between pulse turn-on and the production of neutrons ranging between 13 μs to 74 μs for the tested pulse rates and duty cycles. This work will facilitate the optimization and modeling of apparatus that use the neutron generator's pulsing abilities.

  20. Rapid detection and simultaneous genotyping of Cronobacter spp. (formerly Enterobacter sakazakii) in powdered infant formula using real-time PCR and high resolution melting (HRM) analysis

    National Research Council Canada - National Science Library

    Cai, Xian-Quan; Yu, Hai-Qiong; Ruan, Zhou-Xi; Yang, Lei-Liang; Bai, Jian-Shan; Qiu, De-Yi; Jian, Zhi-Hua; Xiao, Yi-Qian; Yang, Jie-Yang; Le, Thanh Hoa; Zhu, Xing-Quan

    2013-01-01

    .... The present study developed an assay integrating real-time PCR and high resolution melting (HRM) analysis targeting the OmpA gene for the specific detection and rapid identification of Cronobacter spp...

  1. Rapid Detection and Simultaneous Genotyping of Cronobacter spp. (formerly Enterobacter sakazakii) in Powdered Infant Formula Using Real-time PCR and High Resolution Melting (HRM) Analysis: e67082

    National Research Council Canada - National Science Library

    Xian-Quan Cai; Hai-Qiong Yu; Zhou-Xi Ruan; Lei-Liang Yang; Jian-Shan Bai; De-Yi Qiu; Zhi-Hua Jian; Yi-Qian Xiao; Jie-Yang Yang; Thanh Hoa Le; Xing-Quan Zhu

    2013-01-01

    .... The present study developed an assay integrating real-time PCR and high resolution melting (HRM) analysis targeting the OmpA gene for the specific detection and rapid identification of Cronobacter spp...

  2. Flip-Flop HSV-BAC: bacterial artificial chromosome based system for rapid generation of recombinant herpes simplex virus vectors using two independent site-specific recombinases

    Directory of Open Access Journals (Sweden)

    Todo Tomoki

    2006-09-01

    Full Text Available Abstract Background Oncolytic herpes simplex virus (HSV vectors that specifically replicate in and kill tumor cells sparing normal cells are a promising cancer therapy. Traditionally, recombinant HSV vectors have been generated through homologous recombination between the HSV genome and a recombination plasmid, which usually requires laborious screening or selection and can take several months. Recent advances in bacterial artificial chromosome (BAC technology have enabled cloning of the whole HSV genome as a BAC plasmid and subsequent manipulation in E. coli. Thus, we sought a method to generate recombinant oncolytic HSV vectors more easily and quickly using BAC technology. Results We have developed an HSV-BAC system, termed the Flip-Flop HSV-BAC system, for the rapid generation of oncolytic HSV vectors. This system has the following features: (i two site-specific recombinases, Cre and FLPe, are used sequentially to integrate desired sequences and to excise the BAC sequences, respectively; and (ii the size of the HSV-BAC-insert genome exceeds the packaging limit of HSV so only correctly recombined virus grows efficiently. We applied this to the construction of an HSV-BAC plasmid that can be used for the generation of transcriptionally-targeted HSV vectors. BAC sequences were recombined into the UL39 gene of HSV ICP4-deletion mutant d120 to generate M24-BAC virus, from which HSV-BAC plasmid pM24-BAC was isolated. An ICP4 expression cassette driven by an exogenous promoter was re-introduced to pM24-BAC by Cre-mediated recombination and nearly pure preparations of recombinant virus were obtained typically in two weeks. Insertion of the ICP4 coding sequence alone did not restore viral replication and was only minimally better than an ICP4-null construct, whereas insertion of a CMVIE promoter-ICP4 transgene (bM24-CMV efficiently drove viral replication. The levels of bM24-CMV replication in tumor cells varied considerably compared to hrR3 (UL39

  3. Oxime-based linker libraries as a general approach for the rapid generation and screening of multidentate inhibitors

    Science.gov (United States)

    Bahta, Medhanit; Liu, Fa; Kim, Sung-Eun; Stephen, Andrew G.; Fisher, Robert J.; Burke, Terrence R.

    2013-01-01

    The described oxime-based library protocol provides detailed procedures for the linkage of aminooxy functionality with aldehyde building blocks that result in the generation of libraries of multidentate inhibitors. Synthesis of inhibitors for protein tyrosine phosphatases (PTPs) and antagonists directed against the human tumor susceptibility gene 101 (Tsg101) are shown as examples. Three steps are involved: a) the design and synthesis of aminooxy platforms; b) tethering with aldehydes to form oxime-based linkages with sufficient purity; and c) direct in vitro biological evaluation of oxime products without purification. Each coupling reaction is a) performed in capped microtubes at room temperature; b) diluted for inhibitory evaluation and c) screened with targets in microplates to provide IC50 or Kd values. The synthesis of the aminooxy platforms takes 3–5 days; tethering with the aldehydes takes 24 h; and inhibition assay of enzymes and protein-protein interactions (PPIs) takes 30 min and 2 h respectively. PMID:22422315

  4. Rapid generation of NY-ESO-1-specific CD4(+) THELPER1 cells for adoptive T-cell therapy.

    Science.gov (United States)

    Kayser, Simone; Boβ, Cristina; Feucht, Judith; Witte, Kai-Erik; Scheu, Alexander; Bülow, Hans-Jörg; Joachim, Stefanie; Stevanović, Stefan; Schumm, Michael; Rittig, Susanne M; Lang, Peter; Röcken, Martin; Handgretinger, Rupert; Feuchtinger, Tobias

    2015-05-01

    Tumor-associated antigens such as NY-ESO-1 are expressed in a variety of solid tumors but absent in mature healthy tissues with the exception of germline cells. The immune system anti-cancer attack is mediated by cell lysis or induction of growth arrest through paralysis of tumor cells, the latter of which can be achieved by tumor-specific CD4(+), IFNγ-producing THelper type 1 (TH1) cells. Translation of these immune-mediated mechanisms into clinical application has been limited by availability of immune effectors, as well as the need for complex in vitro protocols and regulatory hurdles. Here, we report a procedure to generate cancer-testis antigen NY-ESO-1-targeting CD4(+) TH1 cells in vitro for cancer immunotherapy in the clinic. After in vitro sensitization by stimulating T cells with protein-spanning, overlapping peptide pools of NY-ESO-1 in combination with IL-7 and low dose IL-2, antigen-specific T cells were isolated using IFNγ capture technique and subsequently expanded with IL-2, IL-7 and IL-15. Large numbers of NY-ESO-1-specific CD4(+) T cells with a TH1 cytokine profile and lower numbers of cytokine-secreting CD8(+) T cells could be generated from healthy donors with a high specificity and expansion potential. Manufactured CD4(+) T cells showed strong specific TH1-responses with IFNγ(+), TNFα(+), IL-2(+) and induced cell cycle arrest and apoptosis in tumor cells. The protocol is GMP-grade and approved by the regulatory authorities. The tumor-antigen specific CD4(+) TH1 lymphocytes can be adoptively transferred as a T-cell therapy to boost anticancer immunity and this novel cancer treatment approach is applicable to both T cells from healthy allogeneic donors as well as to autologous T cells derived from cancer patients.

  5. Rapid generation of NY-ESO-1-specific CD4+ THELPER1 cells for adoptive T-cell therapy

    Science.gov (United States)

    Kayser, Simone; Boβ, Cristina; Feucht, Judith; Witte, Kai-Erik; Scheu, Alexander; Bülow, Hans-Jörg; Joachim, Stefanie; Stevanović, Stefan; Schumm, Michael; Rittig, Susanne M; Lang, Peter; Röcken, Martin; Handgretinger, Rupert; Feuchtinger, Tobias

    2015-01-01

    Tumor-associated antigens such as NY-ESO-1 are expressed in a variety of solid tumors but absent in mature healthy tissues with the exception of germline cells. The immune system anti-cancer attack is mediated by cell lysis or induction of growth arrest through paralysis of tumor cells, the latter of which can be achieved by tumor-specific CD4+, IFNγ-producing THelper type 1 (TH1) cells. Translation of these immune-mediated mechanisms into clinical application has been limited by availability of immune effectors, as well as the need for complex in vitro protocols and regulatory hurdles. Here, we report a procedure to generate cancer-testis antigen NY-ESO-1-targeting CD4+ TH1 cells in vitro for cancer immunotherapy in the clinic. After in vitro sensitization by stimulating T cells with protein-spanning, overlapping peptide pools of NY-ESO-1 in combination with IL-7 and low dose IL-2, antigen-specific T cells were isolated using IFNγ capture technique and subsequently expanded with IL-2, IL-7 and IL-15. Large numbers of NY-ESO-1-specific CD4+ T cells with a TH1 cytokine profile and lower numbers of cytokine-secreting CD8+ T cells could be generated from healthy donors with a high specificity and expansion potential. Manufactured CD4+ T cells showed strong specific TH1-responses with IFNγ+, TNFα+, IL-2+ and induced cell cycle arrest and apoptosis in tumor cells. The protocol is GMP-grade and approved by the regulatory authorities. The tumor-antigen specific CD4+ TH1 lymphocytes can be adoptively transferred as a T-cell therapy to boost anticancer immunity and this novel cancer treatment approach is applicable to both T cells from healthy allogeneic donors as well as to autologous T cells derived from cancer patients. PMID:26155389

  6. Wind farms generation limits and its impact in real-time voltage stability assessment

    DEFF Research Database (Denmark)

    Perez, Angel; Jóhannsson, Hjörtur; Østergaard, Jacob

    2015-01-01

    indicates the distance to the limit activation and theeffect of each load in such a limit. The wind farm control schemesincludes voltage control and it is represented as a constantcurrent at its limit. A criteria to select the critical bus bar, basedon the generator transformation coefficients, is presented....... Thismethodology is tested in a platform that produces synthesizedPMU measurements from time-domain simulations and criticalboundary for the wind-farm limits are shown. The methodology isalso tested for synchronous machines and its parallel structure isexploited when implemented in a High Performance...

  7. Modified mean generation time parameter in the neutron point kinetics equations

    Energy Technology Data Exchange (ETDEWEB)

    Diniz, Rodrigo C.; Gonçalves, Alessandro C.; Rosa, Felipe S.S., E-mail: alessandro@nuclear.ufrj.br, E-mail: frosa@if.ufrj.br [Coordenacao de Pos-Graduacao e Pesquisa de Engenharia (PEN/COPPE/UFRJ), Rio de Janeiro, RJ (Brazil)

    2017-07-01

    This paper proposes an approximation for the modified point kinetics equations proposed by NUNES et. al, 2015, through the adjustment of a kinetic parameter. This approximation consists of analyzing the terms of the modified point kinetics equations in order to identify the least important ones for the solution, resulting in a modification of the mean generation time parameter that incorporates all influences of the additional terms of the modified kinetics. This approximation is applied on the inverse kinetics, to compare the results with the inverse kinetics from the modified kinetics in order to validate the proposed model. (author)

  8. Self-Motion Perception: Assessment by Real-Time Computer Generated Animations

    Science.gov (United States)

    Parker, Donald E.

    1999-01-01

    Our overall goal is to develop materials and procedures for assessing vestibular contributions to spatial cognition. The specific objective of the research described in this paper is to evaluate computer-generated animations as potential tools for studying self-orientation and self-motion perception. Specific questions addressed in this study included the following. First, does a non- verbal perceptual reporting procedure using real-time animations improve assessment of spatial orientation? Are reports reliable? Second, do reports confirm expectations based on stimuli to vestibular apparatus? Third, can reliable reports be obtained when self-motion description vocabulary training is omitted?

  9. Generation of Bianchi Type V Bulk Viscous Cosmological Models with Time-Dependent L-Term

    Science.gov (United States)

    Pradhan, Anirudh; Jotania, Kanti; Rai, Anju

    Bianchi type V bulk viscous fluid cosmological models are investigated with dynamic cosmological term $\\Lambda(t)$. Using a generation technique (Camci {\\it et al.}, 2001), it is shown that the Einstein's field equations are solvable for any arbitrary cosmic scale function. Solutions for particular forms of cosmic scale functions are also obtained. The cosmological constant is found to be decreasing function of time, which is supported by results from recent type Ia supernovae observations. Some physical and geometrical aspects of the models are also discussed.

  10. Validity of Real-Time Data Generated by a Wearable Microtechnology Device.

    Science.gov (United States)

    Weaving, Dan; Whitehead, Sarah; Till, Kevin; Jones, Ben

    2017-10-01

    The purpose of this study was to investigate the validity of global positioning system (GPS) and micro-electrical-mechanical-system (MEMS) data generated in real time through a dedicated receiver. Postsession data acted as the criterion as it is used to plan the volume and intensity of future training and is downloaded directly from the device. Twenty-five professional rugby league players completed 2 training sessions wearing an MEMS device (Catapult S5, firmware version: 5.27). During sessions, real-time data were collected through the manufacturer receiver and dedicated software (Openfield v1.14), which was positioned outdoors at the same location for every session. The GPS variables included total-, low- (0-3 m·s), moderate- (3.1-5 m·s), high- (5.1-7 m·s), and very high-speed (>7.1 m·s) distances. Micro-electrical-mechanical-system data included total session PlayerLoad. When compared to postsession data, mean bias for total-, low-, moderate-, high-, and very high-speed distances were all trivial, with the typical error of the estimate (TEE) small, small, trivial, trivial and small, respectively. Pearson correlation coefficients for total-, low-, moderate-, high- and very-high-speed distances were nearly perfect, nearly perfect, perfect, perfect, and nearly perfect, respectively. For PlayerLoad, mean bias was trivial, whereas TEE was moderate and correlation nearly perfect. Practitioners should be confident that when interpreting real-time speed-derived metrics, the data generated in real-time are comparable with those downloaded directly from the device postsession. However, practitioners should refrain from interpreting accelerometer-derived data (i.e., PlayerLoad) or acknowledge the moderate error associated with this real-time measure.

  11. Rapid in situ generation of two patterned chemoselective surface chemistries from a single hydroxy-terminated surface using controlled microfluidic oxidation.

    Science.gov (United States)

    Pulsipher, Abigail; Westcott, Nathan P; Luo, Wei; Yousaf, Muhammad N

    2009-06-10

    In this work, we develop a new, rapid and inexpensive method to generate spatially controlled aldehyde and carboxylic acid surface groups by microfluidic oxidation of 11-hydroxyundecylphosphonic acid self-assembled monolayers (SAMs) on indium tin oxide (ITO) surfaces. SAMs are activated and patterned using a reversibly sealable, elastomeric polydimethylsiloxane cassette, fabricated with preformed micropatterns by soft lithography. By flowing the mild oxidant pyridinium chlorochromate through the microchannels, only selected areas of the SAM are chemically altered. This microfluidic oxidation strategy allows for ligand immobilization by two chemistries originating from a single SAM composition. ITO is robust, conductive, and transparent, making it an ideal platform for studying interfacial interactions. We display spatial control over the immobilization of a variety of ligands on ITO and characterize the resulting oxime and amide linkages by electrochemistry, X-ray photoelectron spectroscopy, contact angle, fluorescence microscopy, and atomic force microscopy. This general method may be used with many other materials to rapidly generate patterned and tailored surfaces for studies ranging from molecular electronics to biospecific cell-based assays and biomolecular microarrays.

  12. Rapid Generation of Marker-Free P. falciparum Fluorescent Reporter Lines Using Modified CRISPR/Cas9 Constructs and Selection Protocol.

    Science.gov (United States)

    Mogollon, Catherin Marin; van Pul, Fiona J A; Imai, Takashi; Ramesar, Jai; Chevalley-Maurel, Séverine; de Roo, Guido M; Veld, Sabrina A J; Kroeze, Hans; Franke-Fayard, Blandine M D; Janse, Chris J; Khan, Shahid M

    2016-01-01

    The CRISPR/Cas9 system is a powerful genome editing technique employed in a wide variety of organisms including recently the human malaria parasite, P. falciparum. Here we report on further improvements to the CRISPR/Cas9 transfection constructs and selection protocol to more rapidly modify the P. falciparum genome and to introduce transgenes into the parasite genome without the inclusion of drug-selectable marker genes. This method was used to stably integrate the gene encoding GFP into the P. falciparum genome under the control of promoters of three different Plasmodium genes (calmodulin, gapdh and hsp70). These genes were selected as they are highly transcribed in blood stages. We show that the three reporter parasite lines generated in this study (GFP@cam, GFP@gapdh and GFP@hsp70) have in vitro blood stage growth kinetics and drug-sensitivity profiles comparable to the parental P. falciparum (NF54) wild-type line. Both asexual and sexual blood stages of the three reporter lines expressed GFP-fluorescence with GFP@hsp70 having the highest fluorescent intensity in schizont stages as shown by flow cytometry analysis of GFP-fluorescence intensity. The improved CRISPR/Cas9 constructs/protocol will aid in the rapid generation of transgenic and modified P. falciparum parasites, including those expressing different reporters proteins under different (stage specific) promoters.

  13. Rapid Generation of Multiple Loci-Engineered Marker-free Poxvirus and Characterization of a Clinical-Grade Oncolytic Vaccinia Virus

    Directory of Open Access Journals (Sweden)

    Zong Sheng Guo

    2017-12-01

    Full Text Available Recombinant poxviruses, utilized as vaccine vectors and oncolytic viruses, often require manipulation at multiple genetic loci in the viral genome. It is essential for viral vectors to possess no adventitious mutations and no (antibiotic selection marker in the final product for human patients in order to comply with the guidance from the regulatory agencies. Rintoul et al. have previously developed a selectable and excisable marker (SEM system for the rapid generation of recombinant vaccinia virus. In the current study, we describe an improved methodology for rapid creation and selection of recombinant poxviruses with multiple genetic manipulations solely based on expression of a fluorescent protein and with no requirement for drug selection that can lead to cellular stress and the risk of adventitious mutations throughout the viral genome. Using this improved procedure combined with the SEM system, we have constructed multiple marker-free oncolytic poxviruses expressing different cytokines and other therapeutic genes. The high fidelity of inserted DNA sequences validates the utility of this improved procedure for generation of therapeutic viruses for human patients. We have created an oncolytic poxvirus expressing human chemokine CCL5, designated as vvDD-A34R-hCCL5, with manipulations at two genetic loci in a single virus. Finally, we have produced and purified this virus in clinical grade for its use in a phase I clinical trial and presented data on initial in vitro characterization of the virus.

  14. In the time of significant generational diversity - surgical leadership must step up!

    Science.gov (United States)

    Money, Samuel R; O'Donnell, Mark E; Gray, Richard J

    2014-02-01

    The diverse attitudes and motivations of surgeons and surgical trainees within different age groups present an important challenge for surgical leaders and educators. These challenges to surgical leadership are not unique, and other industries have likewise needed to grapple with how best to manage these various age groups. The authors will herein explore management and leadership for surgeons in a time of age diversity, define generational variations within "Baby-Boomer", "Generation X" and "Generation Y" populations, and identify work ethos concepts amongst these three groups. The surgical community must understand and embrace these concepts in order to continue to attract a stellar pool of applicants from medical school. By not accepting the changing attitudes and motivations of young trainees and medical students, we may disenfranchise a high percentage of potential future surgeons. Surgical training programs will fill, but will they contain the highest quality trainees? Copyright © 2013 Royal College of Surgeons of Edinburgh (Scottish charity number SC005317) and Royal College of Surgeons in Ireland. Published by Elsevier Ltd. All rights reserved.

  15. Interactive Light Stimulus Generation with High Performance Real-Time Image Processing and Simple Scripting

    Directory of Open Access Journals (Sweden)

    László Szécsi

    2017-12-01

    Full Text Available Light stimulation with precise and complex spatial and temporal modulation is demanded by a series of research fields like visual neuroscience, optogenetics, ophthalmology, and visual psychophysics. We developed a user-friendly and flexible stimulus generating framework (GEARS GPU-based Eye And Retina Stimulation Software, which offers access to GPU computing power, and allows interactive modification of stimulus parameters during experiments. Furthermore, it has built-in support for driving external equipment, as well as for synchronization tasks, via USB ports. The use of GEARS does not require elaborate programming skills. The necessary scripting is visually aided by an intuitive interface, while the details of the underlying software and hardware components remain hidden. Internally, the software is a C++/Python hybrid using OpenGL graphics. Computations are performed on the GPU, and are defined in the GLSL shading language. However, all GPU settings, including the GPU shader programs, are automatically generated by GEARS. This is configured through a method encountered in game programming, which allows high flexibility: stimuli are straightforwardly composed using a broad library of basic components. Stimulus rendering is implemented solely in C++, therefore intermediary libraries for interfacing could be omitted. This enables the program to perform computationally demanding tasks like en-masse random number generation or real-time image processing by local and global operations.

  16. Time-Frequency Analysis of Boundary-Layer Instabilites Generated by Freestream Laser Perturbations

    Science.gov (United States)

    Chou, Amanda; Schneider, Steven P.

    2015-01-01

    A controlled disturbance is generated in the freestream of the Boeing/AFOSR Mach-6 Quiet Tunnel (BAM6QT) by focusing a high-powered Nd:YAG laser to create a laser-induced breakdown plasma. The plasma then cools, creating a freestream thermal disturbance that can be used to study receptivity. The freestream disturbance convects down-stream in the Mach-6 wind tunnel to interact with a flared cone model. The adverse pressure gradient created by the flare of the model is capable of generating second-mode instability waves that grow large and become nonlinear before experiencing natural transition in quiet flow. The freestream laser perturbation generates a wave packet in the boundary layer at the same frequency as the natural second mode, complicating time-independent analyses of the effect of the laser perturbation. The data show that the laser perturbation creates an instability wave packet that is larger than the natural waves on the sharp flared cone. The wave packet is still difficult to distinguish from the natural instabilities on the blunt flared cone.

  17. Real-time transient stabilization and voltage regulation of power generators with unknown mechanical power input

    Energy Technology Data Exchange (ETDEWEB)

    Kenne, Godpromesse, E-mail: gokenne@yahoo.co [Laboratoire d' Automatique et d' Informatique Appliquee (LAIA), Departement de Genie Electrique, Universite de Dschang, B.P. 134 Bandjoun (Cameroon); Goma, Raphael, E-mail: raphael.goma@lss.supelec.f [Laboratoire des Signaux et Systemes (L2S), CNRS-SUPELEC, Universite Paris XI, 3 Rue Joliot Curie, 91192 Gif-sur-Yvette (France); Nkwawo, Homere, E-mail: homere.nkwawo@iutv.univ-paris13.f [Departement GEII, Universite Paris XIII, 99 Avenue Jean Baptiste Clement, 93430 Villetaneuse (France); Lamnabhi-Lagarrigue, Francoise, E-mail: lamnabhi@lss.supelec.f [Laboratoire des Signaux et Systemes (L2S), CNRS-SUPELEC, Universite Paris XI, 3 Rue Joliot Curie, 91192 Gif-sur-Yvette (France); Arzande, Amir, E-mail: Amir.arzande@supelec.f [Departement Energie, Ecole Superieure d' Electricite-SUPELEC, 3 Rue Joliot Curie, 91192 Gif-sur-Yvette (France); Vannier, Jean Claude, E-mail: Jean-claude.vannier@supelec.f [Departement Energie, Ecole Superieure d' Electricite-SUPELEC, 3 Rue Joliot Curie, 91192 Gif-sur-Yvette (France)

    2010-01-15

    A nonlinear adaptive excitation controller is proposed to enhance the transient stability and voltage regulation of synchronous generators with unknown power angle and mechanical power input. The proposed method is based on a standard third-order model of a synchronous generator which requires only information about the physical available measurements of relative angular speed, active electric power, infinite bus and generator terminal voltages. The operating conditions are computed online using the above physical available measurements, the terminal voltage reference value and the estimate of the mechanical power input. The proposed design is therefore capable of providing satisfactory voltage in the presence of unknown variations of the power system operating conditions. Using the concept of sliding mode equivalent control techniques, a robust decentralized adaptive controller which insures the exponential convergence of the outputs to the desired ones, is obtained. Real-time experimental results are reported, comparing the performance of the proposed adaptive nonlinear control scheme to one of the conventional AVR/PSS controller. The high simplicity of the overall adaptive control scheme and its robustness with respect to line impedance variation including critical unbalanced operating condition and temporary turbine fault, constitute the main positive features of the proposed approach.

  18. Rapid diagnostic tests as a source of DNA for Plasmodium species-specific real-time PCR

    Directory of Open Access Journals (Sweden)

    Van Esbroeck Marjan

    2011-03-01

    Full Text Available Abstract Background This study describes the use of malaria rapid diagnostic tests (RDTs as a source of DNA for Plasmodium species-specific real-time PCR. Methods First, the best method to recover DNA from RDTs was investigated and then the applicability of this DNA extraction method was assessed on 12 different RDT brands. Finally, two RDT brands (OptiMAL Rapid Malaria Test and SDFK60 malaria Ag Plasmodium falciparum/Pan test were comprehensively evaluated on a panel of clinical samples submitted for routine malaria diagnosis at ITM. DNA amplification was done with the 18S rRNA real-time PCR targeting the four Plasmodium species. Results of PCR on RDT were compared to those obtained by PCR on whole blood samples. Results Best results were obtained by isolating DNA from the proximal part of the nitrocellulose component of the RDT strip with a simple DNA elution method. The PCR on RDT showed a detection limit of 0.02 asexual parasites/μl, which was identical to the same PCR on whole blood. For all 12 RDT brands tested, DNA was detected except for one brand when a low parasite density sample was applied. In RDTs with a plastic seal covering the nitrocellulose strip, DNA extraction was hampered. PCR analysis on clinical RDT samples demonstrated correct identification for single species infections for all RDT samples with asexual parasites of P. falciparum (n = 60, Plasmodium vivax (n = 10, Plasmodium ovale (n = 10 and Plasmodium malariae (n = 10. Samples with only gametocytes were detected in all OptiMAL and in 10 of the 11 SDFK60 tests. None of the negative samples (n = 20 gave a signal by PCR on RDT. With PCR on RDT, higher Ct-values were observed than with PCR on whole blood, with a mean difference of 2.68 for OptiMAL and 3.53 for SDFK60. Mixed infections were correctly identified with PCR on RDT in 4/5 OptiMAL tests and 2/5 SDFK60 tests. Conclusions RDTs are a reliable source of DNA for Plasmodium real-time PCR. This study demonstrates the

  19. Using real-time polymerase chain reaction as an alternative rapid method for enumeration of colony count in liveBrucellavaccines.

    Science.gov (United States)

    Shell, Waleed S; Sayed, Mahmoud L; Samy, A A; Al-Sadek, Ghada Mohamed; El-Hamid, Gina Mohamed Mohamed Abd; Ali, Abdel Hakam M

    2017-06-01

    Brucellosis is a major bacterial zoonosis of global importance affecting a range of animal species and man worldwide. It has economic, public health, and bio-risk importance. Control and prevention of animal brucellosis mainly depend on accurate diagnostic tools and implementation of effective and safe animal vaccination program. There are three types of animal Brucella live vaccines - Brucella melitensis Rev-1 vaccine, Brucella abortus S19, and B . abortus RB51. Evaluation of these vaccines depends mainly on enumeration of Brucella viable count. At present, used colony count method is time consuming, costly and requires especial skills. Hence, the aim of this study is to use and standardize real-time polymerase chain reaction (RT-PCR) as an alternative, quantitative, sensitive, and rapid method to detect the colony count of Brucella in live Brucella vaccine. Four batches of different live Brucella vaccines were evaluated using of conventional bacterial count and RT-quantitative PCR (RT-qPCR) using BSCP31 gene specific primers and probe. Standard curve was generated from DNA template extracted from 10-fold serial dilution of living B. abortus RB51 vaccine to evaluate the sensitivity of RT-qPCR. Results revealed that three batches of living Brucella vaccines were acceptable for Brucella colony count when traditional bacterial enumeration method was used. Results of RT-qPCR were identical to that of conventional bacterial count. Results concluded that RT-qPCR was relatively sensitive compared to traditional bacterial colony count of these vaccines.

  20. Rapid Quadrupole-Time-of-Flight Mass Spectrometry Method Quantifies Oxygen-Rich Lignin Compound in Complex Mixtures

    Science.gov (United States)

    Boes, Kelsey S.; Roberts, Michael S.; Vinueza, Nelson R.

    2017-12-01

    Complex mixture analysis is a costly and time-consuming task facing researchers with foci as varied as food science and fuel analysis. When faced with the task of quantifying oxygen-rich bio-oil molecules in a complex diesel mixture, we asked whether complex mixtures could be qualitatively and quantitatively analyzed on a single mass spectrometer with mid-range resolving power without the use of lengthy separations. To answer this question, we developed and evaluated a quantitation method that eliminated chromatography steps and expanded the use of quadrupole-time-of-flight mass spectrometry from primarily qualitative to quantitative as well. To account for mixture complexity, the method employed an ionization dopant, targeted tandem mass spectrometry, and an internal standard. This combination of three techniques achieved reliable quantitation of oxygen-rich eugenol in diesel from 300 to 2500 ng/mL with sufficient linearity (R2 = 0.97 ± 0.01) and excellent accuracy (percent error = 0% ± 5). To understand the limitations of the method, it was compared to quantitation attained on a triple quadrupole mass spectrometer, the gold standard for quantitation. The triple quadrupole quantified eugenol from 50 to 2500 ng/mL with stronger linearity (R2 = 0.996 ± 0.003) than the quadrupole-time-of-flight and comparable accuracy (percent error = 4% ± 5). This demonstrates that a quadrupole-time-of-flight can be used for not only qualitative analysis but also targeted quantitation of oxygen-rich lignin molecules in complex mixtures without extensive sample preparation. The rapid and cost-effective method presented here offers new possibilities for bio-oil research, including: (1) allowing for bio-oil studies that demand repetitive analysis as process parameters are changed and (2) making this research accessible to more laboratories. [Figure not available: see fulltext.

  1. Rapid generation of mature hepatocyte-like cells from human induced pluripotent stem cells by an efficient three-step protocol.

    Science.gov (United States)

    Chen, Yu-Fan; Tseng, Chien-Yu; Wang, Hsei-Wei; Kuo, Hung-Chih; Yang, Vincent W; Lee, Oscar K

    2012-04-01

    Liver transplantation is the only definitive treatment for end-stage cirrhosis and fulminant liver failure, but the lack of available donor livers is a major obstacle to liver transplantation. Recently, induced pluripotent stem cells (iPSCs) derived from the reprogramming of somatic fibroblasts, have been shown to resemble embryonic stem (ES) cells in that they have pluripotent properties and the potential to differentiate into all cell lineages in vitro, including hepatocytes. Thus, iPSCs could serve as a favorable cell source for a wide range of applications, including drug toxicity testing, cell transplantation, and patient-specific disease modeling. Here, we describe an efficient and rapid three-step protocol that is able to rapidly generate hepatocyte-like cells from human iPSCs. This occurs because the endodermal induction step allows for more efficient and definitive endoderm cell formation. We show that hepatocyte growth factor (HGF), which synergizes with activin A and Wnt3a, elevates the expression of the endodermal marker Foxa2 (forkhead box a2) by 39.3% compared to when HGF is absent (14.2%) during the endodermal induction step. In addition, iPSC-derived hepatocytes had a similar gene expression profile to mature hepatocytes. Importantly, the hepatocyte-like cells exhibited cytochrome P450 3A4 (CYP3A4) enzyme activity, secreted urea, uptake of low-density lipoprotein (LDL), and possessed the ability to store glycogen. Moreover, the hepatocyte-like cells rescued lethal fulminant hepatic failure in a nonobese diabetic severe combined immunodeficient mouse model. We have established a rapid and efficient differentiation protocol that is able to generate functional hepatocyte-like cells from human iPSCs. This may offer an alternative option for treatment of liver diseases. Copyright © 2011 American Association for the Study of Liver Diseases.

  2. Rapid recovery and altered neurochemical dependence of locomotor central pattern generation following lumbar neonatal spinal cord injury.

    Science.gov (United States)

    Züchner, Mark; Kondratskaya, Elena; Sylte, Camilla B; Glover, Joel C; Boulland, Jean-Luc

    2018-01-15

    Spinal compression injury targeted to the neonatal upper lumbar spinal cord, the region of highest hindlimb locomotor rhythmogenicity, leads to an initial paralysis of the hindlimbs. Behavioural recovery is evident within a few days and approaches normal function within about 3 weeks. Fictive locomotion in the isolated injured spinal cord cannot be elicited by a neurochemical cocktail containing NMDA, dopamine and serotonin 1 day post-injury, but can 3 days post-injury as readily as in the uninjured spinal cord. Low frequency coordinated rhythmic activity can be elicited in the isolated uninjured spinal cord by NMDA + dopamine (without serotonin), but not in the isolated injured spinal cord. In both the injured and uninjured spinal cord, eliciting bona fide fictive locomotion requires the additional presence of serotonin. Following incomplete compression injury in the thoracic spinal cord of neonatal mice 1 day after birth (P1), we previously reported that virtually normal hindlimb locomotor function is recovered within about 3 weeks despite substantial permanent thoracic tissue loss. Here, we asked whether similar recovery occurs following lumbar injury that impacts more directly on the locomotor central pattern generator (CPG). As in thoracic injuries, lumbar injuries caused about 90% neuronal loss at the injury site and increased serotonergic innervation below the injury. Motor recovery was slower after lumbar than thoracic injury, but virtually normal function was attained by P25 in both cases. Locomotor CPG status was tested by eliciting fictive locomotion in isolated spinal cords using a widely used neurochemical cocktail (NMDA, dopamine, serotonin). No fictive locomotion could be elicited 1 day post-injury, but could within 3 days post-injury as readily as in age-matched uninjured control spinal cords. Burst patterning and coordination were largely similar in injured and control spinal cords but there were differences. Notably, in both groups there

  3. Rapid salinization of a karst aquifer after a typhoon-generated storm surge: Hydraulics, geochemistry, and community impact

    Science.gov (United States)

    Bennett, P.; Cardenas, M. B.; Zamora, P. B.; Befus, K. M.; Rodolfo, R. S.; Cabria, H. B.; Lapus, M. R.; Muan, M.

    2014-12-01

    Super Typhoon (STY) Haiyan made landfall in the Philippines with sustained winds of 315 kph producing a 7+ meter storm surge that inundated parts of Leyte and Samar; >8000 died, > 106 homes were destroyed, and thousands of people are still missing. The surge reached 1 km inland and resulted in widespread seawater (SW) contamination of groundwater (GW) resources critical for coastal villages. We conducted field-work in a village of ~2200 residents, inundated by a 5-6 m surge, 2 months and again 8 months after STY Haiyan. The 330+ shallow tube wells (STWs) had been drilled through beach sand into karstic reef carbonates to 5-20m below the water table (WT). Residents reported their STWs salinized immediately after the storm, even the deepest wells, and the only source of fresh water was a karst spring 1 km from the village. 2 months after the storm GW salinity was up to 18% SW. Electrical Resistivity Tomography (ERT) was used to image salt distribution in the surficial aquifer alongside the developed village. ERT detected an electrically conductive layer ~1m below the WT, and water sampling confirmed that this was due to infiltrated seawater. Variable-density flow and transport models corroborate the ER tomograms and show that the salt is infiltrating through the aquifer and slowly flushing to the ocean. We hypothesize that SW rapidly infiltrated the ~2m sandy unsaturated zone and contaminated the shallow GW over a wide area. This salt layer is slowly sinking and flushing toward the ocean, and flow models show that it might be several years to flush the system. Results from a second ERT survey 6 months later show little change in the ER field, consistent with model predictions. But karst features and the STWs themselves served as preferential paths into the aquifer for SW injection to the deeper zone under the 6m surge potential, salinizing deep wells ahead of the advancing shallow SW layer. These wells have seen substantial decrease in salinity over 6 months, as much

  4. Rapid assignment of malting barley varieties by matrix-assisted laser desorption-ionisation - Time-of-flight mass spectrometry.

    Science.gov (United States)

    Šedo, Ondrej; Kořán, Michal; Jakešová, Michaela; Mikulíková, Renata; Boháč, Michal; Zdráhal, Zbyněk

    2016-09-01

    A method for discriminating malting barley varieties based on direct matrix-assisted laser desorption-ionisation - time-of-flight mass spectrometry (MALDI-TOF MS) fingerprinting of proteins was developed. Signals corresponding to hordeins were obtained by simple mixing of powdered barley grain with a MALDI matrix solution containing 12.5mgmL(-1) of ferulic acid in an acetonitrile:water:formic acid 50:33:17 v/v/v mixture. Compared to previous attempts at MALDI-TOF mass spectrometric analysis of barley proteins, the extraction and fractionation steps were practically omitted, resulting in a significant reduction in analytical time and costs. The discriminatory power was examined on twenty malting barley varieties and the practicability of the method was tested on sixty barley samples acquired from Pilsner Urquell Brewery. The method is proposed as a rapid tool for variety assignment and purity determination of malting barley that may replace gel electrophoresis currently used for this purpose. Copyright © 2016 Elsevier Ltd. All rights reserved.

  5. Rapid and Accurate Identification by Real-Time PCR of Biotoxin-Producing Dinoflagellates from the Family Gymnodiniaceae

    Directory of Open Access Journals (Sweden)

    Kirsty F. Smith

    2014-03-01

    Full Text Available The identification of toxin-producing dinoflagellates for monitoring programmes and bio-compound discovery requires considerable taxonomic expertise. It can also be difficult to morphologically differentiate toxic and non-toxic species or strains. Various molecular methods have been used for dinoflagellate identification and detection, and this study describes the development of eight real-time polymerase chain reaction (PCR assays targeting the large subunit ribosomal RNA (LSU rRNA gene of species from the genera Gymnodinium, Karenia, Karlodinium, and Takayama. Assays proved to be highly specific and sensitive, and the assay for G. catenatum was further developed for quantification in response to a bloom in Manukau Harbour, New Zealand. The assay estimated cell densities from environmental samples as low as 0.07 cells per PCR reaction, which equated to three cells per litre. This assay not only enabled conclusive species identification but also detected the presence of cells below the limit of detection for light microscopy. This study demonstrates the usefulness of real-time PCR as a sensitive and rapid molecular technique for the detection and quantification of micro-algae from environmental samples.

  6. Smashing the Stovepipe: Leveraging the GMSEC Open Architecture and Advanced IT Automation to Rapidly Prototype, Develop and Deploy Next-Generation Multi-Mission Ground Systems

    Science.gov (United States)

    Swenson, Paul

    2017-01-01

    Satellite/Payload Ground Systems - Typically highly-customized to a specific mission's use cases - Utilize hundreds (or thousands!) of specialized point-to-point interfaces for data flows / file transfers Documentation and tracking of these complex interfaces requires extensive time to develop and extremely high staffing costs Implementation and testing of these interfaces are even more cost-prohibitive, and documentation often lags behind implementation resulting in inconsistencies down the road With expanding threat vectors, IT Security, Information Assurance and Operational Security have become key Ground System architecture drivers New Federal security-related directives are generated on a daily basis, imposing new requirements on current / existing ground systems - These mandated activities and data calls typically carry little or no additional funding for implementation As a result, Ground System Sustaining Engineering groups and Information Technology staff continually struggle to keep up with the rolling tide of security Advancing security concerns and shrinking budgets are pushing these large stove-piped ground systems to begin sharing resources - I.e. Operational / SysAdmin staff, IT security baselines, architecture decisions or even networks / hosting infrastructure Refactoring these existing ground systems into multi-mission assets proves extremely challenging due to what is typically very tight coupling between legacy components As a result, many "Multi-Mission" ops. environments end up simply sharing compute resources and networks due to the difficulty of refactoring into true multi-mission systems Utilizing continuous integration / rapid system deployment technologies in conjunction with an open architecture messaging approach allows System Engineers and Architects to worry less about the low-level details of interfaces between components and configuration of systems GMSEC messaging is inherently designed to support multi-mission requirements, and

  7. Effects of electrolysis time and electric potential on chlorine generation of electrolyzed deep ocean water

    Directory of Open Access Journals (Sweden)

    Guoo-Shyng Wang Hsu

    2017-10-01

    Full Text Available Electrolyzed water is a sustainable disinfectant, which can comply with food safety regulations and is environmentally friendly. A two-factor central composite design was adopted for studying the effects of electrolysis time and electric potential on the chlorine generation efficiency of electrolyzed deep ocean water (DOW. DOW was electrolyzed in a glass electrolyzing cell equipped with platinum–plated titanium anode and cathode. The results showed that chlorine concentration reached maximal level in the batch process. Prolonged electrolysis reduced chlorine concentration in the electrolyte and was detrimental to electrolysis efficiency, especially under high electric potential conditions. Therefore, the optimal choice of electrolysis time depends on the electrolyzable chloride in DOW and cell potential adopted for electrolysis. The higher the electric potential, the faster the chlorine level reaches its maximum, but the lower the electric efficiency will be.

  8. Effects of electrolysis time and electric potential on chlorine generation of electrolyzed deep ocean water.

    Science.gov (United States)

    Hsu, Guoo-Shyng Wang; Lu, Yi-Fa; Hsu, Shun-Yao

    2017-10-01

    Electrolyzed water is a sustainable disinfectant, which can comply with food safety regulations and is environmentally friendly. A two-factor central composite design was adopted for studying the effects of electrolysis time and electric potential on the chlorine generation efficiency of electrolyzed deep ocean water (DOW). DOW was electrolyzed in a glass electrolyzing cell equipped with platinum-plated titanium anode and cathode. The results showed that chlorine concentration reached maximal level in the batch process. Prolonged electrolysis reduced chlorine concentration in the electrolyte and was detrimental to electrolysis efficiency, especially under high electric potential conditions. Therefore, the optimal choice of electrolysis time depends on the electrolyzable chloride in DOW and cell potential adopted for electrolysis. The higher the electric potential, the faster the chlorine level reaches its maximum, but the lower the electric efficiency will be. Copyright © 2016. Published by Elsevier B.V.

  9. Photon generation in an electromagnetic cavity with a time-dependent boundary.

    Science.gov (United States)

    Wilson, C M; Duty, T; Sandberg, M; Persson, F; Shumeiko, V; Delsing, P

    2010-12-03

    We report the observation of photon generation in a microwave cavity with a time-dependent boundary condition. Our system is a microfabricated quarter-wave coplanar waveguide cavity. The electrical length of the cavity is varied by using the tunable inductance of a superconducting quantum interference device. It is measured at a temperature significantly less than the resonance frequency. When the length is modulated at approximately twice the static resonance frequency, spontaneous parametric oscillations of the cavity field are observed. Time-resolved measurements of the dynamical state of the cavity show multiple stable states. The behavior is well described by theory. Our results may be considered a preliminary step towards demonstrating the dynamical Casimir effect.

  10. Real-Time Extended Interface Automata for Software Testing Cases Generation

    Science.gov (United States)

    Yang, Shunkun; Xu, Jiaqi; Man, Tianlong; Liu, Bin

    2014-01-01

    Testing and verification of the interface between software components are particularly important due to the large number of complex interactions, which requires the traditional modeling languages to overcome the existing shortcomings in the aspects of temporal information description and software testing input controlling. This paper presents the real-time extended interface automata (RTEIA) which adds clearer and more detailed temporal information description by the application of time words. We also establish the input interface automaton for every input in order to solve the problems of input controlling and interface covering nimbly when applied in the software testing field. Detailed definitions of the RTEIA and the testing cases generation algorithm are provided in this paper. The feasibility and efficiency of this method have been verified in the testing of one real aircraft braking system. PMID:24892080

  11. Rapid generation of drug-resistance alleles at endogenous loci using CRISPR-Cas9 indel mutagenesis.

    Directory of Open Access Journals (Sweden)

    Jonathan J Ipsaro

    Full Text Available Genetic alterations conferring resistance to the effects of chemical inhibitors are valuable tools for validating on-target effects in cells. Unfortunately, for many therapeutic targets such alleles are not available. To address this issue, we evaluated whether CRISPR-Cas9-mediated insertion/deletion (indel mutagenesis can produce drug-resistance alleles at endogenous loci. This method takes advantage of the heterogeneous in-frame alleles produced following Cas9-mediated DNA cleavage, which we show can generate rare alleles that confer resistance to the growth-arrest caused by chemical inhibitors. We used this approach to identify novel resistance alleles of two lysine methyltransferases, DOT1L and EZH2, which are each essential for the growth of MLL-fusion leukemia cells. We biochemically characterized the DOT1L mutation, showing that it is significantly more active than the wild-type enzyme. These findings validate the on-target anti-leukemia activities of existing DOT1L and EZH2 inhibitors and reveal a simple method for deriving drug-resistance alleles for novel targets, which may have utility during early stages of drug development.

  12. Rapid Targeted Next-Generation Sequencing Platform for Molecular Screening and Clinical Genotyping in Subjects with Hemoglobinopathies

    Directory of Open Access Journals (Sweden)

    Xuan Shang

    2017-09-01

    Full Text Available Hemoglobinopathies are among the most common autosomal-recessive disorders worldwide. A comprehensive next-generation sequencing (NGS test would greatly facilitate screening and diagnosis of these disorders. An NGS panel targeting the coding regions of hemoglobin genes and four modifier genes was designed. We validated the assay by using 2522 subjects affected with hemoglobinopathies and applied it to carrier testing in a cohort of 10,111 couples who were also screened through traditional methods. In the clinical genotyping analysis of 1182 β-thalassemia subjects, we identified a group of additional variants that can be used for accurate diagnosis. In the molecular screening analysis of the 10,111 couples, we detected 4180 individuals in total who carried 4840 mutant alleles, and identified 186 couples at risk of having affected offspring. 12.1% of the pathogenic or likely pathogenic variants identified by our NGS assay, which were undetectable by traditional methods. Compared with the traditional methods, our assay identified an additional at-risk 35 couples. We describe a comprehensive NGS-based test that offers advantages over the traditional screening/molecular testing methods. To our knowledge, this is among the first large-scale population study to systematically evaluate the application of an NGS technique in carrier screening and molecular diagnosis of hemoglobinopathies.

  13. Clinical Application of Picodroplet Digital PCR Technology for Rapid Detection of EGFR T790M in Next-Generation Sequencing Libraries and DNA from Limited Tumor Samples.

    Science.gov (United States)

    Borsu, Laetitia; Intrieri, Julie; Thampi, Linta; Yu, Helena; Riely, Gregory; Nafa, Khedoudja; Chandramohan, Raghu; Ladanyi, Marc; Arcila, Maria E

    2016-11-01

    Although next-generation sequencing (NGS) is a robust technology for comprehensive assessment of EGFR-mutant lung adenocarcinomas with acquired resistance to tyrosine kinase inhibitors, it may not provide sufficiently rapid and sensitive detection of the EGFR T790M mutation, the most clinically relevant resistance biomarker. Here, we describe a digital PCR (dPCR) assay for rapid T790M detection on aliquots of NGS libraries prepared for comprehensive profiling, fully maximizing broad genomic analysis on limited samples. Tumor DNAs from patients with EGFR-mutant lung adenocarcinomas and acquired resistance to epidermal growth factor receptor inhibitors were prepared for Memorial Sloan-Kettering-Integrated Mutation Profiling of Actionable Cancer Targets sequencing, a hybrid capture-based assay interrogating 410 cancer-related genes. Precapture library aliquots were used for rapid EGFR T790M testing by dPCR, and results were compared with NGS and locked nucleic acid-PCR Sanger sequencing (reference high sensitivity method). Seventy resistance samples showed 99% concordance with the reference high sensitivity method in accuracy studies. Input as low as 2.5 ng provided a sensitivity of 1% and improved further with increasing DNA input. dPCR on libraries required less DNA and showed better performance than direct genomic DNA. dPCR on NGS libraries is a robust and rapid approach to EGFR T790M testing, allowing most economical utilization of limited material for comprehensive assessment. The same assay can also be performed directly on any limited DNA source and cell-free DNA. Copyright © 2016 American Society for Investigative Pathology and the Association for Molecular Pathology. Published by Elsevier Inc. All rights reserved.

  14. Cochrane Rapid Reviews Methods Group to play a leading role in guiding the production of informed high-quality, timely research evidence syntheses

    Directory of Open Access Journals (Sweden)

    Chantelle Garritty

    2016-10-01

    Full Text Available Abstract Background Policymakers and healthcare stakeholders are increasingly seeking evidence to inform the policymaking process, and often use existing or commissioned systematic reviews to inform decisions. However, the methodologies that make systematic reviews authoritative take time, typically 1 to 2 years to complete. Outside the traditional SR timeline, “rapid reviews” have emerged as an efficient tool to get evidence to decision-makers more quickly. However, the use of rapid reviews does present challenges. To date, there has been limited published empirical information about this approach to compiling evidence. Thus, it remains a poorly understood and ill-defined set of diverse methodologies with various labels. In recent years, the need to further explore rapid review methods, characteristics, and their use has been recognized by a growing network of healthcare researchers, policymakers, and organizations, several with ties to Cochrane, which is recognized as representing an international gold standard for high-quality, systematic reviews. Purpose In this commentary, we introduce the newly established Cochrane Rapid Reviews Methods Group developed to play a leading role in guiding the production of rapid reviews given they are increasingly employed as a research synthesis tool to support timely evidence-informed decision-making. We discuss how the group was formed and outline the group’s structure and remit. We also discuss the need to establish a more robust evidence base for rapid reviews in the published literature, and the importance of promoting registration of rapid review protocols in an effort to promote efficiency and transparency in research. Conclusion As with standard systematic reviews, the core principles of evidence-based synthesis should apply to rapid reviews in order to minimize bias to the extent possible. The Cochrane Rapid Reviews Methods Group will serve to establish a network of rapid review stakeholders

  15. Generational and Time Period Differences in American Adolescents’ Religious Orientation, 1966–2014

    Science.gov (United States)

    Twenge, Jean M.; Exline, Julie J.; Grubbs, Joshua B.; Sastry, Ramya; Campbell, W. Keith

    2015-01-01

    In four large, nationally representative surveys (N = 11.2 million), American adolescents and emerging adults in the 2010s (Millennials) were significantly less religious than previous generations (Boomers, Generation X) at the same age. The data are from the Monitoring the Future studies of 12th graders (1976–2013), 8th and 10th graders (1991–2013), and the American Freshman survey of entering college students (1966–2014). Although the majority of adolescents and emerging adults are still religiously involved, twice as many 12th graders and college students, and 20%–40% more 8th and 10th graders, never attend religious services. Twice as many 12th graders and entering college students in the 2010s (vs. the 1960s–70s) give their religious affiliation as “none,” as do 40%–50% more 8th and 10th graders. Recent birth cohorts report less approval of religious organizations, are less likely to say that religion is important in their lives, report being less spiritual, and spend less time praying or meditating. Thus, declines in religious orientation reach beyond affiliation to religious participation and religiosity, suggesting a movement toward secularism among a growing minority. The declines are larger among girls, Whites, lower-SES individuals, and in the Northeastern U.S., very small among Blacks, and non-existent among political conservatives. Religious affiliation is lower in years with more income inequality, higher median family income, higher materialism, more positive self-views, and lower social support. Overall, these results suggest that the lower religious orientation of Millennials is due to time period or generation, and not to age. PMID:25962174

  16. Generational and time period differences in American adolescents' religious orientation, 1966-2014.

    Science.gov (United States)

    Twenge, Jean M; Exline, Julie J; Grubbs, Joshua B; Sastry, Ramya; Campbell, W Keith

    2015-01-01

    In four large, nationally representative surveys (N = 11.2 million), American adolescents and emerging adults in the 2010s (Millennials) were significantly less religious than previous generations (Boomers, Generation X) at the same age. The data are from the Monitoring the Future studies of 12th graders (1976-2013), 8th and 10th graders (1991-2013), and the American Freshman survey of entering college students (1966-2014). Although the majority of adolescents and emerging adults are still religiously involved, twice as many 12th graders and college students, and 20%-40% more 8th and 10th graders, never attend religious services. Twice as many 12th graders and entering college students in the 2010s (vs. the 1960s-70s) give their religious affiliation as "none," as do 40%-50% more 8th and 10th graders. Recent birth cohorts report less approval of religious organizations, are less likely to say that religion is important in their lives, report being less spiritual, and spend less time praying or meditating. Thus, declines in religious orientation reach beyond affiliation to religious participation and religiosity, suggesting a movement toward secularism among a growing minority. The declines are larger among girls, Whites, lower-SES individuals, and in the Northeastern U.S., very small among Blacks, and non-existent among political conservatives. Religious affiliation is lower in years with more income inequality, higher median family income, higher materialism, more positive self-views, and lower social support. Overall, these results suggest that the lower religious orientation of Millennials is due to time period or generation, and not to age.

  17. Real-time monitoring of superoxide anion radical generation in response to wounding: electrochemical study

    Directory of Open Access Journals (Sweden)

    Ankush Prasad

    2017-07-01

    Full Text Available Background The growth and development of plants is deleteriously affected by various biotic and abiotic stress factors. Wounding in plants is caused by exposure to environmental stress, mechanical stress, and via herbivory. Typically, oxidative burst in response to wounding is associated with the formation of reactive oxygen species, such as the superoxide anion radical (O2•−, hydrogen peroxide (H2O2 and singlet oxygen; however, few experimental studies have provided direct evidence of their detection in plants. Detection of O2•− formation in plant tissues have been performed using various techniques including electron paramagnetic resonance spin-trap spectroscopy, epinephrine-adrenochrome acceptor methods, staining with dyes such as tetrazolium dye and nitro blue tetrazolium (NBT; however, kinetic measurements have not been performed. In the current study, we provide evidence of O2•− generation and its kinetics in the leaves of spinach (Spinacia oleracea subjected to wounding. Methods Real-time monitoring of O2•− generation was performed using catalytic amperometry. Changes in oxidation current for O2•− was monitored using polymeric iron-porphyrin-based modified carbon electrodes (φ = 1 mm as working electrode with Ag/AgCl as the reference electrode. Result The results obtained show continuous generation of O2•− for minutes after wounding, followed by a decline. The exogenous addition of superoxide dismutase, which is known to dismutate O2•− to H2O2, significantly suppressed the oxidation current. Conclusion Catalytic amperometric measurements were performed using polymeric iron-porphyrin based modified carbon electrode. We claim it to be a useful tool and a direct method for real-time monitoring and precise detection of O2•− in biological samples, with the potential for wide application in plant research for specific and sensitive detection of O2•−.

  18. Generational and time period differences in American adolescents' religious orientation, 1966-2014.

    Directory of Open Access Journals (Sweden)

    Jean M Twenge

    Full Text Available In four large, nationally representative surveys (N = 11.2 million, American adolescents and emerging adults in the 2010s (Millennials were significantly less religious than previous generations (Boomers, Generation X at the same age. The data are from the Monitoring the Future studies of 12th graders (1976-2013, 8th and 10th graders (1991-2013, and the American Freshman survey of entering college students (1966-2014. Although the majority of adolescents and emerging adults are still religiously involved, twice as many 12th graders and college students, and 20%-40% more 8th and 10th graders, never attend religious services. Twice as many 12th graders and entering college students in the 2010s (vs. the 1960s-70s give their religious affiliation as "none," as do 40%-50% more 8th and 10th graders. Recent birth cohorts report less approval of religious organizations, are less likely to say that religion is important in their lives, report being less spiritual, and spend less time praying or meditating. Thus, declines in religious orientation reach beyond affiliation to religious participation and religiosity, suggesting a movement toward secularism among a growing minority. The declines are larger among girls, Whites, lower-SES individuals, and in the Northeastern U.S., very small among Blacks, and non-existent among political conservatives. Religious affiliation is lower in years with more income inequality, higher median family income, higher materialism, more positive self-views, and lower social support. Overall, these results suggest that the lower religious orientation of Millennials is due to time period or generation, and not to age.

  19. Wolf (Canis lupus Generation Time and Proportion of Current Breeding Females by Age.

    Directory of Open Access Journals (Sweden)

    L David Mech

    Full Text Available Information is sparse about aspects of female wolf (Canis lupus breeding in the wild, including age of first reproduction, mean age of primiparity, generation time, and proportion of each age that breeds in any given year. We studied these subjects in 86 wolves (113 captures in the Superior National Forest (SNF, Minnesota (MN, during 1972-2013 where wolves were legally protected for most of the period, and in 159 harvested wolves from throughout MN wolf range during 2012-2014. Breeding status of SNF wolves were assessed via nipple measurements, and wolves from throughout MN wolf range, by placental scars. In the SNF, proportions of currently breeding females (those breeding in the year sampled ranged from 19% at age 2 to 80% at age 5, and from throughout wolf range, from 33% at age 2 to 100% at age 7. Excluding pups and yearlings, only 33% to 36% of SNF females and 58% of females from throughout MN wolf range bred in any given year. Generation time for SNF wolves was 4.3 years and for MN wolf range, 4.7 years. These findings will be useful in modeling wolf population dynamics and in wolf genetic and dog-domestication studies.

  20. Wolf (Canis lupus) Generation Time and Proportion of Current Breeding Females by Age.

    Science.gov (United States)

    Mech, L David; Barber-Meyer, Shannon M; Erb, John

    2016-01-01

    Information is sparse about aspects of female wolf (Canis lupus) breeding in the wild, including age of first reproduction, mean age of primiparity, generation time, and proportion of each age that breeds in any given year. We studied these subjects in 86 wolves (113 captures) in the Superior National Forest (SNF), Minnesota (MN), during 1972-2013 where wolves were legally protected for most of the period, and in 159 harvested wolves from throughout MN wolf range during 2012-2014. Breeding status of SNF wolves were assessed via nipple measurements, and wolves from throughout MN wolf range, by placental scars. In the SNF, proportions of currently breeding females (those breeding in the year sampled) ranged from 19% at age 2 to 80% at age 5, and from throughout wolf range, from 33% at age 2 to 100% at age 7. Excluding pups and yearlings, only 33% to 36% of SNF females and 58% of females from throughout MN wolf range bred in any given year. Generation time for SNF wolves was 4.3 years and for MN wolf range, 4.7 years. These findings will be useful in modeling wolf population dynamics and in wolf genetic and dog-domestication studies.

  1. Wolf (Canis lupus) generation time and proportion of current breeding females by age

    Science.gov (United States)

    Mech, L. David; Barber-Meyer, Shannon M.; Erb, John

    2016-01-01

    Information is sparse about aspects of female wolf (Canis lupus) breeding in the wild, including age of first reproduction, mean age of primiparity, generation time, and proportion of each age that breeds in any given year. We studied these subjects in 86 wolves (113 captures) in the Superior National Forest (SNF), Minnesota (MN), during 1972–2013 where wolves were legally protected for most of the period, and in 159 harvested wolves from throughout MN wolf range during 2012–2014. Breeding status of SNF wolves were assessed via nipple measurements, and wolves from throughout MN wolf range, by placental scars. In the SNF, proportions of currently breeding females (those breeding in the year sampled) ranged from 19% at age 2 to 80% at age 5, and from throughout wolf range, from 33% at age 2 to 100% at age 7. Excluding pups and yearlings, only 33% to 36% of SNF females and 58% of females from throughout MN wolf range bred in any given year. Generation time for SNF wolves was 4.3 years and for MN wolf range, 4.7 years. These findings will be useful in modeling wolf population dynamics and in wolf genetic and dog-domestication studies.

  2. Stochastic modeling of oligodendrocyte generation in cell culture: model validation with time-lapse data

    Directory of Open Access Journals (Sweden)

    Noble Mark

    2006-05-01

    Full Text Available Abstract Background The purpose of this paper is two-fold. The first objective is to validate the assumptions behind a stochastic model developed earlier by these authors to describe oligodendrocyte generation in cell culture. The second is to generate time-lapse data that may help biomathematicians to build stochastic models of cell proliferation and differentiation under other experimental scenarios. Results Using time-lapse video recording it is possible to follow the individual evolutions of different cells within each clone. This experimental technique is very laborious and cannot replace model-based quantitative inference from clonal data. However, it is unrivalled in validating the structure of a stochastic model intended to describe cell proliferation and differentiation at the clonal level. In this paper, such data are reported and analyzed for oligodendrocyte precursor cells cultured in vitro. Conclusion The results strongly support the validity of the most basic assumptions underpinning the previously proposed model of oligodendrocyte development in cell culture. However, there are some discrepancies; the most important is that the contribution of progenitor cell death to cell kinetics in this experimental system has been underestimated.

  3. Generation of long-term time series of remote sensing data using ESA's GPOD system

    Science.gov (United States)

    Rubio, M. A.; Colin, O.; Mathot, E.

    2009-04-01

    Several authors have shown that the analysis of time series of remote sensing data is able to characterize the properties of different earth systems. They have used different techniques, ARIMA, Fourier Analysis and others, to estimate cyclical and trend variations from the information stored in the time series. Most systems in earth cycle due to seasonal changes in the flow of energy and/or matter, ecosystems cycle due to seasonal changes in evapotranspiration, day length and temperature. Time series analysis can characterized the period, amplitude and offset of the cycle. Trend analysis, on the other hand, can be used to detect permanent changes in certain systems. Changes in sea surface temperature or the artic ice pack due to climate change would belong to this category. Performing this analysis requires data with a good temporal resolution, usually in the range of days and a good temporal extent, usually in the multiyear timescale. As a result users have to process a big set of satellite images, sometimes in the order of thousands, to extract the information required. This processing consumes a great amount of time and resources due to the big amount of data and computer power involved. To facilitate the generation of long-term time series of remote sensing data the European Space Agency has developed a system able to extract all the information available for a small area from the MEdium Resolution Imaging Spectrometer (MERIS) onboard ENVISAT in an easily accessible format. This service allows the user to specify an area of interest of rectangular or circular shape giving its geographical location and its size, specify the period of time that he is interested in and obtain several files with all the information available from the MERIS sensor for this location. For each MERIS product the information is given in two formats. One is highly portable following the XML standard. Output is also given in Google Earth and Excel formats allowing for a fast and easy

  4. EEG activities during elicited sleep onset REM and NREM periods reflect different mechanisms of dream generation. Electroencephalograms. Rapid eye movement.

    Science.gov (United States)

    Takeuchi, Tomoka; Ogilvie, Robert D; Murphy, Timothy I; Ferrelli, Anthony V

    2003-02-01

    To be the first to compare EEG power spectra during sleep onset REM periods (SOREMP) and sleep onset NREM periods (NREMP) in normal individuals and relate this to dream appearance processes underlying these different types of sleep periods. Eight healthy undergraduates spent 7 consecutive nights in the sleep lab including 4 nights for SOREMP elicitation using the Sleep Interruption Technique. This enabled us to control preceding sleep processes between SOREMP and NREMP. EEG power spectra when participants did and did not report 'dreams' were compared between both types of sleep. Sleep stages, subjective measurements including dream property scores, sleepiness, mood, and tiredness after awakenings were also examined to determine their consistency with EEG findings. Increased alpha EEG activities (11.72-13.67 Hz) observed mainly in the central area were related to the absence of SOREMP dreams and appearance of NREMP dreams. Analyses of sleep stages combining two studies (16 participants) also supported the Fast Fourier Transform findings, showing that when dreams were reported there were decreased amounts of stage 2 and increased stage REM in SOREMP and increased stage W in NREMP. SOREMP dreams were more bizarre than NREMP dreams. Participants felt more tired after SOREMP with dreams than without dreams, while the opposite was observed after NREMP episodes. EEG power spectra patterns reflected different physiological mechanisms underlying generation of SOREMP and NREMP dreams. The same relationships were also reflected by sleep stage analyses as well as subjective measurements including dream properties and tiredness obtained after awakenings. This study not only supports the hypothesized relationships between REM mechanisms and REM dreams as well as arousal processes and NREM dreams, it also provides a new perspective to dream research due to its unique techniques to awaken participants and collect REM dreams during experimentally induced SOREMP.

  5. Rapid Generation of Multiplexed Cell Cocultures Using Acoustic Droplet Ejection Followed by Aqueous Two-Phase Exclusion Patterning

    Science.gov (United States)

    Fang, Yu; Frampton, John P.; Raghavan, Shreya; Sabahi-Kaviani, Rahman; Luker, Gary

    2012-01-01

    The development of tools for patterning cocultures of cells is a fundamental interest among cell biologists and tissue engineers. Although a variety of systems exist for micropatterning cells, the methods used to generate cell micropatterns are often cumbersome and difficult to adapt for tissue engineering purposes. This study combines acoustic droplet ejection and aqueous two-phase system exclusion patterning to introduce a method for patterning cocultures of cells in multiplexed arrays. This new method uses focused acoustic radiation pressure to eject discrete droplets of uniform size from the surface of a dextran solution containing cells. The size of droplets is controlled by adjusting ultrasound parameters, such as pulse, duration, and amplitude. The ejected dextran droplets are captured on a cell culture substrate that is manipulated by a computer-controlled 3D positioning system according to predesigned patterns. Polyethylene glycol solution containing an additional cell type is then added to the culture dish to produce a two-phase system capable of depositing different types of cells around the initial pattern of cells. We demonstrate that our method can produce patterns of islands or lines with two or more cell types. Further, we demonstrate that patterns can be multiplexed for studies involving combinations of multiple cell types. This method offers a tool to transfer cell-containing samples in a contact-free, nozzle-less manner, avoiding sample cross-contamination. It can be used to pattern cell cocultures without complicated fabrication of culture substrates. These capabilities were used to examine the response of cancer cells to the presence of a ligand (CXCL12) secreted from surrounding cocultured cells. PMID:22356298

  6. Time-of-night variations in the story-like organization of dream experience developed during rapid eye movement sleep.

    Science.gov (United States)

    Cipolli, Carlo; Guazzelli, Mario; Bellucci, Claudia; Mazzetti, Michela; Palagini, Laura; Rosenlicht, Nicholas; Feinberg, Irwin

    2015-04-01

    This study aimed to investigate the cycles (2nd/4th) and duration-related (5/10 min) variations in the story-like organization of dream experience elaborated during rapid eye movement (REM) sleep. Dream reports were analysed using story grammar rules. Reports were provided by those subjects (14 of 22) capable of reporting a dream after each of the four awakenings provoked in 2 consecutive nights during REM sleep of the 2nd and 4th cycles, after periods of either 5 or 10 min, counterbalanced across the nights. Two researchers who were blind as to the sleep condition scored the dream reports independently. The values of the indicators of report length (measured as value of total word count) and of story-like organization of dream reports were matched taking time-of-night (2nd and 4th cycles) and REM duration (5 versus 10 min) as factors. Two-way analyses of variance showed that report length increased significantly in 4th-cycle REM sleep and nearly significantly for longer REM duration, whereas the number of dream-stories per report did not vary. The indices of sequential (number of statements describing the event structure developed in the story) and hierarchical (number of episodes per story) organization increased significantly only in dream-stories reported after 10 min of 4th-cycle REM sleep. These findings indicate that the characteristics of structural organization of dream-stories vary along with time of night, and suggest that the elaboration of a long and complex dream-story requires a fairly long time and the availability of a great amount of cognitive resources to maintain its continuity and coherence. © 2014 European Sleep Research Society.

  7. Rapid One-Step Selection Method for Generating Nucleic Acid Aptamers: Development of a DNA Aptamer against alpha-Bungarotoxin

    DEFF Research Database (Denmark)

    Lauridsen, Lasse Holm; Shamaileh, Hadi A.; Edwards, Stacey L.

    2012-01-01

    Background: Nucleic acids based therapeutic approaches have gained significant interest in recent years towards the development of therapeutics against many diseases. Recently, research on aptamers led to the marketing of Macugen (R), an inhibitor of vascular endothelial growth factor (VEGF......) for the treatment of age related macular degeneration (AMD). Aptamer technology may prove useful as a therapeutic alternative against an array of human maladies. Considering the increased interest in aptamer technology globally that rival antibody mediated therapeutic approaches, a simplified selection, possibly...... in one-step, technique is required for developing aptamers in limited time period. Principal Findings: Herein, we present a simple one-step selection of DNA aptamers against alpha-bungarotoxin. A toxin immobilized glass coverslip was subjected to nucleic acid pool binding and extensive washing followed...

  8. How Rapid is Rapid Prototyping? Analysis of ESPADON Programme Results

    Directory of Open Access Journals (Sweden)

    Ian D. Alston

    2003-05-01

    Full Text Available New methodologies, engineering processes, and support environments are beginning to emerge for embedded signal processing systems. The main objectives are to enable defence industry to field state-of-the-art products in less time and with lower costs, including retrofits and upgrades, based predominately on commercial off the shelf (COTS components and the model-year concept. One of the cornerstones of the new methodologies is the concept of rapid prototyping. This is the ability to rapidly and seamlessly move from functional design to the architectural design to the implementation, through automatic code generation tools, onto real-time COTS test beds. In this paper, we try to quantify the term “rapid” and provide results, the metrics, from two independent benchmarks, a radar and sonar beamforming application subset. The metrics show that the rapid prototyping process may be sixteen times faster than a conventional process.

  9. Rapid detection of porcine circovirus type 2 using a TaqMan-based real-time PCR

    Directory of Open Access Journals (Sweden)

    Zhang Chunling

    2010-12-01

    Full Text Available Abstract Porcine circovirus type 2 (PCV2 and the associated disease postweaning multisystemic wasting syndrome (PMWS have caused heavy losses in global agriculture in recent decades. Rapid detection of PCV2 is very important for the effective prophylaxis and treatment of PMWS. To establish a sensitive, specific assay for the detection and quantitation of PCV2, we designed and synthesized specific primers and a probe in the open reading frame 2. The assay had a wide dynamic range with excellent linearity and reliable reproducibility, and detected between 102 and 1010 copies of the genomic DNA per reaction. The coefficient of variation for Ct values varied from 0.59% to 1.05% in the same assay and from 1.9% to 4.2% in 10 different assays. The assay did not cross-react with porcine circovirus type 1, porcine reproductive and respiratory, porcine epidemic diarrhea, transmissible gastroenteritis of pigs and rotavirus. The limits of detection and quantitation were 10 and 100 copies, respectively. Using the established real-time PCR system, 39 of the 40 samples we tested were detected as positive.

  10. Evaluation of a rapid, quantitative real-time PCR method for enumeration of pathogenic Candida cells in water

    Science.gov (United States)

    Brinkman, Nichole E.; Haugland, Richard A.; Wymer, Larry J.; Byappanahalli, Muruleedhara N.; Whitman, Richard L.; Vesper, Stephen J.

    2003-01-01

    Quantitative PCR (QPCR) technology, incorporating fluorigenic 5′ nuclease (TaqMan) chemistry, was utilized for the specific detection and quantification of six pathogenic species of Candida (C. albicans, C. tropicalis, C. krusei, C. parapsilosis, C. glabrata and C. lusitaniae) in water. Known numbers of target cells were added to distilled and tap water samples, filtered, and disrupted directly on the membranes for recovery of DNA for QPCR analysis. The assay's sensitivities were between one and three cells per filter. The accuracy of the cell estimates was between 50 and 200% of their true value (95% confidence level). In similar tests with surface water samples, the presence of PCR inhibitory compounds necessitated further purification and/or dilution of the DNA extracts, with resultant reductions in sensitivity but generally not in quantitative accuracy. Analyses of a series of freshwater samples collected from a recreational beach showed positive correlations between the QPCR results and colony counts of the corresponding target species. Positive correlations were also seen between the cell quantities of the target Candida species detected in these analyses and colony counts of Enterococcus organisms. With a combined sample processing and analysis time of less than 4 h, this method shows great promise as a tool for rapidly assessing potential exposures to waterborne pathogenic Candida species from drinking and recreational waters and may have applications in the detection of fecal pollution.

  11. Europium Nanospheres-Based Time-Resolved Fluorescence for Rapid and Ultrasensitive Determination of Total Aflatoxin in Feed.

    Science.gov (United States)

    Wang, Du; Zhang, Zhaowei; Li, Peiwu; Zhang, Qi; Ding, Xiaoxia; Zhang, Wen

    2015-12-02

    Immunochromatographic (IC) assays are considered suitable diagnostic tools for the determination of mycotoxins. A europium nanospheres-based time-resolved fluorescence immunoassay (Eu-Nano-TRFIA), based on a monoclonal antibody and a portable TRFIA reader, was developed to determine total aflatoxin (including aflatoxins B1, B2, G1, and G2) levels in feed samples. Under optimized conditions, the Eu-Nano-TRFIA method detected total aflatoxin within 12 min. It showed good linearity (R(2) > 0.985), LOD of 0.16 μg/kg, a wide dynamic range of 0.48-30.0 μg/kg, recovery rates of 83.9-113.9%, and coefficients of variation (CVs) of 3.5-8.8%. In the 397 samples from company and livestock farms throughout China, the detection rate was 78.3%, concentrations were 0.50-145.30 μg/kg, the highest total aflatoxin content was found in cottonseed meal, and corn was found to be the most commonly contaminated feed. This method could be a powerful alternative for the rapid and ultrasensitive determination of total aflatoxin in quality control and meet the required Chinese maximum residue limits.

  12. Time synchronization of new-generation BDS satellites using inter-satellite link measurements

    Science.gov (United States)

    Pan, Junyang; Hu, Xiaogong; Zhou, Shanshi; Tang, Chengpan; Guo, Rui; Zhu, Lingfeng; Tang, Guifeng; Hu, Guangming

    2018-01-01

    Autonomous satellite navigation is based on the ability of a Global Navigation Satellite System (GNSS), such as Beidou, to estimate orbits and clock parameters onboard satellites using Inter-Satellite Link (ISL) measurements instead of tracking data from a ground monitoring network. This paper focuses on the time synchronization of new-generation Beidou Navigation Satellite System (BDS) satellites equipped with an ISL payload. Two modes of Ka-band ISL measurements, Time Division Multiple Access (TDMA) mode and the continuous link mode, were used onboard these BDS satellites. Using a mathematical formulation for each measurement mode along with a derivation of the satellite clock offsets, geometric ranges from the dual one-way measurements were introduced. Then, pseudoranges and clock offsets were evaluated for the new-generation BDS satellites. The evaluation shows that the ranging accuracies of TDMA ISL and the continuous link are approximately 4 cm and 1 cm (root mean square, RMS), respectively. Both lead to ISL clock offset residuals of less than 0.3 ns (RMS). For further validation, time synchronization between these satellites to a ground control station keeping the systematic time in BDT was conducted using L-band Two-way Satellite Time Frequency Transfer (TWSTFT). System errors in the ISL measurements were calibrated by comparing the derived clock offsets with the TWSTFT. The standard deviations of the estimated ISL system errors are less than 0.3 ns, and the calibrated ISL clock parameters are consistent with that of the L-band TWSTFT. For the regional BDS network, the addition of ISL measurements for medium orbit (MEO) BDS satellites increased the clock tracking coverage by more than 40% for each orbital revolution. As a result, the clock predicting error for the satellite M1S was improved from 3.59 to 0.86 ns (RMS), and the predicting error of the satellite M2S was improved from 1.94 to 0.57 ns (RMS), which is a significant improvement by a factor of 3-4.

  13. Rapid prototyping of SoC-based real-time vision system: application to image preprocessing and face detection

    Science.gov (United States)

    Jridi, Maher; Alfalou, Ayman

    2017-05-01

    By this paper, the major goal is to investigate the Multi-CPU/FPGA SoC (System on Chip) design flow and to transfer a know-how and skills to rapidly design embedded real-time vision system. Our aim is to show how the use of these devices can be benefit for system level integration since they make possible simultaneous hardware and software development. We take the facial detection and pretreatments as case study since they have a great potential to be used in several applications such as video surveillance, building access control and criminal identification. The designed system use the Xilinx Zedboard platform. The last is the central element of the developed vision system. The video acquisition is performed using either standard webcam connected to the Zedboard via USB interface or several camera IP devices. The visualization of video content and intermediate results are possible with HDMI interface connected to HD display. The treatments embedded in the system are as follow: (i) pre-processing such as edge detection implemented in the ARM and in the reconfigurable logic, (ii) software implementation of motion detection and face detection using either ViolaJones or LBP (Local Binary Pattern), and (iii) application layer to select processing application and to display results in a web page. One uniquely interesting feature of the proposed system is that two functions have been developed to transmit data from and to the VDMA port. With the proposed optimization, the hardware implementation of the Sobel filter takes 27 ms and 76 ms for 640x480, and 720p resolutions, respectively. Hence, with the FPGA implementation, an acceleration of 5 times is obtained which allow the processing of 37 fps and 13 fps for 640x480, and 720p resolutions, respectively.

  14. Rapid assessment of tsunami impact from real-time seismology and geographic, historical other datasets using machine learning

    Science.gov (United States)

    Michelini, Alberto; Lomax, Anthony

    2017-04-01

    The impact of an earthquake, tsunami, volcanic eruption, severe weather or other natural disaster is related to: the intensity of the hazard; the vulnerability or exposure of the population, such as housing quality, infrastructure and proximity to a coastlines; and the capacity to resist and cope with the disaster. Rapid assessment by monitoring agencies of the impact of a natural event is fundamental for early warning and response. We previously* proposed the "tsunami importance" parameter, It, for characterizing the strength of a tsunami. This parameter combines 5 descriptive indices from the NOAA/WDC Historical Tsunami Database: 4 tsunami impact measures (deaths, injuries, damage, houses destroyed), and maximum water height. Accordingly, It = 2 corresponds approximately to the JMA threshold for issuing a ''Tsunami Warning'' whereas the largest or most devastating tsunamis typically have It = 10. Here we discuss extending this simple, 5-component parameter with additional impact-related measures from relevant databases (e.g., LandScan population density, major infrastructures) and historical / archaeological information, and measures that might be obtained in near-real-time (e.g., emergency services, news, social media). We combine these measures with seismological and other real-time observations as an ensemble of features within automated procedures to estimate impact and guide decision making. We examine using modern machine learning methodologies to train and calibrate the procedures, while working with high-dimensional feature space. * Lomax, A. and A. Michelini (2011), Tsunami early warning using earthquake rupture duration and P-wave dominant period: the importance of length and depth of faulting, Geophys. J. Int., 185, 283-291, doi: 10.1111/j.1365-246X.2010.04916.x

  15. Matrix-assisted laser desorption/ionization time-of-flight mass spectrometry for rapid identification of fungal rhinosinusitis pathogens.

    Science.gov (United States)

    Huang, Yanfei; Wang, Jinglin; Zhang, Mingxin; Zhu, Min; Wang, Mei; Sun, Yufeng; Gu, Haitong; Cao, Jingjing; Li, Xue; Zhang, Shaoya; Lu, Xinxin

    2017-03-01

    Filamentous fungi are among the most important pathogens, causing fungal rhinosinusitis (FRS). Current laboratory diagnosis of FRS pathogens mainly relies on phenotypic identification by culture and microscopic examination, which is time consuming and expertise dependent. Although matrix-assisted laser desorption/ionization time-of-flight (MALDI-TOF) MS has been employed to identify various fungi, its efficacy in the identification of FRS fungi is less clear. A total of 153 FRS isolates obtained from patients were analysed at the Clinical Laboratory at the Beijing Tongren Hospital affiliated to the Capital Medical University, between January 2014 and December 2015. They were identified by traditional phenotypic methods and Bruker MALDI-TOF MS (Bruker, Biotyper version 3.1), respectively. Discrepancies between the two methods were further validated by sequencing. Among the 153 isolates, 151 had correct species identification using MALDI-TOF MS (Bruker, Biot 3.1, score ≥2.0 or 2.3). MALDI-TOF MS enabled identification of some very closely related species that were indistinguishable by conventional phenotypic methods, including 1/10 Aspergillus versicolor, 3/20 Aspergillus flavus, 2/30 Aspergillus fumigatus and 1/20 Aspergillus terreus, which were misidentified by conventional phenotypic methods as Aspergillus nidulans, Aspergillus oryzae, Aspergillus japonicus and Aspergillus nidulans, respectively. In addition, 2/2 Rhizopus oryzae and 1/1 Rhizopus stolonifer that were identified only to the genus level by the phenotypic method were correctly identified by MALDI-TOF MS. MALDI-TOF MS is a rapid and accurate technique, and could replace the conventional phenotypic method for routine identification of FRS fungi in clinical microbiology laboratories.

  16. Emergent central pattern generator behavior in chemical coupled two-compartment models with time delay

    Science.gov (United States)

    Li, Shanshan; Zhang, Guoshan; Wang, Jiang; Chen, Yingyuan; Deng, Bin

    2018-02-01

    This paper proposes that modified two-compartment Pinsky-Rinzel (PR) neural model can be used to develop the simple form of central pattern generator (CPG). The CPG is called as 'half-central oscillator', which constructed by two inhibitory chemical coupled PR neurons with time delay. Some key properties of PR neural model related to CPG are studied and proved to meet the requirements of CPG. Using the simple CPG network, we first study the relationship between rhythmical output and key factors, including ambient noise, sensory feedback signals, morphological character of single neuron as well as the coupling delay time. We demonstrate that, appropriate intensity noise can enhance synchronization between two coupled neurons. Different output rhythm of CPG network can be entrained by sensory feedback signals. We also show that the morphology of single neuron has strong effect on the output rhythm. The phase synchronization indexes decrease with the increase of morphology parameter's difference. Through adjusting coupled delay time, we can get absolutely phase synchronization and antiphase state of CPG. Those results of simulation show the feasibility of PR neural model as a valid CPG as well as the emergent behaviors of the particularly CPG.

  17. Generation of Stationary Non-Gaussian Time Histories with a Specified Cross-spectral Density

    Directory of Open Access Journals (Sweden)

    David O. Smallwood

    1997-01-01

    Full Text Available The paper reviews several methods for the generation of stationary realizations of sampled time histories with non-Gaussian distributions and introduces a new method which can be used to control the cross-spectral density matrix and the probability density functions (pdfs of the multiple input problem. Discussed first are two methods for the specialized case of matching the auto (power spectrum, the skewness, and kurtosis using generalized shot noise and using polynomial functions. It is then shown that the skewness and kurtosis can also be controlled by the phase of a complex frequency domain description of the random process. The general case of matching a target probability density function using a zero memory nonlinear (ZMNL function is then covered. Next methods for generating vectors of random variables with a specified covariance matrix for a class of spherically invariant random vectors (SIRV are discussed. Finally the general case of matching the cross-spectral density matrix of a vector of inputs with non-Gaussian marginal distributions is presented.

  18. Rapid identification of Brucella isolates to the species level by real time PCR based single nucleotide polymorphism (SNP analysis

    Directory of Open Access Journals (Sweden)

    Smith Catherine J

    2008-06-01

    Full Text Available Abstract Background Brucellosis, caused by members of the genus Brucella, remains one of the world's major zoonotic diseases. Six species have classically been recognised within the family Brucella largely based on a combination of classical microbiology and host specificity, although more recently additional isolations of novel Brucella have been reported from various marine mammals and voles. Classical identification to species level is based on a biotyping approach that is lengthy, requires extensive and hazardous culturing and can be difficult to interpret. Here we describe a simple and rapid approach to identification of Brucella isolates to the species level based on real-time PCR analysis of species-specific single nucleotide polymorphisms (SNPs that were identified following a robust and extensive phylogenetic analysis of the genus. Results Seven pairs of short sequence Minor Groove Binding (MGB probes were designed corresponding to SNPs shown to possess an allele specific for each of the six classical Brucella spp and the marine mammal Brucella. Assays were optimised to identical reaction parameters in order to give a multiple outcome assay that can differentiate all the classical species and Brucella isolated from marine mammals. The scope of the assay was confirmed by testing of over 300 isolates of Brucella, all of which typed as predicted when compared to other phenotypic and genotypic approaches. The assay is sensitive being capable of detecting and differentiating down to 15 genome equivalents. We further describe the design and testing of assays based on three additional SNPs located within the 16S rRNA gene that ensure positive discrimination of Brucella from close phylogenetic relatives on the same platform. Conclusion The multiple-outcome assay described represents a new tool for the rapid, simple and unambiguous characterisation of Brucella to the species level. Furthermore, being based on a robust phylogenetic framework, the

  19. Multi-Objective Planning of Multi-Type Distributed Generation Considering Timing Characteristics and Environmental Benefits

    Directory of Open Access Journals (Sweden)

    Yajing Gao

    2014-09-01

    Full Text Available This paper presents a novel approach to multi-type distributed generation (DG planning based on the analysis of investment and income brought by grid-connected DG. Firstly, the timing characteristics of loads and DG outputs, as well as the environmental benefits of DG are analyzed. Then, on the basis of the classification of daily load sequences, the typical daily load sequence and the typical daily output sequence of DG per unit capacity can be computed. The proposed planning model takes the location, capacity and types of DG into account as optimization variables. An improved adaptive genetic algorithm is proposed to solve the model. Case studies have been carried out on the IEEE 14-node distribution system to verify the feasibility and effectiveness of the proposed method and model.

  20. Probability Map Viewer: near real-time probability map generator of serial block electron microscopy collections.

    Science.gov (United States)

    Churas, Christopher; Perez, Alex J; Hakozaki, Hiroyuki; Wong, Willy; Lee, David; Peltier, Steven T; Ellisman, Mark H

    2017-10-01

    To expedite the review of semi-automated probability maps of organelles and other features from 3D electron microscopy data we have developed Probability Map Viewer, a Java-based web application that enables the computation and visualization of probability map generation results in near real-time as the data are being collected from the microscope. Probability Map Viewer allows the user to select one or more voxel classifiers, apply them on a sub-region of an active collection, and visualize the results as overlays on the raw data via any web browser using a personal computer or mobile device. Thus, Probability Map Viewer accelerates and informs the image analysis workflow by providing a tool for experimenting with and optimizing dataset-specific segmentation strategies during imaging. https://github.com/crbs/probabilitymapviewer. mellisman@ucsd.edu. Supplementary data are available at Bioinformatics online.

  1. Numerical study of fourth-harmonic generation of a picosecond laser pulse with time predelay

    Energy Technology Data Exchange (ETDEWEB)

    Zhang, T.; Kato, Y.; Daido, H. [Institute of Laser Engineering, Osaka University, Yamada-oka 2-6, Suita, Osaka 565 (Japan)

    1996-06-01

    We describe fourth-harmonic generation of a picosecond laser pulse with KDP crystals. The coupled nonlinear equations for the parametric process including the third-order nonlinear susceptibility have been solved. Applying a time predelay in the doubling crystal between the extraordinary and the ordinary waves of the fundamental pulse causes the group-velocity mismatch and the nonlinear phase shift in the doubling crystal to be compensated for each other, resulting in pulse duration compression at the fourth-harmonic wavelength. It is shown that the reduction from a 1-ps fundamental pulse to a 0.25-ps fourth-harmonic pulse can be achieved at an incident intensity of 50 GW/cm{sup 2}. {copyright} {ital 1996 Optical Society of America.}

  2. Absolute calibration of optical streak cameras on picosecond time scales using supercontinuum generation.

    Science.gov (United States)

    Patankar, S; Gumbrell, E T; Robinson, T S; Floyd, E; Stuart, N H; Moore, A S; Skidmore, J W; Smith, R A

    2017-08-20

    We report a new method using high-stability, laser-driven supercontinuum generation in a liquid cell to calibrate the absolute photon response of fast optical streak cameras as a function of wavelength when operating at fastest sweep speeds. A stable, pulsed white light source based around the use of self-phase modulation in a salt solution was developed to provide the required brightness on picosecond time scales, enabling streak camera calibration in fully dynamic operation. The measured spectral brightness allowed for absolute photon response calibration over a broad spectral range (425-650 nm). Calibrations performed with two Axis Photonique streak cameras using the Photonis P820PSU streak tube demonstrated responses that qualitatively follow the photocathode response. Peak sensitivities were one photon/count above background. The absolute dynamic sensitivity is less than the static by up to an order of magnitude. We attribute this to the dynamic response of the phosphor being lower.

  3. Generative Audio Systems: Musical Applications of Time-Varying Feedback Networks and Computational Aesthetics

    OpenAIRE

    Surges, Gregory

    2015-01-01

    This dissertation is focused on the development of generative audio systems - a term used describe generative music systems that generate both formal structure and synthesized audio content from the same audio-rate computational process. In other words, a system wherein the synthesis and organizational processes are inseparable and operate at the sample level.First, a series of generative software systems are described. These systems each employ a different method to create generativity and, ...

  4. Rapid Analysis of Ingredients in Cream Using Ultrasonic Mist-Direct Analysis in Real-Time Time-of-Flight Mass Spectrometry

    Science.gov (United States)

    Shimada, Haruo; Maeno, Katsuyuki; Kinoshita, Kazumasa; Shida, Yasuo

    2017-07-01

    A novel method for the simultaneous detection of ingredients in pharmaceutical applications such as creams and lotions was developed. An ultrasonic atomizer has been used to produce a mist containing ingredients. The analyte molecules in the mist can be ionized by using direct analysis in real time (DART) at lower temperature than traditionally used, and we thus solved the problem of normal DART-MS measurement using a high-temperature gas. Thereby, molecular-related ions of heat-unstable components and nonvolatile components became detectable. The deprotonated molecular ion of glycyrrhizic acid (m/z 821), which is unstable at high temperatures, was detected without pyrolysis by ultrasonic mist-DART-MS using unheated helium gas, although it was not detected by normal DART-MS using heated helium gas. The cationized molecular ions of derivatives of polyethylene glycol fatty acid monoesters, which are nonvolatile compounds, were also detected as m/z peaks observed from 800 to 2300. Although the protonated molecular ion of tocopherol acetate was not detected in ionization by ultrasonic mist, it was detected by ultrasonic mist-DART-MS even in the emulsion. It was not necessary to dissolve a sample completely to detect its ions. This method enabled us to obtain the composition of pharmaceutical applications simply and rapidly.

  5. Using open data in near real time disaster analysis and knowledge generation

    Science.gov (United States)

    She, Jun

    2017-04-01

    This presentation will address the value of using open operational geo data in near real time disaster analysis and knowledge generation. In the past, mechanism analysis of a meteo-hyrological extreme event may take month and years with lots of resources since there exist many kinds of restrictions on the model and observation data, e.g., in availability, accessibility, adequacy in resolution, quality and delivery time etc. In recent years, thanks to the open data and open service programs such as Copernicus, EMODnet (European Marine Observation Data Network) and data sharing activities in ROOSs (Regional Operational Oceanography Systems) and national agencies, the disaster analysis become a much faster and efficient procedure. The study will present such a case study for analyzing a hundred-year storm event in January 2017 which affects Danish and German coasts in western Baltic Sea. The event and its forecasts have caused lots of attention in Danish and German media. However, the explanations on how the storm surge is formed and why the prediction is good or bad in this or that country are still largely absent in the media reports. All the data and plots used in the analysis are from open sources. It is found that with the open data, the spatiotemporal variation and the internal links between weather, sea level and water mass movements can be well understood. New knowledge on key factors for the unusual high waters in the western Baltic is obtained from this analysis. Finally, recommendations for using open operational data in generating open science are given.

  6. Exploitation of rapid acidification phenomena of food waste in reducing the hydraulic retention time (HRT) of high rate anaerobic digester without conceding on biogas yield.

    Science.gov (United States)

    Kuruti, Kranti; Begum, Sameena; Ahuja, Shruti; Anupoju, Gangagni Rao; Juntupally, Sudharshan; Gandu, Bharath; Ahuja, Devender Kumar

    2017-02-01

    The aim of the present work was to study and infer a full scale experience on co-digestion of 1000kg of FW (400kg cooked food waste and 600kg uncooked food waste) and 2000L of rice gruel (RG) on daily basis based on a high rate biomethanation technology called "Anaerobic gas lift reactor" (AGR). The pH of raw substrate was low (5.2-5.5) that resulted in rapid acidification phenomena with in 12h in the feed preparation tank that facilitated to obtain a lower hydraulic residence time (HRT) of 10days. At full load, AGR was fed with 245kg of total solids, 205kg of volatile solids (167kg of organic matter in terms of chemical oxygen demand) which resulted in the generation of biogas and bio manure of 140m3/day and 110kg/day respectively. The produced biogas replaced 60-70kg of LPG per day. Copyright © 2016 Elsevier Ltd. All rights reserved.

  7. Next generation sequencing provides rapid access to the genome of Puccinia striiformis f. sp. tritici, the causal agent of wheat stripe rust.

    Directory of Open Access Journals (Sweden)

    Dario Cantu

    Full Text Available BACKGROUND: The wheat stripe rust fungus (Puccinia striiformis f. sp. tritici, PST is responsible for significant yield losses in wheat production worldwide. In spite of its economic importance, the PST genomic sequence is not currently available. Fortunately Next Generation Sequencing (NGS has radically improved sequencing speed and efficiency with a great reduction in costs compared to traditional sequencing technologies. We used Illumina sequencing to rapidly access the genomic sequence of the highly virulent PST race 130 (PST-130. METHODOLOGY/PRINCIPAL FINDINGS: We obtained nearly 80 million high quality paired-end reads (>50x coverage that were assembled into 29,178 contigs (64.8 Mb, which provide an estimated coverage of at least 88% of the PST genes and are available through GenBank. Extensive micro-synteny with the Puccinia graminis f. sp. tritici (PGTG genome and high sequence similarity with annotated PGTG genes support the quality of the PST-130 contigs. We characterized the transposable elements present in the PST-130 contigs and using an ab initio gene prediction program we identified and tentatively annotated 22,815 putative coding sequences. We provide examples on the use of comparative approaches to improve gene annotation for both PST and PGTG and to identify candidate effectors. Finally, the assembled contigs provided an inventory of PST repetitive elements, which were annotated and deposited in Repbase. CONCLUSIONS/SIGNIFICANCE: The assembly of the PST-130 genome and the predicted proteins provide useful resources to rapidly identify and clone PST genes and their regulatory regions. Although the automatic gene prediction has limitations, we show that a comparative genomics approach using multiple rust species can greatly improve the quality of gene annotation in these species. The PST-130 sequence will also be useful for comparative studies within PST as more races are sequenced. This study illustrates the power of NGS for

  8. Time and Temperature Dependent Microrheology of Dye-Doped Polymers Using Second Harmonic Generation.

    Science.gov (United States)

    Ghebremichael, Fassil

    The goal of this work is to build an understanding of the microscopic viscoelastic properties of a polymer. We used electric field induced second harmonic (EFISH) measurements of organic molecular probes to study such microrheological properties. Polymers of high optical quality are doped with dye molecules and spin coated into 2-3 mu m thick films. When one of these films is irradiated with laser light at a particular wavelength, in the presence of a static field, second harmonic light (at half the incident wavelength) is generated owing to the dyes' nonlinearities. Note that the host polymer's function is to provide a rigid matrix to hold the guest molecule in place. Such materials are often called molecular materials because the bulk response can be explained directly in terms of a linear sum of the molecular properties. As such, the second harmonic signal is a function of the degree of net orientation of the dye molecules because second harmonic generation is disallowed in bulk centrosymmetric materials. Second harmonic generation is thus a powerful tool in the study of molecular orientation order. The polymer's temperature dependent microscopic environment, elastic strength, and free volume can be determined from second harmonic probed motion of the dye molecules when subjected to external forces such as electric fields. Such studies can be used to help understand the relationship between the microscopic and macroscopic mechanical and optical properties of the dye-polymer system. In this work, the application of a unique electric field temporal profile on the films doped with disperse red 1 (DR1) dye helped us to determine the microscopic elasticities and viscosities and the nature of the distribution of sites of poly(methyl methacrylate), PMMA polymer. With this determination, we were able to better model a dye -polymer system. Our model is shown to be consistent with the experimental results. Our electric field profile has also led to a time

  9. Femtosecond timing distribution and control for next generation accelerators and light sources

    Energy Technology Data Exchange (ETDEWEB)

    Chen, Li -Jin [Idesta Quantum Electronics, LLC, Newton, NJ (United States)

    2014-03-31

    Femtosecond Timing Distribution At LCLS Free-electron-lasers (FEL) have the capability of producing high photon flux from the IR to the hard x-ray wavelength range and to emit femtosecond and eventually even attosecond pulses. This makes them an ideal tool for fundamental as well as applied re-search. Timing precision at the Stanford Linear Coherent Light Source (LCLS) between the x-ray FEL (XFEL) and ultrafast optical lasers is currently no better than 100 fs RMS. Ideally this precision should be much better and could be limited only by the x-ray pulse duration, which can be as short as a few femtoseconds. An increasing variety of science problems involving electron and nuclear dynamics in chemical and material systems will become accessible as the timing improves to a few femtoseconds. Advanced methods of electron beam conditioning or pulse injection could allow the FEL to achieve pulse durations less than one femtosecond. The objective of the work described in this proposal is to set up an optical timing distribution system based on mode locked Erbium doped fiber lasers at LCLS facility to improve the timing precision in the facility and allow time stamping with a 10 fs precision. The primary commercial applications for optical timing distributions systems are seen in the worldwide accelerator facilities and next generation light sources community. It is reasonable to expect that at least three major XFELs will be built in the next decade. In addition there will be up to 10 smaller machines, such as FERMI in Italy and Maxlab in Sweden, plus the market for upgrading already existing facilities like Jefferson Lab. The total market is estimated to be on the order of a 100 Million US Dollars. The company owns the exclusive rights to the IP covering the technology enabling sub-10 fs synchronization systems. Testing this technology, which has set records in a lab environment, at LCLS, hence in a real world scenario, is an important corner stone of bringing the

  10. An approach for generating synthetic fine temporal resolution solar radiation time series from hourly gridded datasets

    Directory of Open Access Journals (Sweden)

    Matthew Perry

    2017-06-01

    Full Text Available A tool has been developed to statistically increase the temporal resolution of solar irradiance time series. Fine temporal resolution time series are an important input into the planning process for solar power plants, and lead to increased understanding of the likely short-term variability of solar energy. The approach makes use of the spatial variability of hourly gridded datasets around a location of interest to make inferences about the temporal variability within the hour. The unique characteristics of solar irradiance data are modelled by classifying each hour into a typical weather situation. Low variability situations are modelled using an autoregressive process which is applied to ramps of clear-sky index. High variability situations are modelled as a transition between states of clear sky conditions and different levels of cloud opacity. The methods have been calibrated to Australian conditions using 1 min data from four ground stations for a 10 year period. These stations, together with an independent dataset, have also been used to verify the quality of the results using a number of relevant metrics. The results show that the method generates realistic fine resolution synthetic time series. The synthetic time series correlate well with observed data on monthly and annual timescales as they are constrained to the nearest grid-point value on each hour. The probability distributions of the synthetic and observed global irradiance data are similar, with Kolmogorov-Smirnov test statistic less than 0.04 at each station. The tool could be useful for the estimation of solar power output for integration studies.

  11. [Evaluation of the efficacies of rapid antigen test, multiplex PCR, and real-time PCR for the detection of a novel influenza A (H1N1) virus].

    Science.gov (United States)

    Hwang, Yusun; Kim, Kyounghee; Lee, Miae

    2010-04-01

    In April 2009, a novel influenza A (H1N1) virus was detected in the US, and at the time of conducting this study, H1N1 infection had reached pandemic proportions. In Korea, rapid antigen tests and PCR assays have been developed to detect the H1N1 virus. We evaluated the efficacies of rapid antigen test, multiplex PCR, and real-time PCR for detecting the H1N1 virus. From August to September 2009, we tested 734 samples obtained from nasopharyngeal swab or nasal swab using rapid antigen test (SD Influenza Antigen, Standard Diagnostics, Inc., Korea) and multiplex PCR (Seeplex FluA ACE Subtyping, Seegene, Korea). We also tested 224 samples using the AdvanSure real-time PCR (LG Life Sciences, Korea) to compare the results obtained using real-time PCR with those obtained using multiplex PCR. Furthermore, 99 samples were tested using the AdvanSure real-time PCR and the AccuPower real-time PCR (Bioneer, Korea). In comparison with the results of multiplex PCR, the sensitivity and specificity of the rapid antigen test were 48.0% and 99.8%, respectively. The concordance rate for multiplex PCR and the AdvanSure real-time PCR was 99.6% (kappa=0.991, P=0.000), and that for the AdvanSure real-time PCR and the AccuPower real-time PCR was 97.0% (kappa=0.936, P=0.000). The rapid antigen test is significantly less sensitive than PCR assay; therefore, it is not useful for H1N1 detection; however multiplex PCR, the AdvanSure real-time PCR, and the Accu-Power real-time PCR can be useful for H1N1 detection.

  12. Field measurement of erosion rates: time-lapse monitoring of rapid stone flaking at Howden Minster, UK

    Science.gov (United States)

    Doehne, E.; Pinchin, S.

    2012-04-01

    The use of a solar-powered, field time-lapse camera and environmental monitoring system enabled measurements of the pattern and rate of loss of stone from the surface of Howden Minster, an abandoned monastery in Yorkshire dating to 1380 AD. Acquiring a photograph every 1-3 hours allowed the stone damage to be correlated with local environmental conditions. Image comparison techniques borrowed from observational astronomy, such as blink comparison, were used to determine what elements had changed from image to image. Results indicate that loss is episodic rather than continuous and in several cases is related to specific environmental conditions, such as condensation/dew formation or high winds. Damage was found also to be synchronous, with surface change (flaking, granular disintegration, and loss of flakes) occurring at the same time on different stone blocks. Crystallization pressure from magnesium sulfate phase transitions appear to be the main cause of the loss of stone surfaces. Significant variation in surface loss rates was observed and appears to be related to variations in salt concentration. An examination of stone texture by ESEM/EDS revealed signification variations and suggests that salt concentrations are controlled in part by stone micromorphology. Quantitative data on rates of surface loss are not available from most monuments. Time-lapse methods permit the relatively inexpensive acquisition of this type of data, which is needed to aid conservation decision-making and the evaluation of interventions. Such tools should also prove useful to geomorphologists studying honeycomb weathering, the moving rocks on Death Valley's Racetrack Playa, and other phenomena that are otherwise difficult to study. Context: The rapid deterioration of magnesian limestone structures in the north of England has been a serious problem for more than one hundred years. While air quality in England has improved during this period, the rate of stone loss in these carved stone

  13. Self-motion perception: assessment by real-time computer-generated animations

    Science.gov (United States)

    Parker, D. E.; Phillips, J. O.

    2001-01-01

    We report a new procedure for assessing complex self-motion perception. In three experiments, subjects manipulated a 6 degree-of-freedom magnetic-field tracker which controlled the motion of a virtual avatar so that its motion corresponded to the subjects' perceived self-motion. The real-time animation created by this procedure was stored using a virtual video recorder for subsequent analysis. Combined real and illusory self-motion and vestibulo-ocular reflex eye movements were evoked by cross-coupled angular accelerations produced by roll and pitch head movements during passive yaw rotation in a chair. Contrary to previous reports, illusory self-motion did not correspond to expectations based on semicircular canal stimulation. Illusory pitch head-motion directions were as predicted for only 37% of trials; whereas, slow-phase eye movements were in the predicted direction for 98% of the trials. The real-time computer-generated animations procedure permits use of naive, untrained subjects who lack a vocabulary for reporting motion perception and is applicable to basic self-motion perception studies, evaluation of motion simulators, assessment of balance disorders and so on.

  14. An accurate and rapid continuous wavelet dynamic time warping algorithm for unbalanced global mapping in nanopore sequencing

    KAUST Repository

    Han, Renmin

    2017-12-24

    Long-reads, point-of-care, and PCR-free are the promises brought by nanopore sequencing. Among various steps in nanopore data analysis, the global mapping between the raw electrical current signal sequence and the expected signal sequence from the pore model serves as the key building block to base calling, reads mapping, variant identification, and methylation detection. However, the ultra-long reads of nanopore sequencing and an order of magnitude difference in the sampling speeds of the two sequences make the classical dynamic time warping (DTW) and its variants infeasible to solve the problem. Here, we propose a novel multi-level DTW algorithm, cwDTW, based on continuous wavelet transforms with different scales of the two signal sequences. Our algorithm starts from low-resolution wavelet transforms of the two sequences, such that the transformed sequences are short and have similar sampling rates. Then the peaks and nadirs of the transformed sequences are extracted to form feature sequences with similar lengths, which can be easily mapped by the original DTW. Our algorithm then recursively projects the warping path from a lower-resolution level to a higher-resolution one by building a context-dependent boundary and enabling a constrained search for the warping path in the latter. Comprehensive experiments on two real nanopore datasets on human and on Pandoraea pnomenusa, as well as two benchmark datasets from previous studies, demonstrate the efficiency and effectiveness of the proposed algorithm. In particular, cwDTW can almost always generate warping paths that are very close to the original DTW, which are remarkably more accurate than the state-of-the-art methods including FastDTW and PrunedDTW. Meanwhile, on the real nanopore datasets, cwDTW is about 440 times faster than FastDTW and 3000 times faster than the original DTW. Our program is available at https://github.com/realbigws/cwDTW.

  15. Interlaboratory validation of a real-time PCR 24-hour rapid method for detection of Salmonella in foods.

    Science.gov (United States)

    Cheng, Chorng-Ming; Van Khanh, T; Lin, Wen; Ruby, Richard M

    2009-05-01

    The efficacy of a 24-h Salmonella real-time, or quantitative, PCR (qPCR) detection method was assessed through a collaborative effort involving eight Federal and state laboratories. Eleven foods including mashed potatoes, soft cheese, chili powder, chocolate, eggs, sprouts, apple juice, fish, shrimp, ground beef, and ground chicken were tested. For each food, seven blind samples were distributed to each participant for testing. These included six samples equivalently inoculated with 1 to 5 CFU/25 g of various serotypes of Salmonella (Gaminara, Weltevreden, Heidelberg, Senftenberg, Enteritidis, Newport, Typhimurium, and Kentucky for each food) and 10 to 50 CFU/25 g of the competitor Enterobacter cloacae. The seventh sample was inoculated with 10 to 50 CFU/25 g of the competitor, E. cloacae, only. These samples were tested for Salmonella by using four methods in parallel: (i) 24-h qPCR method detecting Salmonella from modified buffered peptone water enrichment medium; (ii) 48-h qPCR method detecting Salmonella from a secondary selective enrichment broth; (iii) modified Bacteriological Analytical Manual method; and (iv) VIDAS, an immunoassay system. The results of the statistical analysis showed there was no significant (P > or = 0.05) difference between either of the qPCR methods and the modified Bacteriological Analytical Manual method for 10 of 11 foods. For the one exception, sprouts, detection by qPCR required 48 h. Both qPCR methods showed a detection limit of 0.08 to 0.2 CFU/g. These results provide a solid basis for using this 24-h qPCR rapid screening method to detect Salmonella in foods.

  16. High-order time-stepping for nonlinear PDEs through rapid estimation of block Gaussian quadrature nodes

    Science.gov (United States)

    Lambers, James V.

    2016-06-01

    The stiffness of systems of ODEs that arise from spatial discretization of PDEs causes difficulties for both explicit and implicit time-stepping methods. Krylov Subspace Spectral (KSS) methods present a balance between the efficiency of explicit methods and the stability of implicit methods by computing each Fourier coefficient from an individualized approximation of the solution operator of the PDE. While KSS methods are explicit methods that exhibit a high order of accuracy and stability similar to that of implicit methods, their efficiency needs to be improved. Here, a detailed asymptotic study is performed in order to rapidly estimate all nodes, thus drastically reducing computational expense without sacrificing accuracy. Extension to PDEs on a disk, through expansions built on Legendre polynomials, is also discussed. Exponential propagation iterative (EPI) methods provide an efficient approach to the solution of large stiff nonlinear systems of ODE, compared to standard integrators. However, the bulk of the computational effort in these methods is due to products of matrix functions and vectors, which can become very costly at high resolution due to an increase in the number of Krylov projection steps needed to maintain accuracy. In this talk, it is proposed to modify EPI methods by using KSS methods, instead of standard Krylov projection methods, to compute products of matrix functions and vectors. Numerical experiments demonstrate that this modification causes the number of Krylov projection steps to become bounded independently of the grid size, thus dramatically improving efficiency and scalability. It is also demonstrated that the convergence of Krylov projection can be significantly accelerated, without noticeable loss of accuracy, through filtering techniques, thus improving performance and scalability even further.

  17. Evaluation of a rapid and completely automated real-time reverse transcriptase PCR assay for diagnosis of enteroviral meningitis.

    Science.gov (United States)

    Nolte, Frederick S; Rogers, Beverly B; Tang, Yi-Wei; Oberste, M Steven; Robinson, Christine C; Kehl, K Sue; Rand, Kenneth A; Rotbart, Harley A; Romero, Jose R; Nyquist, Ann-Christine; Persing, David H

    2011-02-01

    Nucleic acid amplification tests (NAATs) for enterovirus RNA in cerebrospinal fluid (CSF) have emerged as the new gold standard for diagnosis of enteroviral meningitis, and their use can improve the management and decrease the costs for caring for children with enteroviral meningitis. The Xpert EV assay (Cepheid, Sunnyvale, CA) is a rapid, fully automated real-time PCR test for the detection of enterovirus RNA that was approved by the U.S. Food and Drug Administration for in vitro diagnostic use in March 2007. In this multicenter trial we established the clinical performance characteristics of the Xpert EV assay in patients presenting with meningitis symptoms relative to clinical truth. Clinical truth for enteroviral meningitis was defined as clinical evidence of meningitis, the absence of another detectable pathogen in CSF, and detection of enterovirus in CSF either by two reference NAATs or by viral culture. A total of 199 prospectively and 235 retrospectively collected specimens were eligible for inclusion in this study. The overall prevalence of enteroviral meningitis was 26.04%. The Xpert EV assay had a sensitivity of 94.69% (90% confidence interval [CI] = 89.79 to 97.66%), specificity of 100% (90% CI = 99.07 to 100%), positive predictive value of 100%, negative predictive value of 98.17, and an accuracy of 98.62% relative to clinical truth. The Xpert EV assay demonstrated a high degree of accuracy for diagnosis of enteroviral meningitis. The simplicity and on-demand capability of the Xpert EV assay should prove to be a valuable adjunct to the evaluation of suspected meningitis cases.

  18. Evaluation of a Rapid and Completely Automated Real-Time Reverse Transcriptase PCR Assay for Diagnosis of Enteroviral Meningitis▿

    Science.gov (United States)

    Nolte, Frederick S.; Rogers, Beverly B.; Tang, Yi-Wei; Oberste, M. Steven; Robinson, Christine C.; Kehl, K. Sue; Rand, Kenneth A.; Rotbart, Harley A.; Romero, Jose R.; Nyquist, Ann-Christine; Persing, David H.

    2011-01-01

    Nucleic acid amplification tests (NAATs) for enterovirus RNA in cerebrospinal fluid (CSF) have emerged as the new gold standard for diagnosis of enteroviral meningitis, and their use can improve the management and decrease the costs for caring for children with enteroviral meningitis. The Xpert EV assay (Cepheid, Sunnyvale, CA) is a rapid, fully automated real-time PCR test for the detection of enterovirus RNA that was approved by the U.S. Food and Drug Administration for in vitro diagnostic use in March 2007. In this multicenter trial we established the clinical performance characteristics of the Xpert EV assay in patients presenting with meningitis symptoms relative to clinical truth. Clinical truth for enteroviral meningitis was defined as clinical evidence of meningitis, the absence of another detectable pathogen in CSF, and detection of enterovirus in CSF either by two reference NAATs or by viral culture. A total of 199 prospectively and 235 retrospectively collected specimens were eligible for inclusion in this study. The overall prevalence of enteroviral meningitis was 26.04%. The Xpert EV assay had a sensitivity of 94.69% (90% confidence interval [CI] = 89.79 to 97.66%), specificity of 100% (90% CI = 99.07 to 100%), positive predictive value of 100%, negative predictive value of 98.17, and an accuracy of 98.62% relative to clinical truth. The Xpert EV assay demonstrated a high degree of accuracy for diagnosis of enteroviral meningitis. The simplicity and on-demand capability of the Xpert EV assay should prove to be a valuable adjunct to the evaluation of suspected meningitis cases. PMID:21159942

  19. Real-Time Investigation of Chemical Compositions and Hygroscopic Properties of Aerosols Generated from NaCl and Malonic Acid Mixture Solutions Using in Situ Raman Microspectrometry.

    Science.gov (United States)

    Li, Xue; Gupta, Dhrubajyoti; Lee, Jisoo; Park, Geonhee; Ro, Chul-Un

    2017-01-03

    Recently, ambient sea spray aerosols (SSAs) have been reported to undergo reactions with dicarboxylic acids (DCAs). Several studies have examined the hygroscopic behavior and chemical reactivity of aerosols generated from NaCl-DCA mixture solutions, but the results have varied, especially for the NaCl-malonic acid (NaCl-MA) mixture system. In this work, in situ Raman microspectrometry (RMS) was used to simultaneously monitor the change in chemical composition, size, and phase as a function of the relative humidity, for individual aerosols generated from NaCl-MA solutions, during two hygroscopic measurement cycles, which were performed first through the dehydration process, followed by a humidification process, in each cycle. In situ RMS analysis for the aerosols showed that the chemical reaction between NaCl and MA occurred rapidly in the time scale of 1 h and considerably in the aqueous phase, mostly during the first dehydration process, and the chemical reaction occurs more rapidly when MA is more enriched in the aerosols. For example, the reaction between NaCl and MA for aerosols generated from solutions of NaCl:MA = 2:1 and 1:2 occurred by 81% and 100% at RH = 42% and 45%, respectively, during the first dehydration process. The aerosols generated from the solution of NaCl:MA = 2:1 revealed single efflorescence and deliquescence transitions repeatedly during two hygroscopic cycles. The aerosols from NaCl:MA = 1:1 and 1:2 solutions showed just an efflorescence transition during the first dehydration process and no efflorescence and deliquescence transition during the hygroscopic cycles, respectively. The observed different hygroscopic behavior was due to the different contents of NaCl, MA, and monosodium malonate in the aerosols, which were monitored real-time by in situ RMS.

  20. Pentamerization of single-domain antibodies from phage libraries: a novel strategy for the rapid generation of high-avidity antibody reagents.

    Science.gov (United States)

    Zhang, Jianbing; Tanha, Jamshid; Hirama, Tomoko; Khieu, Nam Huan; To, Rebecca; Tong-Sevinc, Hong; Stone, Emily; Brisson, Jean Robert; MacKenzie, C Roger

    2004-01-02

    We describe a novel type of molecule in which single-domain antibodies (sdAbs) isolated from a nai;ve llama single domain antibody library are linked to an oligomerization domain to generate high-avidity, antigen-binding reagents. An sdAb is fused to the B-subunit of Escherichia coli verotoxin, or shiga-like toxin, which self-assembles to form a homopentamer and results in simultaneous sdAb pentamerization and introduction of avidity. Molecular modeling indicated that this fusion protein (PDB: 1OJF), termed pentabody, has structural flexibility for binding to surface-presented antigen. In the instance of an sdAb specific for a peptide antigen, pentamerization resulted in a dramatic increase in functional affinity for immobilized antigen. The pentabody was expressed in high yield in E.coli in a non-aggregated state, and exhibited excellent thermostability and protease resistance. This technology provides a relatively rapid means of generating novel antigen-binding molecules that bind strongly to immobilized antigen. It is expected that pentavalent sdAbs will have general applicability in proteomics, immunochemical staining, cancer diagnosis and other applications in which antigens are presented multivalently.

  1. α6 Integrin (α6high/Transferrin Receptor (CD71low Keratinocyte Stem Cells Are More Potent for Generating Reconstructed Skin Epidermis Than Rapid Adherent Cells

    Directory of Open Access Journals (Sweden)

    Elodie Metral

    2017-01-01

    Full Text Available The epidermis basal layer is composed of two keratinocyte populations: Keratinocyte Stem cells (KSC and Transitory Amplifying (TA cells that arise from KSC division. Unfortunately, no specific marker exists to differ between KSC and TA cells. Here, we aimed at comparing two different methods that pretended to isolate these two populations: (i the rapid adhesion method on coated substrate and (ii the flow cytometry method, which is based on the difference in cell surface expressions of the α6 integrin and transferrin receptor (CD71. Then, we compared different parameters that are known to discriminate KSC and TA populations. Interestingly, we showed that both methods allow enrichment in stem cells. However, cell sorting by flow cytometry (α6high/CD71low phenotype leads to a better enrichment of KSC since the colony forming efficiency is five times increased versus total cell suspension, whereas it is only 1.4 times for the adhesion method. Moreover, α6high/CD71low cells give rise to a thicker pluristratified epithelium with lower seeding density and display a low Ki67 positive cells number, showing that they have reached the balance between proliferation and differentiation. We clearly demonstrated that cells isolated by a rapid adherent method are not the same population as KSC isolated by flow cytometry following α6high/CD71low phenotype.

  2. Using real-time polymerase chain reaction as an alternative rapid method for enumeration of colony count in live Brucella vaccines

    Directory of Open Access Journals (Sweden)

    Waleed S. Shell

    2017-06-01

    Full Text Available Aim: Brucellosis is a major bacterial zoonosis of global importance affecting a range of animal species and man worldwide. It has economic, public health, and bio-risk importance. Control and prevention of animal brucellosis mainly depend on accurate diagnostic tools and implementation of effective and safe animal vaccination program. There are three types of animal Brucella live vaccines - Brucella melitensis Rev-1 vaccine, Brucella abortus S19, and B. abortus RB51. Evaluation of these vaccines depends mainly on enumeration of Brucella viable count. At present, used colony count method is time consuming, costly and requires especial skills. Hence, the aim of this study is to use and standardize real-time polymerase chain reaction (RT-PCR as an alternative, quantitative, sensitive, and rapid method to detect the colony count of Brucella in live Brucella vaccine. Materials and Methods: Four batches of different live Brucella vaccines were evaluated using of conventional bacterial count and RT-quantitative PCR (RT-qPCR using BSCP31 gene specific primers and probe. Standard curve was generated from DNA template extracted from 10-fold serial dilution of living B. abortus RB51 vaccine to evaluate the sensitivity of RT-qPCR. Results: Results revealed that three batches of living Brucella vaccines were acceptable for Brucella colony count when traditional bacterial enumeration method was used. Results of RT-qPCR were identical to that of conventional bacterial count. Conclusion: Results concluded that RT-qPCR was relatively sensitive compared to traditional bacterial colony count of these vaccines.

  3. Conditional Inducible Triple-Transgenic Mouse Model for Rapid Real-Time Detection of HCV NS3/4A Protease Activity

    Science.gov (United States)

    Yang, Jing; Zhao, Haiwei; Qiao, Qinghua; Han, Peijun; Xu, Zhikai; Yin, Wen

    2016-01-01

    Hepatitis C virus (HCV) frequently establishes persistent infections that can develop into severe liver disease. The HCV NS3/4A serine protease is not only essential for viral replication but also cleaves multiple cellular targets that block downstream interferon activation. Therefore, NS3/4A is an ideal target for the development of anti-HCV drugs and inhibitors. In the current study, we generated a novel NS3/4A/Lap/LC-1 triple-transgenic mouse model that can be used to evaluate and screen NS3/4A protease inhibitors. The NS3/4A protease could be conditionally inducibly expressed in the livers of the triple-transgenic mice using a dual Tet-On and Cre/loxP system. In this system, doxycycline (Dox) induction resulted in the secretion of Gaussia luciferase (Gluc) into the blood, and this secretion was dependent on NS3/4A protease-mediated cleavage at the 4B5A junction. Accordingly, NS3/4A protease activity could be quickly assessed in real time simply by monitoring Gluc activity in plasma. The results from such monitoring showed a 70-fold increase in Gluc activity levels in plasma samples collected from the triple-transgenic mice after Dox induction. Additionally, this enhanced plasma Gluc activity was well correlated with the induction of NS3/4A protease expression in the liver. Following oral administration of the commercial NS3/4A-specific inhibitors telaprevir and boceprevir, plasma Gluc activity was reduced by 50% and 65%, respectively. Overall, our novel transgenic mouse model offers a rapid real-time method to evaluate and screen potential NS3/4A protease inhibitors. PMID:26943641

  4. Pulse generator using transistors and silicon controlled rectifiers produces high current pulses with fast rise and fall times

    Science.gov (United States)

    Woolfson, M. G.

    1966-01-01

    Electrical pulse generator uses power transistors and silicon controlled rectifiers for producing a high current pulse having fast rise and fall times. At quiescent conditions, the standby power consumption of the circuit is equal to zero.

  5. Space-time scenarios of wind power generation produced using a Gaussian copula with parametrized precision matrix

    Energy Technology Data Exchange (ETDEWEB)

    Tastu, J.; Pinson, P.; Madsen, Henrik

    2013-09-01

    The emphasis in this work is placed on generating space-time trajectories (also referred to as scenarios) of wind power generation. This calls for prediction of multivariate densities describing wind power generation at a number of distributed locations and for a number of successive lead times. A modelling approach taking advantage of sparsity of precision matrices is introduced for the description of the underlying space-time dependence structure. The proposed parametrization of the dependence structure accounts for such important process characteristics as non-constant conditional precisions and direction-dependent cross-correlations. Accounting for the space-time effects is shown to be crucial for generating high quality scenarios. (Author)

  6. The inflammatory molecules IL-1β and HMGB1 can rapidly enhance focal seizure generation in a brain slice model of temporal lobe epilepsy

    Directory of Open Access Journals (Sweden)

    Angela eChiavegato

    2014-06-01

    Full Text Available Epilepsy is a neurological disorder characterized by a hyperexcitable brain tissue and unpredictable seizures, i.e., aberrant firing discharges in large neuronal populations. It is well established that proinflammatory cytokines, in addition to their canonical involvement in the immune response, have a crucial role in the mechanism of seizure generation. The purpose of the present study was to investigate the role of interleukin-1β (IL-1β and high mobility group B1 (HMGB1 in the generation of seizure-like discharges using two models of focal epilepsy in a rat entorhinal cortex slice preparation. Seizure like-discharges were evoked by either slice perfusion with low Mg2+ and picrotoxin or with a double NMDA local stimulation in the presence of the proconvulsant 4-amino-pyridine. The effects of IL-1β or HMGB1 were evaluated by monitoring seizure discharge generation through laser scanning microscope imaging of Ca2+ signals from neurons and astrocytes. In the picrotoxin model, we revealed that both cytokines increased the mean frequency of spontaneous ictal-like discharges, whereas only IL-1β reduced the latency and prolonged the duration of the first ictal-like event. In the second model, a single NMDA pulse, per se ineffective, became successful when it was performed after IL-β or HMGB1 local applications. These findings demonstrate that both IL-1β and HMGB1 can rapidly lower focal ictal event threshold and strengthen the possibility that targeting these inflammatory pathways may represent an effective therapeutic strategy to prevent seizures.

  7. REAL TIME, ON-LINE CHARACTERIZATION OF DIESEL GENERATOR AIR TOXIC EMISSIONS BY RESONANCE ENHANCED MULTI-PHOTON IONIZATION TIME OF FLIGHT MASS SPECTROMETRY

    Science.gov (United States)

    The laser based resonance, enhanced multi-photon ionization time-of-flight mass spectrometry (REMPI-TOFMS) technique has been applied to the exhaust gas stream of a diesel generator to measure, in real time, concentration levels of aromatic air toxics. Volatile organic compounds ...

  8. Time-to-First Discontinuation, Adherence and Persistence in New Users of Second-Generation Antipsychotics.

    Science.gov (United States)

    Ndukwe, Henry C; Nishtala, Prasad S

    2016-12-01

    Consensus guidelines which are applicable in New Zealand and worldwide recommend that the duration of exposure to antipsychotics not exceed 12 weeks, unless justified for mental illnesses like schizophrenia and severe psychotic symptoms which require longer treatment. There has been limited information on time-to-first discontinuation (TTFD) for second-generation antipsychotics (SGAs) in a real world population setting in older people. The study objective was to compare TTFD, adherence, and persistence for individual SGA new users among people 65 years and older. A cohort of 30,297 SGA new users was followed up for antipsychotic discontinuation from January 1, 2006, to December 31, 2012. Data for oral formulations were extracted using health care databases from the New Zealand Ministry of Health. The TTFD, adherence, and persistence were defined using (dispensing gap ≥ 91 days, variable medication possession ratio ≥ 0.8, and gap duration new users was 192.3 days (95% confidence interval [CI], 177.6-206.9), mean age at dispensing was 80.9 years (SD, 8.1 years), and 60.3% were women. The TTFD for was shortest for risperidone, 101.3 days (95% CI, 85.0-117.7; P = 0.03) compared with clozapine, 68.3 days (95% CI: 43.7, 92.9). The adjusted all-cause TTFD risk for risperidone, olanzapine, quetiapine, or ziprasidone (hazard ratios, 0.54, 0.29, 0.22, and 0.08, respectively) was significantly lower than clozapine. The TTFD risk in the nonadherent compared with the adherent group was more than 3 times.

  9. A Spatio-Temporal Data Fusion Model for Generating NDVI Time Series in Heterogeneous Regions

    Directory of Open Access Journals (Sweden)

    Chunhua Liao

    2017-11-01

    Full Text Available Time series vegetation indices with high spatial resolution and high temporal frequency are important for crop growth monitoring and management. However, due to technical constraints and cloud contamination, it is difficult to obtain such datasets. In this study, a spatio-temporal vegetation index image fusion model (STVIFM was developed to generate high spatial resolution Normalized Difference Vegetation Index (NDVI time-series images with higher accuracy, since most of the existing methods have some limitations in accurately predicting NDVI in heterogeneous regions, or rely on very computationally intensive steps and land cover maps for heterogeneous regions. The STVIFM aims to predict the fine-resolution NDVI through understanding the contribution of each fine-resolution pixel to the total NDVI change, which was calculated from the coarse-resolution images acquired on two dates. On the one hand, it considers the difference in relationships between the fine- and coarse-resolution images on different dates and the difference in NDVI change rates at different growing stages. On the other hand, it neither needs to search similar pixels nor needs to use land cover maps. The Landsat-8 and MODIS data acquired over three test sites with different landscapes were used to test the spatial and temporal performance of the proposed model. Compared with the spatial and temporal adaptive reflectance fusion model (STARFM, enhanced spatial and temporal adaptive reflectance fusion model (ESTARFM and the flexible spatiotemporal data fusion (FSDAF method, the proposed STVIFM outperforms the STARFM and ESTARFM at three study sites and different stages when the land cover or NDVI changes were captured by the two pairs of fine- and coarse-resolution images, and it is more robust and less computationally intensive than the FSDAF.

  10. Real-time biomimetic Central Pattern Generators into FPGA for hybrid experiments

    Directory of Open Access Journals (Sweden)

    Matthieu eAmbroise

    2013-11-01

    Full Text Available This article investigates the neural network system in the leech heartbeat and develops a real-time biomimetic digital hardware using few-resource implementation for hybrid experiments. The leech heartbeat neural network is one of the most simple central pattern generators (CPG. In biology, CPG provide for rhythmic bursts of spikes and is the basis for all muscles contractions orders (heartbeat and locomotion (walking, running….. The leech neural network system was already investigated and this CPG has been already formalized with Hodgkin-Huxley neural model (HH that is the most complex neuron model. However, the resources needed for a neural model is proportional to its complexity. To answer to this issue, this article describes a biomimetic implementation into FPGA (Field Programmable Gate Array of a network of 240 CPGs using a simple model (Izhikevich model and by proposing a new synapse model: activity dependent depression synapse. The architecture of the network implementation allows working on a single computation core. This digital system works in real-time, needs few resources and has the same bursting activity behavior than complex model. To validate our implementation of this CPG, we compare it firstly with a simulation of the complex model. Then we match its activity with the pharmacological data of the activity of the rat’s spinal cord. This digital system allows future hybrid experiments and will be a great step towards hybridation between biological tissue and artificial neural network. This network of CPG could be also useful for mimic the activity of a different animal locomotion or developing hybrid experiments for neuroprosthesis development.

  11. Real-time biomimetic Central Pattern Generators in an FPGA for hybrid experiments.

    Science.gov (United States)

    Ambroise, Matthieu; Levi, Timothée; Joucla, Sébastien; Yvert, Blaise; Saïghi, Sylvain

    2013-01-01

    This investigation of the leech heartbeat neural network system led to the development of a low resources, real-time, biomimetic digital hardware for use in hybrid experiments. The leech heartbeat neural network is one of the simplest central pattern generators (CPG). In biology, CPG provide the rhythmic bursts of spikes that form the basis for all muscle contraction orders (heartbeat) and locomotion (walking, running, etc.). The leech neural network system was previously investigated and this CPG formalized in the Hodgkin-Huxley neural model (HH), the most complex devised to date. However, the resources required for a neural model are proportional to its complexity. In response to this issue, this article describes a biomimetic implementation of a network of 240 CPGs in an FPGA (Field Programmable Gate Array), using a simple model (Izhikevich) and proposes a new synapse model: activity-dependent depression synapse. The network implementation architecture operates on a single computation core. This digital system works in real-time, requires few resources, and has the same bursting activity behavior as the complex model. The implementation of this CPG was initially validated by comparing it with a simulation of the complex model. Its activity was then matched with pharmacological data from the rat spinal cord activity. This digital system opens the way for future hybrid experiments and represents an important step toward hybridization of biological tissue and artificial neural networks. This CPG network is also likely to be useful for mimicking the locomotion activity of various animals and developing hybrid experiments for neuroprosthesis development.

  12. A generative spike train model with time-structured higher order correlations

    Directory of Open Access Journals (Sweden)

    James eTrousdale

    2013-07-01

    Full Text Available Emerging technologies are revealing the spiking activity in ever larger neural ensembles. Frequently, this spiking is far from independent, with correlations in the spike times of different cells. Understanding how such correlations impact the dynamics and function of neural ensembles remains an important open problem.Here we describe a new, generative model for correlated spike trains that can exhibit many of the features observed in data. Extending prior work in mathematical finance, this generalized thinning and shift (GTaS model creates marginally Poisson spike trains with diverse temporal correlation structures.We give several examples which highlight the model's flexibility and utility. For instance, we use it to examine how a neural network responds to highly structured patterns of inputs.We then show that the GTaS model is analytically tractable, and derive cumulant densities of all orders in terms of model parameters. The GTaS framework can therefore be an important tool in the experimental and theoretical exploration of neural dynamics.

  13. Trophic diversity, niche breadth and generation times of exopterygote insects in a secondary succession.

    Science.gov (United States)

    Brown, V K; Southwood, T R E

    1983-02-01

    Various ecological characteristics have been determined for the exopterygote insect fauna of three sites in a secondary succession, with successional ages zero-two years (ruderal and early successional - Young Field), seven to eight years (mid successional - Old Field) and around 60 years (late successional - Woodland). The taxonomic diversity of the group as a whole (Table 1) and the trophic diversity (major types of feeding habits) (Table 2) increased with successional age. A comparison of the numbers of individuals and species of insect with the abundance and species of plant of each of the main life forms (annuals, biennials, perennials, trees, grasses (and rushes), ferns and lower plants) showed that at the start of secondary succession there was a good correlation between the number of species of insect and number of species of plant. In the second year and later the correlation is between plant abundance and insect abundance (the number of individuals) (Table 3). The sap-feeding insects may be divided into three specialised guilds: phloem feeders, xylem feeders and mesophyll feeders. The proportion of species in each guild was similar in all four successional stages (Table 4). Niche breadth (determined from host plant records) in the sap feeding herbivores was inversely related to the successional age of their habitat (Table 6). Herbivore species colonising the stages early in succession had, on average, shorter generation times than those of later stages (Table 7).

  14. Real time noise and wavelength correlations in octave-spanning supercontinuum generation.

    Science.gov (United States)

    Godin, T; Wetzel, B; Sylvestre, T; Larger, L; Kudlinski, A; Mussot, A; Ben Salem, A; Zghal, M; Genty, G; Dias, F; Dudley, J M

    2013-07-29

    We use dispersive Fourier transformation to measure shot-to-shot spectral instabilities in femtosecond supercontinuum generation. We study both the onset phase of supercontinuum generation with distinct dispersive wave generation, as well as a highly-unstable supercontinuum regime spanning an octave in bandwidth. Wavelength correlation maps allow interactions between separated spectral components to be identified, even when such interactions are not apparent in shot-to-shot or average measurements. Experimental results are interpreted using numerical simulations. Our results show the clear advantages of dispersive Fourier transformation for studying spectral noise during supercontinuum generation.

  15. Rapid knockout and reporter mouse line generation and breeding colony establishment using EUCOMM conditional-ready embryonic stem cells: A case study

    Directory of Open Access Journals (Sweden)

    James L. J. Coleman

    2015-06-01

    Full Text Available As little as a decade ago, generation of a single knockout mouse line was an expensive and time-consuming undertaking available to relatively few researchers. The International Knockout Mouse Consortium, established in 2007, has revolutionized the use of such models by creating an open-access repository of ES cells that, through sequential breeding with first FlpE and then Cre recombinase transgenic mice, facilitates germline global or conditional deletion of almost every gene in the mouse genome. In this Case Study, we describe our experience using the repository to create mouse lines for a variety of experimental purposes. Specifically, we discuss the process of obtaining germline transmission of two EUCOMM ‘knockout-first’ gene targeted constructs and the advantages and pitfalls of using this system. We then outline our breeding strategy and the outcomes of our efforts to generate global and conditional knockouts and reporter mice for the genes of interest. Line maintenance, removal of recombinase transgenes and cryopreservation are also considered. Our approach led to the generation of heterozygous knockout mice within 6 months of commencing breeding to the founder mice. By describing our experiences with the EUCOMM ES cells and subsequent breeding steps, we hope to assist other researchers with the application of this valuable approach to generating versatile knockout mouse lines.

  16. Rapid Knockout and Reporter Mouse Line Generation and Breeding Colony Establishment Using EUCOMM Conditional-Ready Embryonic Stem Cells: A Case Study.

    Science.gov (United States)

    Coleman, James L J; Brennan, Karen; Ngo, Tony; Balaji, Poornima; Graham, Robert M; Smith, Nicola J

    2015-01-01

    As little as a decade ago, generation of a single knockout mouse line was an expensive and time-consuming undertaking available to relatively few researchers. The International Knockout Mouse Consortium, established in 2007, has revolutionized the use of such models by creating an open-access repository of embryonic stem (ES) cells that, through sequential breeding with first FLP1 recombinase and then Cre recombinase transgenic mice, facilitates germline global or conditional deletion of almost every gene in the mouse genome. In this Case Study, we describe our experience using the repository to create mouse lines for a variety of experimental purposes. Specifically, we discuss the process of obtaining germline transmission of two European Conditional Mouse Mutagenesis Program (EUCOMM) "knockout-first" gene targeted constructs and the advantages and pitfalls of using this system. We then outline our breeding strategy and the outcomes of our efforts to generate global and conditional knockouts and reporter mice for the genes of interest. Line maintenance, removal of recombinase transgenes, and cryopreservation are also considered. Our approach led to the generation of heterozygous knockout mice within 6 months of commencing breeding to the founder mice. By describing our experiences with the EUCOMM ES cells and subsequent breeding steps, we hope to assist other researchers with the application of this valuable approach to generating versatile knockout mouse lines.

  17. Effects of generation time on spray aerosol transport and deposition in models of the mouth-throat geometry.

    Science.gov (United States)

    Worth Longest, P; Hindle, Michael; Das Choudhuri, Suparna

    2009-06-01

    For most newly developed spray aerosol inhalers, the generation time is a potentially important variable that can be fully controlled. The objective of this study was to determine the effects of spray aerosol generation time on transport and deposition in a standard induction port (IP) and more realistic mouth-throat (MT) geometry. Capillary aerosol generation (CAG) was selected as a representative system in which spray momentum was expected to significantly impact deposition. Sectional and total depositions in the IP and MT geometries were assessed at a constant CAG flow rate of 25 mg/sec for aerosol generation times of 1, 2, and 4 sec using both in vitro experiments and a previously developed computational fluid dynamics (CFD) model. Both the in vitro and numerical results indicated that extending the generation time of the spray aerosol, delivered at a constant mass flow rate, significantly reduced deposition in the IP and more realistic MT geometry. Specifically, increasing the generation time of the CAG system from 1 to 4 sec reduced the deposition fraction in the IP and MT geometries by approximately 60 and 33%, respectively. Furthermore, the CFD predictions of deposition fraction were found to be in good agreement with the in vitro results for all times considered in both the IP and MT geometries. The numerical results indicated that the reduction in deposition fraction over time was associated with temporal dissipation of what was termed the spray aerosol "burst effect." Based on these results, increasing the spray aerosol generation time, at a constant mass flow rate, may be an effective strategy for reducing deposition in the standard IP and in more realistic MT geometries.

  18. Rapid HIV testing and obstetrical characteristics of women with unknown HIV serostatus at time of labor and delivery.

    Science.gov (United States)

    Dola, Chi; Tran, Thuc; Duong, Can; Federico, Chris; DeNicola, Nathaniel; Maupin, Robert

    2010-12-01

    To describe the obstetrical characteristics of women without prenatal care and/or undocumented human immunodeficiency virus (HIV) serostatus who presented for delivery and to assess the usefulness of rapid HIV screening in these women. The study design was a retrospective analysis. Demographics, labor, delivery characteristics, and pregnancy outcomes of women without prenatal care and/or unknown HIV serostatus were reviewed. Three hundred fifty parturients met the inclusion criteria: 15.2% presented at complete cervical dilation, 48.6% with cervical dilation of at least 5 cm, and 43.1% with ruptured membranes. Twenty-two percent of parturients delivered within 1 hour of admission, 47.6% delivered within 4 hours of admission, and 5.5% delivered prior to arrival to the hospital. With the lengthy admission process and procurement of zidovudine from the pharmacy requiring at least 1 hour at best, 27.5% would not have the benefit of intrapartum zidovudine treatment. Single Use Diagnostic System HIV-1 rapid test was reactive and confirmed in 7 women (2.5%). Rapid HIV screening is a useful tool for guiding immediate obstetrical management and coordinated care for the neonate. In some circumstances, the full benefit of rapid HIV detection will not be realized due to advanced labor, ruptured members, or delivery prior to arrival.

  19. Comparison and evaluation of stresses generated by rapid maxillary expansion and the implant-supported rapid maxillary expansion on the craniofacial structures using finite element method of stress analysis.

    Science.gov (United States)

    Jain, Varun; Shyagali, Tarulatha R; Kambalyal, Prabhuraj; Rajpara, Yagnesh; Doshi, Jigar

    2017-12-01

    The study aimed to evaluate and compare the stress distribution and 3-dimensional displacements along the craniofacial sutures in between the Rapid maxillary Expansion (RME) and Implant supported RME (I-RME). METHODS: Finite element model of the skull and the implants were created using ANSYS software. The finite element model thus built composed of 537692 elements and 115694 nodes in RME model & 543078 elements and 117948 nodes with implants model. The forces were applied on the palatal surface of the posterior teeth to cause 5mm of transverse displacement on either side of the palatal halves, making it a total of 10mm. The stresses and the displacement values were obtained and interpreted. Varying pattern of stress and the displacements with both positive and negative values were seen. The maximum displacement was seen in the case of plain RME model and that too at Pterygomaxillary suture and Mid-palatal suture in descending order. In the case of I-RME maximum displacement was seen at Zygomaticomaxillary suture followed by Pterygomaxillary suture. The displacements produced in all the three planes of space for the plain RME model were greater in comparison to the Implant Supported RME model. And the stresses remained high for all the sutures in case of an I-RME. There is a definite difference in the stress and the displacement pattern produced by RME and I-RME model and each can be used according to the need of the patient. The stresses generated in case of conventional RME were considerably less than that of the I-RME for all the sutures.

  20. Improved visualisation of real-time recordings during third generation cryoballoon ablation: a comparison between the novel short-tip and the second generation device.

    Science.gov (United States)

    Mugnai, Giacomo; de Asmundis, Carlo; Hünük, Burak; Ströker, Erwin; Moran, Darragh; Hacioglu, Ebru; Ruggiero, Diego; Poelaert, Jan; Verborgh, Christian; Umbrain, Vincent; Beckers, Stefan; Coutino-Moreno, Hugo Enrique; Takarada, Ken; de Regibus, Valentina; Brugada, Pedro; Chierchia, Gian-Battista

    2016-09-01

    The third-generation Cryoballoon Advance Short-tip (CB-ST) has been designed with a 40 % shortened tip length compared with the former second generation CB advance device (CB-A). Ideally, a shorter tip should permit an improved visualisation of real-time recordings in the pulmonary vein (PV) due to a more proximal positioning of the inner lumen mapping catheter. We sought to compare the incidence of visualisation of real-time recordings in patients having undergone ablation with the CB-ST with patients having received CB-A ablation. All patients having undergone CB ablation using CB-ST technology and the last 500 consecutive patients having undergone CB-A ablation were analysed. Exclusion criteria were the presence of an intracavitary thrombus, uncontrolled heart failure, moderate or severe valvular disease, and contraindications to general anaesthesia. A total of 600 consecutive patients (58.1 ± 12.9 years, 64 % males) were evaluated (100 CB-ST and 500 CB-A ablations). Real-time recordings were significantly more prevalent in the CB-ST population compared with CB-A group (85.7 vs 67.2 %, p visualised in the CB-ST group in all types of veins (LSPV 89 vs 73.4 %, p = 0.0005; LIPV 84 vs 65.6 %, p = 0.0002; RSPV 87 vs 67.4 %, p visualisation of real-time recordings is significantly higher during third-generation CB-ST ablation if compared to the second-generation CB-A device. Real-time recordings can be visualised in approximately 85.7 % of veins with this novel cryoballoon.

  1. Obesogenic behaviors among adolescents: the role of generation and time in the United States.

    Science.gov (United States)

    Almeida, Joanna; Duncan, Dustin T; Sonneville, Kendrin R

    2015-01-01

    To examine how obesogenic behaviors (consumption of sugary drinks, physical activity, and/or sedentary behaviors) differ among adolescents within and across generation. Data come from the 2008 Boston Youth Survey, a population-based sample of 9th-12th-graders in 22 public high schools in Boston, MA. We used self-reported information to calculate generation and obesogenic behaviors (i.e. physical activity in past 7 days, consumption of sugar-sweetened beverages in past 7 days, and TV/computer/video game use on an average school day). Multivariable models were conducted to estimate the association between generation and obesogenic behaviors, adjusting for race/ethnicity, sex, age, family structure, and school. Relative to first generation youth, 1.5 generation (RR=1.74, 95% CI=1.10, 2.77) and second generation (RR=1.45, 95% CI=1.02, 2.07) youth were more likely to consume soda. Second (RR=1.60, 95% CI=1.20, 2.14) and third generation (RR=2.29, 95% CI=1.43, 3.65) youth were significantly more likely to consume other sugary drinks. Only third generation youth were more likely to watch ≥2 hours/day of TV when compared to first generation youth (RR=1.53, 95% CI=1.07, 2.18). No differences were seen by generation for levels of moderate-to-vigorous physical activity or computer/video games. Greater consumption of sugary drinks is seen across generation among adolescents. Sugary drinks, which are aggressively marketed to immigrant youth, may contribute to excess weight gain seen among foreign-born youth upon arrival in the United States.

  2. Rainfall impact on gravity at annual and rapid time scales from a superconducting gravimeter record in Benin, West-Africa

    Science.gov (United States)

    Hector, B.; Hinderer, J.; Séguis, L.; Boy, J.; Calvo, M.; Descloitres, M.; Rosat, S.; Riccardi, U.; Littel, F.

    2012-12-01

    with a 2D model for specific yield (Sy), inferred from resistivity mapping and magnetic resonance soundings (MRS), and previously calibrated with FG5 gravity data. This work was undertaken to account for known spatial variability in this metamorphic basement context. The main results arising from this study can be summarized in two points. First, gravity effect of seasonal WSC is calculated and compared to SG record. Results show a good fit, confirming a previous study based on FG5 data only. Second, rainfall effects on SG records are cautiously analyzed for each significant event. This includes both the rapid increase in gravity following a precipitation (which is always lower than expected, the difference bein